CLVS1 (clavesin 1) - Rat Genome Database

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Gene: CLVS1 (clavesin 1) Chlorocebus sabaeus
Analyze
Symbol: CLVS1
Name: clavesin 1
RGD ID: 18620057
Description: ENCODES a protein that exhibits phosphatidylinositol bisphosphate binding (inferred); phosphatidylinositol-3,5-bisphosphate binding (inferred); INVOLVED IN lysosome organization (inferred); ASSOCIATED WITH CHARGE syndrome (ortholog); genetic disease (ortholog); FOUND IN clathrin-coated vesicle (inferred); early endosome membrane (inferred); endosome (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: clavesin-1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1857,174,083 - 57,378,424 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl857,174,291 - 57,380,412 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603984,271,844 - 84,482,024 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
CLVS1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1857,174,083 - 57,378,424 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl857,174,291 - 57,380,412 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603984,271,844 - 84,482,024 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
CLVS1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38860,964,848 - 61,501,629 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl861,057,158 - 61,501,645 (+)EnsemblGRCh38hg38GRCh38
GRCh37862,200,529 - 62,414,188 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36862,363,104 - 62,576,758 (+)NCBINCBI36Build 36hg18NCBI36
Celera858,190,369 - 58,404,047 (+)NCBICelera
Cytogenetic Map8q12.2-q12.3NCBI
HuRef857,688,952 - 57,902,676 (+)NCBIHuRef
CHM1_1862,252,500 - 62,466,191 (+)NCBICHM1_1
T2T-CHM13v2.0861,388,616 - 61,925,370 (+)NCBIT2T-CHM13v2.0
Clvs1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3949,144,753 - 9,451,691 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl49,269,293 - 9,451,691 (+)EnsemblGRCm39 Ensembl
GRCm3849,144,745 - 9,451,691 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl49,269,293 - 9,451,691 (+)EnsemblGRCm38mm10GRCm38
MGSCv3749,196,464 - 9,378,838 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3649,196,509 - 9,378,838 (+)NCBIMGSCv36mm8
Celera49,108,545 - 9,292,342 (+)NCBICelera
Cytogenetic Map4A1NCBI
cM Map44.07NCBI
Clvs1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8527,107,255 - 27,401,649 (+)NCBIGRCr8
mRatBN7.2522,408,384 - 22,604,281 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl522,408,384 - 22,604,270 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx524,638,301 - 24,832,299 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0526,228,396 - 26,424,268 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0526,008,667 - 26,204,555 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0522,380,318 - 22,580,391 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl522,380,334 - 22,578,297 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0527,115,709 - 27,312,485 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4523,135,749 - 23,336,357 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera521,664,843 - 21,859,477 (+)NCBICelera
Cytogenetic Map5q13NCBI
Clvs1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544417,319,905 - 17,515,421 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544417,319,905 - 17,515,397 (-)NCBIChiLan1.0ChiLan1.0
CLVS1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2776,940,026 - 77,156,897 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1852,599,254 - 52,816,033 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0857,703,459 - 57,921,997 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1859,414,746 - 59,630,784 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl859,252,291 - 59,630,784 (+)Ensemblpanpan1.1panPan2
CLVS1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12911,638,550 - 11,811,853 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2911,638,024 - 11,812,396 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2911,953,510 - 12,128,291 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02911,734,430 - 11,909,539 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2911,734,483 - 11,909,548 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12911,726,549 - 11,901,504 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02911,863,231 - 12,037,919 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02912,133,085 - 12,308,297 (+)NCBIUU_Cfam_GSD_1.0
Clvs1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530362,777,239 - 62,970,859 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649611,812,646 - 12,008,355 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649611,814,627 - 12,008,233 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLVS1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl472,105,972 - 72,257,226 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1472,104,521 - 72,257,259 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2478,504,691 - 78,655,974 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Clvs1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474430,424,917 - 30,786,645 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474430,423,605 - 30,680,264 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system hemolymphoid system nervous system
High
Medium 12
Low 17 8 45
Below cutoff 14 9 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000012420   ⟹   ENSCSAP00000010460
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl857,174,291 - 57,380,412 (+)Ensembl
RefSeq Acc Id: XM_008000741   ⟹   XP_007998932
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1857,174,084 - 57,378,424 (+)NCBI
Vero_WHO_p1.0NW_02366603984,271,844 - 84,482,023 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008000743   ⟹   XP_007998934
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1857,174,083 - 57,378,424 (+)NCBI
Vero_WHO_p1.0NW_02366603984,271,844 - 84,482,024 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038000458   ⟹   XP_037856386
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366603984,271,844 - 84,475,096 (-)NCBI
Protein Sequences
Protein RefSeqs XP_007998932 (Get FASTA)   NCBI Sequence Viewer  
  XP_007998934 (Get FASTA)   NCBI Sequence Viewer  
  XP_037856386 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000010460
  ENSCSAP00000010460.1
Reference Protein Sequences
RefSeq Acc Id: XP_007998934   ⟸   XM_008000743
- UniProtKB: A0A0D9RPC1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007998932   ⟸   XM_008000741
- UniProtKB: A0A0D9RPC1 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000010460   ⟸   ENSCSAT00000012420
RefSeq Acc Id: XP_037856386   ⟸   XM_038000458
- UniProtKB: A0A0D9RPC1 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000014326 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000012420.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.525.10 UniProtKB/TrEMBL
  Alpha-tocopherol transfer UniProtKB/TrEMBL
  N-terminal domain of phosphatidylinositol transfer protein sec14p UniProtKB/TrEMBL
InterPro CRAL-TRIO_dom UniProtKB/TrEMBL
  CRAL-TRIO_dom_sf UniProtKB/TrEMBL
  CRAL/TRIO_N_dom UniProtKB/TrEMBL
  CRAL/TRIO_N_dom_sf UniProtKB/TrEMBL
KEGG Report csab:103236862 UniProtKB/TrEMBL
NCBI Gene CLVS1 ENTREZGENE
PANTHER ALPHA-TOCOPHEROL TRANSFER PROTEIN-RELATED UniProtKB/TrEMBL
  PTHR10174:SF72 UniProtKB/TrEMBL
Pfam CRAL_TRIO UniProtKB/TrEMBL
  CRAL_TRIO_N UniProtKB/TrEMBL
PRINTS CRETINALDHBP UniProtKB/TrEMBL
PROSITE CRAL_TRIO UniProtKB/TrEMBL
SMART CRAL_TRIO_N UniProtKB/TrEMBL
  SEC14 UniProtKB/TrEMBL
Superfamily-SCOP SSF46938 UniProtKB/TrEMBL
  SSF52087 UniProtKB/TrEMBL
UniProt A0A0D9RPC1 ENTREZGENE, UniProtKB/TrEMBL