Spdef (SAM pointed domain containing ETS transcription factor) - Rat Genome Database

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Gene: Spdef (SAM pointed domain containing ETS transcription factor) Heterocephalus glaber
Analyze
Symbol: Spdef
Name: SAM pointed domain containing ETS transcription factor
RGD ID: 18931622
Description: ENCODES a protein that exhibits sequence-specific double-stranded DNA binding (ortholog); INVOLVED IN cell fate commitment (ortholog); epithelial cell fate commitment (ortholog); glandular epithelial cell development (ortholog); ASSOCIATED WITH genetic disease (ortholog); ovarian cancer (ortholog); Ovarian Neoplasms (ortholog); FOUND IN nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: SAM pointed domain-containing Ets transcription factor
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475422,714,432 - 22,720,504 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475422,714,181 - 22,721,113 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:21993625   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Spdef
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475422,714,432 - 22,720,504 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475422,714,181 - 22,721,113 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
SPDEF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38634,537,802 - 34,556,329 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl634,537,802 - 34,556,333 (-)EnsemblGRCh38hg38GRCh38
GRCh37634,505,579 - 34,524,106 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36634,613,558 - 34,632,069 (-)NCBINCBI36Build 36hg18NCBI36
Build 34634,613,557 - 34,632,069NCBI
Celera636,059,916 - 36,078,425 (-)NCBICelera
Cytogenetic Map6p21.31NCBI
HuRef634,228,203 - 34,246,732 (-)NCBIHuRef
CHM1_1634,508,569 - 34,527,078 (-)NCBICHM1_1
T2T-CHM13v2.0634,361,651 - 34,380,177 (-)NCBIT2T-CHM13v2.0
Spdef
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391727,933,416 - 27,949,977 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1727,933,326 - 27,947,929 (-)EnsemblGRCm39 Ensembl
GRCm381727,714,446 - 27,731,003 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1727,714,352 - 27,728,955 (-)EnsemblGRCm38mm10GRCm38
MGSCv371727,851,392 - 27,865,896 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361727,442,039 - 27,456,509 (-)NCBIMGSCv36mm8
Celera1728,266,225 - 28,280,705 (-)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1714.59NCBI
Spdef
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8205,773,236 - 5,787,685 (-)NCBIGRCr8
mRatBN7.2205,771,440 - 5,785,893 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl205,771,441 - 5,785,893 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx206,484,104 - 6,498,553 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0205,845,891 - 5,860,342 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0206,325,505 - 6,340,158 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0207,292,823 - 7,308,053 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl207,292,824 - 7,307,284 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0209,495,168 - 9,509,674 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4205,927,866 - 5,942,091 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera207,333,751 - 7,348,087 (-)NCBICelera
Cytogenetic Map20p12NCBI
Spdef
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554372,666,105 - 2,680,061 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554372,667,499 - 2,679,940 (-)NCBIChiLan1.0ChiLan1.0
SPDEF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2549,008,206 - 49,014,869 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1644,875,578 - 44,882,257 (-)NCBINHGRI_mPanPan1
SPDEF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1123,814,806 - 3,831,724 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl123,815,300 - 3,831,477 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha123,830,669 - 3,847,611 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0124,151,987 - 4,168,927 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl124,151,972 - 4,168,659 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1123,813,469 - 3,830,400 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0123,894,852 - 3,911,792 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0123,994,024 - 4,010,966 (-)NCBIUU_Cfam_GSD_1.0
Spdef
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494639,389,125 - 39,396,639 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647624,563,591 - 24,570,692 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647624,563,591 - 24,571,739 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SPDEF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl730,515,925 - 30,524,470 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1730,515,925 - 30,538,095 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2735,214,369 - 35,233,199 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SPDEF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11737,555,797 - 37,562,522 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1737,555,820 - 37,562,036 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604434,459,958 - 34,467,925 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSHGLT00000023869   ⟹   ENSHGLP00000023651
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462475422,714,432 - 22,720,504 (+)Ensembl
RefSeq Acc Id: XM_004846738   ⟹   XP_004846795
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462475422,714,181 - 22,721,113 (+)NCBI
Protein Sequences
Protein RefSeqs XP_004846795 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EHB06970 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000023651
Reference Protein Sequences
RefSeq Acc Id: XP_004846795   ⟸   XM_004846738
- UniProtKB: G5BCF9 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSHGLP00000023651   ⟸   ENSHGLT00000023869


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000016872 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000023869 ENTREZGENE
Gene3D-CATH Transcription Factor, Ets-1 UniProtKB/TrEMBL
  Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain UniProtKB/TrEMBL
InterPro Ets_dom UniProtKB/TrEMBL
  ETS_fam UniProtKB/TrEMBL
  Pointed_dom UniProtKB/TrEMBL
  SAM/pointed_sf UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/TrEMBL
NCBI Gene Spdef ENTREZGENE
PANTHER ETS UniProtKB/TrEMBL
  SAM POINTED DOMAIN-CONTAINING ETS TRANSCRIPTION FACTOR UniProtKB/TrEMBL
Pfam Ets UniProtKB/TrEMBL
  SAM_PNT UniProtKB/TrEMBL
PRINTS ETSDOMAIN UniProtKB/TrEMBL
PROSITE ETS_DOMAIN_2 UniProtKB/TrEMBL
  ETS_DOMAIN_3 UniProtKB/TrEMBL
  PNT UniProtKB/TrEMBL
SMART ETS UniProtKB/TrEMBL
  SAM_PNT UniProtKB/TrEMBL
Superfamily-SCOP SAM/Pointed domain UniProtKB/TrEMBL
  Winged helix' DNA-binding domain UniProtKB/TrEMBL
UniProt G5BCF9 ENTREZGENE, UniProtKB/TrEMBL