Ctdsp2 (CTD small phosphatase 2) - Rat Genome Database

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Gene: Ctdsp2 (CTD small phosphatase 2) Rattus norvegicus
Analyze
Symbol: Ctdsp2
Name: CTD small phosphatase 2
RGD ID: 2319209
Description: Predicted to enable RNA polymerase II CTD heptapeptide repeat phosphatase activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within negative regulation of G1/S transition of mitotic cell cycle and negative regulation of protein phosphorylation. Orthologous to human CTDSP2 (CTD small phosphatase 2); PARTICIPATES IN Bone morphogenetic proteins signaling pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; aflatoxin B1.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 2; CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 2; LOC100365370; nuclear LIM interactor-interacting factor 2-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8764,690,737 - 64,710,639 (+)NCBIGRCr8
mRatBN7.2762,805,398 - 62,825,306 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl762,805,658 - 62,825,302 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx764,694,709 - 64,714,611 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0766,897,110 - 66,917,012 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0766,698,365 - 66,718,268 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0770,283,683 - 70,291,795 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl770,283,710 - 70,288,568 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0770,460,026 - 70,468,044 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera759,964,189 - 59,969,458 (+)NCBICelera
Cytogenetic Map7q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12721286   PMID:22210897  


Genomics

Comparative Map Data
Ctdsp2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8764,690,737 - 64,710,639 (+)NCBIGRCr8
mRatBN7.2762,805,398 - 62,825,306 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl762,805,658 - 62,825,302 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx764,694,709 - 64,714,611 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0766,897,110 - 66,917,012 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0766,698,365 - 66,718,268 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0770,283,683 - 70,291,795 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl770,283,710 - 70,288,568 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0770,460,026 - 70,468,044 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera759,964,189 - 59,969,458 (+)NCBICelera
Cytogenetic Map7q22NCBI
CTDSP2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381257,819,927 - 57,846,729 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1257,819,927 - 57,846,729 (-)EnsemblGRCh38hg38GRCh38
GRCh371258,213,710 - 58,240,512 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361256,499,977 - 56,527,014 (-)NCBINCBI36Build 36hg18NCBI36
Build 341256,499,978 - 56,526,789NCBI
Celera1257,871,630 - 57,898,666 (-)NCBICelera
Cytogenetic Map12q14.1NCBI
HuRef1255,250,675 - 55,277,708 (-)NCBIHuRef
CHM1_11258,181,469 - 58,208,506 (-)NCBICHM1_1
T2T-CHM13v2.01257,788,296 - 57,815,097 (-)NCBIT2T-CHM13v2.0
Ctdsp2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910126,814,586 - 126,835,844 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl10126,814,586 - 126,835,844 (+)EnsemblGRCm39 Ensembl
GRCm3810126,978,717 - 126,999,975 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10126,978,717 - 126,999,975 (+)EnsemblGRCm38mm10GRCm38
MGSCv3710126,415,773 - 126,437,031 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3610126,398,561 - 126,402,918 (+)NCBIMGSCv36mm8
Celera10129,370,578 - 129,391,937 (+)NCBICelera
Cytogenetic Map10D3NCBI
cM Map1074.35NCBI
Ctdsp2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554585,523,548 - 5,549,398 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554585,523,548 - 5,549,190 (-)NCBIChiLan1.0ChiLan1.0
CTDSP2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21036,493,787 - 36,520,919 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11236,490,567 - 36,517,684 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01231,079,686 - 31,106,789 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11231,340,308 - 31,367,164 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1231,340,313 - 31,367,164 (+)Ensemblpanpan1.1panPan2
CTDSP2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1101,875,307 - 1,898,385 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl101,876,536 - 1,898,348 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha101,938,082 - 1,960,869 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0101,884,550 - 1,907,344 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl101,884,618 - 1,907,270 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1101,862,042 - 1,885,087 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0102,104,263 - 2,127,308 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0102,228,959 - 2,252,119 (-)NCBIUU_Cfam_GSD_1.0
Ctdsp2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494556,892,954 - 56,918,112 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366461,952,123 - 1,977,337 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366461,952,123 - 1,977,279 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CTDSP2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl523,105,172 - 23,132,586 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1523,111,366 - 23,132,811 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CTDSP2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11153,733,041 - 53,759,809 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1153,736,699 - 53,742,750 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037192,201,834 - 192,228,574 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ctdsp2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462480210,108,098 - 10,130,617 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462480210,107,715 - 10,133,710 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ctdsp2
51 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:37
Count of miRNA genes:33
Interacting mature miRNAs:36
Transcripts:ENSRNOT00000075371
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat
10755451Coatc11Coat color QTL 110coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)71794435762944357Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)71965431784928080Rat
7411569Bw137Body weight QTL 1370.001body mass (VT:0001259)body weight gain (CMO:0000420)72192119566921195Rat
1641885Alcrsp9Alcohol response QTL 9alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)72409960669099606Rat
1549840Bss5Bone structure and strength QTL 59.8femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)72475184169751841Rat
70190Mcs6Mammary carcinoma susceptibility QTL 62.29mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)72673740163902784Rat
10402855Bp379Blood pressure QTL 3790.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)72940968374409683Rat
1300127Srn1Serum renin concentration QTL 13.87blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)72940968384928080Rat
10755453Coatc12Coat color QTL 120coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)73111283276112832Rat
7411605Foco14Food consumption QTL 1424.10.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)73429328279293282Rat
631534Lnnr1Liver neoplastic nodule remodeling QTL 13.850.001liver integrity trait (VT:0010547)liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)73429328279293282Rat
631513Scl7Serum cholesterol level QTL 74.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)73796056982960569Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
634326Hc3Hypercalciuria QTL 32.1urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)74278731487787314Rat
10053722Scort27Serum corticosterone level QTL 272.410.0083blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)74322875088228750Rat
1358361Sradr5Stress Responsive Adrenal Weight QTL 55.55adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)743747012108555253Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)743747099102228765Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)744421311118198041Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)74486753389867533Rat
738030Anxrr8Anxiety related response QTL 84.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)74659007091590070Rat
10059605Kidm47Kidney mass QTL 472.910.05kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)74725178365728867Rat
2293696Bmd32Bone mineral density QTL 325.10.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)74765143992651439Rat
2293707Bss32Bone structure and strength QTL 327.640.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)74765143992651439Rat
2300178Bmd54Bone mineral density QTL 545.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)74765143992651439Rat
2293644Bmd29Bone mineral density QTL 295.40.0001femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)74765143992651439Rat
2293667Bss42Bone structure and strength QTL 427.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)74765143992651439Rat
2293678Bss24Bone structure and strength QTL 246.710.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)74765143992651439Rat
2293685Bmd21Bone mineral density QTL 214.20.0003femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)74765143992651439Rat
1300151Bp181Blood pressure QTL 1813.36arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)753612714103945643Rat
2317035Aia16Adjuvant induced arthritis QTL 162.71joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)759238038104238038Rat
1298528Bp169Blood pressure QTL 1690.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)761074194106074194Rat
1559283Emca4Estrogen-induced mammary cancer QTL 43.7mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)762004452101773158Rat
1576303Ept7Estrogen-induced pituitary tumorigenesis QTL 73.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)762004452101773158Rat


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 renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000075371   ⟹   ENSRNOP00000064803
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl762,805,658 - 62,822,579 (+)Ensembl
Rnor_6.0 Ensembl770,283,710 - 70,288,568 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000105207   ⟹   ENSRNOP00000082723
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl762,812,315 - 62,825,302 (+)Ensembl
RefSeq Acc Id: NM_001398613   ⟹   NP_001385542
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8764,690,737 - 64,710,639 (+)NCBI
mRatBN7.2762,805,398 - 62,825,306 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001385542 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000064803.2
  ENSRNOP00000082723
  ENSRNOP00000082723.1
RefSeq Acc Id: ENSRNOP00000064803   ⟸   ENSRNOT00000075371
RefSeq Acc Id: ENSRNOP00000082723   ⟸   ENSRNOT00000105207
RefSeq Acc Id: NP_001385542   ⟸   NM_001398613
- UniProtKB: A0A8I5ZV44 (UniProtKB/TrEMBL)
Protein Domains
FCP1 homology

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R5X1-F1-model_v2 AlphaFold M0R5X1 1-249 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2319209 AgrOrtholog
BioCyc Gene G2FUF-33783 BioCyc
Ensembl Genes ENSRNOG00000047598 Ensembl
  ENSRNOG00000068220 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000075371.2 UniProtKB/TrEMBL
  ENSRNOT00000105207 ENTREZGENE
  ENSRNOT00000105207.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.1000 UniProtKB/TrEMBL
InterPro Dullard_phosphatase UniProtKB/TrEMBL
  FCP1_dom UniProtKB/TrEMBL
  HAD-like_sf UniProtKB/TrEMBL
  HAD_sf UniProtKB/TrEMBL
  RNA_Pol_CTD_Phosphatase UniProtKB/TrEMBL
NCBI Gene 100365370 ENTREZGENE
PANTHER CARBOXY-TERMINAL DOMAIN RNA POLYMERASE II POLYPEPTIDE A SMALL PHOSPHATASE 2 UniProtKB/TrEMBL
  DULLARD PROTEIN PHOSPHATASE UniProtKB/TrEMBL
Pfam NIF UniProtKB/TrEMBL
PhenoGen Ctdsp2 PhenoGen
PROSITE FCP1 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000047598 RatGTEx
  ENSRNOG00000068220 RatGTEx
SMART CPDc UniProtKB/TrEMBL
Superfamily-SCOP SSF56784 UniProtKB/TrEMBL
UniProt A0A8I5ZV44 ENTREZGENE, UniProtKB/TrEMBL
  M0R5X1_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Ctdsp2  CTD small phosphatase 2  Ctdsp2  CTD small phosphatase 2  Data merged from RGD:149736519 737654 PROVISIONAL
2021-08-09 Ctdsp2  CTD small phosphatase 2      Symbol and Name status set to provisional 45752 PROVISIONAL
2015-11-12 Ctdsp2  CTD small phosphatase 2  Ctdsp2  CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-08-08 Ctdsp2  CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 2  LOC100365370  nuclear LIM interactor-interacting factor 2-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-05 LOC100365370  nuclear LIM interactor-interacting factor 2-like      Symbol and Name status set to provisional 70820 PROVISIONAL