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[172758_x_at] histone H2B /// histone H2B /// Core histones H2A, H2B, H3 and H4

Description B0035.8 /REP_DB=WormBase Gene ID /WP=CE05165 /TR=Q27876 /GB=CAA97413.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=histone H2B
Cluster 6grp_highest_10_10 > 88      6grp_high1_10_10 > 88      4grp_highest_8_8 > 02      4grp_high_8_8 > 46      6grp_highest_nonorm > 95      6grp_total > 97      4grp_total > 49      6grp_highest_sub > Da      6grp_cgc > 69      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1304
1 2 3 4 range
A 463.4
(-3)
P 		1478.9
(1.8)
P 		1730.8
(3)
P 		679.9
(-2)
P 		1267
B 427.3
(-3)
P 		1586.1
(3)
P 		1358
(1.8)
P 		438.4
(-2.9)
P 		1159
C 497.9
(-3)
P 		1639.4
(3)
P 		1602.1
(2.8)
P 		590.9
(-2.5)
P 		1142
avr 462.9
(-3) 		1568.1
(3) 		1563.6
(3) 		569.7
(-2.4) 		1105

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 828
1 2 3 4 5 6 range
A 622.7
(-2.5)
P 		643.8
(-2.3)
P 		565.4
(-3)
P 		804
(-0.8)
P 		789.4
(-0.9)
P 		1219.7
(3)
P 		654
B 509.5
(-2.7)
P 		488.5
(-3)
P 		527.5
(-2.5)
P 		582.2
(-1.8)
P 		756
(0.3)
P 		972.2
(3)
P 		484
C 666.6
(-0.4)
P 		391.4
(-3)
P 		682.5
(-0.3)
P 		592.8
(-1.1)
P 		982.3
(2.5)
P 		1030.7
(3)
P 		639
avr 599.6
(-2) 		507.9
(-3) 		591.8
(-2.1) 		659.7
(-1.4) 		842.6
(0.5) 		1074.2
(3) 		566
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 465
1 2 3 4 range
A 168.7
(-1.8)
P 		321
(0.8)
P 		452.5
(3)
P 		99.5
(-3)
P 		353
B 136.3
(-2.1)
P 		391.7
(3)
P 		314.7
(1.5)
P 		93.4
(-3)
P 		298
C 164.8
(-2.1)
P 		471.3
(1.9)
P 		558.4
(3)
P 		99.6
(-3)
P 		459
avr 156.6
(-2) 		394.7
(2.2) 		441.9
(3) 		97.5
(-3) 		344

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 248
1 2 3 4 5 6 range
A 114.8
(-3)
P 		229
(0.8)
P 		123.1
(-2.7)
P 		203.9
(-0.1)
P 		238.2
(1.1)
P 		297
(3)
P 		182
B 177.3
(-1.7)
P 		162.6
(-2.1)
P 		128.1
(-3)
P 		154.2
(-2.3)
P 		307.1
(1.6)
P 		362.5
(3)
P 		234
C 247.1
(0.4)
P 		119.4
(-3)
P 		173.7
(-1.6)
P 		119.2
(-3)
P 		317.9
(2.3)
P 		345
(3)
P 		226
avr 179.7
(-1.8) 		170.3
(-2.1) 		141.6
(-3) 		159.1
(-2.5) 		287.7
(1.5) 		334.8
(3) 		193
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172758_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10189
Sequence Type Exemplar sequence
Representative Public ID B0035.8 NCBI
Target Description B0035.8 /REP_DB=WormBase Gene ID /WP=CE05165 /TR=Q27876 /GB=CAA97413.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=histone H2B
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_069748(10), NM_069731(11), NM_069739(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069748 NCBI Caenorhabditis elegans HIStone family member (his-66) (his-66) mRNA, complete cds. 10/11 A 
NM_069731 NCBI Caenorhabditis elegans HIStone family member (his-48) (his-48) mRNA, complete cds. 11/11 A 
NM_069739 NCBI Caenorhabditis elegans HIStone family member (his-58) (his-58) mRNA, complete cds. 10/11 A 
SNAP00000002623 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11339706:11340077:-1 10/11 None
GENEFINDER00000002629 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11339706:11340077:-1 10/11 None
SNAP00000035838 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11324716:11325087:1 11/11 None
GENEFINDER00000035849 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11324716:11325087:1 11/11 None
SNAP00000036323 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11400386:11400757:-1 10/11 None
GENEFINDER00000036334 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11400386:11400757:-1 10/11 None
B0035.8 ENSEMBL cdna:known chromosome:CEL140:IV:11324716:11325087:1 gene:B0035.8 11/11 A 
F54E12.4 ENSEMBL cdna:known chromosome:CEL140:IV:11339706:11340077:-1 gene:F54E12.4 10/11 A 
H02I12.6 ENSEMBL cdna:known chromosome:CEL140:IV:11400386:11400757:-1 gene:H02I12.6 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_068801 4/11 Cross Hyb Matching Probes A 
NM_069008 2/11 Cross Hyb Matching Probes A B 
NM_064487 2/11 Cross Hyb Matching Probes A 
NM_064491 2/11 Cross Hyb Matching Probes A 
NM_064496 2/11 Cross Hyb Matching Probes A 
NM_069002 2/11 Cross Hyb Matching Probes A B 
SNAP00000009813 2/11 Cross Hyb Matching Probes None
SNAP00000009817 2/11 Cross Hyb Matching Probes None
GENEFINDER00000009832 2/11 Cross Hyb Matching Probes None
GENEFINDER00000009842 2/11 Cross Hyb Matching Probes None
SNAP00000034712 2/11 Cross Hyb Matching Probes None
GENEFINDER00000034726 2/11 Cross Hyb Matching Probes None
SNAP00000000482 2/11 Cross Hyb Matching Probes None
GENEFINDER00000000503 2/11 Cross Hyb Matching Probes None
SNAP00000005172 4/11 Cross Hyb Matching Probes None
GENEFINDER00000005179 4/11 Cross Hyb Matching Probes None
SNAP00000039430 2/11 Cross Hyb Matching Probes None
GENEFINDER00000039441 2/11 Cross Hyb Matching Probes None
ZK131.9 2/11 Cross Hyb Matching Probes A 
ZK131.5 2/11 Cross Hyb Matching Probes A 
F08G2.1 2/11 Cross Hyb Matching Probes A 
F55G1.3 4/11 Cross Hyb Matching Probes A 
F35H10.11 2/11 Cross Hyb Matching Probes A B 
F17E9.9 2/11 Cross Hyb Matching Probes A B 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:13821702-13822071(+) 90.59 90.59
chrII:13818264-13818633(+) 90.59 90.59
chrIV:11324721-11325093(+) 100.0 100.0
chrIV:7486534-7486906(+) 94.89 94.89
chrIV:8335959-8336328(+) 90.59 90.59
chrII:13826623-13826992(-) 90.59 90.59
chrIV:11400391-11400763(-) 99.73 99.73
chrIV:11339711-11340083(-) 99.73 99.73
chrIV:8331031-8331400(-) 90.59 90.59
Public Domain and Genome References
Gene Title histone H2B
histone H2B
Core histones H2A, H2B, H3 and H4
Gene Symbol his-48
his-58
his-66
Ensembl B0035.8
F54E12.4
H02I12.6
Entrez Gene 178049 Entrez gene
186251 Entrez gene
186670 Entrez gene
SwissProt Q27876 EMBL-EBI
WormBase CE05165 Wormbase
CE05165 Wormbase
CE05165 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:17943_AT histone H2B, putative at
ATH1-121501:263412_AT histone H2B, putative at
ATGENOME1:17943_AT histone H2B, putative at
ATH1-121501:263412_AT histone H2B, putative at
CANINE_2:CFAAFFX.17046.1.S1_AT similar to H2B histone family, member F cfa
CANINE_2:CFAAFFX.17974.1.S1_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.17974.1.S1_AT similar to H2B histone family, member F cfa
CHICKEN:GGAAFFX.26706.1.S1_AT similar to histone H2B.8 - chicken gga
CHICKEN:GGAAFFX.26706.1.S1_X_AT similar to histone H2B.8 - chicken gga
CHICKEN:GGAAFFX.26706.1.S1_AT similar to histone H2B.8 - chicken gga
CHICKEN:GGAAFFX.26706.1.S1_X_AT similar to histone H2B.8 - chicken gga
HG-U133_PLUS_2:208527_X_AT histone 1, H2be hs
HG-U133A:208527_X_AT histone 1, H2be hs
HG-FOCUS:208527_X_AT histone 1, H2be hs
HG-U133A_2:208527_X_AT histone 1, H2be hs
HUGENEFL:Z80780_F_AT histone 1, H2be hs
U133_X3P:G4504266_3P_X_AT histone 1, H2be hs
U133_X3P:208527_3P_X_AT histone 1, H2be hs
HG-U95AV2:31523_F_AT histone 1, H2be hs
HG-U133_PLUS_2:208527_X_AT histone 1, H2be hs
HG-U133A:208527_X_AT histone 1, H2be hs
HG-FOCUS:208527_X_AT histone 1, H2be hs
HG-U133A_2:208527_X_AT histone 1, H2be hs
HUGENEFL:Z80780_F_AT histone 1, H2be hs
U133_X3P:G4504266_3P_X_AT histone 1, H2be hs
U133_X3P:208527_3P_X_AT histone 1, H2be hs
HG-U95AV2:31523_F_AT histone 1, H2be hs
MU11KSUBB:MSA.1311.0_AT histone 1, H2bf mm
MU11KSUBB:MSA.1311.0_AT histone 1, H2bj mm
MU11KSUBB:MSA.1311.0_AT histone 1, H2bk mm
MOE430A:1452540_A_AT histone 1, H2bl mm
MOUSE430A_2:1452540_A_AT histone 1, H2bl mm
MOUSE430_2:1452540_A_AT histone 1, H2bl mm
MU11KSUBB:MSA.1311.0_AT histone 1, H2bl mm
MU11KSUBB:MSA.1311.0_AT histone 1, H2bn mm
MU11KSUBB:MSA.1311.0_AT histone 1, H2bf mm
MU11KSUBB:MSA.1311.0_AT histone 1, H2bj mm
MU11KSUBB:MSA.1311.0_AT histone 1, H2bk mm
MOE430A:1452540_A_AT histone 1, H2bl mm
MOUSE430A_2:1452540_A_AT histone 1, H2bl mm
MOUSE430_2:1452540_A_AT histone 1, H2bl mm
MU11KSUBB:MSA.1311.0_AT histone 1, H2bl mm
MU11KSUBB:MSA.1311.0_AT histone 1, H2bn mm
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 CAA97413 Hypothetical protein B0035.8 [Caenorhabditis elegans] emb|CAB07220.1| Hypothetical protein H02I12.6 [Caenorhabditis elegans] emb|CAB05211.1| Hypothetical protein F54E12.4 [Caenorhabditis elegans] gb|AAB00648.1| Histone protein 62 [Caenorhabditis elegans] ref|NP_502149.1| HIStone family member (his-66) [Caenorhabditis elegans] ref|NP_501202.1| F55G1.3 [Caenorhabditis elegans] ref|NP_502140.1| HIStone family member (his-58) [Caenorhabditis elegans] ref|NP_502132.1| HIStone family member (his-48) [Caenorhabditis elegans] sp|Q27876|H2B4_CAEEL Probable histone H2B 7.0E-50
Protein Domains
Database ID Description E-Value
Pfam IPR007125 EMBL-EBI Histone core 8.6E-54
Sequence
Target Sequence 
>C. ELEGANS:172758_X_AT
accaaagccatctgccaagggagccaagaaggccgccaagaccgtcgttgccaagccaaa
ggacggaaagaagagacgtcatgcccgcaaggaatcgtactccgtctacatctaccgtgt
tctcaagcaagttcacccagacaccggagtctcctccaaggccatgtctatcatgaactc
cttcgtcaatgatgtattcgaacgcatcgcttcggaagcttcccgtcttgctcattacaa
caaacgctcaacgatctcatcccgcgaaattcaaaccgctgtccgtttgattctcccagg
agaacttgccaagcacgccgtgtctgaggga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACCAAAGCCATCTGCCAAGGGAGCC 675 83 18 Antisense
GTCATGCCCGCAAGGAATCGTACTC 360 467 95 Antisense
TCTACATCTACCGTGTTCTCAAGCA 701 613 122 Antisense
TTCTCAAGCAAGTTCACCCAGACAC 526 691 137 Antisense
GTCTATCATGAACTCCTTCGTCAAT 559 469 183 Antisense
GAACGCATCGCTTCGGAAGCTTCCC 261 347 217 Antisense
TTCCCGTCTTGCTCATTACAACAAA 105 697 237 Antisense
CAACAAACGCTCAACGATCTCATCC 17 191 255 Antisense
ATCTCATCCCGCGAAATTCAAACCG 299 29 271 Antisense
TCTCCCAGGAGAACTTGCCAAGCAC 654 609 309 Antisense
TGCCAAGCACGCCGTGTCTGAGGGA 168 587 324 Antisense
Sequence Source Affymetrix Proprietary Database