HCFC2 (host cell factor C2) - Rat Genome Database

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Gene: HCFC2 (host cell factor C2) Sus scrofa
Analyze
Symbol: HCFC2
Name: host cell factor C2
RGD ID: 14284406
Description: ENCODES a protein that exhibits transcription coactivator activity (inferred); transcription coregulator activity (inferred); INVOLVED IN antiviral innate immune response (ortholog); immune response involved in response to exogenous dsRNA (ortholog); negative regulation of transcription by RNA polymerase II (ortholog); PARTICIPATES IN RNA polymerase II transcription initiation pathway; ASSOCIATED WITH genetic disease (ortholog); FOUND IN MLL1 complex (ortholog); MLL1/2 complex (ortholog); Set1C/COMPASS complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: host cell factor 2
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 Ensembl580,368,240 - 80,409,775 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1580,366,826 - 80,409,798 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2583,937,553 - 83,979,573 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
HCFC2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl580,368,240 - 80,409,775 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1580,366,826 - 80,409,798 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2583,937,553 - 83,979,573 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HCFC2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3812104,064,531 - 104,106,524 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl12104,064,531 - 104,106,524 (+)EnsemblGRCh38hg38GRCh38
GRCh3712104,458,309 - 104,500,302 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3612102,982,457 - 103,021,373 (+)NCBINCBI36Build 36hg18NCBI36
Build 3412102,960,793 - 102,999,710NCBI
Celera12104,121,988 - 104,164,044 (+)NCBICelera
Cytogenetic Map12q23.3NCBI
HuRef12101,517,939 - 101,559,991 (+)NCBIHuRef
CHM1_112104,424,156 - 104,466,216 (+)NCBICHM1_1
T2T-CHM13v2.012104,026,224 - 104,068,218 (+)NCBIT2T-CHM13v2.0
Hcfc2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391082,534,841 - 82,631,699 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1082,531,994 - 82,578,262 (+)EnsemblGRCm39 Ensembl
GRCm381082,699,007 - 82,795,865 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1082,696,160 - 82,742,428 (+)EnsemblGRCm38mm10GRCm38
MGSCv371082,161,752 - 82,204,137 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361082,128,806 - 82,172,227 (+)NCBIMGSCv36mm8
Celera1084,683,495 - 84,725,880 (+)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.93NCBI
Hcfc2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8722,875,440 - 22,907,391 (-)NCBIGRCr8
mRatBN7.2720,983,986 - 21,019,826 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl720,991,017 - 21,019,801 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx722,965,370 - 22,994,273 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0725,128,073 - 25,156,976 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0724,905,147 - 24,934,050 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0727,107,931 - 27,136,658 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl727,108,116 - 27,136,652 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0727,226,468 - 27,255,042 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4723,216,061 - 23,245,815 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1723,236,332 - 23,266,086 (-)NCBI
Celera718,171,737 - 18,200,488 (-)NCBICelera
Cytogenetic Map7q13NCBI
Hcfc2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540538,730,054 - 38,760,115 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540538,729,700 - 38,758,398 (+)NCBIChiLan1.0ChiLan1.0
HCFC2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v210112,126,861 - 112,173,027 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan112112,123,257 - 112,165,045 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v012101,640,561 - 101,682,283 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.112105,036,687 - 105,077,780 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl12105,036,716 - 105,074,532 (+)Ensemblpanpan1.1panPan2
HCFC2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11542,560,028 - 42,596,335 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1542,560,075 - 42,597,330 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1542,929,525 - 42,967,601 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01543,217,729 - 43,255,981 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1543,217,746 - 43,323,057 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11542,483,517 - 42,521,761 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01542,582,798 - 42,620,818 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01542,853,716 - 42,891,992 (+)NCBIUU_Cfam_GSD_1.0
Hcfc2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494517,378,117 - 17,415,837 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649210,390,268 - 10,426,206 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649210,390,603 - 10,426,232 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HCFC2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11199,264,638 - 99,303,923 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1199,264,674 - 99,303,732 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037145,689,678 - 145,740,127 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hcfc2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247504,629,669 - 4,660,413 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247504,627,848 - 4,660,448 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in HCFC2
962 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 2 1 3 3 2 10 2
Low 8 3 2 13 2 1 3
Below cutoff

Sequence


RefSeq Acc Id: ENSSSCT00000000923   ⟹   ENSSSCP00000000903
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl580,368,240 - 80,409,775 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000051495   ⟹   ENSSSCP00000047688
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl580,371,704 - 80,409,786 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000077996   ⟹   ENSSSCP00000064742
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl580,370,426 - 80,409,777 (-)Ensembl
RefSeq Acc Id: XM_003126644   ⟹   XP_003126692
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1580,366,826 - 80,409,798 (-)NCBI
Sequence:
RefSeq Acc Id: XP_003126692   ⟸   XM_003126644
- UniProtKB: F1SRK9 (UniProtKB/TrEMBL),   A0A4X1T6P9 (UniProtKB/TrEMBL),   A0A8D1U0V7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000000903   ⟸   ENSSSCT00000000923
RefSeq Acc Id: ENSSSCP00000047688   ⟸   ENSSSCT00000051495
RefSeq Acc Id: ENSSSCP00000064742   ⟸   ENSSSCT00000077996
Protein Domains
Fibronectin type-III


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000000846 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00015012136 UniProtKB/TrEMBL
  ENSSSCG00025048046 UniProtKB/TrEMBL
  ENSSSCG00030034077 UniProtKB/TrEMBL
  ENSSSCG00035003236 UniProtKB/TrEMBL
  ENSSSCG00040031837 UniProtKB/TrEMBL
  ENSSSCG00045033179 UniProtKB/TrEMBL
  ENSSSCG00050051766 UniProtKB/TrEMBL
  ENSSSCG00055012018 UniProtKB/TrEMBL
  ENSSSCG00060064962 UniProtKB/TrEMBL
  ENSSSCG00065028490 UniProtKB/TrEMBL
  ENSSSCG00070006984 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000000923 ENTREZGENE
  ENSSSCT00000000923.5 UniProtKB/TrEMBL
  ENSSSCT00015016015.1 UniProtKB/TrEMBL
  ENSSSCT00015016110.1 UniProtKB/TrEMBL
  ENSSSCT00025065338.1 UniProtKB/TrEMBL
  ENSSSCT00025065596.1 UniProtKB/TrEMBL
  ENSSSCT00030047147.1 UniProtKB/TrEMBL
  ENSSSCT00030047179.1 UniProtKB/TrEMBL
  ENSSSCT00035003996.1 UniProtKB/TrEMBL
  ENSSSCT00035003999.1 UniProtKB/TrEMBL
  ENSSSCT00040042801.1 UniProtKB/TrEMBL
  ENSSSCT00040042886.1 UniProtKB/TrEMBL
  ENSSSCT00040042969.1 UniProtKB/TrEMBL
  ENSSSCT00040043011.1 UniProtKB/TrEMBL
  ENSSSCT00045056685.1 UniProtKB/TrEMBL
  ENSSSCT00045056825.1 UniProtKB/TrEMBL
  ENSSSCT00045056982.1 UniProtKB/TrEMBL
  ENSSSCT00045057091.1 UniProtKB/TrEMBL
  ENSSSCT00050070503.1 UniProtKB/TrEMBL
  ENSSSCT00050070509.1 UniProtKB/TrEMBL
  ENSSSCT00055023483.1 UniProtKB/TrEMBL
  ENSSSCT00055023565.1 UniProtKB/TrEMBL
  ENSSSCT00055023646.1 UniProtKB/TrEMBL
  ENSSSCT00055023691.1 UniProtKB/TrEMBL
  ENSSSCT00060088691.1 UniProtKB/TrEMBL
  ENSSSCT00060088709.1 UniProtKB/TrEMBL
  ENSSSCT00065038421.1 UniProtKB/TrEMBL
  ENSSSCT00065038434.1 UniProtKB/TrEMBL
  ENSSSCT00065038441.1 UniProtKB/TrEMBL
  ENSSSCT00070013404.1 UniProtKB/TrEMBL
  ENSSSCT00070013412.1 UniProtKB/TrEMBL
  ENSSSCT00070013419.1 UniProtKB/TrEMBL
Gene3D-CATH 2.120.10.80 UniProtKB/TrEMBL
  2.60.40.10 UniProtKB/TrEMBL
  6.10.250.2590 UniProtKB/TrEMBL
InterPro FN3_dom UniProtKB/TrEMBL
  FN3_sf UniProtKB/TrEMBL
  Gal_Oxase/kelch_b-propeller UniProtKB/TrEMBL
  HCF1/2 UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Kelch-typ_b-propeller UniProtKB/TrEMBL
  Kelch_1 UniProtKB/TrEMBL
KEGG Report ssc:100514768 UniProtKB/TrEMBL
NCBI Gene HCFC2 ENTREZGENE
PANTHER PTHR46003 UniProtKB/TrEMBL
  PTHR46003:SF2 UniProtKB/TrEMBL
Pfam Kelch_1 UniProtKB/TrEMBL
  Kelch_3 UniProtKB/TrEMBL
  Kelch_5 UniProtKB/TrEMBL
SMART FN3 UniProtKB/TrEMBL
Superfamily-SCOP SSF117281 UniProtKB/TrEMBL
  SSF49265 UniProtKB/TrEMBL
  SSF50965 UniProtKB/TrEMBL
UniProt A0A4X1T6P9 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1T7B1_PIG UniProtKB/TrEMBL
  A0A4X1T7X6_PIG UniProtKB/TrEMBL
  A0A8D1U0V7 ENTREZGENE, UniProtKB/TrEMBL
  F1SRK9 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:88800 ENTREZGENE