RPAP1 (RNA polymerase II associated protein 1) - Rat Genome Database

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Gene: RPAP1 (RNA polymerase II associated protein 1) Sus scrofa
Analyze
Symbol: RPAP1
Name: RNA polymerase II associated protein 1
RGD ID: 14296720
Description: INVOLVED IN transcription by RNA polymerase II (inferred); ASSOCIATED WITH Bloom syndrome (ortholog); colorectal cancer (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: RNA polymerase II-associated protein 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1129,838,585 - 129,857,041 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11129,838,556 - 129,857,038 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21144,910,412 - 144,928,848 (+)NCBISscrofa10.2Sscrofa10.2susScr3
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

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
RPAP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1129,838,585 - 129,857,041 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11129,838,556 - 129,857,038 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21144,910,412 - 144,928,848 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RPAP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381541,517,176 - 41,544,257 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1541,517,176 - 41,544,269 (-)EnsemblGRCh38hg38GRCh38
GRCh371541,809,374 - 41,836,455 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361539,596,666 - 39,623,756 (-)NCBINCBI36Build 36hg18NCBI36
Build 341539,596,668 - 39,623,756NCBI
Celera1518,577,327 - 18,604,438 (-)NCBICelera
Cytogenetic Map15q15.1NCBI
HuRef1518,657,583 - 18,684,881 (-)NCBIHuRef
CHM1_11541,927,941 - 41,955,030 (-)NCBICHM1_1
T2T-CHM13v2.01539,323,327 - 39,350,423 (-)NCBIT2T-CHM13v2.0
Rpap1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392119,594,440 - 119,618,018 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2119,593,785 - 119,618,018 (-)EnsemblGRCm39 Ensembl
GRCm382119,763,959 - 119,787,537 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2119,763,304 - 119,787,537 (-)EnsemblGRCm38mm10GRCm38
MGSCv372119,589,695 - 119,613,273 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362119,455,405 - 119,478,939 (-)NCBIMGSCv36mm8
Celera2120,920,580 - 120,943,743 (-)NCBICelera
Cytogenetic Map2E5NCBI
cM Map259.97NCBI
Rpap1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83127,200,450 - 127,221,985 (-)NCBIGRCr8
mRatBN7.23106,746,642 - 106,768,182 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3106,656,742 - 106,768,151 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3110,421,921 - 110,443,407 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03119,017,469 - 119,038,955 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03116,677,861 - 116,699,347 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03111,565,646 - 111,587,184 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3111,565,650 - 111,587,151 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03118,114,106 - 118,135,644 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43106,278,216 - 106,299,720 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3105,657,541 - 105,679,027 (-)NCBICelera
Cytogenetic Map3q35NCBI
Rpap1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554168,317,814 - 8,349,007 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554168,322,239 - 8,348,331 (-)NCBIChiLan1.0ChiLan1.0
RPAP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21630,758,564 - 30,786,458 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11534,909,810 - 34,937,702 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01520,457,993 - 20,485,371 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11538,698,454 - 38,724,730 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1538,698,454 - 38,724,730 (-)Ensemblpanpan1.1panPan2
RPAP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1308,553,148 - 8,571,079 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl308,553,158 - 8,570,993 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha308,611,972 - 8,629,884 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0308,687,413 - 8,705,339 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl308,687,413 - 8,705,290 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1308,608,687 - 8,626,589 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0308,716,055 - 8,734,039 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0308,847,863 - 8,865,778 (-)NCBIUU_Cfam_GSD_1.0
Rpap1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864087,012,267 - 87,039,288 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364714,860,291 - 4,887,540 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364714,860,327 - 4,887,283 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RPAP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12641,457,696 - 41,488,315 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2641,457,725 - 41,488,314 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604899,492,826 - 99,520,423 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rpap1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248048,675,366 - 8,690,857 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248048,674,099 - 8,698,333 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in RPAP1
230 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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium
Low 10 4 3 5 2 23 2 3 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000005244   ⟹   ENSSSCP00000005117
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1129,838,585 - 129,857,041 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000038841   ⟹   ENSSSCP00000058457
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1129,838,586 - 129,857,035 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000046153   ⟹   ENSSSCP00000043917
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1129,838,586 - 129,857,035 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000052234   ⟹   ENSSSCP00000033009
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1129,838,586 - 129,857,035 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000058579   ⟹   ENSSSCP00000042338
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1129,838,586 - 129,857,035 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000060884   ⟹   ENSSSCP00000053617
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1129,838,602 - 129,860,971 (+)Ensembl
RefSeq Acc Id: XM_003121581   ⟹   XP_003121629
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11129,838,556 - 129,857,038 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013993150   ⟹   XP_013848604
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11129,838,556 - 129,855,930 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021097423   ⟹   XP_020953082
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11129,839,543 - 129,857,038 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_003121629   ⟸   XM_003121581
- Peptide Label: isoform X1
- UniProtKB: A0A287AIU1 (UniProtKB/TrEMBL),   A0A4X1UV13 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013848604   ⟸   XM_013993150
- Peptide Label: isoform X2
- UniProtKB: A0A4X1UVA6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020953082   ⟸   XM_021097423
- Peptide Label: isoform X3
- UniProtKB: A0A4X1UX43 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000042338   ⟸   ENSSSCT00000058579
RefSeq Acc Id: ENSSSCP00000005117   ⟸   ENSSSCT00000005244
RefSeq Acc Id: ENSSSCP00000053617   ⟸   ENSSSCT00000060884
RefSeq Acc Id: ENSSSCP00000033009   ⟸   ENSSSCT00000052234
RefSeq Acc Id: ENSSSCP00000043917   ⟸   ENSSSCT00000046153
RefSeq Acc Id: ENSSSCP00000058457   ⟸   ENSSSCT00000038841
Protein Domains
RNA polymerase II-associated protein 1 C-terminal   RNA polymerase II-associated protein 1 N-terminal


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000004745 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005037310 UniProtKB/TrEMBL
  ENSSSCG00015076767 UniProtKB/TrEMBL
  ENSSSCG00025052132 UniProtKB/TrEMBL
  ENSSSCG00030035778 UniProtKB/TrEMBL
  ENSSSCG00035036220 UniProtKB/TrEMBL
  ENSSSCG00040017587 UniProtKB/TrEMBL
  ENSSSCG00045011464 UniProtKB/TrEMBL
  ENSSSCG00050067334 UniProtKB/TrEMBL
  ENSSSCG00055024842 UniProtKB/TrEMBL
  ENSSSCG00060037248 UniProtKB/TrEMBL
  ENSSSCG00065072752 UniProtKB/TrEMBL
  ENSSSCG00070020016 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000005244.4 UniProtKB/TrEMBL
  ENSSSCT00000046153 ENTREZGENE
  ENSSSCT00000046153.2 UniProtKB/TrEMBL
  ENSSSCT00005060090.1 UniProtKB/TrEMBL
  ENSSSCT00015103643.1 UniProtKB/TrEMBL
  ENSSSCT00015103699.1 UniProtKB/TrEMBL
  ENSSSCT00015103753.1 UniProtKB/TrEMBL
  ENSSSCT00025071331.1 UniProtKB/TrEMBL
  ENSSSCT00025071627.1 UniProtKB/TrEMBL
  ENSSSCT00025072147.1 UniProtKB/TrEMBL
  ENSSSCT00030049631.1 UniProtKB/TrEMBL
  ENSSSCT00030049647.1 UniProtKB/TrEMBL
  ENSSSCT00030049716.1 UniProtKB/TrEMBL
  ENSSSCT00030049798.1 UniProtKB/TrEMBL
  ENSSSCT00035048002.1 UniProtKB/TrEMBL
  ENSSSCT00035048005.1 UniProtKB/TrEMBL
  ENSSSCT00035048012.1 UniProtKB/TrEMBL
  ENSSSCT00040023759.1 UniProtKB/TrEMBL
  ENSSSCT00040023786.1 UniProtKB/TrEMBL
  ENSSSCT00040023848.1 UniProtKB/TrEMBL
  ENSSSCT00040023934.1 UniProtKB/TrEMBL
  ENSSSCT00045019430.1 UniProtKB/TrEMBL
  ENSSSCT00045019474.1 UniProtKB/TrEMBL
  ENSSSCT00045019520.1 UniProtKB/TrEMBL
  ENSSSCT00050091856.1 UniProtKB/TrEMBL
  ENSSSCT00050091858.1 UniProtKB/TrEMBL
  ENSSSCT00050091863.1 UniProtKB/TrEMBL
  ENSSSCT00055048974.1 UniProtKB/TrEMBL
  ENSSSCT00055049114.1 UniProtKB/TrEMBL
  ENSSSCT00055049275.1 UniProtKB/TrEMBL
  ENSSSCT00055049475.1 UniProtKB/TrEMBL
  ENSSSCT00060050428.1 UniProtKB/TrEMBL
  ENSSSCT00060050435.1 UniProtKB/TrEMBL
  ENSSSCT00060050442.1 UniProtKB/TrEMBL
  ENSSSCT00065100018.1 UniProtKB/TrEMBL
  ENSSSCT00065100032.1 UniProtKB/TrEMBL
  ENSSSCT00065100048.1 UniProtKB/TrEMBL
  ENSSSCT00070039778.1 UniProtKB/TrEMBL
  ENSSSCT00070039800.1 UniProtKB/TrEMBL
  ENSSSCT00070039812.1 UniProtKB/TrEMBL
  ENSSSCT00070039832.1 UniProtKB/TrEMBL
  ENSSSCT00070039840.1 UniProtKB/TrEMBL
  ENSSSCT00070039856.1 UniProtKB/TrEMBL
InterPro ARM-type_fold UniProtKB/TrEMBL
  RNA_pol_II_AP1_C UniProtKB/TrEMBL
  RNA_pol_II_AP1_N UniProtKB/TrEMBL
  RPAP1/Rba50 UniProtKB/TrEMBL
NCBI Gene RPAP1 ENTREZGENE
PANTHER PTHR21483 UniProtKB/TrEMBL
  RNA POLYMERASE II-ASSOCIATED PROTEIN 1 UniProtKB/TrEMBL
Pfam RPAP1_C UniProtKB/TrEMBL
  RPAP1_N UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/TrEMBL
UniProt A0A287AIU1 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1UTE5_PIG UniProtKB/TrEMBL
  A0A4X1UTH4_PIG UniProtKB/TrEMBL
  A0A4X1UV13 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1UVA6 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1UX43 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1UY90_PIG UniProtKB/TrEMBL
  A0A8D0KB67_PIG UniProtKB/TrEMBL
  A0A8D0SI27_PIG UniProtKB/TrEMBL
  F1SSV8_PIG UniProtKB/TrEMBL
VGNC ID VGNC:92417 ENTREZGENE