Gsc (goosecoid homeobox) - Rat Genome Database

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Pathways
Gene: Gsc (goosecoid homeobox) Rattus norvegicus
Analyze
Symbol: Gsc
Name: goosecoid homeobox
RGD ID: 631425
Description: Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and RNA polymerase II-specific DNA-binding transcription factor binding activity. Predicted to be involved in middle ear morphogenesis; neural crest cell fate specification; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including chordate embryonic development; negative regulation of Wnt signaling pathway; and regulation of gene expression. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Orthologous to human GSC (goosecoid homeobox); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: goosecoid; homeobox protein goosecoid; homeobox protein goosecoid-like; LOC103692711
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86129,152,836 - 129,154,875 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl6129,152,836 - 129,154,875 (-)EnsemblGRCr8
mRatBN7.26123,388,072 - 123,390,111 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6123,388,072 - 123,390,111 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx6123,518,906 - 123,520,949 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.06123,814,192 - 123,816,235 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.06123,185,732 - 123,187,775 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.06128,147,181 - 128,149,220 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6128,147,181 - 128,149,220 (-)Ensemblrn6Rnor6.0
Rnor_5.06137,350,766 - 137,352,805 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.46128,526,645 - 128,528,684 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera6120,865,501 - 120,867,540 (-)NCBICelera
RGSC_v3.16128,531,182 - 128,532,078 (-)NCBI
Cytogenetic Map6q32NCBI
JBrowse:




References

References - curated
# Reference Title Reference Citation
1. Goosecoid and cerberus-like do not interact during mouse embryogenesis. Borges AC, etal., Int J Dev Biol 2002 Mar;46(2):259-62.
2. 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.
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. Online Mendelian Inheritance in Man, OMIM (TM). Online Mendelian Inheritance in Man, OMIM (TM).
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Comprehensive gene review and curation RGD comprehensive gene curation
9. Information Derived from GenBank Report RGD, Sept. 2003
Additional References at PubMed
PMID:7555718   PMID:7555726   PMID:9226455   PMID:9417125   PMID:14973294   PMID:17127040   PMID:17568773   PMID:18462699   PMID:22164283   PMID:24290375  


Genomics

Comparative Map Data
Gsc
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86129,152,836 - 129,154,875 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl6129,152,836 - 129,154,875 (-)EnsemblGRCr8
mRatBN7.26123,388,072 - 123,390,111 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6123,388,072 - 123,390,111 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx6123,518,906 - 123,520,949 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.06123,814,192 - 123,816,235 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.06123,185,732 - 123,187,775 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.06128,147,181 - 128,149,220 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6128,147,181 - 128,149,220 (-)Ensemblrn6Rnor6.0
Rnor_5.06137,350,766 - 137,352,805 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.46128,526,645 - 128,528,684 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera6120,865,501 - 120,867,540 (-)NCBICelera
RGSC_v3.16128,531,182 - 128,532,078 (-)NCBI
Cytogenetic Map6q32NCBI
GSC
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381494,768,223 - 94,770,113 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1494,768,223 - 94,770,113 (-)Ensemblhg38GRCh38
GRCh371495,234,560 - 95,236,450 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361494,304,313 - 94,306,252 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341494,304,312 - 94,306,252NCBI
Celera1475,290,663 - 75,292,602 (-)NCBICelera
Cytogenetic Map14q32.13NCBI
HuRef1475,414,787 - 75,416,726 (-)NCBIHuRef
CHM1_11495,172,977 - 95,174,916 (-)NCBICHM1_1
T2T-CHM13v2.01488,998,287 - 89,000,177 (-)NCBIT2T-CHM13v2.0
Gsc
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3912104,437,468 - 104,439,495 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl12104,437,468 - 104,439,589 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm3812104,471,209 - 104,473,236 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl12104,471,209 - 104,473,330 (-)Ensemblmm10GRCm38
MGSCv3712105,709,419 - 105,711,446 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3612104,872,259 - 104,874,286 (-)NCBIMGSCv36mm8
Celera12105,702,296 - 105,704,323 (-)NCBICelera
Cytogenetic Map12ENCBI
cM Map1254.32NCBI
Gsc
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543817,653,271 - 17,656,878 (+)Ensembl
ChiLan1.0NW_00495543817,653,149 - 17,655,091 (+)NCBIChiLan1.0ChiLan1.0
GSC
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21595,915,666 - 95,917,702 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11495,132,298 - 95,134,186 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01475,390,119 - 75,392,050 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11494,718,269 - 94,720,200 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1494,718,269 - 94,720,404 (-)EnsemblpanPan2panpan1.1
GSC
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1863,684,149 - 63,707,030 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl863,684,137 - 63,707,054 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha863,260,674 - 63,283,571 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0863,951,494 - 63,974,354 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl863,951,503 - 63,974,540 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1863,626,364 - 63,649,232 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0863,678,390 - 63,701,298 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0864,009,439 - 64,032,367 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Gsc
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864010,745,355 - 10,747,301 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936846286,420 - 288,405 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936846286,429 - 288,405 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GSC
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl7116,098,327 - 116,101,338 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.17116,099,053 - 116,101,153 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.27123,231,551 - 123,233,551 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GSC
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12472,581,639 - 72,585,745 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2472,581,915 - 72,583,423 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605359,787,503 - 59,789,395 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gsc
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247347,367,277 - 7,368,817 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247347,367,030 - 7,369,081 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Gsc
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v17115,540,926 - 115,542,971 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Gsc
14 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:54
Count of miRNA genes:50
Interacting mature miRNAs:53
Transcripts:ENSRNOT00000014204
Prediction methods:Miranda, Rnahybrid, Targetscan
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4145118Mcs26Mammary carcinoma susceptibility QTL 260.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)6112483610147156653Rat
1331797Bp213Blood pressure QTL 2133.291arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)6114241077147156653Rat
2293088Iddm28Insulin dependent diabetes mellitus QTL 285.21blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)668767270135411972Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)688019181136741135Rat
10054138Gmadr3Adrenal mass QTL 33.680.00045adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)690871046135871046Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)693560258136550638Rat
1641917Colcr5Colorectal carcinoma resistance QTL 53.180.0009intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)698944780143944780Rat
61414Pia3Pristane induced arthritis QTL 34.5joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)6100704576136029228Rat
71111Iddm8Insulin dependent diabetes mellitus QTL 81.90.002blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)6110921244147156653Rat
724524Uae2Urinary albumin excretion QTL 22.70.0005urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)679198463144254945Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6106095977147156653Rat
2303624Vencon5Ventilatory control QTL 54.45respiration trait (VT:0001943)minute ventilation (CMO:0000132)693778632138778632Rat
61329Eae9Experimental allergic encephalomyelitis QTL 93.7body mass (VT:0001259)change in body weight (CMO:0002045)684490437129490437Rat
10054123Srcrt6Stress Responsive Cort QTL 62.50.0043blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)690871046135871046Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)693560258136550638Rat
737976Pia24Pristane induced arthritis QTL 24joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)6118366855147156653Rat
2313399Anxrr28Anxiety related response QTL 28aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)6101593607138161926Rat
1298087Iddm18Insulin dependent diabetes mellitus QTL 180.0001urine glucose amount (VT:0001758)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)6122236101147156653Rat
1581550Pur8Proteinuria QTL 8urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)693560258136550638Rat
12801471Schws9Schwannoma susceptibility QTL 9nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)6101593607146593607Rat
2293085Iddm29Insulin dependent diabetes mellitus QTL 297.66blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)6121444670147156653Rat

Markers in Region
Gsc  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26123,388,475 - 123,388,990 (+)MAPPERmRatBN7.2
Rnor_6.06128,147,585 - 128,148,099NCBIRnor6.0
Rnor_6.06128,139,474 - 128,139,994NCBIRnor6.0
Rnor_5.06137,351,170 - 137,351,684UniSTSRnor5.0
RGSC_v3.46128,527,049 - 128,527,563UniSTSRGSC3.4
Celera6120,865,905 - 120,866,419UniSTS
Cytogenetic Map6q32UniSTS
PMC305791P2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26123,388,450 - 123,388,988 (+)MAPPERmRatBN7.2
Rnor_6.06128,147,560 - 128,148,097NCBIRnor6.0
Rnor_6.06128,139,476 - 128,140,019NCBIRnor6.0
Rnor_5.06137,351,145 - 137,351,682UniSTSRnor5.0
RGSC_v3.46128,527,024 - 128,527,561UniSTSRGSC3.4
Celera6120,865,880 - 120,866,417UniSTS
Cytogenetic Map6q32UniSTS
Gsc  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26123,388,341 - 123,388,996 (+)MAPPERmRatBN7.2
Rnor_6.06128,139,468 - 128,140,127NCBIRnor6.0
Rnor_6.06128,147,451 - 128,148,105NCBIRnor6.0
Rnor_5.06137,351,036 - 137,351,690UniSTSRnor5.0
Celera6120,865,771 - 120,866,425UniSTS
Cytogenetic Map6q32UniSTS
Gsc  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26123,388,346 - 123,389,990 (+)MAPPERmRatBN7.2
Rnor_6.06128,147,456 - 128,149,099NCBIRnor6.0
Rnor_5.06137,351,041 - 137,352,684UniSTSRnor5.0
Celera6120,865,776 - 120,867,419UniSTS
Cytogenetic Map6q32UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
3 10 30 56 33 29 8 11 8 6 98 66 9 32 13 61 21 1 1

Sequence


Ensembl Acc Id: ENSRNOT00000014204   ⟹   ENSRNOP00000014204
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl6129,152,836 - 129,154,875 (-)Ensembl
mRatBN7.2 Ensembl6123,388,072 - 123,390,111 (-)Ensembl
Rnor_6.0 Ensembl6128,147,181 - 128,149,220 (-)Ensembl
RefSeq Acc Id: NM_001191873   ⟹   NP_001178802
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86129,152,836 - 129,154,875 (-)NCBI
mRatBN7.26123,388,072 - 123,390,111 (-)NCBI
Rnor_6.06128,147,181 - 128,149,220 (-)NCBI
Rnor_5.06137,350,766 - 137,352,805 (-)NCBI
Celera6120,865,501 - 120,867,540 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001178802 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAO17709 (Get FASTA)   NCBI Sequence Viewer  
  EDL81805 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000014204
  ENSRNOP00000014204.3
RefSeq Acc Id: NP_001178802   ⟸   NM_001191873
- UniProtKB: G3V7E7 (UniProtKB/TrEMBL),   A6JER1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000014204   ⟸   ENSRNOT00000014204
Protein Domains
Homeobox

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V7E7-F1-model_v2 AlphaFold G3V7E7 1-256 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:631425 AgrOrtholog
BioCyc Gene G2FUF-36375 BioCyc
Ensembl Genes ENSRNOG00000010605 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000014204 ENTREZGENE
  ENSRNOT00000014204.7 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro Goosecoid-like_HB UniProtKB/TrEMBL
  Homeobox UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
KEGG Report rno:317715 UniProtKB/TrEMBL
NCBI Gene 317715 ENTREZGENE
PANTHER HOMEOBOX PROTEIN GOOSECOID UniProtKB/TrEMBL
  HOMEOBOX PROTEIN GOOSECOID-RELATED UniProtKB/TrEMBL
Pfam Homeobox UniProtKB/TrEMBL
PharmGKB GSC RGD
PhenoGen Gsc PhenoGen
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000010605 RatGTEx
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt A6JER1 ENTREZGENE, UniProtKB/TrEMBL
  G3V7E7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Gsc  goosecoid homeobox  LOC103692711  homeobox protein goosecoid-like  Data merged from RGD:9083627 737654 PROVISIONAL
2014-08-25 LOC103692711  homeobox protein goosecoid-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-02-25 Gsc  goosecoid homeobox  Gsc  goosecoid  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-11 Gsc  goosecoid      Symbol and Name status set to approved 625702 APPROVED