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Mtcl1 microtubule crosslinking factor 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 316764, updated on 6-Jun-2024

Summary

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Official Symbol
Mtcl1provided by RGD
Official Full Name
microtubule crosslinking factor 1provided by RGD
Primary source
RGD:1308319
See related
Ensembl:ENSRNOG00000025527 AllianceGenome:RGD:1308319
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
Also known as
Soga2; Ccdc165; RGD1308319
Summary
Predicted to enable microtubule binding activity and protein homodimerization activity. Predicted to be involved in establishment or maintenance of epithelial cell apical/basal polarity; microtubule bundle formation; and positive regulation of protein targeting to membrane. Predicted to be located in cytoskeleton. Predicted to be active in several cellular components, including apicolateral plasma membrane; cytoskeleton; and lateral plasma membrane. Orthologous to human MTCL1 (microtubule crosslinking factor 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Brain (RPKM 38.3), Lung (RPKM 23.6) and 7 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Mtcl1 in Genome Data Viewer
Location:
9q37
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (113722138..113888413, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (106305282..106441782, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (114493901..114632632, complement)

Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene WASH complex subunit 1, pseudogene 2 Neighboring gene spindlin family member 2 like, pseudogene 1 Neighboring gene sperm motility kinase like 9 Neighboring gene uncharacterized LOC102549383 Neighboring gene RAB12, member RAS oncogene family

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. The novel PAR-1-binding protein MTCL1 has crucial roles in organizing microtubules in polarizing epithelial cells. Sato Y, et al. J Cell Sci, 2013 Oct 15. PMID 23902687
  2. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables microtubule binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables microtubule binding ISO
Inferred from Sequence Orthology
more info
  
enables protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in chromosome segregation ISO
Inferred from Sequence Orthology
more info
  
involved_in establishment or maintenance of epithelial cell apical/basal polarity IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in establishment or maintenance of epithelial cell apical/basal polarity ISO
Inferred from Sequence Orthology
more info
  
involved_in microtubule bundle formation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in microtubule bundle formation ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of protein targeting to membrane ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of autophagy IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in apicolateral plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in apicolateral plasma membrane ISO
Inferred from Sequence Orthology
more info
  
located_in cytoskeleton ISO
Inferred from Sequence Orthology
more info
  
located_in extracellular space IEA
Inferred from Electronic Annotation
more info
  
located_in kinetochore ISO
Inferred from Sequence Orthology
more info
  
is_active_in lateral plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in lateral plasma membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in microtubule bundle IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in microtubule bundle ISO
Inferred from Sequence Orthology
more info
  
is_active_in midbody IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in midbody ISO
Inferred from Sequence Orthology
more info
  
located_in spindle microtubule ISO
Inferred from Sequence Orthology
more info
  
is_active_in spindle pole IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in spindle pole ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
microtubule cross-linking factor 1
Names
SOGA family member 2
coiled-coil domain containing 165
coiled-coil domain-containing protein 165

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)

  1. NM_001427344.1 → NP_001414273.1  microtubule cross-linking factor 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000009
    UniProtKB/TrEMBL
    A0A8I5ZM19

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

  1. NC_086027.1 Reference GRCr8

    Range
    113722138..113888413 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039084806.2 → XP_038940734.1  microtubule cross-linking factor 1 isoform X8

    UniProtKB/TrEMBL
    D4A5D4
    Conserved Domains (5) summary
    PHA03307
    Location:7 → 290
    PHA03307; transcriptional regulator ICP4; Provisional
    COG1196
    Location:340 → 659
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam02463
    Location:330 → 1111
    SMC_N; RecF/RecN/SMC N terminal domain
    pfam11365
    Location:633 → 725
    SOGA; Protein SOGA
    pfam14818
    Location:1269 → 1392
    DUF4482; Domain of unknown function (DUF4482)

  2. XM_039084800.2 → XP_038940728.1  microtubule cross-linking factor 1 isoform X1

    UniProtKB/TrEMBL
    D4A5D4
    Conserved Domains (5) summary
    PHA03307
    Location:7 → 290
    PHA03307; transcriptional regulator ICP4; Provisional
    COG1196
    Location:340 → 659
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam02463
    Location:330 → 1111
    SMC_N; RecF/RecN/SMC N terminal domain
    pfam11365
    Location:633 → 725
    SOGA; Protein SOGA
    pfam14818
    Location:1269 → 1392
    DUF4482; Domain of unknown function (DUF4482)

  3. XM_039084801.2 → XP_038940729.1  microtubule cross-linking factor 1 isoform X2

    UniProtKB/TrEMBL
    D4A5D4
    Conserved Domains (5) summary
    PHA03307
    Location:7 → 290
    PHA03307; transcriptional regulator ICP4; Provisional
    COG1196
    Location:342 → 701
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam02463
    Location:330 → 1100
    SMC_N; RecF/RecN/SMC N terminal domain
    pfam11365
    Location:622 → 714
    SOGA; Protein SOGA
    pfam14818
    Location:1258 → 1381
    DUF4482; Domain of unknown function (DUF4482)

  4. XM_039084803.2 → XP_038940731.1  microtubule cross-linking factor 1 isoform X5

    UniProtKB/TrEMBL
    D4A5D4
    Conserved Domains (5) summary
    PHA03307
    Location:7 → 290
    PHA03307; transcriptional regulator ICP4; Provisional
    COG1196
    Location:340 → 659
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    TIGR02168
    Location:1126 → 1282
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    pfam11365
    Location:633 → 725
    SOGA; Protein SOGA
    pfam14818
    Location:1228 → 1351
    DUF4482; Domain of unknown function (DUF4482)

  5. XM_039084802.2 → XP_038940730.1  microtubule cross-linking factor 1 isoform X3

    UniProtKB/TrEMBL
    A0A8I5ZM19
    Related
    ENSRNOP00000097101.1
    Conserved Domains (5) summary
    PHA03307
    Location:7 → 290
    PHA03307; transcriptional regulator ICP4; Provisional
    COG1196
    Location:340 → 659
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam02463
    Location:330 → 1111
    SMC_N; RecF/RecN/SMC N terminal domain
    pfam11365
    Location:633 → 725
    SOGA; Protein SOGA
    pfam14818
    Location:1269 → 1392
    DUF4482; Domain of unknown function (DUF4482)

  6. XM_063267340.1 → XP_063123410.1  microtubule cross-linking factor 1 isoform X6

    UniProtKB/TrEMBL
    A0A8I5ZM19

  7. XM_063267338.1 → XP_063123408.1  microtubule cross-linking factor 1 isoform X4

    UniProtKB/TrEMBL
    A0A8I5ZM19, A0A8I6AVZ7

  8. XM_039084805.2 → XP_038940733.1  microtubule cross-linking factor 1 isoform X7

    UniProtKB/TrEMBL
    D4A5D4
    Conserved Domains (5) summary
    PHA03307
    Location:7 → 290
    PHA03307; transcriptional regulator ICP4; Provisional
    COG1196
    Location:340 → 659
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam02463
    Location:330 → 1111
    SMC_N; RecF/RecN/SMC N terminal domain
    pfam11365
    Location:633 → 725
    SOGA; Protein SOGA
    pfam14818
    Location:1269 → 1392
    DUF4482; Domain of unknown function (DUF4482)

  9. XM_006245631.5 → XP_006245693.2  microtubule cross-linking factor 1 isoform X9

    UniProtKB/TrEMBL
    D4A5D4
    Related
    ENSRNOP00000042113.5
    Conserved Domains (5) summary
    PHA03307
    Location:7 → 290
    PHA03307; transcriptional regulator ICP4; Provisional
    COG1196
    Location:342 → 701
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam02463
    Location:330 → 1100
    SMC_N; RecF/RecN/SMC N terminal domain
    pfam11365
    Location:622 → 714
    SOGA; Protein SOGA
    pfam14818
    Location:1258 → 1381
    DUF4482; Domain of unknown function (DUF4482)

  10. XM_039084807.2 → XP_038940735.1  microtubule cross-linking factor 1 isoform X10

    UniProtKB/TrEMBL
    D4A5D4
    Conserved Domains (5) summary
    PHA03307
    Location:7 → 290
    PHA03307; transcriptional regulator ICP4; Provisional
    COG1196
    Location:342 → 701
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    TIGR02168
    Location:1115 → 1271
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    pfam11365
    Location:622 → 714
    SOGA; Protein SOGA
    pfam14818
    Location:1217 → 1340
    DUF4482; Domain of unknown function (DUF4482)

RNA

  1. XR_010054610.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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