UBP1 (upstream binding protein 1) - Rat Genome Database
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Gene: UBP1 (upstream binding protein 1) Sus scrofa
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Symbol: UBP1
Name: upstream binding protein 1
RGD ID: 13890800
Description: ENCODES a protein that exhibits sequence-specific double-stranded DNA binding (ortholog); INVOLVED IN angiogenesis (ortholog); FOUND IN cytosol (inferred); nucleoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Also known as: upstream binding protein 1 (LBP-1a); upstream-binding protein 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1319,204,947 - 19,276,969 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11319,203,965 - 19,276,392 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21320,785,120 - 20,831,156 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytosol  (IEA)
nucleoplasm  (IEA)
nucleus  (IBA,IEA)

References

Genomics

Comparative Map Data
UBP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1319,204,947 - 19,276,969 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11319,203,965 - 19,276,392 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21320,785,120 - 20,831,156 (+)NCBISscrofa10.2Sscrofa10.2susScr3
UBP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl333,388,336 - 33,441,371 (-)EnsemblGRCh38hg38GRCh38
GRCh38333,388,336 - 33,440,405 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37333,429,828 - 33,481,897 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36333,404,835 - 33,456,874 (-)NCBINCBI36hg18NCBI36
Build 34333,404,834 - 33,456,874NCBI
Celera333,373,357 - 33,425,407 (-)NCBI
Cytogenetic Map3p22.3NCBI
HuRef333,370,390 - 33,422,369 (-)NCBIHuRef
CHM1_1333,379,810 - 33,431,856 (-)NCBICHM1_1
Ubp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399113,760,002 - 113,807,095 (+)NCBIGRCm39mm39
GRCm389113,930,939 - 113,978,027 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9113,930,934 - 113,977,202 (+)EnsemblGRCm38mm10GRCm38
MGSCv379113,840,052 - 113,886,320 (+)NCBIGRCm37mm9NCBIm37
MGSCv369113,780,350 - 113,825,700 (+)NCBImm8
Celera9113,640,161 - 113,686,339 (+)NCBICelera
Cytogenetic Map9F3NCBI
Ubp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28113,869,771 - 113,915,625 (+)NCBI
Rnor_6.0 Ensembl8122,197,027 - 122,240,357 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.08122,196,576 - 122,241,368 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.08121,510,557 - 121,554,898 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48118,574,348 - 118,618,657 (+)NCBIRGSC3.4rn4RGSC3.4
Celera8113,117,821 - 113,162,107 (+)NCBICelera
Cytogenetic Map8q32NCBI
Ubp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955421618,696 - 681,994 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955421618,696 - 681,994 (-)NCBIChiLan1.0ChiLan1.0
UBP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1333,611,712 - 33,663,175 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl333,611,712 - 33,663,175 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0333,310,506 - 33,362,589 (-)NCBIMhudiblu_PPA_v0panPan3
UBP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl233,444,758 - 3,497,263 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1233,445,730 - 3,498,242 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Ubp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493647323,658,243 - 23,711,768 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
UBP1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11577,880,650 - 77,933,829 (-)NCBI
ChlSab1.1 Ensembl1577,882,632 - 77,933,864 (-)Ensembl
Ubp1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462478811,350,243 - 11,409,942 (-)NCBI


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 10 3 3 5 2 22 2 3 3
Low 1 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000012302   ⟹   ENSSSCP00000011983
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1319,204,947 - 19,276,386 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000050090   ⟹   ENSSSCP00000044508
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1319,204,963 - 19,276,969 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000077497   ⟹   ENSSSCP00000074334
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1319,204,963 - 19,276,969 (-)Ensembl
RefSeq Acc Id: XM_003132094   ⟹   XP_003132142
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11319,203,965 - 19,276,392 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021071558   ⟹   XP_020927217
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11319,203,965 - 19,276,392 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003132142 (Get FASTA)   NCBI Sequence Viewer  
  XP_020927217 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_020927217   ⟸   XM_021071558
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_003132142   ⟸   XM_003132094
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSSSCP00000044508   ⟸   ENSSSCT00000050090
RefSeq Acc Id: ENSSSCP00000011983   ⟸   ENSSSCT00000012302
RefSeq Acc Id: ENSSSCP00000074334   ⟸   ENSSSCT00000077497
Protein Domains
CP2   SAM_3


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000011235 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00070015670 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000011983 UniProtKB/TrEMBL
  ENSSSCP00000044508 UniProtKB/TrEMBL
  ENSSSCP00000074334 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00070025747 UniProtKB/TrEMBL
  ENSSSCP00070025769 UniProtKB/TrEMBL
  ENSSSCP00070025776 UniProtKB/TrEMBL
  ENSSSCP00070025791 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000012302 UniProtKB/TrEMBL
  ENSSSCT00000050090 UniProtKB/TrEMBL
  ENSSSCT00000077497 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00070030867 UniProtKB/TrEMBL
  ENSSSCT00070030891 UniProtKB/TrEMBL
  ENSSSCT00070030900 UniProtKB/TrEMBL
  ENSSSCT00070030920 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.50 UniProtKB/TrEMBL
InterPro CP2 UniProtKB/TrEMBL
  SAM/pointed_sf UniProtKB/TrEMBL
  SAM_3 UniProtKB/TrEMBL
NCBI Gene UBP1 ENTREZGENE
Pfam CP2 UniProtKB/TrEMBL
  SAM_3 UniProtKB/TrEMBL
Superfamily-SCOP SSF47769 UniProtKB/TrEMBL
UniProt A0A287AKT2_PIG UniProtKB/TrEMBL
  A0A4X1UA22_PIG UniProtKB/TrEMBL
  A0A4X1UBW8_PIG UniProtKB/TrEMBL
  A0A4X1UBY2_PIG UniProtKB/TrEMBL
  A0A5G2RAI2_PIG UniProtKB/TrEMBL
  F1RRD8_PIG UniProtKB/TrEMBL