Sptb spectrin, beta, erythrocytic [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Sptbprovided by RGD
Full Name: spectrin, beta, erythrocyticprovided by RGD
Primary source: RGD:1303243
See related: Ensembl:ENSRNOG00000006911 AllianceGenome:RGD:1303243
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Spnb1
Summary: Predicted to enable actin filament binding activity and ankyrin binding activity. Predicted to be involved in actin cytoskeleton organization. Predicted to act upstream of or within hemopoiesis; plasma membrane organization; and porphyrin-containing compound biosynthetic process. Predicted to be located in several cellular components, including cell surface; cytoskeleton; and cytosol. Predicted to be part of protein-containing complex. Predicted to be active in several cellular components, including cell junction; cortical actin cytoskeleton; and plasma membrane. Human ortholog(s) of this gene implicated in hereditary spherocytosis and hereditary spherocytosis type 2. Orthologous to human SPTB (spectrin beta, erythrocytic). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Muscle (RPKM 463.4), Spleen (RPKM 391.7) and 5 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 6q24

Exon count:: 37

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	6	NC_086024.1 (101043512..101170389, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	6	NC_051341.1 (95310342..95437221, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	6	NC_005105.4 (99657144..99783189, complement)

Chromosome 6 - NC_086024.1 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?

suggest that betaI-spectrin is a synaptic protein that can modulate both the morphological and functional dynamics of dendritic spines, perhaps via interaction with actin and Rac3.
Title: The actin binding domain of βI-spectrin regulates the morphological and functional dynamics of dendritic spines.

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

D6Got123 (e-PCR)
- UniSTS:113808

D6Got206 (e-PCR)
- UniSTS:113353

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables actin binding	ISO Inferred from Sequence Orthology more info
enables actin filament binding	IBA Inferred from Biological aspect of Ancestor more info
enables actin filament binding	ISO Inferred from Sequence Orthology more info
enables ankyrin binding	ISO Inferred from Sequence Orthology more info
enables phospholipid binding	IEA Inferred from Electronic Annotation more info
enables structural constituent of cytoskeleton	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in actin cytoskeleton organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in actin filament capping	IEA Inferred from Electronic Annotation more info
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within hemopoiesis	ISO Inferred from Sequence Orthology more info
involved_in modification of postsynaptic actin cytoskeleton	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within plasma membrane organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within porphyrin-containing compound biosynthetic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in cell junction	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cell projection	IBA Inferred from Biological aspect of Ancestor more info
located_in cell surface	ISO Inferred from Sequence Orthology more info
is_active_in cortical actin cytoskeleton	IBA Inferred from Biological aspect of Ancestor more info
located_in cortical cytoskeleton	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in membrane	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in postsynapse	IDA Inferred from Direct Assay more info	PubMed
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info
part_of spectrin	IEA Inferred from Electronic Annotation more info
located_in spectrin-associated cytoskeleton	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: spectrin beta chain, erythrocytic

Names: erythroid spectrin beta; spectrin beta 1; spectrin beta chain, erythrocyte

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_212522.1 → NP_997687.1 spectrin beta chain, erythrocytic

See identical proteins and their annotated locations for NP_997687.1

Status: PROVISIONAL

Source sequence(s)

AY238343

UniProtKB/TrEMBL

A0A140UHX6, F1MAL3, Q6XDA0

Related

ENSRNOP00000009028.8, ENSRNOT00000009028.8

Conserved Domains (5) summary

smart00150
Location:2013 → 2086

SPEC; Spectrin repeats

smart00033
Location:177 → 273

CH; Calponin homology domain

cd00014
Location:55 → 158

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 ...

cd00176
Location:530 → 742

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

pfam00435
Location:422 → 526

Spectrin; Spectrin repeat

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_086024.1 Reference GRCr8

Range

101043512..101170389 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006240244.5 → XP_006240306.1 spectrin beta chain, erythrocytic isoform X1

UniProtKB/TrEMBL

A0A8I6AWM3, A0A8I6G9M6

Related

ENSRNOP00000097655.1

Conserved Domains (6) summary

smart00150
Location:2013 → 2086

SPEC; Spectrin repeats

cd00176
Location:530 → 742

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

cd10571
Location:2182 → 2287

PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain

pfam00435
Location:422 → 526

Spectrin; Spectrin repeat

cd21246
Location:40 → 156

CH_SPTB-like_rpt1; first calponin homology (CH) domain found in the beta-I spectrin-like subfamily

cd21319
Location:170 → 281

CH_SPTB_rpt2; second calponin homology (CH) domain found in spectrin beta chain, erythrocytic (SPTB) and similar proteins
XM_017594143.3 → XP_017449632.1 spectrin beta chain, erythrocytic isoform X1

UniProtKB/TrEMBL

A0A8I6AWM3, A0A8I6G9M6

Conserved Domains (6) summary

smart00150
Location:2013 → 2086

SPEC; Spectrin repeats

cd00176
Location:530 → 742

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

cd10571
Location:2182 → 2287

PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain

pfam00435
Location:422 → 526

Spectrin; Spectrin repeat

cd21246
Location:40 → 156

CH_SPTB-like_rpt1; first calponin homology (CH) domain found in the beta-I spectrin-like subfamily

cd21319
Location:170 → 281

CH_SPTB_rpt2; second calponin homology (CH) domain found in spectrin beta chain, erythrocytic (SPTB) and similar proteins
XM_017594142.3 → XP_017449631.1 spectrin beta chain, erythrocytic isoform X1

UniProtKB/TrEMBL

A0A8I6AWM3, A0A8I6G9M6

Conserved Domains (6) summary

smart00150
Location:2013 → 2086

SPEC; Spectrin repeats

cd00176
Location:530 → 742

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

cd10571
Location:2182 → 2287

PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain

pfam00435
Location:422 → 526

Spectrin; Spectrin repeat

cd21246
Location:40 → 156

CH_SPTB-like_rpt1; first calponin homology (CH) domain found in the beta-I spectrin-like subfamily

cd21319
Location:170 → 281

CH_SPTB_rpt2; second calponin homology (CH) domain found in spectrin beta chain, erythrocytic (SPTB) and similar proteins