Lmo7 LIM domain 7 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Lmo7provided by RGD
Official Full Name: LIM domain 7provided by RGD
Primary source: RGD:1302984
See related: Ensembl:ENSRNOG00000060775 AllianceGenome:RGD:1302984
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Enables actinin binding activity and protein C-terminus binding activity. Involved in positive regulation of transcription by RNA polymerase II. Located in adherens junction and apical plasma membrane. Orthologous to human LMO7 (LIM domain 7). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 719.6), Heart (RPKM 495.7) and 5 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 15q21

Exon count:: 41

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	15	NC_086033.1 (84981689..85184554)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	15	NC_051350.1 (78566999..78769833)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	15	NC_005114.4 (86242911..86458512)

Chromosome 15 - NC_086033.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

JNK-dependent LMO7b phosphorylation is required for hypercapnia-mediated Na,K-ATPase endocytosis.
Title: High CO2 Leads to Na,K-ATPase Endocytosis via c-Jun Amino-Terminal Kinase-Induced LMO7b Phosphorylation.
LMO7 is an afadin- and alpha-actinin-binding protein that connects the nectin-afadin and E-cadherin-catenin systems through alpha-actinin.
Title: Involvement of LMO7 in the association of two cell-cell adhesion molecules, nectin and E-cadherin, through afadin and alpha-actinin in epithelial cells.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AI008211 (e-PCR)
- UniSTS:261493

BF413319 (e-PCR)
- UniSTS:248536

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables actinin binding	IPI Inferred from Physical Interaction more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in regulation of signaling	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in adherens junction	IDA Inferred from Direct Assay more info	PubMed
located_in apical plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in apical plasma membrane	ISO Inferred from Sequence Orthology more info
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in cell surface	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in nuclear envelope	ISO Inferred from Sequence Orthology more info
located_in nuclear envelope	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: LIM domain only protein 7

Names: LIM domain only 7; TGF-beta induced protein

NP_001001515.2

EC 3.4.19.12

NP_001402048.1

EC 3.4.19.12

XP_006252459.1

EC 3.4.19.12

XP_006252462.1

EC 3.4.19.12

XP_017455239.1

EC 3.4.19.12

XP_017455240.1

EC 3.4.19.12

XP_017455241.1

EC 3.4.19.12

XP_017455242.1

EC 3.4.19.12

XP_017455243.1

EC 3.4.19.12

XP_038949448.1

EC 3.4.19.12

XP_038949449.1

EC 3.4.19.12

XP_038949450.1

EC 3.4.19.12

XP_038949451.1

EC 3.4.19.12

XP_038949452.1

EC 3.4.19.12

XP_038949453.1

EC 3.4.19.12

XP_038949455.1

EC 3.4.19.12

XP_038949456.1

EC 3.4.19.12

XP_038949458.1

EC 3.4.19.12

XP_063130513.1

EC 3.4.19.12

XP_063130514.1

EC 3.4.19.12

XP_063130515.1

EC 3.4.19.12

XP_063130516.1

EC 3.4.19.12

XP_063130517.1

EC 3.4.19.12

XP_063130518.1

EC 3.4.19.12

XP_063130519.1

EC 3.4.19.12

XP_063130520.1

EC 3.4.19.12

XP_063130521.1

EC 3.4.19.12

XP_063130523.1

EC 3.4.19.12

XP_063130524.1

EC 3.4.19.12

XP_063130525.1

EC 3.4.19.12

XP_063130526.1

EC 3.4.19.12

XP_063130527.1

EC 3.4.19.12

XP_063130528.1

EC 3.4.19.12

XP_063130529.1

EC 3.4.19.12

XP_063130530.1

EC 3.4.19.12

XP_063130531.1

EC 3.4.19.12

XP_063130532.1

EC 3.4.19.12

XP_063130533.1

EC 3.4.19.12

XP_063130534.1

EC 3.4.19.12

XP_063130535.1

EC 3.4.19.12

XP_063130536.1

EC 3.4.19.12

XP_063130537.1

EC 3.4.19.12

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001001515.2 → NP_001001515.2 LIM domain only protein 7 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000015

Related

ENSRNOP00000074706.2, ENSRNOT00000084471.2
NM_001415119.1 → NP_001402048.1 LIM domain only protein 7 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000015

UniProtKB/TrEMBL

A0A8I5ZWT3

Related

ENSRNOP00000083331.1, ENSRNOT00000120161.1

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086033.1 Reference GRCr8

Range

84981689..85184554

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063274456.1 → XP_063130526.1 LIM domain only protein 7 isoform X25
XM_063274460.1 → XP_063130530.1 LIM domain only protein 7 isoform X28
XM_063274459.1 → XP_063130529.1 LIM domain only protein 7 isoform X26
XM_039093521.2 → XP_038949449.1 LIM domain only protein 7 isoform X3

UniProtKB/TrEMBL

Q6JBI7

Conserved Domains (3) summary

cd00136
Location:1167 → 1236

PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...

pfam15949
Location:655 → 822

DUF4757; Domain of unknown function (DUF4757)

cd21277
Location:14 → 129

CH_LMO7; calponin homology (CH) domain found in LIM domain only protein 7
XM_039093520.2 → XP_038949448.1 LIM domain only protein 7 isoform X2

UniProtKB/TrEMBL

Q6JBI7

Conserved Domains (5) summary

cd00136
Location:1167 → 1236

PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...

cd08368
Location:1769 → 1827

LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

pfam17380
Location:1376 → 1640

DUF5401; Family of unknown function (DUF5401)

pfam15949
Location:655 → 822

DUF4757; Domain of unknown function (DUF4757)

cd21277
Location:14 → 129

CH_LMO7; calponin homology (CH) domain found in LIM domain only protein 7
XM_039093522.2 → XP_038949450.1 LIM domain only protein 7 isoform X4

UniProtKB/TrEMBL

Q6JBI7

Conserved Domains (5) summary

cd00136
Location:1167 → 1236

PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...

cd08368
Location:1755 → 1813

LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

pfam17380
Location:1362 → 1626

DUF5401; Family of unknown function (DUF5401)

pfam15949
Location:655 → 822

DUF4757; Domain of unknown function (DUF4757)

cd21277
Location:14 → 129

CH_LMO7; calponin homology (CH) domain found in LIM domain only protein 7
XM_039093523.2 → XP_038949451.1 LIM domain only protein 7 isoform X6

UniProtKB/TrEMBL

Q6JBI7

Conserved Domains (4) summary

cd00136
Location:1167 → 1236

PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...

cd08368
Location:1747 → 1805

LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

pfam15949
Location:655 → 822

DUF4757; Domain of unknown function (DUF4757)

cd21277
Location:14 → 129

CH_LMO7; calponin homology (CH) domain found in LIM domain only protein 7
XM_039093524.2 → XP_038949452.1 LIM domain only protein 7 isoform X9

UniProtKB/TrEMBL

Q6JBI7

Conserved Domains (3) summary

cd00136
Location:1167 → 1236

PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...

pfam15949
Location:655 → 822

DUF4757; Domain of unknown function (DUF4757)

cd21277
Location:14 → 129

CH_LMO7; calponin homology (CH) domain found in LIM domain only protein 7
XM_063274444.1 → XP_063130514.1 LIM domain only protein 7 isoform X8
XM_039093525.2 → XP_038949453.1 LIM domain only protein 7 isoform X10

UniProtKB/TrEMBL

Q6JBI7

Conserved Domains (5) summary

cd00136
Location:1167 → 1236

PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...

cd08368
Location:1728 → 1786

LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

pfam17380
Location:1335 → 1599

DUF5401; Family of unknown function (DUF5401)

pfam15949
Location:655 → 822

DUF4757; Domain of unknown function (DUF4757)

cd21277
Location:14 → 129

CH_LMO7; calponin homology (CH) domain found in LIM domain only protein 7
XM_017599750.3 → XP_017455239.1 LIM domain only protein 7 isoform X5

UniProtKB/TrEMBL

Q6JBI7

Conserved Domains (4) summary

cd00014
Location:17 → 129

CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...

cd00136
Location:1147 → 1216

PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...

cd08368
Location:1754 → 1812

LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

pfam15949
Location:655 → 801

DUF4757; Domain of unknown function (DUF4757)
XM_063274445.1 → XP_063130515.1 LIM domain only protein 7 isoform X11
XM_063274446.1 → XP_063130516.1 LIM domain only protein 7 isoform X12
XM_063274447.1 → XP_063130517.1 LIM domain only protein 7 isoform X13
XM_039093527.2 → XP_038949455.1 LIM domain only protein 7 isoform X15

UniProtKB/TrEMBL

Q6JBI7

Conserved Domains (4) summary

cd00136
Location:1100 → 1169

PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...

cd08368
Location:1707 → 1765

LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

pfam15949
Location:588 → 755

DUF4757; Domain of unknown function (DUF4757)

cd21277
Location:14 → 129

CH_LMO7; calponin homology (CH) domain found in LIM domain only protein 7
XM_006252397.5 → XP_006252459.1 LIM domain only protein 7 isoform X16

UniProtKB/TrEMBL

Q6JBI7

Conserved Domains (5) summary

cd00014
Location:17 → 129

CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...

cd00136
Location:1080 → 1149

PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...

cd08368
Location:1687 → 1745

LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

pfam15949
Location:588 → 734

DUF4757; Domain of unknown function (DUF4757)

pfam15996
Location:1301 → 1414

PNISR; Arginine/serine-rich protein PNISR
XM_063274448.1 → XP_063130518.1 LIM domain only protein 7 isoform X18
XM_017599754.3 → XP_017455243.1 LIM domain only protein 7 isoform X20

UniProtKB/TrEMBL

Q6JBI6
XM_006252400.5 → XP_006252462.1 LIM domain only protein 7 isoform X23

UniProtKB/TrEMBL

Q6JBI6

Related

ENSRNOP00000081200.1

Conserved Domains (4) summary

cd00014
Location:17 → 129

CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...

cd00136
Location:736 → 805

PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...

cd08368
Location:1343 → 1401

LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

pfam15949
Location:242 → 390

DUF4757; Domain of unknown function (DUF4757)
XM_063274457.1 → XP_063130527.1 LIM domain only protein 7 isoform X26
XM_063274464.1 → XP_063130534.1 LIM domain only protein 7 isoform X32
XM_063274453.1 → XP_063130523.1 LIM domain only protein 7 isoform X21
XM_063274454.1 → XP_063130524.1 LIM domain only protein 7 isoform X22
XM_063274443.1 → XP_063130513.1 LIM domain only protein 7 isoform X1
XM_063274463.1 → XP_063130533.1 LIM domain only protein 7 isoform X31
XM_063274466.1 → XP_063130536.1 LIM domain only protein 7 isoform X34
XM_017599752.3 → XP_017455241.1 LIM domain only protein 7 isoform X14

UniProtKB/TrEMBL

A0A8I6AMI4
XM_063274465.1 → XP_063130535.1 LIM domain only protein 7 isoform X33
XM_063274450.1 → XP_063130520.1 LIM domain only protein 7 isoform X19
XM_017599751.3 → XP_017455240.1 LIM domain only protein 7 isoform X7

UniProtKB/TrEMBL

A0A8I6AMI4
XM_039093528.2 → XP_038949456.1 LIM domain only protein 7 isoform X17

UniProtKB/TrEMBL

A0A8I6AMI4

Related

ENSRNOP00000096784.1

Conserved Domains (4) summary

cd00136
Location:1051 → 1120

PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...

cd08368
Location:1658 → 1716

LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

pfam15949
Location:559 → 706

DUF4757; Domain of unknown function (DUF4757)

cl00030
Location:42 → 100

CH_SF; calponin homology (CH) domain superfamily
XM_039093530.2 → XP_038949458.1 LIM domain only protein 7 isoform X36

UniProtKB/TrEMBL

A0A8I6AMI4

Conserved Domains (3) summary

cd00136
Location:1051 → 1120

PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...

pfam15949
Location:559 → 706

DUF4757; Domain of unknown function (DUF4757)

cl00030
Location:42 → 100

CH_SF; calponin homology (CH) domain superfamily
XM_063274455.1 → XP_063130525.1 LIM domain only protein 7 isoform X24
XM_063274461.1 → XP_063130531.1 LIM domain only protein 7 isoform X29
XM_063274458.1 → XP_063130528.1 LIM domain only protein 7 isoform X27
XM_063274462.1 → XP_063130532.1 LIM domain only protein 7 isoform X30

UniProtKB/TrEMBL

A0A8I5ZR48
XM_063274449.1 → XP_063130519.1 LIM domain only protein 7 isoform X19
XM_063274467.1 → XP_063130537.1 LIM domain only protein 7 isoform X35
XM_063274451.1 → XP_063130521.1 LIM domain only protein 7 isoform X19
XM_017599753.3 → XP_017455242.1 LIM domain only protein 7 isoform X19

UniProtKB/TrEMBL

A0A8I6AMI4