SSU72 (SSU72 homolog, RNA polymerase II CTD phosphatase) - Rat Genome Database

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Gene: SSU72 (SSU72 homolog, RNA polymerase II CTD phosphatase) Canis lupus familiaris
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Symbol: SSU72
Name: SSU72 homolog, RNA polymerase II CTD phosphatase
RGD ID: 12415553
Description: ENCODES a protein that exhibits hydrolase activity (inferred); phosphoprotein phosphatase activity (inferred); protein serine/threonine phosphatase activity (inferred); INVOLVED IN co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway (ortholog); PARTICIPATES IN RNA polymerase II transcription pathway; ASSOCIATED WITH chromosome 1p36 deletion syndrome (ortholog); congenital myasthenic syndrome 8 (ortholog); dilated cardiomyopathy 1LL (ortholog); FOUND IN cytosol (ortholog); nucleoplasm (ortholog)
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: RNA polymerase II subunit A C-terminal domain phosphatase SSU72; SSU72 RNA polymerase II CTD phosphatase homolog
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1556,620,803 - 56,650,131 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl556,620,805 - 56,650,131 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha556,696,786 - 56,726,143 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0556,822,938 - 56,852,452 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl556,822,943 - 56,852,735 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1556,813,500 - 56,842,860 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0556,705,870 - 56,735,201 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0557,096,118 - 57,125,568 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

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


Genomics

Comparative Map Data
SSU72
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1556,620,803 - 56,650,131 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl556,620,805 - 56,650,131 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha556,696,786 - 56,726,143 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0556,822,938 - 56,852,452 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl556,822,943 - 56,852,735 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1556,813,500 - 56,842,860 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0556,705,870 - 56,735,201 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0557,096,118 - 57,125,568 (-)NCBIUU_Cfam_GSD_1.0
SSU72
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811,541,673 - 1,574,863 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11,541,673 - 1,574,863 (-)EnsemblGRCh38hg38GRCh38
GRCh3711,477,053 - 1,510,243 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3611,466,916 - 1,500,125 (-)NCBINCBI36Build 36hg18NCBI36
Celera11,068,953 - 1,103,100 (+)NCBICelera
Cytogenetic Map1p36.33NCBI
HuRef1750,686 - 783,938 (-)NCBIHuRef
CHM1_111,464,275 - 1,497,415 (-)NCBICHM1_1
T2T-CHM13v2.01976,177 - 1,009,369 (-)NCBIT2T-CHM13v2.0
Ssu72
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394155,789,272 - 155,818,336 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4155,789,257 - 155,818,336 (+)EnsemblGRCm39 Ensembl
GRCm384155,704,815 - 155,733,879 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4155,704,800 - 155,733,879 (+)EnsemblGRCm38mm10GRCm38
MGSCv374155,078,924 - 155,107,988 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364154,548,924 - 154,577,582 (+)NCBIMGSCv36mm8
Celera4157,976,790 - 158,005,579 (+)NCBICelera
Cytogenetic Map4E2NCBI
cM Map487.07NCBI
Ssu72
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85171,595,919 - 171,625,675 (+)NCBIGRCr8
mRatBN7.25166,312,267 - 166,343,432 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5166,313,650 - 166,343,429 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5169,018,554 - 169,048,411 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05170,839,980 - 170,869,837 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05170,802,519 - 170,832,376 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05173,152,964 - 173,182,720 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5173,152,964 - 173,182,719 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05176,628,574 - 176,658,330 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45172,560,734 - 172,591,202 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15172,571,228 - 172,601,697 (+)NCBI
Celera5164,514,304 - 164,543,917 (+)NCBICelera
Cytogenetic Map5q36NCBI
Ssu72
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554869,317,078 - 9,338,414 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554869,317,078 - 9,338,414 (+)NCBIChiLan1.0ChiLan1.0
SSU72
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21226,645,902 - 226,679,582 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11225,302,969 - 225,336,524 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01301,984 - 335,634 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.111,463,184 - 1,494,797 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11,463,184 - 1,494,797 (-)Ensemblpanpan1.1panPan2
Ssu72
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505827,760,381 - 27,787,481 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367371,678,425 - 1,705,609 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367371,678,425 - 1,705,569 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SSU72
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl663,728,325 - 63,755,163 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1663,728,318 - 63,757,460 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2658,158,519 - 58,185,391 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SSU72
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120129,922,992 - 129,958,551 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20129,923,091 - 129,958,712 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605434,388,314 - 34,422,273 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ssu72
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248188,147,185 - 8,177,684 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248188,147,173 - 8,177,682 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SSU72
335 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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 5 5 22 6 6 6 6 6 12 8 10 6
Low
Below cutoff

Sequence


RefSeq Acc Id: ENSCAFT00000030566   ⟹   ENSCAFP00000028403
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl556,620,805 - 56,650,131 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845027314   ⟹   ENSCAFP00845021497
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl556,822,943 - 56,852,734 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845027331   ⟹   ENSCAFP00845021511
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl556,823,667 - 56,852,735 (-)Ensembl
RefSeq Acc Id: NM_001252325   ⟹   NP_001239254
RefSeq Status: VALIDATED
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1556,620,803 - 56,650,131 (-)NCBI
Dog10K_Boxer_Tasha556,696,786 - 56,726,143 (-)NCBI
ROS_Cfam_1.0556,822,938 - 56,852,452 (-)NCBI
UMICH_Zoey_3.1556,813,500 - 56,842,860 (-)NCBI
UNSW_CanFamBas_1.0556,705,870 - 56,735,201 (-)NCBI
UU_Cfam_GSD_1.0557,096,118 - 57,125,568 (-)NCBI
Sequence:
RefSeq Acc Id: NP_001239254   ⟸   NM_001252325
- UniProtKB: A0A8C0PZW1 (UniProtKB/TrEMBL),   A0A8C0QZ38 (UniProtKB/TrEMBL),   A0A8I3NWC5 (UniProtKB/TrEMBL),   A0A8C0PBY4 (UniProtKB/TrEMBL),   A0A8I3PB68 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000028403   ⟸   ENSCAFT00000030566
RefSeq Acc Id: ENSCAFP00845021497   ⟸   ENSCAFT00845027314
RefSeq Acc Id: ENSCAFP00845021511   ⟸   ENSCAFT00845027331

Promoters
RGD ID:13683342
Promoter ID:EPDNEW_C1412
Type:initiation region
Name:SSU72_1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1556,650,135 - 56,650,195EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000004427 UniProtKB/TrEMBL
  ENSCAFG00000019254 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030000943 UniProtKB/TrEMBL
  ENSCAFG00030023697 UniProtKB/TrEMBL
  ENSCAFG00040003901 UniProtKB/TrEMBL
  ENSCAFG00040014853 UniProtKB/TrEMBL
  ENSCAFG00845015309 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSCAFG00845019724 UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000007129.3 UniProtKB/TrEMBL
  ENSCAFT00000030566.5 UniProtKB/TrEMBL
  ENSCAFT00000101517.1 UniProtKB/TrEMBL
  ENSCAFT00030001619.1 UniProtKB/TrEMBL
  ENSCAFT00030043590.1 UniProtKB/TrEMBL
  ENSCAFT00040007446.1 UniProtKB/TrEMBL
  ENSCAFT00040027380.1 UniProtKB/TrEMBL
  ENSCAFT00845027314 ENTREZGENE
  ENSCAFT00845027314.1 UniProtKB/TrEMBL
  ENSCAFT00845027331.1 UniProtKB/TrEMBL
  ENSCAFT00845034772.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.2300 UniProtKB/TrEMBL
InterPro RNA_pol_II_suA UniProtKB/TrEMBL
KEGG Report cfa:479567 UniProtKB/TrEMBL
NCBI Gene SSU72 ENTREZGENE
PANTHER PTHR20383 UniProtKB/TrEMBL
  RNA POLYMERASE II SUBUNIT A C-TERMINAL DOMAIN PHOSPHATASE SSU72 UniProtKB/TrEMBL
Pfam Ssu72 UniProtKB/TrEMBL
UniProt A0A8C0PBY4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0PZW1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0QZ38 ENTREZGENE
  A0A8I3NRQ2_CANLF UniProtKB/TrEMBL
  A0A8I3NWC5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3PB68 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0TNZ8_CANLF UniProtKB/TrEMBL