GEISHA - A Chicken Embryo Gene Expression Database
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HDAC1
histone deacetylase 1

Gene
Official SymbolHDAC1
Official Full Namehistone deacetylase 1
CGNC ID2394
also known ashistone deacetylase 1|HD1
gene typeprotein-coding
Genomic Map
 Ensembl
NCBI
UCSC
Gallus-Browse
Sequence Information
Genomic
RNANM_204156
PolypeptideNP_989487
Sequence Clusters/ESTsUnigene
Gene Expression
In Situ HybridizationGEISHA
EST ProfileGga.10603
Orthology
Entrez GeneEnsembl GeneGenetic PhenotypesMOD
Fruit Fly38565FBgn0015805
Human3065ENSG00000116478MIM:601241
Mouse433759ENSMUSG00000028800All phenotypic alleles (9):Chemically induced(1) Targeted, knock-out(2) Targeted, other(6) MGI:108086
Xenopus594953, 397868, 379083479582
Zebrafish192302ENSDARG00000015427ZDB-GENE-020419-32ZFIN:ZDB-GENE-020419-32
Gene Ontology
Molecular FunctionNAD-dependent histone deacetylase activity (H3-K14 specific), more...NAD-dependent histone deacetylase activity (H3-K18 specific), NAD-dependent histone deacetylase activity (H3-K9 specific), NAD-dependent histone deacetylase activity (H4-K16 specific), RNA polymerase II repressing transcription factor binding, RNA polymerase II transcription corepressor activity, activating transcription factor binding, core promoter binding, histone deacetylase activity, histone deacetylase binding, transcription factor binding
Biological Processchromatin modification, negative regulation by host of viral transcription, more...negative regulation of androgen receptor signaling pathway, positive regulation of cell proliferation, positive regulation of receptor biosynthetic process, positive regulation of transcription from RNA polymerase II promoter
Cellular ComponentNuRD complex, Sin3 complex, cytoplasm, cytosol, histone deacetylase complex, nucleus
Links to other databases
Entrez Gene373961
Ensembl GeneENSGALG00000003297
KEGGgga:373961

Entry 1

GEISHA IdHDAC1.UApcrData SourceGEISHA ISH Analysis
Forward cDNA Template PrimerAAAGCAAAAGAGGAGAAAGCCG
Reverse cDNA Template PrimerATTAACCCTCACTAAAGGGCTAATGAGGTCTGCCACATCCcDNA Template Length819
Forward cDNA Template Probeshow
GGGAACGTTCCCACCACATCAGGGNTGGATTTTCACTTGGGCATTTTCCAGATCTATACCTGGCAGGGCTCTTGGGCAG
ATTGGACTCGAGCGATTTTCTGATCTGCTTGTAAGCTGCTTCATCTCTTTCCACCAGTTTGCTGCAGGAAGGTAGCCAA
CTCTGTTCAAGAACTGCACTATTTGACCCTGAGAAGCGGCACCAGCTTGCAGTTACTTGCCATGGTGGAATCAGACTGA
AGACCAAAGGAACACTCAGTCTCTCACAGGCTTAATTTGGGAATTCATATCTCCCACAAAAAAAGATAAAATAAAATAA
AATAAAAGAGAAAGGAAAAGAAGAAAAAAAAAAGTTTCANGGCCATCTTTCCNCCTAACCTGAAATGCANACNCTACTT
CTACTTAAATTATTCATTTTCAAGGGNGGTTACTTCANAGGAGAGCAAAGAAAGGAAGTGATTCTTTTTAAAGACNCNC
TAAGGAGGCAGNGGAAGGCAAANAGTGAAACTTCCCAGGCNCCAATCCNGGGCAGNGCGGGTCTCTCTACTCTGCANAG
TCCNCCCNGTCNGCTCCCAGCGGAGTGCANCAAGGAATAATTTACAGTTCNCAAGTCATTTATATNTTTATATAGAAAT
ATATACCGAAACTTATATAAAATATAAATCCTGNGGAATGGGAGGCAACCAGANAAGCTAACCTACGATAACTATGCNC
TGACAGGTACTGTCCAGCTGCAGCCATCTTAGGTGGATTTTGTCTCTTCCTTCNCCCCCTTGGGTTCGGCTTTCNCCCT
TTTNGCTTTAAA
StageImage (click image to view full size)Location (click to highlight)Comments (click to highlight)
1-3
stage 3
Area Pellucida
Primitive Streak
 
4-6
stage 4
Area Pellucida
Primitive Streak
 
7-12
stage 7
stage 7
stage 10
Anterior Intestinal Portal
Extraembryonic Mesoderm
Forebrain
Head Mesenchyme
Headfold
Heart
Hindbrain
Intermediate Mesoderm
Lateral Plate Mesoderm
Midbrain
Neural Plate/Tube
Notochord
Primitive Streak
Somites
dorsal
13-18
stage 14
stage 14
stage 14
stage 15
Forebrain
Foregut
Gut
Hindbrain
Midbrain
Neural Plate/Tube
Spinal Cord
Widespread Expression
 
19-24
stage 22
Widespread Expression
 
25-26
stage 26
Widespread Expression
 

Entry 2

GEISHA IdHDAC1.Murko.2010Data SourcePublication
Complete cDNA Template Probeshow
GAAGAAGAAGAAGATCCTGAGAAGCGCATTTCAATCCGCAATTCTGATAAGAGAATATCCTGTGATGAAGAATTCTCTG
ACTCTGAAGATGAAGGGGAAGGAGGGCGCAAAAATGTTGCCAACTTTAAGAAGGCCAAGCGTGTGAAAACAGAGGAGGA
AAAGGAGGAGGAGGAGAAGAAGGATGAGAAAGAAGAGGAAAAAGCAAAAGAGGAGAAAGCCGAACCCAAGGGGGTGAAG
GAAGAGACAAAATCCACCTAAGATGGCTGCAGCTGGACAGTACCTGTCAGTGCATAGTTATC
CitationMurko C, Lagger S, Steiner M, Seiser C, Schoefer C, Pusch O. Expression of class I histone deacetylases during chick and mouse development. Int J Dev Biol. 2010;54(10):1527-37.
CopyrightReprinted from Int. J. Dev. Biol., 55(1), Copyright (2010), with permission from the authors and IJDB
CommentsPrimer sequences used are: chHDAC1 f: GGATGAAGAAGAAGAAGATCC, r: GATAACTATGCACTGACAGG (AF_039751, bp1239- 1541);
StageImage (click image to view full size)Location (click to highlight)Comments (click to highlight)
7-12
stage 11
stage 11
stage 11
stage 11
stage 11
stage 12
stage 12
Forebrain
Neural Plate/Tube
Notochord
 
13-18
stage 15
stage 17
Ear/Otic Placode
Eye
Forebrain
Neural Plate/Tube
Pharyngeal Arches and Clefts
Labels indicate otic and optic placodes, limb buds, and branchial arches, which are not available in the checklist below.
25
stage 25
Ear/Otic Placode
Face Mesenchyme
Limb Buds
Wing
 

Entry 3

GEISHA IdHdac1.Zwane.2015Data SourceGEISHA ISH Analysis
Complete cDNA Template Probeshow
GAGTCAATCTGCCCAAGAGCCCTGCAGGTATAGATCTGGAAAATGCCAAGTGAAAATCACCCTGATGTGGTGGTGAACG
TTTTCCAGGATGTGGCAGACCTCATTAGCGGGGCAGCGCTGTGCATCGCCCATAGGAGAAGGGATGGAATCTTTATGCA
CTTGTTTCCTATACCTGTGCCCCTCTTTGCAGGGAGGAGGTGAGTTACTGCCCATCTGGCTGCCTGCTTCACTCTGCTT
CTGCCCACAGCTTCGTGTGCTGTAATTGCTTCTCAGTACTGATCTGTGTCCTTGCTGAAACCGTAGCAGAGCAGGACAG
ACAGACGGAGCCCAGCTGATGCCTCTGCTCCACGTGTCACTCGCTGAGAAACTCTTTCTGAAGCAGACATGTTTTCAAG
TGGAACCTTTCCTGTCTTTGCTCTCAAGGCCAGTAAATGCGGAGAGCCTTTTTATCAGCAGTCTGAGCTGTTATCTGTA
CGAGGGAACAGCAGATGGGGCTCTGTACGTTTTTATAACTGCTCCTCTTCCTCCTCCCACACGTTATCTCACACCCAAA
GGTCTTTTGTGATCAGAGCTGGCCTTTCTCACACCTTGCTTTGTACAGCTGAGCGTGAGATGAGCGCTCCGTGGGATGC
TTTGCTGAGCTCCGACTTTGCAGAAGTTCTGCAGGCAGTTCTGACTCGCTGCTCTCCTTCCTCCGGGGGATTCCTCTGT
CCATAAGAGGATCTGTACCTCCCCCGGGGTGCTGCTGGTGGTTTCAACTCTAATAATGCTGCTAACTTAACACAGGTTA
TTTTTAAAATGTTTTATTTTTTTAAATGCTTTTTTCCCCCCTTTTCCACCGTAAGTTTTGTAGTCTCTTGGAACCTGAG
TGGCGTCTCACT
CitationZwane TB, Nikitina NV. Spatiotemporal expression analysis of Prdm1 and Prdm1 binding partners in early chick embryo. Gene Expr Patterns. 2015 Jan;17(1):56-68. Epub 2015 Feb 17. DOI: 10.1016/j.gep.2014.12.003.
CopyrightCopyright © 2014 Elsevier B.V.
CommentsAuthors indicated the probe was amplified by PCR using the following primers: 5'-GAGTCAATCTGCCCAAGAGC-3' and 5'-AGTGAGACGCCACTCAGGTT-3'. Above sequence was extracted from NCBI accession number NM_204156.1.
StageImage (click image to view full size)Location (click to highlight)Comments (click to highlight)
4-6
stage 4
stage 5
stage 5
stage 6
Ectoderm
Epiblast
Neural Plate/Tube
Primitive Streak
 
7-10
stage 7
stage 8
stage 8
stage 8
stage 8
stage 8
stage 8
stage 8
stage 10
stage 10
stage 10
stage 10
stage 10
stage 10
Anterior Intestinal Portal
Blood Islands
Ectoderm
Epiblast
Eye
Foregut
Headfold
Lateral Plate Mesoderm
Neural Crest
Neural Plate/Tube
Paraxial Mesoderm
Primitive Streak
Somites
Surface Ectoderm
double ISH, Hdc1 in purple, Snail2 in brown
stage 10-
stage 8-
all
 
  

Entry 4

GEISHA IdHDAC1.Olivera-Martinez.2014Data SourcePublication
Complete cDNA Template Probeshow
GGTGGGGCGGGTTGCGTTGCGCTGCGCGGCGGTAGGGTCTGCGGCCGTGGGGAGGCAGGAAAATGGCGCTGACGCAGGG
GACCAAGCGGAAAGTCTGCTACTACTACGACGGTGATGTTGGAAACTATTACTATGGCCAGGGGCACCCCATGAAGCCC
CACAGGATCCGGATGACCCACAACCTACTGCTGAACTACGGCCTTTACAGGAAGATGGAGATATATCGCCCTCACAAGG
CGAACGCGGAGGAGATGACCAAGTACCACAGTGATGACTACATCAAATTCCTGAGATCCATCCGCCCAGACAACATGTC
TGAGTACAGCAAGCAGATGCAAAGATTTAACGTCGGGGAGGACTGCCCTGTGTTCGATGGGCTGTTTGAGTTCTGTCAG
CTCTCTGCTGGAGGCTCCGTTGCCAGCGCTGTGAAGCTGAACAAGCAACAGACAGATATTGCTGTGAATTGGGCAGGAG
GCCTTCACCACGCTAAGAAGTCGGAGGCTTCTGGCTTCTGTTATGTCAACGATATTGTCCTGGCTATCTTGGAGCTCTT
AAAGTATCACCAGAGGGTCCTGTATATTGACATTGATATTCACCATGGAGATGGTGTGGAGGAAGCCTTCTATACCACA
GACCGTGTGATGACCGTGTCCTTTCATAAGTATGGAGAGTACTTCCCAGGAACAGGGGACCTGCGGGACATTGGTGCAG
GCAAAGGCAAATACTATGCTGTCAACTATCCCCTCCGGGATGGGATTGATGATGAGTCCTACGAGGCAATATTCAAGCC
GGTGATATCTAAAGTGATGGAGACATTCCAGCCTAGTGCAGTTGTCCTGCAGTGCGGGTCGGATTCTCTGTCCGGGGAC
AGGCTGGGTTGTTTTAATCTGACCATCAAAGGTCATGCCAAGTGTGTGGAGTTTGTCAAAAGTTTTAATTTGCCTATGC
TGATGCTGGGAGGAGGTGGCTATACGATCCGCAACGTGGCCAGATGCTGGACCTATGAGACTGCTGTGGCTTTGGACAC
TGAGATCCCAAATGAGCTCCCATATAATGACTATTTTGAGTACTTCGGACCAGACTTTAAGCTGCACATCAGTCCCTCA
AACATGACCAACCAGAATACCAATGAGTATCTCGAGAAGATCAAGCAGCGTCTCTTTGAGAATCTGCGCATGCTGCCTC
ATGCCCCTGGCGTCCAGATGCAGCCAATTCCTGAGGATGCTGTTCAGGAAGACAGTGGGGATGAAGAAGAAGAAGATCC
TGAGAAGCGCATTTCAATCCGCAATTCTGATAAGAGAATATCCTGTGATGAAGAATTCTCTGACTCTGAAGATGAAGGG
GAAGGAGGGCGCAAAAATGTTGCCAACTTTAAGAAGGCCAAGCGTGTGAAAACAGAGGAGGAAAAGGAGGAGGAGGAGA
AGAAGGATGAGAAAGAAGAGGAAAAAGCAAAAGAGGAGAAAGCCGAACCCAAGGGGGTGAAGGAAGAGACAAAATCCAC
CTAAGATGGCTGCAGCTGGACAGTACCTGTCAGTGCATAGTTATCGTAGGTTAGCTTCTCTGGTTGCCTCCCATTCCAC
AGGATTTATATTTTATATATGTTTCTGTATATATTTCTATATAAATATATAAATGACTTGAGAACTGTAAATTATTCCT
TGCTGCACTCCGCTGGGAGCAGACAGGGAGGACTCTGCAGAGTAGAGAGACCCGCACTGCCCAGGATTGGTGCCTGGGA
AGTTTCACTCTTTGCCTTCCACTGCCTCCTTAGTGTGTCTTTAAAAAGAATCACTTCCTTTCTTTGCTCTCCTCTGAAG
TAACCACCCTTGAAAATGAATAATTTAAGTAGAAGTAGTGTCTGCATTTCAGGTTAGGTGGAAAGATGGCCATGAAACT
TTTTTTTTTCTTCTTTTCCTTTCTCTTTTATTTTATTTTATTTTATCTTTTTTTGTGGGAGATATGAATTCCCAAATTA
AGCCTGTGAGAGACTGAGTGTTCCTTTGGTCTTCAGTCTGATTCCACCATGGCAAGTAACTGCAAGCTGGTGCCGCTTC
TCAGGGTCAAATAGTGCAGTTCTTGAACAGAGTTGGCTACCTTCCTGCAGCAAACTGGTGGAAAGAGATGAAGCAGCTT
ACAAGCAGATCAGAAAATCACTCGAGTCAATCTGCCCAAGAGCCCTGCAGGTATAGATCTGGAAAATGCCAAGTGAAAA
TCACCCTGATGTGGTGGTGAACGTTTTCCAGGATGTGGCAGACCTCATTAGCGGGGCAGCGCTGTGCATCGCCCATAGG
AGAAGGGATGGAATCTTTATGCACTTGTTTCCTATACCTGTGCCCCTCTTTGCAGGGAGGAGGTGAGTTACTGCCCACC
TGGCTGCCTGCTTCACTCTGCTTCTGCCCACAGCTTCGTGTGCTGTAATTGCTTCTCAGTACTGATCTGTGTCCTTGCT
GAAACCATAGCAGAGCAGGACAGACAGACGGAGCCCAGCTGATGCCTCTGCTCCACGTGTCACTCGCTAAGAAACTCTT
TCTGAAGCAGACATGTTTTCAAGTGGAACCTTTCCTGTCTTTGCTCTCAAGGCCAGTAAATGCGGAGAGCCTTTTTATC
AGCAGTCTGAGCTGTTATCTGTACGAGGGAACAGCAGATGGGGCTCTGTACGTTTTTATAACTGCTCCTCTTCCTCCTC
CCACACGTTATCTCACACCCAAAGGTCTTTTGTGATCAGAGCTGGCCTTTCTCACACCTTGCTTTGTACAGCTGAGCGT
GAGATGAGCGCTCCGTGGGATGCTTTGCTGAGCTCCGACTTTGCAGAAGTTCTGCAGGCAGTTCTGACTCGCTGCTCTC
CTTCCTCCGGGGGATTCCTCTGTCCATAAGAGGATCTGTACCTCCCCCGGGGTGCTGCTGGTGGTTTCAACTCTAATAA
TGCTGCTAACTTAACACAGGTTATTTTTAAAATGTTTTATTTTTTTAAATGCTTTTTTCCCCCCTTTTCCACCGTAAGT
TTTGTAGTCTCTTGGAACCTGAGTGGCGTCTCACTCCTGCTCTTCAGTGTTTGTATGTGAAGCGAGAGAGATCAGTGTA
TCTTTGTGTCTTGGGGAGGGGGGGGGAAATATATTGTGGTTTTTTAAAGATGCTTTTATTTTAAATTTTGAGAATCTTT
GTAATAAAACGTACATTTCTATGGT
CitationIsabel Olivera-Martinez, Nick Schurch, Roman A Li, Junfang Song, Pamela A Halley, Raman M Das, Dave W Burt, Geoffrey J Barton, Kate G Storey. Major transcriptome re-organisation and abrupt changes in signalling, cell cycle and chromatin regulation at neural differentiation in vivo. Development 2014 Aug;141(16):3266-76. Epub 2014 Jul 25. DOI: 10.1242/dev.112623.
CopyrightCopyright © 2014. Published by The Company of Biologists Ltd.
CommentsAs insufficient information is provided in publication to verify exact sequence used to synthesize probe, the sequence above was obtained from NCBI (accession number NM_204156.2 ).
StageImage (click image to view full size)Location (click to highlight)Comments (click to highlight)
7-10
stage 10
Anterior Intestinal Portal
Neural Plate/Tube
Somites
 
all
 
  
 Data from NCBI Unigene EST Profile
Unigene ID: Gga.10603

Mouse

EmageMGI:108086
EurexpressMGI:108086
MGI GXDMGI:108086

Frog

Xenbase479582

Fruit Fly

BDGPFBgn0015805

Zebra Finch

ZEBrA

Zebrafish

ZFINZDB-GENE-020419-32
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