UBP1 (upstream binding protein 1) - Rat Genome Database
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Gene: UBP1 (upstream binding protein 1) Canis lupus familiaris
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Symbol: UBP1
Name: upstream binding protein 1
RGD ID: 12327636
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
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
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
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
Additional References at PubMed
PMID:24994500  


Genomics

Comparative Map Data
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
(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
(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
(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
(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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 5 5 22 6 6 6 6 6 12 10 6
Low 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_003433178 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005634202 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022408428 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038431757 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038431758 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038431759 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038431760 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038507107 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038507108 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038507109 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038570312 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038570313 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038570314 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038634498 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038634499 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038634500 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000023 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000255 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000062 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000059 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000023 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000007417   ⟹   ENSCAFP00000006873
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl233,456,132 - 3,495,254 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000071725   ⟹   ENSCAFP00000049620
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl233,444,758 - 3,495,254 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000073710   ⟹   ENSCAFP00000043263
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl233,444,758 - 3,497,263 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000081256   ⟹   ENSCAFP00000045799
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl233,444,758 - 3,495,254 (+)Ensembl
RefSeq Acc Id: XM_003433178   ⟹   XP_003433226
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1233,445,746 - 3,498,242 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005634202   ⟹   XP_005634259
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1233,445,741 - 3,498,242 (+)NCBI
Sequence:
RefSeq Acc Id: XM_022408428   ⟹   XP_022264136
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1233,445,730 - 3,489,794 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_005634259   ⟸   XM_005634202
- Peptide Label: isoform X1
- UniProtKB: E2RGD2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_003433226   ⟸   XM_003433178
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_022264136   ⟸   XM_022408428
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSCAFP00000043263   ⟸   ENSCAFT00000073710
RefSeq Acc Id: ENSCAFP00000045799   ⟸   ENSCAFT00000081256
RefSeq Acc Id: ENSCAFP00000049620   ⟸   ENSCAFT00000071725
RefSeq Acc Id: ENSCAFP00000006873   ⟸   ENSCAFT00000007417
Protein Domains
CP2   SAM_3


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000004598 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSCAFP00000006873 UniProtKB/TrEMBL
  ENSCAFP00000043263 ENTREZGENE, UniProtKB/TrEMBL
  ENSCAFP00000045799 ENTREZGENE, UniProtKB/TrEMBL
  ENSCAFP00000049620 UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000007417 UniProtKB/TrEMBL
  ENSCAFT00000071725 UniProtKB/TrEMBL
  ENSCAFT00000073710 UniProtKB/TrEMBL
  ENSCAFT00000081256 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.50 UniProtKB/TrEMBL
InterPro CP2 UniProtKB/TrEMBL
  SAM/pointed UniProtKB/TrEMBL
  SAM_3 UniProtKB/TrEMBL
  Ubp1_SAM UniProtKB/TrEMBL
KEGG Report cfa:485572 UniProtKB/TrEMBL
NCBI Gene UBP1 ENTREZGENE
Pfam CP2 UniProtKB/TrEMBL
  SAM_3 UniProtKB/TrEMBL
Superfamily-SCOP SSF47769 UniProtKB/TrEMBL
UniProt A0A5F4BNZ1_CANLF UniProtKB/TrEMBL
  A0A5F4BV85_CANLF UniProtKB/TrEMBL
  A0A5F4C5T6_CANLF UniProtKB/TrEMBL
  E2RGD2 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:52909 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-08-08 UBP1  upstream binding protein 1    upstream binding protein 1 (LBP-1a)  Symbol and/or name change 5135510 APPROVED