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[172824_x_at] histone H2B

Description T10C6.11 /REP_DB=WormBase Gene ID /WP=CE16386 /GEN=his-4 /TR=Q9U373 /GB=CAB07654.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=histone H2B
Cluster 6grp_highest_10_10 > 88      6grp_high1_10_10 > 88      4grp_highest_8_8 > 11      4grp_high_8_8 > 47      6grp_highest_nonorm > 93      6grp_total > 88      4grp_total > 48      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 > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 723
1 2 3 4 range
A 134.7
(-3)
P 		634.9
(2)
P 		732
(3)
P 		287.9
(-1.5)
P 		597
B 106.3
(-3)
P 		625.1
(1.7)
P 		772
(3)
P 		190.2
(-2.2)
P 		666
C 137.3
(-3)
P 		644.3
(1.4)
P 		829.5
(3)
P 		307
(-1.5)
P 		692
avr 126.1
(-3) 		634.8
(1.7) 		777.8
(3) 		261.7
(-1.8) 		652

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 607
1 2 3 4 5 6 range
A 132.4
(-3)
P 		236
(-1.9)
P 		194
(-2.4)
P 		289.5
(-1.4)
P 		427
(0)
P 		719.8
(3)
P 		587
B 234.1
(-2.5)
P 		192.1
(-3)
P 		228
(-2.6)
P 		263.2
(-2.2)
P 		423.3
(-0.5)
P 		739.2
(3)
P 		547
C 256
(-1.6)
P 		156.3
(-3)
P 		162.1
(-2.9)
P 		195
(-2.4)
P 		572.6
(3)
P 		529.4
(2.4)
P 		416
avr 207.5
(-2.8) 		194.8
(-3) 		194.7
(-3) 		249.2
(-2.3) 		474.3
(0.6) 		662.8
(3) 		468
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 255
1 2 3 4 range
A 49
(-2.7)
P 		137.8
(0.8)
P 		191.4
(3)
P 		42.1
(-3)
P 		149
B 33.9
(-3)
P 		154.4
(2)
P 		178.9
(3)
P 		40.5
(-2.7)
P 		145
C 45.4
(-3)
P 		185.2
(0.4)
P 		289.1
(3)
P 		51.8
(-2.8)
P 		244
avr 42.8
(-3) 		159.1
(0.9) 		219.8
(3) 		44.8
(-2.9) 		177

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 251
1 2 3 4 5 6 range
A 24.4
(-3)
P 		83.9
(-0.6)
P 		42.3
(-2.3)
P 		73.4
(-1.1)
P 		128.8
(1.2)
P 		175.2
(3)
P 		151
B 81.4
(-2.3)
P 		63.9
(-2.8)
P 		55.4
(-3)
P 		69.7
(-2.6)
P 		172
(0.2)
P 		275.6
(3)
P 		220
C 94.9
(-0.7)
P 		47.7
(-2.7)
P 		41.3
(-2.9)
P 		39.2
(-3)
P 		185.3
(3)
P 		177.2
(2.7)
P 		146
avr 66.9
(-2.2) 		65.2
(-2.3) 		46.3
(-3) 		60.8
(-2.5) 		162
(1.3) 		209.3
(3) 		163
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172824_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12987
Sequence Type Exemplar sequence
Representative Public ID T10C6.11 NCBI
Target Description T10C6.11 /REP_DB=WormBase Gene ID /WP=CE16386 /GEN=his-4 /TR=Q9U373 /GB=CAB07654.1 /SUBMIT=HINXTON /CHR=5 /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_074630(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074630 NCBI Caenorhabditis elegans HIStone family member (his-4) (his-4) mRNA, complete cds. 11/11 None
SNAP00000027914 ENSEMBL cdna:SNAP chromosome:CEL140:V:16042727:16043152:-1 11/11 None
GENEFINDER00000027921 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:16042727:16043152:-1 11/11 None
T10C6.11 ENSEMBL cdna:known chromosome:CEL140:V:16042674:16043152:-1 gene:T10C6.11 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_072877 5/11 Cross Hyb Matching Probes A B 
NM_072893 4/11 Cross Hyb Matching Probes A B 
NM_068801 1/11 Cross Hyb Matching Probes A 
NM_072796 4/11 Cross Hyb Matching Probes A B 
NM_072894 4/11 Cross Hyb Matching Probes A B 
NM_069008 1/11 Cross Hyb Matching Probes A B 
NM_072800 3/11 Cross Hyb Matching Probes A 
NM_072878 5/11 Cross Hyb Matching Probes A B 
NM_069002 1/11 Cross Hyb Matching Probes A B 
SNAP00000000482 1/11 Cross Hyb Matching Probes None
GENEFINDER00000000503 1/11 Cross Hyb Matching Probes None
SNAP00000005172 1/11 Cross Hyb Matching Probes None
GENEFINDER00000005179 1/11 Cross Hyb Matching Probes None
SNAP00000039430 1/11 Cross Hyb Matching Probes None
GENEFINDER00000039441 1/11 Cross Hyb Matching Probes None
SNAP00000015094 5/11 Cross Hyb Matching Probes None
SNAP00000015095 5/11 Cross Hyb Matching Probes None
GENEFINDER00000015150 5/11 Cross Hyb Matching Probes None
GENEFINDER00000015153 5/11 Cross Hyb Matching Probes None
SNAP00000018185 5/11 Cross Hyb Matching Probes None
SNAP00000018186 5/11 Cross Hyb Matching Probes None
GENEFINDER00000018201 5/11 Cross Hyb Matching Probes None
GENEFINDER00000018208 5/11 Cross Hyb Matching Probes None
SNAP00000030771 4/11 Cross Hyb Matching Probes None
GENEFINDER00000030780 4/11 Cross Hyb Matching Probes None
GENEFINDER00000030783 3/11 Cross Hyb Matching Probes None
F55G1.3 1/11 Cross Hyb Matching Probes A 
F35H10.11 1/11 Cross Hyb Matching Probes A B 
F17E9.9 1/11 Cross Hyb Matching Probes A B 
F45F2.12 4/11 Cross Hyb Matching Probes A B 
F45F2.2 3/11 Cross Hyb Matching Probes A 
F07B7.4 5/11 Cross Hyb Matching Probes A B 
F07B7.11 5/11 Cross Hyb Matching Probes A B 
K06C4.12 4/11 Cross Hyb Matching Probes R A B 
K06C4.4 4/11 Cross Hyb Matching Probes A B 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:8895092-8895518(+) 98.36 98.36
chrV:8852997-8853423(+) 98.36 98.36
chrV:16042726-16043152(-) 100.0 100.0
chrV:8897688-8898114(-) 98.36 98.36
chrV:8855593-8856019(-) 98.36 98.36
chrV:8535304-8535726(-) 96.95 96.95
Public Domain and Genome References
Gene Title histone H2B
Gene Symbol his-4
Ensembl T10C6.11
Entrez Gene 180072 Entrez gene
SwissProt Q27894 EMBL-EBI
WormBase CE16386 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:249916_AT histone H2B, putative at
ATGENOME1:16921_AT histone H2B, putative at
CHICKEN:GGAAFFX.23665.1.S1_AT similar to H2B histone family, member F gga
CHICKEN:GGAAFFX.23665.1.S1_X_AT similar to H2B histone family, member F gga
HG-U133A:209911_X_AT histone 1, H2bd hs
HG-U133_PLUS_2:209911_X_AT histone 1, H2bd hs
HG-FOCUS:209911_X_AT histone 1, H2bd hs
HG-U133A_2:209911_X_AT histone 1, H2bd hs
HU35KSUBB:RC_N33927_S_AT histone 1, H2bd hs
HUGENEFL:M60751_AT histone 1, H2bd hs
U133_X3P:G12803984_3P_X_AT histone 1, H2bd hs
U133_X3P:G12803984_3P_AT histone 1, H2bd hs
U133_X3P:HS.180779.1.S1_3P_AT histone 1, H2bd hs
HG-U133A_2:222067_X_AT histone 1, H2bd hs
HG-U133_PLUS_2:222067_X_AT histone 1, H2bd hs
HG-U133A:222067_X_AT histone 1, H2bd hs
HG-U95AV2:38576_AT histone 1, H2bd hs
HG-U95E:88155_AT histone 1, H2bd hs
HG-U133_PLUS_2:235456_AT Histone 1, H2bd hs
HG-U133B:235456_AT Histone 1, H2bd hs
HU35KSUBD:RC_R41933_AT Histone 1, H2bd hs
U133_X3P:HS.140237.0.S1_3P_AT Histone 1, H2bd hs
U133_X3P:HS.130853.0.A1_3P_AT Histone 1, H2bd hs
HG-U133_PLUS_2:235681_AT Histone 1, H2bd hs
HG-U133B:235681_AT Histone 1, H2bd hs
HG-U95E:82094_I_AT Histone 1, H2bd hs
HG-U95E:82096_R_AT Histone 1, H2bd hs
HG-U95E:76922_R_AT Histone 1, H2bd hs
HG-U95E:82343_AT Histone 1, H2bd hs
MOE430A:1452540_A_AT histone 1, H2bm mm
MOUSE430A_2:1452540_A_AT histone 1, H2bm mm
MOUSE430_2:1452540_A_AT histone 1, H2bm mm
MU11KSUBB:MSA.1311.0_AT histone 1, H2bm 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 CAB07654 Hypothetical protein T10C6.11 [Caenorhabditis elegans] ref|NP_507031.1| HIStone family member (his-4) [Caenorhabditis elegans] 6.0E-59
blast AAK84513 Histone protein 52 [Caenorhabditis elegans] gb|AAK84507.1| Histone protein 54 [Caenorhabditis elegans] ref|NP_505279.1| HIStone family member (his-54) [Caenorhabditis elegans] ref|NP_505278.1| HIStone family member (his-52) [Caenorhabditis elegans] 2.0E-57
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
Protein Domains
Database ID Description E-Value
Pfam IPR007125 EMBL-EBI Histone core 8.9E-55
Sequence
Target Sequence 
>C. ELEGANS:172824_X_AT
catcaacccattctttacacttgtccaacgaccagtccaatcaatcgaaatggccccacc
aaagccgtctgctaaaggagcaaagaaagccgccaagaccgtcaccaagccaaaggacgg
aaagaagagacgtcatgcccgtaaagaatcctactctgtgtacatctaccgtgtactcaa
gcaggttcatccagacactggagtctcttccaaggctatgtctatcatgaactctttcgt
caacgacgtcttcgagcgtatcgctgctgaggcatctcgtcttgctcactacaacaagag
atccaccatctcttctcgcgaaattcaaactgccgtccgtttgattctgccaggagagct
tgccaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CATCAACCCATTCTTTACACTTGTC 576 213 18 Antisense
CTTGTCCAACGACCAGTCCAATCAA 671 217 37 Antisense
GAATCCTACTCTGTGTACATCTACC 113 331 163 Antisense
CCGTGTACTCAAGCAGGTTCATCCA 235 265 186 Antisense
GTCTCTTCCAAGGCTATGTCTATCA 204 471 220 Antisense
GTCTATCATGAACTCTTTCGTCAAC 556 469 237 Antisense
GTCAACGACGTCTTCGAGCGTATCG 25 465 256 Antisense
ATCTCGTCTTGCTCACTACAACAAG 50 31 291 Antisense
ACCATCTCTTCTCGCGAAATTCAAA 691 85 322 Antisense
CAAACTGCCGTCCGTTTGATTCTGC 69 193 343 Antisense
TGATTCTGCCAGGAGAGCTTGCCAA 524 563 359 Antisense
Sequence Source Affymetrix Proprietary Database