Rprd1a (regulation of nuclear pre-mRNA domain containing 1A) - Rat Genome Database

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Gene: Rprd1a (regulation of nuclear pre-mRNA domain containing 1A) Ictidomys tridecemlineatus
Analyze
Symbol: Rprd1a
Name: regulation of nuclear pre-mRNA domain containing 1A
RGD ID: 12575825
Description: ENCODES a protein that exhibits identical protein binding (ortholog); INVOLVED IN mRNA 3'-end processing (inferred); regulation of transcription by RNA polymerase II (inferred); RNA polymerase II promoter clearance (inferred); ASSOCIATED WITH genetic disease (ortholog); intellectual disability (ortholog); FOUND IN nucleus (inferred); transcription preinitiation complex (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: regulation of nuclear pre-mRNA domain containing 1A, transcript variant X1; regulation of nuclear pre-mRNA domain containing 1A, transcript variant X2; regulation of nuclear pre-mRNA domain-containing protein 1A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494449,880,457 - 49,939,546 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365179,207,738 - 9,266,952 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365179,207,840 - 9,266,948 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Rprd1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494449,880,457 - 49,939,546 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365179,207,738 - 9,266,952 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365179,207,840 - 9,266,948 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RPRD1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381835,989,824 - 36,067,559 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1835,984,387 - 36,067,576 (-)EnsemblGRCh38hg38GRCh38
GRCh371833,569,787 - 33,647,522 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361831,823,789 - 31,901,371 (-)NCBINCBI36Build 36hg18NCBI36
Celera1830,377,670 - 30,455,253 (-)NCBICelera
Cytogenetic Map18q12.2NCBI
HuRef1830,428,724 - 30,506,362 (-)NCBIHuRef
CHM1_11833,496,809 - 33,574,427 (-)NCBICHM1_1
T2T-CHM13v2.01836,181,320 - 36,259,091 (-)NCBIT2T-CHM13v2.0
Rprd1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391824,618,017 - 24,663,306 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1824,618,017 - 24,663,261 (-)EnsemblGRCm39 Ensembl
GRCm381824,484,960 - 24,530,235 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1824,484,960 - 24,530,204 (-)EnsemblGRCm38mm10GRCm38
MGSCv371824,643,463 - 24,688,705 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361824,627,972 - 24,673,214 (-)NCBIMGSCv36mm8
Celera1824,973,427 - 25,018,811 (-)NCBICelera
Cytogenetic Map18A2NCBI
cM Map1813.18NCBI
Rprd1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81816,066,169 - 16,114,102 (-)NCBIGRCr8
mRatBN7.21815,791,418 - 15,839,338 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1815,791,418 - 15,839,338 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1815,978,782 - 16,026,350 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01816,761,496 - 16,809,063 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01816,050,053 - 16,097,579 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01816,450,160 - 16,497,913 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1816,453,369 - 16,497,886 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01816,209,135 - 16,256,883 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41816,283,291 - 16,328,357 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11816,309,731 - 16,356,467 (-)NCBI
Celera1815,721,452 - 15,768,465 (-)NCBICelera
Cytogenetic Map18p12NCBI
Rprd1a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540222,584,600 - 22,646,046 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540222,584,600 - 22,646,046 (-)NCBIChiLan1.0ChiLan1.0
RPRD1A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21753,385,357 - 53,463,623 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11839,077,946 - 39,156,211 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01829,242,080 - 29,320,372 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11832,800,352 - 32,878,544 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1832,800,352 - 32,878,544 (-)Ensemblpanpan1.1panPan2
RPRD1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1754,105,270 - 54,187,280 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl754,105,456 - 54,184,583 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha753,530,988 - 53,613,065 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0754,075,526 - 54,158,021 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl754,075,544 - 54,158,021 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1753,758,955 - 53,841,051 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0753,782,221 - 53,864,365 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0754,074,683 - 54,156,853 (+)NCBIUU_Cfam_GSD_1.0
RPRD1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6119,762,812 - 119,834,012 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16119,762,810 - 119,834,022 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26112,288,593 - 112,359,815 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RPRD1A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11844,735,013 - 44,808,023 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1844,734,911 - 44,808,178 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605019,195,604 - 19,268,609 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rprd1a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477910,301,878 - 10,371,184 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477910,299,378 - 10,371,213 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000003337   ⟹   ENSSTOP00000002986
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365179,207,738 - 9,266,952 (+)Ensembl
RefSeq Acc Id: XM_005325568   ⟹   XP_005325625
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494449,880,457 - 49,939,546 (+)NCBI
SpeTri2.0NW_0049365179,207,840 - 9,266,948 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013358749   ⟹   XP_013214203
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494449,880,457 - 49,912,650 (+)NCBI
SpeTri2.0NW_0049365179,207,840 - 9,240,046 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005325625 (Get FASTA)   NCBI Sequence Viewer  
  XP_013214203 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000002986.2
GenBank Protein KAG3293974 (Get FASTA)   NCBI Sequence Viewer  
  KAG3293975 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_005325625   ⟸   XM_005325568
- Peptide Label: isoform X1
- UniProtKB: I3M237 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013214203   ⟸   XM_013358749
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSSTOP00000002986   ⟸   ENSSTOT00000003337
Protein Domains
CID


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000003343 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000003337.3 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.90 UniProtKB/TrEMBL
  6.10.250.2560 UniProtKB/TrEMBL
InterPro CID_dom UniProtKB/TrEMBL
  CREPT UniProtKB/TrEMBL
  ENTH_VHS UniProtKB/TrEMBL
  RPRD1A_CID UniProtKB/TrEMBL
NCBI Gene Rprd1a ENTREZGENE
PANTHER CYCLIN-DEPENDENT KINASE INHIBITOR-RELATED PROTEIN UniProtKB/TrEMBL
  REGULATION OF NUCLEAR PRE-MRNA DOMAIN-CONTAINING PROTEIN 1A UniProtKB/TrEMBL
Pfam CID UniProtKB/TrEMBL
  CREPT UniProtKB/TrEMBL
PROSITE CID UniProtKB/TrEMBL
SMART RPR UniProtKB/TrEMBL
Superfamily-SCOP SSF48464 UniProtKB/TrEMBL
UniProt I3M237 ENTREZGENE, UniProtKB/TrEMBL