Specc1 (sperm antigen with calponin homology and coiled-coil domains 1) - Rat Genome Database

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Gene: Specc1 (sperm antigen with calponin homology and coiled-coil domains 1) Ictidomys tridecemlineatus
Analyze
Symbol: Specc1
Name: sperm antigen with calponin homology and coiled-coil domains 1
RGD ID: 12599984
Description: INVOLVED IN associative learning (ortholog); blastocyst development (ortholog); ASSOCIATED WITH autistic disorder (ortholog); genetic disease (ortholog); Meckel Syndrome 9 (ortholog); FOUND IN apical part of cell (inferred); cytoplasm (inferred); cytosol (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: cytospin-B; sperm antigen with calponin homology and coiled-coil domains 1, transcript variant X1; sperm antigen with calponin homology and coiled-coil domains 1, transcript variant X2; sperm antigen with calponin homology and coiled-coil domains 1, transcript variant X3; sperm antigen with calponin homology and coiled-coil domains 1, transcript variant X4; sperm antigen with calponin homology and coiled-coil domains 1, transcript variant X5; sperm antigen with calponin homology and coiled-coil domains 1, transcript variant X6
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560258,897,988 - 59,170,337 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936821641,852 - 914,208 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936821641,863 - 914,188 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
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

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Specc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560258,897,988 - 59,170,337 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936821641,852 - 914,208 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936821641,863 - 914,188 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SPECC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381720,009,359 - 20,319,026 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1720,008,865 - 20,319,026 (+)EnsemblGRCh38hg38GRCh38
GRCh371719,912,672 - 20,222,339 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361719,930,927 - 20,158,660 (+)NCBINCBI36Build 36hg18NCBI36
Celera1717,404,264 - 17,631,972 (+)NCBICelera
Cytogenetic Map17p11.2NCBI
HuRef1719,291,394 - 19,596,822 (+)NCBIHuRef
CHM1_11719,921,409 - 20,226,847 (+)NCBICHM1_1
T2T-CHM13v2.01719,958,073 - 20,267,692 (+)NCBIT2T-CHM13v2.0
Specc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391161,847,589 - 62,113,839 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1161,847,589 - 62,113,839 (+)EnsemblGRCm39 Ensembl
GRCm381161,956,763 - 62,223,013 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1161,956,763 - 62,223,013 (+)EnsemblGRCm38mm10GRCm38
MGSCv371161,890,599 - 62,036,515 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361161,893,292 - 62,039,208 (+)NCBIMGSCv36mm8
Celera1169,004,409 - 69,147,561 (+)NCBICelera
Cytogenetic Map11B2NCBI
cM Map1137.96NCBI
Specc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81047,138,351 - 47,412,311 (+)NCBIGRCr8
mRatBN7.21046,638,947 - 46,912,989 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1046,638,809 - 46,912,802 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1051,341,923 - 51,532,654 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01050,832,455 - 51,023,191 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01046,335,869 - 46,526,600 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01048,240,291 - 48,542,171 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1048,240,127 - 48,542,292 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01048,031,413 - 48,330,676 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41048,118,178 - 48,309,501 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11048,234,661 - 48,322,851 (+)NCBI
Celera1045,885,420 - 46,075,919 (+)NCBICelera
Cytogenetic Map10q22-q23NCBI
SPECC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21955,009,280 - 55,322,630 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11759,821,096 - 60,134,390 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01730,800,973 - 31,114,322 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11735,955,207 - 36,253,178 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1735,951,060 - 36,253,178 (-)Ensemblpanpan1.1panPan2
SPECC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1539,936,851 - 40,163,249 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl539,940,165 - 40,137,627 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha540,082,543 - 40,309,634 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0540,046,544 - 40,273,530 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl540,029,538 - 40,327,157 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1540,018,605 - 40,245,168 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0539,963,873 - 40,190,657 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0540,155,296 - 40,383,379 (-)NCBIUU_Cfam_GSD_1.0
SPECC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1259,466,791 - 59,654,192 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11259,466,778 - 59,705,602 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SPECC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11618,585,965 - 18,896,161 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1618,737,158 - 18,893,994 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660591,939,033 - 2,250,111 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Specc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248774,499,581 - 4,886,580 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000029298   ⟹   ENSSTOP00000017688
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936821728,101 - 914,208 (-)Ensembl
RefSeq Acc Id: ENSSTOT00000031085   ⟹   ENSSTOP00000029565
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936821641,852 - 879,463 (-)Ensembl
RefSeq Acc Id: ENSSTOT00000033174   ⟹   ENSSTOP00000028774
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936821641,852 - 803,490 (-)Ensembl
RefSeq Acc Id: XM_013365467   ⟹   XP_013220921
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440560258,932,717 - 59,170,337 (+)NCBI
SpeTri2.0NW_004936821641,863 - 879,483 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021720554   ⟹   XP_021576229
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440560258,897,989 - 59,170,337 (+)NCBI
SpeTri2.0NW_004936821641,863 - 914,188 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021720556   ⟹   XP_021576231
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440560259,008,760 - 59,170,337 (+)NCBI
SpeTri2.0NW_004936821641,863 - 803,423 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021720557   ⟹   XP_021576232
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440560258,897,989 - 59,170,337 (+)NCBI
SpeTri2.0NW_004936821722,468 - 914,188 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021720558   ⟹   XP_021576233
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440560258,897,989 - 59,084,104 (+)NCBI
SpeTri2.0NW_004936821728,107 - 914,188 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040269588   ⟹   XP_040125522
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440560258,897,988 - 59,170,337 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_013220921   ⟸   XM_013365467
- Peptide Label: isoform X1
- UniProtKB: A0A287D7N8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021576229   ⟸   XM_021720554
- Peptide Label: isoform X1
- UniProtKB: A0A287D7N8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021576231   ⟸   XM_021720556
- Peptide Label: isoform X4
- UniProtKB: A0A287D5H2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021576232   ⟸   XM_021720557
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_021576233   ⟸   XM_021720558
- Peptide Label: isoform X5
- UniProtKB: I3MZZ2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040125522   ⟸   XM_040269588
- Peptide Label: isoform X3
RefSeq Acc Id: ENSSTOP00000029565   ⟸   ENSSTOT00000031085
RefSeq Acc Id: ENSSTOP00000017688   ⟸   ENSSTOT00000029298
RefSeq Acc Id: ENSSTOP00000028774   ⟸   ENSSTOT00000033174
Protein Domains
Calponin-homology (CH)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000025428 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000029298.2 UniProtKB/TrEMBL
  ENSSTOT00000031085.1 UniProtKB/TrEMBL
  ENSSTOT00000033174.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.418.10 UniProtKB/TrEMBL
InterPro CH-domain UniProtKB/TrEMBL
  CH_dom_sf UniProtKB/TrEMBL
NCBI Gene Specc1 ENTREZGENE
PANTHER CALPONIN HOMOLOGY DOMAIN-CONTAINING PROTEIN DDB_G0272472-RELATED UniProtKB/TrEMBL
  CYTOSPIN-B UniProtKB/TrEMBL
Pfam PF00307 UniProtKB/TrEMBL
PROSITE PS50021 UniProtKB/TrEMBL
SMART SM00033 UniProtKB/TrEMBL
Superfamily-SCOP SSF47576 UniProtKB/TrEMBL
UniProt A0A287D5H2 ENTREZGENE, UniProtKB/TrEMBL
  A0A287D7N8 ENTREZGENE, UniProtKB/TrEMBL
  I3MZZ2 ENTREZGENE, UniProtKB/TrEMBL