Trps1 (transcriptional repressor GATA binding 1) - Rat Genome Database

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Gene: Trps1 (transcriptional repressor GATA binding 1) Rattus norvegicus
Analyze
Symbol: Trps1
Name: transcriptional repressor GATA binding 1
RGD ID: 1311883
Description: Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific; RNA polymerase II transcription regulatory region sequence-specific DNA binding activity; and protein domain specific binding activity. Predicted to be involved in several processes, including hair follicle development; negative regulation of transcription by RNA polymerase II; and regulation of chondrocyte differentiation. Predicted to act upstream of or within several processes, including chondrocyte differentiation; negative regulation of transcription, DNA-templated; and positive regulation of extrinsic apoptotic signaling pathway via death domain receptors. Predicted to be located in chromatin and nucleoplasm. Predicted to be part of protein-containing complex. Human ortholog(s) of this gene implicated in osteochondrodysplasia; trichorhinophalangeal syndrome type I; and trichorhinophalangeal syndrome type III. Orthologous to human TRPS1 (transcriptional repressor GATA binding 1); INTERACTS WITH 2,3,7,8-Tetrachlorodibenzofuran; 3,4-methylenedioxymethamphetamine; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC299897; trichorhinophalangeal syndrome I; trichorhinophalangeal syndrome I (human); trichorhinophalangeal syndrome I homolog; trichorhinophalangeal syndrome I homolog (human); zinc finger transcription factor Trps1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2781,916,668 - 82,142,733 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl781,921,601 - 82,141,905 (-)Ensembl
Rnor_6.0790,085,895 - 90,320,430 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl790,090,828 - 90,318,221 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0790,113,508 - 90,343,325 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4786,855,378 - 87,076,668 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1786,876,430 - 87,097,949 (-)NCBI
Celera778,810,727 - 79,029,498 (-)NCBICelera
Cytogenetic Map7q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Mutations in a new gene, encoding a zinc-finger protein, cause tricho-rhino-phalangeal syndrome type I. Momeni P, etal., Nat Genet. 2000 Jan;24(1):71-4.
5. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
6. GOA pipeline RGD automated data pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:12444977   PMID:12885770   PMID:14680804   PMID:15491138   PMID:18363966   PMID:19389374   PMID:21673316   PMID:23133399  


Genomics

Comparative Map Data
Trps1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2781,916,668 - 82,142,733 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl781,921,601 - 82,141,905 (-)Ensembl
Rnor_6.0790,085,895 - 90,320,430 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl790,090,828 - 90,318,221 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0790,113,508 - 90,343,325 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4786,855,378 - 87,076,668 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1786,876,430 - 87,097,949 (-)NCBI
Celera778,810,727 - 79,029,498 (-)NCBICelera
Cytogenetic Map7q31NCBI
TRPS1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh388115,408,496 - 115,668,975 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl8115,408,496 - 115,809,673 (-)EnsemblGRCh38hg38GRCh38
GRCh378116,420,724 - 116,681,202 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 368116,489,900 - 116,750,402 (-)NCBINCBI36hg18NCBI36
Build 348116,489,899 - 116,750,429NCBI
Celera8112,607,772 - 112,867,949 (-)NCBI
Cytogenetic Map8q23.3NCBI
HuRef8111,746,115 - 111,962,229 (-)NCBIHuRef
CHM1_18116,461,345 - 116,721,859 (-)NCBICHM1_1
T2T-CHM13v2.08116,535,995 - 116,796,128 (-)NCBI
Trps1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391550,518,149 - 50,754,027 (-)NCBIGRCm39mm39
GRCm39 Ensembl1550,518,148 - 50,753,859 (-)Ensembl
GRCm381550,654,757 - 50,890,631 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1550,654,752 - 50,890,463 (-)EnsemblGRCm38mm10GRCm38
MGSCv371550,486,303 - 50,721,587 (-)NCBIGRCm37mm9NCBIm37
MGSCv361550,490,516 - 50,720,115 (-)NCBImm8
Celera1552,221,354 - 52,433,937 (-)NCBICelera
Cytogenetic Map15CNCBI
cM Map1519.18NCBI
Trps1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541721,680,116 - 21,913,173 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541721,674,545 - 21,913,137 (-)NCBIChiLan1.0ChiLan1.0
TRPS1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.18114,626,357 - 114,854,222 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v08112,079,147 - 112,339,567 (-)NCBIMhudiblu_PPA_v0panPan3
TRPS1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11315,017,180 - 15,273,177 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1315,022,652 - 15,273,666 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1315,005,955 - 15,263,461 (-)NCBI
ROS_Cfam_1.01315,305,244 - 15,563,018 (-)NCBI
ROS_Cfam_1.0 Ensembl1315,308,610 - 15,562,778 (-)Ensembl
UMICH_Zoey_3.11315,053,664 - 15,309,547 (-)NCBI
UNSW_CanFamBas_1.01315,150,277 - 15,407,958 (-)NCBI
UU_Cfam_GSD_1.01315,394,399 - 15,652,945 (-)NCBI
Trps1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530323,004,744 - 23,244,503 (+)NCBI
SpeTri2.0NW_00493647030,475,779 - 30,666,546 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRPS1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl422,911,039 - 23,158,769 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1422,905,627 - 23,162,862 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TRPS1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.18110,048,277 - 110,306,342 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl8110,050,705 - 110,260,394 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603930,041,925 - 30,303,926 (+)NCBIVero_WHO_p1.0
Trps1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476313,798,113 - 14,035,138 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462476313,792,649 - 14,035,120 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
AI447310  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2781,919,710 - 81,919,825 (+)MAPPERmRatBN7.2
Rnor_6.0790,088,938 - 90,089,052NCBIRnor6.0
Rnor_5.0790,116,994 - 90,117,108UniSTSRnor5.0
RGSC_v3.4786,853,488 - 86,853,602UniSTSRGSC3.4
Celera778,808,837 - 78,808,951UniSTS
Cytogenetic Map7q31UniSTS
AU046994  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2782,131,965 - 82,132,073 (+)MAPPERmRatBN7.2
Rnor_6.0790,308,833 - 90,308,940NCBIRnor6.0
Rnor_5.0790,333,937 - 90,334,044UniSTSRnor5.0
RGSC_v3.4787,067,280 - 87,067,387UniSTSRGSC3.4
Celera779,020,126 - 79,020,217UniSTS
Cytogenetic Map7q31UniSTS
BM384689  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2781,921,484 - 81,921,643 (+)MAPPERmRatBN7.2
Rnor_6.0790,090,712 - 90,090,870NCBIRnor6.0
Rnor_5.0790,118,768 - 90,118,926UniSTSRnor5.0
RGSC_v3.4786,855,262 - 86,855,420UniSTSRGSC3.4
Celera778,810,611 - 78,810,769UniSTS
RH 3.4 Map7537.4UniSTS
Cytogenetic Map7q31UniSTS
Trps1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2782,099,874 - 82,100,574 (+)MAPPERmRatBN7.2
Rnor_6.0790,276,663 - 90,277,362NCBIRnor6.0
Rnor_5.0790,301,767 - 90,302,466UniSTSRnor5.0
Celera778,988,051 - 78,988,750UniSTS
Cytogenetic Map7q31UniSTS


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
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)71965431784928080Rat
1300127Srn1Serum renin concentration QTL 13.87blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)72940968384928080Rat
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
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
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)768938720113886318Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)768938720113886318Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)768938720113886318Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)769736226117455174Rat
1357338Stl17Serum triglyceride level QTL 173.23blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)769736356112729554Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)773829340130221005Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
724537Niddm52Non-insulin dependent diabetes mellitus QTL 520.02blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)78022129993595843Rat
1641908Teswt1Testicular weight QTL 13.28testis mass (VT:1000644)both testes wet weight (CMO:0000175)78022129994811326Rat
631529Tls2T-lymphoma susceptibility QTL 200.001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)780221299109401111Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)780221299112308525Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)780221299124373579Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)780221299125221299Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)781737938126737938Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:158
Count of miRNA genes:131
Interacting mature miRNAs:133
Transcripts:ENSRNOT00000050774
Prediction methods:Microtar, Miranda, Rnahybrid
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.


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 13 16 1 1 18 32 28 8 1
Low 3 43 17 14 3 14 7 9 56 3 8 3 7
Below cutoff 27 27 27 1 5

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001134837 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594744 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594745 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594746 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594747 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594748 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078760 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078761 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078762 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078763 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078764 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078765 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078767 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078768 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000185 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000050774   ⟹   ENSRNOP00000039913
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl781,921,601 - 82,141,354 (-)Ensembl
Rnor_6.0 Ensembl790,090,828 - 90,318,221 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000094294   ⟹   ENSRNOP00000077022
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl781,921,601 - 82,141,551 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000097264   ⟹   ENSRNOP00000088310
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl781,921,601 - 82,141,905 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000106247   ⟹   ENSRNOP00000083606
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl781,921,601 - 82,141,551 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000110775   ⟹   ENSRNOP00000096700
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl781,921,601 - 82,100,639 (-)Ensembl
RefSeq Acc Id: NM_001134837   ⟹   NP_001128309
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2781,921,601 - 82,141,354 (-)NCBI
Rnor_6.0790,090,828 - 90,318,221 (-)NCBI
Rnor_5.0790,113,508 - 90,343,325 (-)NCBI
RGSC_v3.4786,855,378 - 87,076,668 (-)RGD
Celera778,810,727 - 79,029,498 (-)RGD
Sequence:
RefSeq Acc Id: XM_039078760   ⟹   XP_038934688
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2781,916,668 - 82,141,137 (-)NCBI
RefSeq Acc Id: XM_039078761   ⟹   XP_038934689
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2781,916,668 - 82,141,137 (-)NCBI
RefSeq Acc Id: XM_039078762   ⟹   XP_038934690
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2781,916,668 - 82,141,686 (-)NCBI
RefSeq Acc Id: XM_039078763   ⟹   XP_038934691
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2781,916,668 - 82,142,408 (-)NCBI
RefSeq Acc Id: XM_039078764   ⟹   XP_038934692
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2781,916,668 - 82,105,530 (-)NCBI
RefSeq Acc Id: XM_039078765   ⟹   XP_038934693
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2781,916,668 - 82,142,733 (-)NCBI
RefSeq Acc Id: XM_039078767   ⟹   XP_038934695
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2781,916,668 - 82,140,568 (-)NCBI
RefSeq Acc Id: XM_039078768   ⟹   XP_038934696
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2781,916,668 - 82,141,138 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001128309   ⟸   NM_001134837
- UniProtKB: D3ZEM6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000039913   ⟸   ENSRNOT00000050774
RefSeq Acc Id: XP_038934693   ⟸   XM_039078765
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038934691   ⟸   XM_039078763
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038934690   ⟸   XM_039078762
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038934696   ⟸   XM_039078768
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038934689   ⟸   XM_039078761
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038934688   ⟸   XM_039078760
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038934695   ⟸   XM_039078767
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038934692   ⟸   XM_039078764
- Peptide Label: isoform X4
RefSeq Acc Id: ENSRNOP00000083606   ⟸   ENSRNOT00000106247
RefSeq Acc Id: ENSRNOP00000096700   ⟸   ENSRNOT00000110775
RefSeq Acc Id: ENSRNOP00000077022   ⟸   ENSRNOT00000094294
RefSeq Acc Id: ENSRNOP00000088310   ⟸   ENSRNOT00000097264

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZEM6-F1-model_v2 AlphaFold D3ZEM6 1-1281 view protein structure

Transcriptome

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

Promoters
RGD ID:13695321
Promoter ID:EPDNEW_R5846
Type:multiple initiation site
Name:Trps1_1
Description:transcriptional repressor GATA binding 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0790,318,190 - 90,318,250EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311883 AgrOrtholog
BioCyc Gene G2FUF-33445 BioCyc
Ensembl Genes ENSRNOG00000024998 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000039913 ENTREZGENE
  ENSRNOP00000039913.3 UniProtKB/TrEMBL
  ENSRNOP00000077022 ENTREZGENE
  ENSRNOP00000077022.1 UniProtKB/TrEMBL
  ENSRNOP00000083606 ENTREZGENE
  ENSRNOP00000083606.1 UniProtKB/TrEMBL
  ENSRNOP00000088310.1 UniProtKB/TrEMBL
  ENSRNOP00000096700.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000050774 ENTREZGENE
  ENSRNOT00000050774.3 UniProtKB/TrEMBL
  ENSRNOT00000094294 ENTREZGENE
  ENSRNOT00000094294.1 UniProtKB/TrEMBL
  ENSRNOT00000097264.1 UniProtKB/TrEMBL
  ENSRNOT00000106247 ENTREZGENE
  ENSRNOT00000106247.1 UniProtKB/TrEMBL
  ENSRNOT00000110775.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.50.10 UniProtKB/TrEMBL
InterPro Trps1 UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/TrEMBL
  Znf_GATA UniProtKB/TrEMBL
  Znf_NHR/GATA UniProtKB/TrEMBL
KEGG Report rno:299897 UniProtKB/TrEMBL
NCBI Gene 299897 ENTREZGENE
PANTHER PTHR47034 UniProtKB/TrEMBL
Pfam GATA UniProtKB/TrEMBL
PhenoGen Trps1 PhenoGen
PRINTS GATAZNFINGER UniProtKB/TrEMBL
PROSITE GATA_ZN_FINGER_1 UniProtKB/TrEMBL
  GATA_ZN_FINGER_2 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
SMART ZnF_C2H2 UniProtKB/TrEMBL
  ZnF_GATA UniProtKB/TrEMBL
Superfamily-SCOP SSF57667 UniProtKB/TrEMBL
UniProt A0A8I5Y133_RAT UniProtKB/TrEMBL
  A0A8I5ZWX6_RAT UniProtKB/TrEMBL
  A0A8I6A7M4_RAT UniProtKB/TrEMBL
  A0A8I6B4M4_RAT UniProtKB/TrEMBL
  D3ZEM6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-19 Trps1  transcriptional repressor GATA binding 1  Trps1  trichorhinophalangeal syndrome I  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-09-29 Trps1  trichorhinophalangeal syndrome I  Trps1  trichorhinophalangeal syndrome I homolog (human)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-12-15 Trps1  trichorhinophalangeal syndrome I homolog (human)  Trps1  trichorhinophalangeal syndrome I (human)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-04 Trps1  trichorhinophalangeal syndrome I (human)  Trps1_predicted  trichorhinophalangeal syndrome I (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 Trps1_predicted  trichorhinophalangeal syndrome I (predicted)      Symbol and Name status set to approved 70820 APPROVED