Gabpb2 (GA binding protein transcription factor subunit beta 2) - Rat Genome Database

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Gene: Gabpb2 (GA binding protein transcription factor subunit beta 2) Rattus norvegicus
Analyze
Symbol: Gabpb2
Name: GA binding protein transcription factor subunit beta 2
RGD ID: 1565234
Description: Predicted to enable identical protein binding activity and transcription cis-regulatory region binding activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Orthologous to human GABPB2 (GA binding protein transcription factor subunit beta 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-diaminodiphenylmethane; acrylamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: GA binding protein transcription factor, beta subunit 2; GA repeat binding protein, beta 2; GA-binding protein subunit beta-2; LOC295263; RGD1565234; similar to transcription factor GABP beta 2-1 chain - mouse
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82185,444,309 - 185,484,200 (-)NCBIGRCr8
mRatBN7.22182,755,304 - 182,795,368 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2182,761,359 - 182,795,109 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.02196,357,030 - 196,392,514 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2196,359,243 - 196,377,883 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02215,853,498 - 215,889,078 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42190,094,254 - 190,114,114 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera2175,293,630 - 175,329,110 (-)NCBICelera
Cytogenetic Map2q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Gabpb2Ratgastrointestinal stromal tumor  ISOGABPB2 (Homo sapiens)8554872ClinVar Annotator: match by term: Gastrointestinal stromal tumorClinVarPMID:28492532
Gabpb2Ratimmunodeficiency 42  ISOGABPB2 (Homo sapiens)8554872ClinVar Annotator: match by term: Autosomal recessive mendelian susceptibility to mycobacterial diseases due to complete RORgamma receptor deficiencyClinVarPMID:28492532
Gabpb2RatMHC class II deficiency  ISOGABPB2 (Homo sapiens)8554872ClinVar Annotator: match by term: MHC class II deficiencyClinVarPMID:28492532
Gabpb2Ratparathyroid carcinoma  ISOGABPB2 (Homo sapiens)8554872ClinVar Annotator: match by term: Parathyroid carcinomaClinVarPMID:28492532
Gabpb2Ratsevere congenital neutropenia 3  ISOGABPB2 (Homo sapiens)8554872ClinVar Annotator: match by term: Kostmann syndromeClinVarPMID:28492532
Gabpb2Ratsevere congenital neutropenia 5  ISOGABPB2 (Homo sapiens)8554872ClinVar Annotator: match by term: Congenital neutropenia-myelofibrosis-nephromegaly syndromeClinVarPMID:28492532

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Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Gabpb2Rat(1->4)-beta-D-glucan multiple interactionsISOGabpb2 (Mus musculus)6480464[perfluorooctane sulfonic acid co-treated with Cellulose] results in decreased expression of GABPB2 mRNACTDPMID:36331819
Gabpb2Rat17beta-estradiol decreases expressionISOGABPB2 (Homo sapiens)6480464Estradiol results in decreased expression of GABPB2 mRNACTDPMID:19167446
Gabpb2Rat17beta-estradiol increases expressionISOGABPB2 (Homo sapiens)6480464Estradiol results in increased expression of GABPB2 mRNACTDPMID:20106945
Gabpb2Rat2,3',4,4',5-Pentachlorobiphenyl decreases expressionISOGabpb2 (Mus musculus)64804642 more ...CTDPMID:31388691
Gabpb2Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionISOGabpb2 (Mus musculus)6480464Tetrachlorodibenzodioxin results in increased expression of GABPB2 mRNACTDPMID:19465110
Gabpb2Rat2,3,7,8-tetrachlorodibenzodioxine decreases expressionEXP 6480464Tetrachlorodibenzodioxin results in decreased expression of GABPB2 mRNACTDPMID:33387578
Gabpb2Rat4,4'-diaminodiphenylmethane increases expressionISOGabpb2 (Mus musculus)64804644 and 4'-diaminodiphenylmethane results in increased expression of GABPB2 mRNACTDPMID:18648102
Gabpb2Rat4,4'-diaminodiphenylmethane decreases expressionEXP 64804644 and 4'-diaminodiphenylmethane results in decreased expression of GABPB2 mRNACTDPMID:30723492
Gabpb2Ratacrylamide increases expressionEXP 6480464Acrylamide results in increased expression of GABPB2 mRNACTDPMID:28959563
Gabpb2Rataflatoxin B1 increases expressionISOGabpb2 (Mus musculus)6480464Aflatoxin B1 results in increased expression of GABPB2 mRNACTDPMID:19770486
Gabpb2Ratamphetamine decreases expressionEXP 6480464Amphetamine results in decreased expression of GABPB2 mRNACTDPMID:30779732
Gabpb2Ratarsane decreases expressionISOGabpb2 (Mus musculus)6480464Arsenic results in decreased expression of GABPB2 mRNACTDPMID:19654921
Gabpb2Ratarsenic atom decreases expressionISOGabpb2 (Mus musculus)6480464Arsenic results in decreased expression of GABPB2 mRNACTDPMID:19654921
Gabpb2Ratarsenous acid decreases expressionISOGABPB2 (Homo sapiens)6480464Arsenic Trioxide results in decreased expression of GABPB2 mRNACTDPMID:12852829
Gabpb2Ratbenzene-1,2,4-triol increases expressionISOGABPB2 (Homo sapiens)6480464hydroxyhydroquinone results in increased expression of GABPB2 mRNACTDPMID:17572062
Gabpb2Ratbenzo[a]pyrene decreases expressionISOGabpb2 (Mus musculus)6480464Benzo(a)pyrene results in decreased expression of GABPB2 mRNACTDPMID:19770486
Gabpb2Ratbenzo[a]pyrene diol epoxide I decreases expressionISOGABPB2 (Homo sapiens)64804647 more ...CTDPMID:19150397 and PMID:20382639
Gabpb2Ratbenzo[e]pyrene increases methylationISOGABPB2 (Homo sapiens)6480464benzo(e)pyrene results in increased methylation of GABPB2 polyA tailCTDPMID:30157460
Gabpb2Ratbisphenol A decreases expressionEXP 6480464bisphenol A results in decreased expression of GABPB2 mRNACTDPMID:25181051
Gabpb2Ratbisphenol A increases expressionISOGABPB2 (Homo sapiens)6480464bisphenol A results in increased expression of GABPB2 mRNACTDPMID:36232920

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Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Gabpb2Ratpositive regulation of transcription by RNA polymerase II acts_upstream_of_or_withinISOGABPB2 (Homo sapiens)1624291 PMID:9857059RGDPMID:9857059
Gabpb2Ratpositive regulation of transcription by RNA polymerase II involved_inIBAPANTHER:PTN002793882 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033

Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Gabpb2Ratnucleus located_inISOGABPB2 (Homo sapiens)1624291 PMID:9857059RGDPMID:9857059
Gabpb2Ratnucleus is_active_inIBAMGI:1925571 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033

Molecular Function

  


#
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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
PMID:7958862   PMID:9857059  



Gabpb2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82185,444,309 - 185,484,200 (-)NCBIGRCr8
mRatBN7.22182,755,304 - 182,795,368 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2182,761,359 - 182,795,109 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.02196,357,030 - 196,392,514 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2196,359,243 - 196,377,883 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02215,853,498 - 215,889,078 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42190,094,254 - 190,114,114 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera2175,293,630 - 175,329,110 (-)NCBICelera
Cytogenetic Map2q34NCBI
GABPB2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381151,070,761 - 151,125,542 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1151,070,578 - 151,125,542 (+)EnsemblGRCh38hg38GRCh38
GRCh371151,043,237 - 151,098,018 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361149,309,704 - 149,359,035 (+)NCBINCBI36Build 36hg18NCBI36
Celera1124,158,386 - 124,206,297 (+)NCBICelera
Cytogenetic Map1q21.3NCBI
HuRef1122,420,488 - 122,468,318 (+)NCBIHuRef
CHM1_11152,438,397 - 152,486,334 (+)NCBICHM1_1
T2T-CHM13v2.01150,194,444 - 150,249,243 (+)NCBIT2T-CHM13v2.0
Gabpb2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39395,089,077 - 95,125,291 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl395,089,077 - 95,125,227 (-)EnsemblGRCm39 Ensembl
GRCm38395,181,766 - 95,218,110 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl395,181,766 - 95,217,916 (-)EnsemblGRCm38mm10GRCm38
MGSCv37394,985,688 - 95,021,864 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36395,272,854 - 95,303,113 (-)NCBIMGSCv36mm8
Celera396,612,834 - 96,648,906 (-)NCBICelera
Cytogenetic Map3F2.1NCBI
cM Map340.74NCBI
Gabpb2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955588459,211 - 480,421 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955588439,822 - 477,159 (+)NCBIChiLan1.0ChiLan1.0
GABPB2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2198,702,857 - 98,763,214 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1198,457,943 - 98,519,176 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01126,419,892 - 126,479,691 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11130,067,320 - 130,114,493 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1130,084,854 - 130,114,493 (+)Ensemblpanpan1.1panPan2
GABPB2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11760,154,346 - 60,183,839 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1760,155,407 - 60,183,716 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1759,598,376 - 59,628,412 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01761,170,600 - 61,200,915 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1761,171,664 - 61,199,790 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11759,999,681 - 60,029,664 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01760,084,540 - 60,115,033 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01760,812,090 - 60,842,467 (+)NCBIUU_Cfam_GSD_1.0
Gabpb2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505822,253,286 - 22,292,733 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365801,290,991 - 1,321,925 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365801,283,593 - 1,323,110 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GABPB2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl498,133,647 - 98,163,778 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1498,129,864 - 98,163,955 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24107,385,549 - 107,417,371 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GABPB2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12012,558,951 - 12,623,941 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603812,143,828 - 12,206,635 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gabpb2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477218,726,903 - 18,760,307 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

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Variants in Gabpb2
181 total Variants

Predicted Target Of
Summary Value
Count of predictions:96
Count of miRNA genes:60
Interacting mature miRNAs:63
Transcripts:ENSRNOT00000028661, ENSRNOT00000056396
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.


1 to 10 of 70 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2114837527211674221Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2161699179222436696Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168358098223265385Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)218960362228801039Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2136445150202447032Rat
152025245Scl81Serum cholesterol level QTL 813.49blood cholesterol amount (VT:0000180)2122609194206936711Rat
70162Bp63Blood pressure QTL 635.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat

1 to 10 of 70 rows



alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31



Ensembl Acc Id: ENSRNOT00000028661   ⟹   ENSRNOP00000028661
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2182,761,359 - 182,795,109 (-)Ensembl
Rnor_6.0 Ensembl2196,359,243 - 196,377,883 (-)Ensembl
RefSeq Acc Id: XM_006232936   ⟹   XP_006232998
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82185,444,309 - 185,484,200 (-)NCBI
mRatBN7.22182,755,304 - 182,795,368 (-)NCBI
Rnor_6.02196,357,030 - 196,392,514 (-)NCBI
Rnor_5.02215,853,498 - 215,889,078 (-)NCBI
Sequence:
RefSeq Acc Id: XM_227439   ⟹   XP_227439
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82185,444,309 - 185,484,200 (-)NCBI
mRatBN7.22182,755,304 - 182,794,675 (-)NCBI
Rnor_6.02196,357,030 - 196,391,834 (-)NCBI
Rnor_5.02215,853,498 - 215,889,078 (-)NCBI
RGSC_v3.42190,094,254 - 190,114,114 (-)RGD
Sequence:
RefSeq Acc Id: XR_005501120
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82185,451,458 - 185,484,200 (-)NCBI
mRatBN7.22182,762,450 - 182,795,368 (-)NCBI
Protein RefSeqs NP_001420013 (Get FASTA)   NCBI Sequence Viewer  
  NP_001420014 (Get FASTA)   NCBI Sequence Viewer  
  XP_006232998 (Get FASTA)   NCBI Sequence Viewer  
  XP_227439 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL85731 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000028661.5
RefSeq Acc Id: XP_227439   ⟸   XM_227439
- Sequence:
RefSeq Acc Id: XP_006232998   ⟸   XM_006232936
- Sequence:
Ensembl Acc Id: ENSRNOP00000028661   ⟸   ENSRNOT00000028661

Name Modeler Protein Id AA Range Protein Structure
AF-D3ZSD3-F1-model_v2 AlphaFold D3ZSD3 1-413 view protein structure


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



1 to 21 of 21 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-52106 BioCyc
Ensembl Genes ENSRNOG00000021105 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000028661.8 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.20 UniProtKB/TrEMBL
InterPro Ankyrin-SOCS_Box UniProtKB/TrEMBL
  Ankyrin_rpt UniProtKB/TrEMBL
  Ankyrin_rpt-contain_sf UniProtKB/TrEMBL
KEGG Report rno:295263 UniProtKB/TrEMBL
NCBI Gene 295263 ENTREZGENE
PANTHER ANKYRIN REPEAT PROTEIN UniProtKB/TrEMBL
  GA-BINDING PROTEIN SUBUNIT BETA-2 UniProtKB/TrEMBL
Pfam Ank UniProtKB/TrEMBL
  Ank_2 UniProtKB/TrEMBL
PhenoGen Gabpb2 PhenoGen
PRINTS ANKYRIN UniProtKB/TrEMBL
PROSITE ANK_REP_REGION UniProtKB/TrEMBL
  ANK_REPEAT UniProtKB/TrEMBL
RatGTEx ENSRNOG00000021105 RatGTEx
SMART ANK UniProtKB/TrEMBL
Superfamily-SCOP ANK UniProtKB/TrEMBL
UniProt D3ZSD3 ENTREZGENE, UniProtKB/TrEMBL
1 to 21 of 21 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-05-25 Gabpb2  GA binding protein transcription factor subunit beta 2  Gabpb2  GA binding protein transcription factor, beta subunit 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-10-30 Gabpb2  GA binding protein transcription factor, beta subunit 2  Gabpb2  GA repeat binding protein, beta 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Gabpb2  GA repeat binding protein, beta 2  RGD1565234_predicted  similar to transcription factor GABP beta 2-1 chain - mouse (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1565234_predicted  similar to transcription factor GABP beta 2-1 chain - mouse (predicted)  LOC295263  similar to transcription factor GABP beta 2-1 chain - mouse  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC295263  similar to transcription factor GABP beta 2-1 chain - mouse      Symbol and Name status set to provisional 70820 PROVISIONAL