U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

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

    Gene ID: 316764, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Mtcl1provided by RGD
    Official Full Name
    microtubule crosslinking factor 1provided by RGD
    Primary source
    RGD:1308319
    See related
    EnsemblRapid: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 several processes, including 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 kinetochore and spindle microtubule. 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, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 38.3), Lung (RPKM 23.6) and 7 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    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

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    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

    Go to the top of the page Help

    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

    Go to the top of the page Help
    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)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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
      Related
      ENSRNOP00000078835.2, ENSRNOT00000111478.2

    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
      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
      Related
      ENSRNOP00000097101.1, ENSRNOT00000115985.2

    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, ENSRNOT00000050012.7
      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
      Related
      ENSRNOP00000108435.1, ENSRNOT00000157858.1
      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

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials
    Tools