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[192280_s_at] Core histones H2A, H2B, H3 and H4

Description F08G2.1 /REP_DB=WormBase Gene ID /WP=CE07075 /TR=O02656 /GB=CAB04061.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Core histones H2A, H2B, H3 and H4
Cluster 6grp_highest_10_10 > 69      6grp_high1_10_10 > 96      4grp_highest_8_8 > 12      4grp_high_8_8 > 39      6grp_highest_nonorm > 93      6grp_total > 86      4grp_total > 40      6grp_highest_sub > In      6grp_cgc > 68      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 673
1 2 3 4 range
A 81.3
(-3)
P 		412.6
(-0)
P 		748.4
(3)
P 		481
(0.6)
P 		667
B 99.9
(-3)
P 		403.3
(-0.2)
P 		744.6
(3)
P 		426.7
(0)
P 		645
C 75.2
(-3)
P 		440.1
(0.3)
P 		736
(3)
P 		517.7
(1)
P 		661
avr 85.5
(-3) 		418.7
(0) 		743
(3) 		475.1
(0.6) 		658

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 841
1 2 3 4 5 6 range
A 135.9
(-3)
P 		145.4
(-2.9)
P 		255.1
(-2.1)
P 		453.6
(-0.7)
P 		398.5
(-1.1)
P 		949.5
(3)
P 		814
B 114.3
(-3)
P 		124.8
(-2.9)
P 		272.6
(-1.4)
P 		338.7
(-0.7)
P 		492.4
(0.9)
P 		692.8
(3)
P 		579
C 108.4
(-3)
P 		113.6
(-3)
P 		282.8
(-1.5)
P 		342.4
(-1)
P 		632.6
(1.4)
P 		822.2
(3)
P 		714
avr 119.5
(-3) 		127.9
(-2.9) 		270.2
(-1.7) 		378.2
(-0.8) 		507.8
(0.3) 		821.5
(3) 		702
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 232
1 2 3 4 range
A 29.6
(-3)
P 		89.6
(-0.8)
P 		195.7
(3)
P 		70.4
(-1.5)
P 		166
B 31.9
(-3)
P 		99.6
(-0.1)
P 		172.5
(3)
P 		90.9
(-0.5)
P 		141
C 24.9
(-3)
P 		126.5
(-0.4)
P 		256.5
(3)
P 		87.3
(-1.4)
P 		232
avr 28.8
(-3) 		105.2
(-0.4) 		208.2
(3) 		82.9
(-1.2) 		179

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 250
1 2 3 4 5 6 range
A 25.1
(-3)
P 		51.7
(-2.2)
P 		55.6
(-2.1)
P 		115
(-0.4)
P 		120.2
(-0.2)
P 		231.2
(3)
P 		206
B 39.8
(-3)
P 		41.5
(-3)
P 		66.2
(-2.3)
P 		89.7
(-1.6)
P 		200.1
(1.4)
P 		258.3
(3)
P 		219
C 40.2
(-2.9)
P 		34.7
(-3)
P 		72
(-2.1)
P 		68.9
(-2.1)
P 		204.7
(1.2)
P 		275.2
(3)
P 		241
avr 35
(-3) 		42.6
(-2.8) 		64.6
(-2.2) 		91.2
(-1.5) 		175
(0.8) 		254.9
(3) 		220
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192280_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3386
Sequence Type Exemplar sequence
Representative Public ID F08G2.1 NCBI
Target Description F08G2.1 /REP_DB=WormBase Gene ID /WP=CE07075 /TR=O02656 /GB=CAB04061.1 /SUBMIT=HINXTON /CHR=2 /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_064487(11), NM_064491(11), NM_064496(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064487 NCBI Caenorhabditis elegans HIStone family member (his-15) (his-15) mRNA, complete cds. 11/11 None
NM_064491 NCBI Caenorhabditis elegans HIStone family member (his-11) (his-11) mRNA, complete cds. 11/11 None
NM_064496 NCBI Caenorhabditis elegans HIStone family member (his-44) (his-44) mRNA, complete cds. 11/11 None
SNAP00000009813 ENSEMBL cdna:SNAP chromosome:CEL140:II:13818268:13818636:1 11/11 None
SNAP00000009817 ENSEMBL cdna:SNAP chromosome:CEL140:II:13821706:13822074:1 11/11 None
GENEFINDER00000009832 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:13821706:13822074:1 11/11 None
GENEFINDER00000009842 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:13818268:13818995:1 11/11 None
SNAP00000034712 ENSEMBL cdna:SNAP chromosome:CEL140:II:13826627:13826995:-1 11/11 None
GENEFINDER00000034726 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:13826268:13826995:-1 11/11 None
ZK131.9 ENSEMBL cdna:known chromosome:CEL140:II:13818268:13818636:1 gene:ZK131.9 11/11 None
ZK131.5 ENSEMBL cdna:known chromosome:CEL140:II:13821706:13822074:1 gene:ZK131.5 11/11 None
F08G2.1 ENSEMBL cdna:known chromosome:CEL140:II:13826627:13826995:-1 gene:F08G2.1 11/11 None
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:13821702-13822071(+) 100.0 100.0
chrII:13818264-13818633(+) 100.0 100.0
chrIV:8335959-8336328(+) 93.5 93.5
chrIV:11324721-11325093(+) 91.33 91.33
chrII:13826623-13826992(-) 100.0 100.0
chrIV:8331031-8331400(-) 93.5 93.5
chrIV:11400391-11400763(-) 91.6 91.6
chrIV:11339711-11340083(-) 91.6 91.6
Public Domain and Genome References
Gene Title Core histones H2A, H2B, H3 and H4
histone H2B
histone H2B
Gene Symbol his-44
his-11
his-15
Ensembl ZK131.9
ZK131.5
F08G2.1
Entrez Gene 175026 Entrez gene
175029 Entrez gene
175033 Entrez gene
SwissProt P04255 EMBL-EBI
WormBase CE07075 Wormbase
CE07075 Wormbase
CE07075 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:247652_AT histone H2B at
ATH1-121501:247652_AT histone H2B at
CANINE_2:CFAAFFX.17046.1.S1_AT similar to H2B histone family, member F cfa
CANINE_2:CFAAFFX.791.1.S1_S_AT similar to H2B histone family, member F cfa
CANINE_2:CFAAFFX.17046.1.S1_AT similar to H2B histone family, member F cfa
CANINE_2:CFAAFFX.791.1.S1_S_AT similar to H2B histone family, member F cfa
DROSOPHILA_2:1623281_S_AT dm
DROSOPHILA_2:1635666_AT dm
DROSOPHILA_2:1623281_S_AT dm
DROSOPHILA_2:1635666_AT dm
CHICKEN:GGA.5915.1.S1_AT Histone H2B gga
CHICKEN:GGA.5915.1.A1_AT Histone H2B gga
CHICKEN:GGA.5915.1.S1_AT Histone H2B gga
CHICKEN:GGA.5915.1.A1_AT Histone H2B gga
HG-U133_PLUS_2:202708_S_AT histone 2, H2be hs
HG-U133A:202708_S_AT histone 2, H2be hs
HG-FOCUS:202708_S_AT histone 2, H2be hs
HG-U133A_2:202708_S_AT histone 2, H2be hs
HU35KSUBD:RC_H72345_S_AT histone 2, H2be hs
HUGENEFL:X57985_RNA2_AT histone 2, H2be hs
U133_X3P:G4504276_3P_S_AT histone 2, H2be hs
HG-U95AV2:33352_AT histone 2, H2be hs
HG-U133_PLUS_2:202708_S_AT histone 2, H2be hs
HG-U133A:202708_S_AT histone 2, H2be hs
HG-FOCUS:202708_S_AT histone 2, H2be hs
HG-U133A_2:202708_S_AT histone 2, H2be hs
HU35KSUBD:RC_H72345_S_AT histone 2, H2be hs
HUGENEFL:X57985_RNA2_AT histone 2, H2be hs
U133_X3P:G4504276_3P_S_AT histone 2, H2be hs
HG-U95AV2:33352_AT histone 2, H2be hs
YEAST_2:1771292_AT One of two nearly identical (see HTB2) histone H2B subtypes required for chromatin assembly and chromosome function; Rad6p-Bre1p-Lge1p mediated ubiquitination regulates transcriptional activation, meiotic DSB formation and H3 methylation Sc
YEAST_2:1771292_AT One of two nearly identical (see HTB2) histone H2B subtypes required for chromatin assembly and chromosome function; Rad6p-Bre1p-Lge1p mediated ubiquitination regulates transcriptional activation, meiotic DSB formation and H3 methylation Sc
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 CAB05832 Hypothetical protein ZK131.9 [Caenorhabditis elegans] emb|CAB05830.1| Hypothetical protein ZK131.5 [Caenorhabditis elegans] emb|CAB04061.1| Hypothetical protein F08G2.1 [Caenorhabditis elegans] gb|AAC05103.1| Histone protein 34 [Caenorhabditis elegans] emb|CAA33642.1| histone protein [Caenorhabditis elegans] gb|AAK84525.1| Histone protein 29 [Caenorhabditis elegans] ref|NP_501409.1| HIStone family member (his-34) [Caenorhabditis elegans] ref|NP_501403.1| HIStone family member (his-29) [Caenorhabditis elegans] ref|NP_496897.1| HIStone family member (his-44) [Caenorhabditis elegans] ref|NP_496892.1| HIStone family member (his-11) [Caenorhabditis elegans] ref|NP_496888.1| HIStone family member (his-15) [Caenorhabditis elegans] sp|P04255|H2B1_CAEEL Histone H2B 7.0E-50
blast AAF98225 Histone protein 20 [Caenorhabditis elegans] gb|AAF98230.1| Histone protein 22 [Caenorhabditis elegans] gb|AAC48023.1| Histone protein 8 [Caenorhabditis elegans] ref|NP_505295.1| HIStone family member (his-20) [Caenorhabditis elegans] ref|NP_505197.1| HIStone family member (his-8) [Caenorhabditis elegans] ref|NP_505294.1| HIStone family member (his-22) [Caenorhabditis elegans] sp|Q27894|H2B2_CAEEL Histone H2B 7.0E-50
blast CAB07654 Hypothetical protein T10C6.11 [Caenorhabditis elegans] ref|NP_507031.1| HIStone family member (his-4) [Caenorhabditis elegans] 7.0E-50
Protein Domains
Database ID Description E-Value
Pfam IPR007125 EMBL-EBI Histone core 8.9E-55
Pfam IPR007125 EMBL-EBI Histone core 8.8E-54
Sequence
Target Sequence 
>C. ELEGANS:192280_S_AT
gccaagaccgttacgaagccaaaggacggaaagaagagacgtcatgcccgtaaggaatca
tactccgtctacatctaccgtgtcctcaagcaagttcatccagacactggagtttcctcc
aaagccatgtctatcatgaactcttttgtcaacgatgtcttcgagcgtattgctgctgaa
gcatcccgtcttgctcactacaacaagcgttccacaatctcatcccgcgaaattcagacc
gctgtccgtctgatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCAAGACCGTTACGAAGCCAAAGG 299 277 52 Antisense
GCCCGTAAGGAATCATACTCCGTCT 309 271 97 Antisense
CCCGTAAGGAATCATACTCCGTCTA 410 259 98 Antisense
TCCAGACACTGGAGTTTCCTCCAAA 568 585 150 Antisense
GACACTGGAGTTTCCTCCAAAGCCA 345 367 154 Antisense
CTGGAGTTTCCTCCAAAGCCATGTC 518 241 158 Antisense
AACGATGTCTTCGAGCGTATTGCTG 670 143 202 Antisense
GATGTCTTCGAGCGTATTGCTGCTG 425 409 205 Antisense
CTACAACAAGCGTTCCACAATCTCA 418 227 249 Antisense
TACAACAAGCGTTCCACAATCTCAT 136 643 250 Antisense
AATTCAGACCGCTGTCCGTCTGATC 684 175 282 Antisense
Sequence Source Affymetrix Proprietary Database