SINHCAF (SIN3-HDAC complex associated factor) - Rat Genome Database

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Gene: SINHCAF (SIN3-HDAC complex associated factor) Sus scrofa
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Symbol: SINHCAF
Name: SIN3-HDAC complex associated factor
RGD ID: 14051433
Description: INVOLVED IN negative regulation of cell differentiation (ortholog); positive regulation of cell population proliferation (ortholog); ASSOCIATED WITH pancreatic cancer (ortholog); FOUND IN Sin3-type complex (ortholog); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
Previously known as: FAM60A; family with sequence similarity 60 member A; protein FAM60A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl542,930,521 - 42,985,144 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1542,930,445 - 42,963,604 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction 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:14681463   PMID:30032202  


Genomics

Comparative Map Data
SINHCAF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl542,930,521 - 42,985,144 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1542,930,445 - 42,963,604 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SINHCAF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381231,280,584 - 31,326,150 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1231,280,584 - 31,327,058 (-)EnsemblGRCh38hg38GRCh38
GRCh371231,433,518 - 31,479,084 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361231,324,785 - 31,370,340 (-)NCBINCBI36Build 36hg18NCBI36
Build 341231,324,784 - 31,370,340NCBI
Celera1211,254,383 - 11,300,023 (-)NCBICelera
Cytogenetic Map12p11.21NCBI
HuRef1231,186,852 - 31,232,433 (-)NCBIHuRef
CHM1_11231,398,520 - 31,444,157 (-)NCBICHM1_1
T2T-CHM13v2.01231,157,116 - 31,202,680 (-)NCBIT2T-CHM13v2.0
Sinhcaf
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396148,822,538 - 148,847,968 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6148,822,533 - 148,847,965 (-)EnsemblGRCm39 Ensembl
GRCm386148,921,057 - 148,946,470 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6148,921,035 - 148,946,467 (-)EnsemblGRCm38mm10GRCm38
MGSCv376148,869,579 - 148,894,954 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366148,878,227 - 148,903,602 (-)NCBIMGSCv36mm8
Celera6151,959,092 - 151,984,485 (-)NCBICelera
Cytogenetic Map6G3NCBI
cM Map678.67NCBI
Sinhcaf
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84183,619,647 - 183,644,628 (-)NCBIGRCr8
mRatBN7.24181,888,301 - 181,913,294 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4181,888,312 - 181,910,276 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4188,163,184 - 188,188,284 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04183,947,713 - 183,972,815 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04182,568,207 - 182,593,309 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04183,401,314 - 183,426,439 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4183,401,318 - 183,426,439 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04247,532,024 - 247,556,126 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera4170,356,442 - 170,381,382 (-)NCBICelera
Cytogenetic Map4q44NCBI
Sinhcaf
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555054,365,386 - 4,379,232 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555054,344,465 - 4,377,463 (+)NCBIChiLan1.0ChiLan1.0
SINHCAF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21065,447,437 - 65,492,192 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11265,442,956 - 65,487,773 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01254,914,625 - 54,960,258 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11257,498,428 - 57,544,498 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1257,498,428 - 57,544,489 (+)Ensemblpanpan1.1panPan2
SINHCAF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12717,421,065 - 17,456,628 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2717,429,052 - 17,455,144 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2728,961,376 - 28,996,459 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02717,604,428 - 17,639,788 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2717,604,757 - 17,639,726 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12717,413,787 - 17,449,047 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02717,444,696 - 17,480,029 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02729,114,405 - 29,149,788 (-)NCBIUU_Cfam_GSD_1.0
Sinhcaf
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494578,020,954 - 78,055,473 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049366074,854,332 - 4,889,999 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SINHCAF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11130,755,143 - 30,797,383 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660694,184,169 - 4,230,836 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sinhcaf
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247784,917,195 - 4,947,871 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247784,917,169 - 4,947,880 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SINHCAF
262 total Variants

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

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 8 2 3 5 3 3 3
Low 2 2 2 19 2
Below cutoff 1

Sequence


RefSeq Acc Id: ENSSSCT00000042170   ⟹   ENSSSCP00000051556
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl542,944,701 - 42,963,593 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000046385   ⟹   ENSSSCP00000034734
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl542,930,521 - 42,966,361 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000063387   ⟹   ENSSSCP00000055905
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl542,932,534 - 42,963,595 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000064203   ⟹   ENSSSCP00000044600
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl542,930,480 - 42,983,870 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000070647   ⟹   ENSSSCP00000070900
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl542,930,524 - 42,985,144 (+)Ensembl
RefSeq Acc Id: XM_021092098   ⟹   XP_020947757
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1542,932,483 - 42,963,604 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021092099   ⟹   XP_020947758
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1542,930,510 - 42,963,604 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021092100   ⟹   XP_020947759
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1542,932,241 - 42,963,604 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021092101   ⟹   XP_020947760
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1542,930,445 - 42,963,604 (+)NCBI
Sequence:
RefSeq Acc Id: XP_020947760   ⟸   XM_021092101
- UniProtKB: A0A0B8RZL0 (UniProtKB/TrEMBL),   A0A4X1VL05 (UniProtKB/TrEMBL),   A0A286ZTC6 (UniProtKB/TrEMBL),   M3V834 (UniProtKB/TrEMBL),   A0A287BID8 (UniProtKB/TrEMBL),   A0A8D0X2S8 (UniProtKB/TrEMBL),   A0A8D0QTG1 (UniProtKB/TrEMBL),   A0A8D1GBF9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020947758   ⟸   XM_021092099
- UniProtKB: A0A0B8RZL0 (UniProtKB/TrEMBL),   A0A4X1VL05 (UniProtKB/TrEMBL),   A0A286ZTC6 (UniProtKB/TrEMBL),   M3V834 (UniProtKB/TrEMBL),   A0A287BID8 (UniProtKB/TrEMBL),   A0A8D0X2S8 (UniProtKB/TrEMBL),   A0A8D0QTG1 (UniProtKB/TrEMBL),   A0A8D1GBF9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020947759   ⟸   XM_021092100
- UniProtKB: A0A0B8RZL0 (UniProtKB/TrEMBL),   A0A4X1VL05 (UniProtKB/TrEMBL),   A0A286ZTC6 (UniProtKB/TrEMBL),   M3V834 (UniProtKB/TrEMBL),   A0A287BID8 (UniProtKB/TrEMBL),   A0A8D0X2S8 (UniProtKB/TrEMBL),   A0A8D0QTG1 (UniProtKB/TrEMBL),   A0A8D1GBF9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020947757   ⟸   XM_021092098
- UniProtKB: A0A0B8RZL0 (UniProtKB/TrEMBL),   A0A4X1VL05 (UniProtKB/TrEMBL),   A0A286ZTC6 (UniProtKB/TrEMBL),   M3V834 (UniProtKB/TrEMBL),   A0A287BID8 (UniProtKB/TrEMBL),   A0A8D0X2S8 (UniProtKB/TrEMBL),   A0A8D0QTG1 (UniProtKB/TrEMBL),   A0A8D1GBF9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000044600   ⟸   ENSSSCT00000064203
RefSeq Acc Id: ENSSSCP00000070900   ⟸   ENSSSCT00000070647
RefSeq Acc Id: ENSSSCP00000034734   ⟸   ENSSSCT00000046385
RefSeq Acc Id: ENSSSCP00000051556   ⟸   ENSSSCT00000042170
RefSeq Acc Id: ENSSSCP00000055905   ⟸   ENSSSCT00000063387


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000037732 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005017376 UniProtKB/TrEMBL
  ENSSSCG00015027619 UniProtKB/TrEMBL
  ENSSSCG00025011697 UniProtKB/TrEMBL
  ENSSSCG00030047154 UniProtKB/TrEMBL
  ENSSSCG00035048467 UniProtKB/TrEMBL
  ENSSSCG00040074563 UniProtKB/TrEMBL
  ENSSSCG00045020930 UniProtKB/TrEMBL
  ENSSSCG00050032755 UniProtKB/TrEMBL
  ENSSSCG00055020546 UniProtKB/TrEMBL
  ENSSSCG00060025370 UniProtKB/TrEMBL
  ENSSSCG00065035828 UniProtKB/TrEMBL
  ENSSSCG00070025131 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000046385 ENTREZGENE
  ENSSSCT00000046385.3 UniProtKB/TrEMBL
  ENSSSCT00000063387 ENTREZGENE
  ENSSSCT00000063387.2 UniProtKB/TrEMBL
  ENSSSCT00000070647.2 UniProtKB/TrEMBL
  ENSSSCT00005027364.1 UniProtKB/TrEMBL
  ENSSSCT00005027427.1 UniProtKB/TrEMBL
  ENSSSCT00005027463.1 UniProtKB/TrEMBL
  ENSSSCT00015036805.1 UniProtKB/TrEMBL
  ENSSSCT00015037020.1 UniProtKB/TrEMBL
  ENSSSCT00025015534.1 UniProtKB/TrEMBL
  ENSSSCT00025015599.1 UniProtKB/TrEMBL
  ENSSSCT00030065895.1 UniProtKB/TrEMBL
  ENSSSCT00030065916.1 UniProtKB/TrEMBL
  ENSSSCT00035064605.1 UniProtKB/TrEMBL
  ENSSSCT00035064609.1 UniProtKB/TrEMBL
  ENSSSCT00040103201.1 UniProtKB/TrEMBL
  ENSSSCT00040103209.1 UniProtKB/TrEMBL
  ENSSSCT00045035835.1 UniProtKB/TrEMBL
  ENSSSCT00045035894.1 UniProtKB/TrEMBL
  ENSSSCT00050043993.1 UniProtKB/TrEMBL
  ENSSSCT00050044003.1 UniProtKB/TrEMBL
  ENSSSCT00055040522.1 UniProtKB/TrEMBL
  ENSSSCT00055040616.1 UniProtKB/TrEMBL
  ENSSSCT00060034413.1 UniProtKB/TrEMBL
  ENSSSCT00060034417.1 UniProtKB/TrEMBL
  ENSSSCT00065048841.1 UniProtKB/TrEMBL
  ENSSSCT00065048847.1 UniProtKB/TrEMBL
  ENSSSCT00070050268.1 UniProtKB/TrEMBL
  ENSSSCT00070050278.1 UniProtKB/TrEMBL
  ENSSSCT00070050292.1 UniProtKB/TrEMBL
InterPro FAM60A UniProtKB/TrEMBL
NCBI Gene SINHCAF ENTREZGENE
PANTHER PTHR13422 UniProtKB/TrEMBL
  SIN3-HDAC COMPLEX-ASSOCIATED FACTOR UniProtKB/TrEMBL
Pfam FAM60A UniProtKB/TrEMBL
UniProt A0A0B8RZL0 ENTREZGENE
  A0A286ZTC6 ENTREZGENE
  A0A287BID8 ENTREZGENE
  A0A4X1VL05 ENTREZGENE
  A0A8D0QTG1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0X2S8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0X5Z7_PIG UniProtKB/TrEMBL
  A0A8D1GBF9 ENTREZGENE, UniProtKB/TrEMBL
  M3V834 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A286ZTC6 UniProtKB/TrEMBL
  A0A287BID8 UniProtKB/TrEMBL
  A0A4X1VL05 UniProtKB/TrEMBL
  A0A5G2R156 UniProtKB/TrEMBL
VGNC ID VGNC:104056 ENTREZGENE