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[172823_x_at] histone H2A /// histone H2A /// Core histones H2A, H2B, H3 and H4

Description H02I12.7 /REP_DB=WormBase Gene ID /WP=CE04501 /GB=CAB07221.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Core histones H2A, H2B, H3 and H4
Cluster 6grp_highest_10_10 > 79      6grp_high1_10_10 > 98      4grp_highest_8_8 > 12      4grp_high_8_8 > 39      6grp_highest_nonorm > 68      6grp_total > 96      4grp_total > 32      6grp_highest_sub > In      6grp_cgc > 78      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1238
1 2 3 4 range
A 1463.4
(-3)
P 		2542
(2.6)
P 		2626.6
(3)
P 		2562.9
(2.7)
P 		1163
B 1389.1
(-3)
P 		2156.9
(0.9)
P 		2582.7
(3)
P 		2079.3
(0.5)
P 		1194
C 1679.1
(-3)
P 		2162.3
(0.8)
P 		2127.2
(0.5)
P 		2437.2
(3)
P 		758
avr 1510.5
(-3) 		2287.1
(2) 		2445.5
(3) 		2359.8
(2.5) 		935

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1066
1 2 3 4 5 6 range
A 1486.5
(-3)
P 		1652.3
(-1.9)
P 		2012.5
(0.4)
P 		2020.7
(0.5)
P 		2320.3
(2.5)
P 		2404.3
(3)
P 		918
B 1556.5
(-3)
P 		1835.9
(-1.3)
P 		1776.6
(-1.7)
P 		1915.6
(-0.8)
P 		2479
(2.6)
P 		2552
(3)
P 		996
C 1536.3
(-3)
P 		1580.3
(-2.7)
P 		1973.3
(-0.1)
P 		1674.2
(-2.1)
P 		2433.3
(3)
P 		2329.1
(2.3)
P 		897
avr 1526.4
(-3) 		1689.5
(-1.9) 		1920.8
(-0.4) 		1870.2
(-0.7) 		2410.9
(2.9) 		2428.5
(3) 		902
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 366
1 2 3 4 range
A 532.8
(0)
P 		551.8
(0.4)
P 		686.6
(3)
P 		375.2
(-3)
P 		311
B 443
(-3)
P 		532.7
(0.5)
P 		598.5
(3)
P 		443.1
(-3)
P 		156
C 555.8
(-0.4)
P 		621.7
(0.8)
P 		741.4
(3)
P 		410.9
(-3)
P 		331
avr 510.5
(-0.7) 		568.7
(0.6) 		675.5
(3) 		409.7
(-3) 		266

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 733
1 2 3 4 5 6 range
A 274
(-3)
P 		587.6
(1.4)
P 		438.3
(-0.7)
P 		512.5
(0.4)
P 		700.2
(3)
P 		585.4
(1.4)
P 		426
B 541.6
(-1.9)
P 		611.1
(-1.1)
P 		431.4
(-3)
P 		507.4
(-2.2)
P 		1007.2
(3)
P 		951.6
(2.4)
P 		576
C 569.4
(0.1)
P 		482.2
(-1.1)
P 		502.2
(-0.8)
P 		336.7
(-3)
P 		787.4
(3)
P 		779.7
(2.9)
P 		451
avr 461.7
(-2.8) 		560.3
(-1.3) 		457.3
(-2.9) 		452.2
(-3) 		831.6
(3) 		772.2
(2.1) 		379
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172823_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9733
Sequence Type Exemplar sequence
Representative Public ID H02I12.7 NCBI
Target Description H02I12.7 /REP_DB=WormBase Gene ID /WP=CE04501 /GB=CAB07221.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Core histones H2A, H2B, H3 and H4
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_069749(11), NM_069730(11), NM_069740(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069749 NCBI Caenorhabditis elegans HIStone family member (his-65) (his-65) mRNA, complete cds. 11/11 None
NM_069730 NCBI Caenorhabditis elegans HIStone family member (his-47) (his-47) mRNA, complete cds. 11/11 None
NM_069740 NCBI Caenorhabditis elegans HIStone family member (his-57) (his-57) mRNA, complete cds. 11/11 None
SNAP00000002624 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11340383:11340766:1 11/11 None
GENEFINDER00000002630 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11340383:11340766:1 11/11 None
SNAP00000035837 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11324027:11324410:-1 11/11 None
GENEFINDER00000035847 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11324027:11324410:-1 11/11 None
SNAP00000036324 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11401063:11401446:1 11/11 None
GENEFINDER00000036332 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11401063:11401446:1 11/11 None
B0035.7 ENSEMBL cdna:known chromosome:CEL140:IV:11324027:11324410:-1 gene:B0035.7 11/11 None
F54E12.5 ENSEMBL cdna:known chromosome:CEL140:IV:11340383:11340766:1 gene:F54E12.5 11/11 None
H02I12.7 ENSEMBL cdna:known chromosome:CEL140:IV:11401063:11401446:1 gene:H02I12.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_072876 1/11 Cross Hyb Matching Probes A B 
NM_072892 1/11 Cross Hyb Matching Probes A B 
NM_069003 3/11 Cross Hyb Matching Probes A B 
NM_069007 3/11 Cross Hyb Matching Probes A B 
NM_068800 4/11 Cross Hyb Matching Probes A B 
NM_073062 1/11 Cross Hyb Matching Probes A 
NM_064486 1/11 Cross Hyb Matching Probes A B 
NM_064490 1/11 Cross Hyb Matching Probes A B 
NM_064497 1/11 Cross Hyb Matching Probes A B 
NM_072879 1/11 Cross Hyb Matching Probes A B 
NM_060241 2/11 Cross Hyb Matching Probes A B 
NM_072895 1/11 Cross Hyb Matching Probes A B 
SNAP00000036752 2/11 Cross Hyb Matching Probes None
GENEFINDER00000036755 2/11 Cross Hyb Matching Probes None
SNAP00000009812 1/11 Cross Hyb Matching Probes None
SNAP00000009816 1/11 Cross Hyb Matching Probes None
GENEFINDER00000009836 1/11 Cross Hyb Matching Probes None
GENEFINDER00000009839 1/11 Cross Hyb Matching Probes None
SNAP00000034713 1/11 Cross Hyb Matching Probes None
GENEFINDER00000034721 1/11 Cross Hyb Matching Probes None
SNAP00000000481 3/11 Cross Hyb Matching Probes None
GENEFINDER00000000494 3/11 Cross Hyb Matching Probes None
SNAP00000005171 4/11 Cross Hyb Matching Probes None
GENEFINDER00000005180 4/11 Cross Hyb Matching Probes None
SNAP00000039431 3/11 Cross Hyb Matching Probes None
GENEFINDER00000039433 3/11 Cross Hyb Matching Probes None
SNAP00000009316 1/11 Cross Hyb Matching Probes None
GENEFINDER00000009334 1/11 Cross Hyb Matching Probes None
SNAP00000015093 1/11 Cross Hyb Matching Probes None
SNAP00000015096 1/11 Cross Hyb Matching Probes None
GENEFINDER00000015145 1/11 Cross Hyb Matching Probes None
GENEFINDER00000015151 1/11 Cross Hyb Matching Probes None
SNAP00000018184 1/11 Cross Hyb Matching Probes None
SNAP00000018187 1/11 Cross Hyb Matching Probes None
GENEFINDER00000018197 1/11 Cross Hyb Matching Probes None
GENEFINDER00000018200 1/11 Cross Hyb Matching Probes None
T23D8.6 2/11 Cross Hyb Matching Probes A B 
ZK131.10 1/11 Cross Hyb Matching Probes A B 
ZK131.6 1/11 Cross Hyb Matching Probes A B 
F08G2.2 1/11 Cross Hyb Matching Probes A B 
F55G1.10 4/11 Cross Hyb Matching Probes A 
F35H10.1 3/11 Cross Hyb Matching Probes A B 
F17E9.13 3/11 Cross Hyb Matching Probes A B 
F07B7.10 1/11 Cross Hyb Matching Probes A B 
F07B7.3 1/11 Cross Hyb Matching Probes A B 
K06C4.3 1/11 Cross Hyb Matching Probes A B 
K06C4.11 1/11 Cross Hyb Matching Probes A B 
C50F4.13.1 1/11 Cross Hyb Matching Probes A 
C50F4.13.2 1/11 Cross Hyb Matching Probes A 
C50F4.13.3 1/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:9997183-9997567(+) 95.57 95.57
chrII:13827219-13827599(+) 91.67 91.67
chrIV:11401068-11401452(+) 100.0 100.0
chrIV:11340388-11340772(+) 100.0 100.0
chrIV:8331653-8332037(+) 94.53 94.53
chrV:8535968-8536348(+) 90.62 90.62
chrV:8898352-8898732(+) 90.36 90.36
chrV:8856257-8856637(+) 90.36 90.36
chrII:13817653-13818037(-) 92.45 92.45
chrII:13821095-13821475(-) 91.67 91.67
chrIV:11324032-11324416(-) 100.0 100.0
chrIV:7485823-7486207(-) 96.35 96.35
chrIV:8335322-8335706(-) 94.53 94.53
chrV:8894474-8894854(-) 90.36 90.36
chrV:8852379-8852759(-) 90.36 90.36
Public Domain and Genome References
Gene Title histone H2A
histone H2A
Core histones H2A, H2B, H3 and H4
Gene Symbol his-47
his-57
his-65
Ensembl B0035.7
F54E12.5
H02I12.7
Entrez Gene 178048 Entrez gene
178056 Entrez gene
186671 Entrez gene
SwissProt P09588 EMBL-EBI
WormBase CE04501 Wormbase
CE04501 Wormbase
CE04501 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:246735_AT histone H2A, putative at
ATH1-121501:246735_AT histone H2A, putative at
CANINE_2:CFAAFFX.836.1.S1_AT similar to histone H2A cfa
CANINE_2:CFAAFFX.836.1.S1_AT similar to histone H2A cfa
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6334 nucleosome assembly inferred from electronic annotation QuickGO AmiGO
7001 chromosome organization and biogenesis (sensu Eukaryota) inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
786 nucleosome inferred from electronic annotation QuickGO AmiGO
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAE60212 Hypothetical protein CBG03776 [Caenorhabditis briggsae] 9.0E-42
Protein Domains
Database ID Description E-Value
Pfam IPR007125 EMBL-EBI Histone core 3.6E-55
Sequence
Target Sequence 
>C. ELEGANS:172823_X_AT
gaggaaaggccaagtcacgctcatcaagagctggacttcaattcccagtcggtcgtcttc
accgtattcttcgcaaaggaaactatgctcaacgtgttggagccggagccccagtctact
tggccgctgttcttgaatatctcgctgctgaggttctcgagttggccggtaacgctgccc
gtgacaacaagaagacccgtatcgccccaagacatcttcaactcgctgtccgcaacgacg
aggagctcaacaagcttttggccggagtgaccatcgcccaaggaggagttcttccaaaca
tccaagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGGAAAGGCCAAGTCACGCTCATC 405 403 50 Antisense
AGCTGGACTTCAATTCCCAGTCGGT 363 81 78 Antisense
TCTTCACCGTATTCTTCGCAAAGGA 222 615 105 Antisense
TCTACTTGGCCGCTGTTCTTGAATA 116 615 164 Antisense
GAATATCTCGCTGCTGAGGTTCTCG 56 327 184 Antisense
GTAACGCTGCCCGTGACAACAAGAA 533 461 218 Antisense
GACAACAAGAAGACCCGTATCGCCC 153 365 232 Antisense
CCAAGACATCTTCAACTCGCTGTCC 122 277 256 Antisense
CTCGCTGTCCGCAACGACGAGGAGC 665 233 271 Antisense
GTGACCATCGCCCAAGGAGGAGTTC 489 481 316 Antisense
GAGGAGTTCTTCCAAACATCCAAGC 76 405 332 Antisense
Sequence Source Affymetrix Proprietary Database