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[191463_at] Histone deacetylase family

Description Y51H1A.5 /REP_DB=WormBase Gene ID /WP=CE24411 /TR=Q9U266 /GB=CAA21669.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Histone deacetylase family
Cluster 6grp_high1_10_10 > 79      4grp_high_8_8 > 27      6grp_total > 99      4grp_total > 36      6grp_cgc > 79      6grp_high1_sub > Cu      6grp_cgc_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 75
1 2 3 4 range
A 109.8
(3)
P 		108
(2.8)
P 		66.2
(-3)
A 		94.7
(0.9)
A 		44
B 113.4
(-1.2)
P 		135.8
(2.2)
P 		101.5
(-3)
P 		140.8
(3)
P 		39
C 124.4
(3)
P 		105.2
(0.5)
P 		77.7
(-3)
P 		98.8
(-0.3)
P 		47
avr 115.9
(2.9) 		116.3
(3) 		81.8
(-3) 		111.4
(2.1) 		35

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 72
1 2 3 4 5 6 range
A 103.1
(0.8)
A 		102.3
(0.7)
P 		107.8
(1.5)
P 		76.3
(-3)
P 		118.4
(3)
P 		114.5
(2.4)
P 		42
B 80
(-3)
P 		104.6
(-0.1)
P 		85.6
(-2.3)
P 		86.5
(-2.2)
M 		125
(2.4)
P 		130.4
(3)
P 		50
C 97.7
(-1.3)
P 		78.5
(-3)
A 		115.1
(0.2)
P 		91.8
(-1.9)
A 		129.4
(1.4)
P 		148.1
(3)
P 		70
avr 93.6
(-1.9) 		95.1
(-1.7) 		102.8
(-0.7) 		84.9
(-3) 		124.3
(2.1) 		131
(3) 		46
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 40
(3)
P 		23.4
(-0.8)
P 		17.3
(-2.2)
A 		13.9
(-3)
A 		26
B 36.2
(3)
P 		33.5
(1.7)
P 		23.5
(-3)
P 		30
(0.1)
P 		13
C 41.2
(3)
P 		30.3
(0.3)
P 		27.1
(-0.5)
P 		16.7
(-3)
P 		25
avr 39.1
(3) 		29.1
(-0.2) 		22.6
(-2.2) 		20.2
(-3) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 32
1 2 3 4 5 6 range
A 19
(-3)
A 		36.4
(3)
P 		23.5
(-1.4)
P 		19.4
(-2.9)
P 		35.7
(2.8)
P 		27.9
(0.1)
P 		17
B 27.8
(-1.6)
P 		34.8
(-0.2)
P 		20.8
(-3)
P 		22.9
(-2.6)
M 		50.8
(3)
P 		48.6
(2.6)
P 		30
C 36.2
(0.4)
P 		24
(-1.9)
A 		29.3
(-0.9)
P 		18.5
(-3)
A 		41.9
(1.5)
P 		49.6
(3)
P 		31
avr 27.7
(-1) 		31.7
(0) 		24.5
(-1.9) 		20.3
(-3) 		42.8
(3) 		42
(2.8) 		23
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191463_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3676
Sequence Type Exemplar sequence
Representative Public ID Y51H1A.5 NCBI
Target Description Y51H1A.5 /REP_DB=WormBase Gene ID /WP=CE24411 /TR=Q9U266 /GB=CAA21669.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Histone deacetylase family
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_064509(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064509 NCBI Caenorhabditis elegans Histone DeAcetylase family member (hda-6) (hda-6) mRNA, complete cds. 11/11 A 
SNAP00000044416 ENSEMBL cdna:SNAP chromosome:CEL140:II:13882607:13898052:1 11/11 None
GENEFINDER00000044422 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:13882607:13889467:1 11/11 None
Y51H1A.5.2 ENSEMBL cdna:known chromosome:CEL140:II:13882598:13887915:1 gene:Y51H1A.5 11/11 A 
Y51H1A.5.1 ENSEMBL cdna:known chromosome:CEL140:II:13882599:13887915:1 gene:Y51H1A.5 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:13882603-13887836(+) 100.0 100.0
Public Domain and Genome References
Gene Title Histone deacetylase family
Gene Symbol hda-6
Ensembl Y51H1A.5
Entrez Gene 175039 Entrez gene
SwissProt Q9U266 EMBL-EBI
WormBase CE24411 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
16575 histone deacetylation inferred from sequence similarity QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4407 histone deacetylase activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA21669 Hypothetical protein Y51H1A.5 [Caenorhabditis elegans] ref|NP_496910.1| Histone DeAcetylase family member (hda-6) [Caenorhabditis elegans] 0.0
blast CAE73261 Hypothetical protein CBG20677 [Caenorhabditis briggsae] 0.0
blast CAA21671 Hypothetical protein Y51H1A.6 [Caenorhabditis elegans] ref|NP_496911.1| Y51H1A.6 [Caenorhabditis elegans] 0.0
blast CAE73261 Hypothetical protein CBG20677 [Caenorhabditis briggsae] 1.0E-169
Protein Domains
Database ID Description E-Value
Pfam IPR000286 EMBL-EBI Histone deacetylase superfamily 9.5E-85
Sequence
Target Sequence 
>C. ELEGANS:191463_AT
gggcactgctgggcgaggagatcccacggattcgggtggagaagatccactcggcgatcg
ctgacacgattggaagagttgtgaagagatatgaaggttcttgtccgttcttcaagaagg
ttcaggagctccgggggattctgggatgccgagtagccgaggaagatcagcaggaggagg
ctacagactacacgggagaacggacggtgcacccgccgtacgagacacgtggcatttata
ctccgttcacagagcagaaggtggcggaatttaaagatcaactcgaatcgatactcgcca
gctacacaacccctcccgacttttccgcggaaactgaagcattccacagtgccatagccc
ctcacagctcagaaatcaacga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGCACTGCTGGGCGAGGAGATCCC 619 493 959 Antisense
GGAGATCCCACGGATTCGGGTGGAG 174 499 975 Antisense
CTCGGCGATCGCTGACACGATTGGA 673 231 1008 Antisense
AGATATGAAGGTTCTTGTCCGTTCT 249 65 1045 Antisense
TCAGGAGCTCCGGGGGATTCTGGGA 581 623 1080 Antisense
GATTCTGGGATGCCGAGTAGCCGAG 697 431 1095 Antisense
AGGAGGCTACAGACTACACGGGAGA 377 55 1133 Antisense
GACACGTGGCATTTATACTCCGTTC 544 367 1182 Antisense
AACTCGAATCGATACTCGCCAGCTA 120 139 1238 Antisense
TGAAGCATTCCACAGTGCCATAGCC 248 575 1293 Antisense
CCCCTCACAGCTCAGAAATCAACGA 317 261 1316 Antisense
Sequence Source Affymetrix Proprietary Database