Cntnap5c (contactin associated protein-like 5C) - Rat Genome Database

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Gene: Cntnap5c (contactin associated protein-like 5C) Mus musculus
Analyze
No known orthologs.
Symbol: Cntnap5c
Name: contactin associated protein-like 5C
RGD ID: 1622600
MGI Page MGI
Description: Predicted to act upstream of or within cell adhesion. Predicted to be located in membrane. Is expressed in CA1 pyramidal cell layer; brain; central nervous system; and hippocampus CA3. Orthologous to human CNTNAP5 (contactin associated protein family member 5).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Caspr5-3; cell recognition molecule Caspr5-3; cell recognition molecule Caspr5c; contactin associated protein-like 5-3; contactin-associated protein like 5-3; contactin-associated protein-like 5c; EG620292; Gm325
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391758,076,070 - 58,724,948 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1758,076,565 - 58,717,350 (+)EnsemblGRCm39 Ensembl
GRCm381757,769,074 - 58,417,953 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1757,769,570 - 58,410,355 (+)EnsemblGRCm38mm10GRCm38
MGSCv371757,908,993 - 58,549,765 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361757,454,905 - 58,095,677 (+)NCBIMGSCv36mm8
Celera1762,104,209 - 62,743,327 (+)NCBICelera
Cytogenetic Map17DNCBI
cM Map1730.01NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
membrane  (IEA)

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16845472   PMID:18949514   PMID:21677750  


Genomics

Variants

.
Variants in Cntnap5c
28371 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:38
Count of miRNA genes:37
Interacting mature miRNAs:37
Transcripts:ENSMUST00000076038
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4141272Tfv1_mtotal food volume 1 (mouse)Not determined485475265637357Mouse
1301338Lmr1_mleishmaniasis resistance 1 (mouse)Not determined171008134086996400Mouse
4142150Stheal11_msoft tissue heal 11 (mouse)Not determined171228621183361768Mouse
1301454Eae5_msusceptibility to experimental allergic encephalomyelitis 5 (mouse)Not determined172461275058612864Mouse
10412204Bbaa29_mB.burgdorferi-associated arthritis 29 (mouse)Not determined172605118560051352Mouse
1302005Loco2_mlocomotor activity 2 (mouse)Not determined172688497260885114Mouse
15039348Nmrs37_mNAFLD-associated magnetic resonance shift 37 (mouse)172781520961815209Mouse
1300703Uvbi2_mUVB induced immunosuppression 2 (mouse)Not determined172862240662622654Mouse
1300589Myaa2_mmodifier of Yaa 2 (mouse)Not determined173013255564132666Mouse
4140955Plgr1_mplague resistance locus 1 (mouse)Not determined3103350065033630Mouse
1300885Mbis4_mMycobacterium bovis-induced systemic lupus erythematosus 4 (mouse)Not determined173517581770165926Mouse
10755514Amzn2_manatomical modifier of Zfp423 2 (mouse)173596629469966424Mouse
12904951Smmq2_msoleus muscle mass QTL 2 (mouse)173678974370789743Mouse
1300592Pcyts5_mplasmacytoma susceptibility 5 (mouse)Not determined173871288772712970Mouse
10755525Lymph2_mlymphocyte differential 2 (mouse)173880562672805626Mouse
10755534Lymph4_mlymphocyte differential 4 (mouse)173880562672805626Mouse
4141319Hmtb8_mhemostasis and thrombosis rebleeding time 8 (mouse)Not determined4053444774534623Mouse
15039324Nmrs48_mNAFLD-associated magnetic resonance shift 48 (mouse)174093918774939187Mouse
26884390Skwq9_mskull length QTL 9, 10 week (mouse)174371089167806995Mouse
26884428Cvht3_mcranial vault height 3, 5 week (mouse)174651092682407429Mouse
14700692Cihvtq1_mcoxsackieviral infection heart viral titre QTL 1 (mouse)175000702870006995Mouse
1357754Ahl3_mage related hearing loss 3 (mouse)Not determined175020395784204103Mouse
4141879Chlq9_mcirculating hormone level QTL 9 (mouse)Not determined175175842585758612Mouse
1357532Bmch7_mbone mechanical trait 7 (mouse)Not determined175175842585758612Mouse
1357447Heal13_mwound healing/regeneration 13 (mouse)Not determined175710765191107803Mouse
4141758Pstc5_mperiosteal circumference 5 (mouse)Not determined175710765191107803Mouse
4141011Bmd26_mbone mineral density 26 (mouse)Not determined175710765191107803Mouse
1300735Pgia20_mproteoglycan induced arthritis 20 (mouse)Not determined175710765191107803Mouse
12910536Nrq8a_mnoise-induced hearing loss resistant QTL 8a (mouse)175710765191107803Mouse
12910537Nrq8_mnoise-induced hearing loss resistant QTL 8 (mouse)175710765191107803Mouse
4142201Obrq15_mobesity resistance QTL 15 (mouse)Not determined5753444780885776Mouse
4142414Pregq4_mpregnancy QTL 4 (mouse)Not determined175753444793507179Mouse
4141040Hmtb9_mhemostasis and thrombosis rebleeding time 9 (mouse)Not determined5758908991589197Mouse

Markers in Region
G67050  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381758,225,232 - 58,225,714UniSTSGRCm38
MGSCv371758,364,655 - 58,365,137UniSTSGRCm37
Celera1762,556,661 - 62,557,143UniSTS
Cytogenetic Map17DUniSTS
MHAa29c6.seq  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381758,183,240 - 58,183,433UniSTSGRCm38
MGSCv371758,322,663 - 58,322,856UniSTSGRCm37
Celera1762,517,082 - 62,517,283UniSTS
Cytogenetic Map17DUniSTS
Whitehead_YAC17 UniSTS
D17Mit109  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381758,103,848 - 58,103,982UniSTSGRCm38
MGSCv371758,243,271 - 58,243,405UniSTSGRCm37
Celera1762,437,577 - 62,437,711UniSTS
Cytogenetic Map17DUniSTS
cM Map1734.3UniSTS
Whitehead Genetic1729.5UniSTS
Whitehead_YAC17 UniSTS


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001081653 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_160889 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006524741 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006524742 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006524744 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006524747 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006524748 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006524749 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006524750 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011246557 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017317594 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030249937 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036160717 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_385354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_385355 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_385356 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC118684 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC120548 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC122209 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC127557 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC154498 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AEKQ02136525 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AM076975 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BN000867 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CT025622 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CT025736 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000076038   ⟹   ENSMUSP00000075416
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1758,076,565 - 58,717,350 (+)Ensembl
GRCm38.p6 Ensembl1757,769,570 - 58,410,355 (+)Ensembl
RefSeq Acc Id: NM_001081653   ⟹   NP_001075122
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,076,206 - 58,724,944 (+)NCBI
GRCm381757,769,211 - 58,411,631 (+)NCBI
MGSCv371757,908,993 - 58,549,765 (+)RGD
Celera1762,104,209 - 62,743,327 (+)RGD
cM Map17 ENTREZGENE
Sequence:
RefSeq Acc Id: NR_160889
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,076,206 - 58,082,728 (+)NCBI
GRCm381757,769,211 - 57,775,733 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006524741   ⟹   XP_006524804
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,076,072 - 58,724,948 (+)NCBI
GRCm381757,769,077 - 58,417,953 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006524742   ⟹   XP_006524805
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,076,072 - 58,724,948 (+)NCBI
GRCm381757,769,076 - 58,417,953 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006524744   ⟹   XP_006524807
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,076,070 - 58,702,184 (+)NCBI
GRCm381757,769,075 - 58,395,189 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006524747   ⟹   XP_006524810
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,076,070 - 58,634,212 (+)NCBI
GRCm381757,769,074 - 58,327,217 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006524748   ⟹   XP_006524811
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,076,071 - 58,620,830 (+)NCBI
GRCm381757,769,075 - 58,313,835 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006524749   ⟹   XP_006524812
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,076,071 - 58,620,758 (+)NCBI
GRCm381757,769,075 - 58,313,763 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006524750   ⟹   XP_006524813
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,076,070 - 58,612,579 (+)NCBI
GRCm381757,769,074 - 58,305,584 (+)NCBI
Sequence:
RefSeq Acc Id: XM_011246557   ⟹   XP_011244859
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,170,388 - 58,724,948 (+)NCBI
GRCm381757,863,398 - 58,417,953 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017317594   ⟹   XP_017173083
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,076,590 - 58,724,948 (+)NCBI
GRCm381757,769,595 - 58,412,572 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030249937   ⟹   XP_030105797
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,076,073 - 58,724,948 (+)NCBI
GRCm381757,769,077 - 58,417,953 (+)NCBI
Sequence:
RefSeq Acc Id: XM_036160717   ⟹   XP_036016610
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,076,073 - 58,724,948 (+)NCBI
Sequence:
RefSeq Acc Id: XR_385354
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,076,070 - 58,620,760 (+)NCBI
GRCm381757,769,075 - 58,313,765 (+)NCBI
Sequence:
RefSeq Acc Id: XR_385355
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,076,071 - 58,620,760 (+)NCBI
GRCm381757,769,075 - 58,313,765 (+)NCBI
Sequence:
RefSeq Acc Id: XR_385356
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391758,076,071 - 58,620,760 (+)NCBI
GRCm381757,769,075 - 58,313,765 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_001075122   ⟸   NM_001081653
- Peptide Label: precursor
- UniProtKB: Q0V8T7 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006524807   ⟸   XM_006524744
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006524810   ⟸   XM_006524747
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_006524813   ⟸   XM_006524750
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_006524811   ⟸   XM_006524748
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_006524812   ⟸   XM_006524749
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_006524804   ⟸   XM_006524741
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006524805   ⟸   XM_006524742
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_011244859   ⟸   XM_011246557
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017173083   ⟸   XM_017317594
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_030105797   ⟸   XM_030249937
- Peptide Label: isoform X4
RefSeq Acc Id: ENSMUSP00000075416   ⟸   ENSMUST00000076038
RefSeq Acc Id: XP_036016610   ⟸   XM_036160717
- Peptide Label: isoform X8
Protein Domains
EGF-like   F5/8 type C   Fibrinogen C-terminal   Laminin G-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q0V8T7-F1-model_v2 AlphaFold Q0V8T7 1-1305 view protein structure


Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3646013 AgrOrtholog
Ensembl Genes ENSMUSG00000038048 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000076038 ENTREZGENE
  ENSMUST00000076038.7 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.120.1000 UniProtKB/Swiss-Prot
  2.60.120.200 UniProtKB/Swiss-Prot
  Galactose-binding domain-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Laminin UniProtKB/Swiss-Prot
InterPro ConA-like_dom_sf UniProtKB/Swiss-Prot
  EGF-like_dom UniProtKB/Swiss-Prot
  FA58C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Fibrinogen-like_C UniProtKB/Swiss-Prot
  Fibrinogen_a/b/g_C_dom UniProtKB/Swiss-Prot
  Galactose-bd-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Laminin_G UniProtKB/Swiss-Prot
KEGG Report mmu:620292 UniProtKB/Swiss-Prot
MGD MGI:3646013 ENTREZGENE
NCBI Gene 620292 ENTREZGENE
PANTHER CONTACTIN-ASSOCIATED PROTEIN-LIKE 5 UniProtKB/Swiss-Prot
  PIKACHURIN-LIKE PROTEIN UniProtKB/Swiss-Prot
Pfam F5_F8_type_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Laminin_G_2 UniProtKB/Swiss-Prot
PhenoGen Cntnap5c PhenoGen
PROSITE EGF_3 UniProtKB/Swiss-Prot
  FA58C_2 UniProtKB/Swiss-Prot
  FA58C_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FIBRINOGEN_C_2 UniProtKB/Swiss-Prot
  LAM_G_DOMAIN UniProtKB/Swiss-Prot
SMART EGF UniProtKB/Swiss-Prot
  FA58C UniProtKB/Swiss-Prot
  LamG UniProtKB/Swiss-Prot
Superfamily-SCOP EGF/Laminin UniProtKB/Swiss-Prot
  SSF49785 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF49899 UniProtKB/Swiss-Prot
  SSF56496 UniProtKB/Swiss-Prot
UniProt CTP5C_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q2PAX8_MOUSE UniProtKB/TrEMBL