[Home] | [Total List]

[172874_x_at] --- /// --- /// histone H2B /// histone H2B /// histone H2B

Description F45F2.12 /REP_DB=WormBase Gene ID /WP=CE10538 /GEN=his-8 /TR=Q27894 /GB=AAC48023.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=histone H2B
Cluster 6grp_highest_10_10 > 79      6grp_high1_10_10 > 98      4grp_highest_8_8 > 10      4grp_high_8_8 > 55      6grp_highest_nonorm > 99      6grp_total > 97      4grp_total > 56      6grp_highest_sub > In      6grp_cgc > 69      6grp_high1_sub > In      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 2477
1 2 3 4 range
A 506.3
(-3)
P 		2080.7
(0.8)
P 		2983.7
(3)
P 		511.5
(-3)
P 		2477
B 526.6
(-3)
P 		1612.6
(0.1)
P 		2635.2
(3)
P 		520.2
(-3)
P 		2115
C 560.3
(-3)
P 		1868.2
(2.1)
P 		2110.8
(3)
P 		643.1
(-2.7)
P 		1551
avr 531.1
(-3) 		1853.8
(0.9) 		2576.6
(3) 		558.3
(-2.9) 		2046

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2251
1 2 3 4 5 6 range
A 750.8
(-2.8)
P 		708.7
(-2.9)
P 		663.1
(-3)
P 		1179.8
(-1.6)
P 		1716.3
(-0.1)
P 		2831.4
(3)
P 		2168
B 580.9
(-3)
P 		588.9
(-3)
P 		591.9
(-3)
P 		1041
(-0.9)
P 		1569.3
(1.4)
P 		1919.1
(3)
P 		1338
C 742.2
(-2.8)
P 		698.2
(-3)
P 		1004.1
(-1.8)
P 		919.1
(-2.1)
P 		2174.9
(3)
P 		2124.6
(2.8)
P 		1477
avr 691.3
(-2.9) 		665.3
(-3) 		753
(-2.7) 		1046.6
(-1.6) 		1820.2
(1.3) 		2291.7
(3) 		1626
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 705
1 2 3 4 range
A 184.4
(-2.1)
P 		451.7
(0.2)
P 		780
(3)
P 		74.9
(-3)
P 		705
B 167.9
(-2.3)
P 		398.3
(0.5)
P 		610.6
(3)
P 		110.9
(-3)
P 		500
C 185.5
(-2.3)
P 		537.1
(1.1)
P 		735.7
(3)
P 		108.4
(-3)
P 		627
avr 179.3
(-2.2) 		462.4
(0.6) 		708.8
(3) 		98.1
(-3) 		611

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 577
1 2 3 4 5 6 range
A 138.4
(-3)
P 		252.1
(-1.8)
P 		144.4
(-2.9)
P 		299.2
(-1.2)
P 		517.9
(1.1)
P 		689.4
(3)
P 		551
B 202.1
(-2.4)
P 		196
(-2.5)
P 		143.7
(-3)
P 		275.7
(-1.6)
P 		637.6
(2.2)
P 		715.6
(3)
P 		572
C 275.1
(-2)
P 		213.1
(-2.7)
P 		255.6
(-2.2)
P 		184.8
(-3)
P 		703.8
(2.9)
P 		711.2
(3)
P 		526
avr 205.2
(-2.7) 		220.4
(-2.6) 		181.2
(-3) 		253.2
(-2.2) 		619.8
(2) 		705.4
(3) 		524
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172874_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11782
Sequence Type Exemplar sequence
Representative Public ID F45F2.12 NCBI
Target Description F45F2.12 /REP_DB=WormBase Gene ID /WP=CE10538 /GEN=his-8 /TR=Q27894 /GB=AAC48023.1 /SUBMIT=ST.LOUIS /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_072877(10), NM_072893(10), NM_072796(11), NM_072894(10), NM_072878(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072877 NCBI Caenorhabditis elegans HIStone family member (his-52) (his-52) mRNA, complete cds. 10/11 A 
NM_072893 NCBI Caenorhabditis elegans HIStone family member (his-22) (his-22) mRNA, complete cds. 10/11 A 
NM_072796 NCBI Caenorhabditis elegans HIStone family member (his-8) (his-8) mRNA, complete cds. 11/11 A 
NM_072894 NCBI Caenorhabditis elegans HIStone family member (his-20) (his-20) mRNA, complete cds. 10/11 A 
NM_072878 NCBI Caenorhabditis elegans HIStone family member (his-54) (his-54) mRNA, complete cds. 10/11 A 
SNAP00000015094 ENSEMBL cdna:SNAP chromosome:CEL140:V:8852997:8853422:1 10/11 None
SNAP00000015095 ENSEMBL cdna:SNAP chromosome:CEL140:V:8855593:8856018:-1 10/11 None
GENEFINDER00000015150 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8855593:8856018:-1 10/11 None
GENEFINDER00000015153 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8852997:8853422:1 10/11 None
SNAP00000018185 ENSEMBL cdna:SNAP chromosome:CEL140:V:8895092:8895517:1 10/11 None
SNAP00000018186 ENSEMBL cdna:SNAP chromosome:CEL140:V:8897688:8898113:-1 10/11 None
GENEFINDER00000018201 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8897688:8898113:-1 10/11 None
GENEFINDER00000018208 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8895092:8895517:1 10/11 None
SNAP00000030771 ENSEMBL cdna:SNAP chromosome:CEL140:V:8535304:8535675:-1 11/11 None
GENEFINDER00000030780 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8535304:8535675:-1 11/11 None
F45F2.12 ENSEMBL cdna:known chromosome:CEL140:V:8535304:8535675:-1 gene:F45F2.12 11/11 A 
F07B7.4 ENSEMBL cdna:known chromosome:CEL140:V:8852997:8853422:1 gene:F07B7.4 10/11 A 
F07B7.11 ENSEMBL cdna:known chromosome:CEL140:V:8855593:8856018:-1 gene:F07B7.11 10/11 A 
K06C4.12 ENSEMBL cdna:known chromosome:CEL140:V:8895146:8895517:1 gene:K06C4.12 10/11 A 
K06C4.4 ENSEMBL cdna:known chromosome:CEL140:V:8897688:8898059:-1 gene:K06C4.4 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_068801 2/11 Cross Hyb Matching Probes A 
NM_069008 2/11 Cross Hyb Matching Probes A B 
NM_072800 6/11 Cross Hyb Matching Probes A 
NM_074630 3/11 Cross Hyb Matching Probes A B 
NM_069002 2/11 Cross Hyb Matching Probes A B 
SNAP00000000482 2/11 Cross Hyb Matching Probes None
GENEFINDER00000000503 2/11 Cross Hyb Matching Probes None
SNAP00000005172 2/11 Cross Hyb Matching Probes None
GENEFINDER00000005179 2/11 Cross Hyb Matching Probes None
SNAP00000039430 2/11 Cross Hyb Matching Probes None
GENEFINDER00000039441 2/11 Cross Hyb Matching Probes None
SNAP00000027914 3/11 Cross Hyb Matching Probes None
GENEFINDER00000027921 3/11 Cross Hyb Matching Probes None
GENEFINDER00000030783 6/11 Cross Hyb Matching Probes None
F55G1.3 2/11 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 
F45F2.2 6/11 Cross Hyb Matching Probes A 
T10C6.11 3/11 Cross Hyb Matching Probes A B 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:8335962-8336328(+) 90.05 90.05
chrV:8895146-8895518(+) 99.46 99.46
chrV:8853051-8853423(+) 99.46 99.46
chrIV:8331031-8331397(-) 90.05 90.05
chrV:8535304-8535676(-) 100.0 100.0
chrV:8897688-8898060(-) 99.46 99.46
chrV:8855593-8855965(-) 99.46 99.46
chrV:16042726-16043098(-) 98.12 98.12
Public Domain and Genome References
Gene Title

histone H2B
histone H2B
histone H2B
Gene Symbol his-54
his-52
his-8
his-22
his-20
Ensembl F45F2.12
F07B7.4
F07B7.11
K06C4.12
K06C4.4
Entrez Gene 179262 Entrez gene
179266 Entrez gene
184117 Entrez gene
191670 Entrez gene
191675 Entrez gene
SwissProt Q27894 EMBL-EBI
WormBase CE26800 Wormbase
CE26800 Wormbase
CE10538 Wormbase
CE10538 Wormbase
CE10538 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:249916_AT histone H2B, putative at
ATGENOME1:16921_AT histone H2B, putative at
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
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
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
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 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] 6.0E-59
Protein Domains
Database ID Description E-Value
Pfam IPR007125 EMBL-EBI Histone core 8.9E-55
Pfam IPR007125 EMBL-EBI Histone core 8.9E-55
Sequence
Target Sequence 
>C. ELEGANS:172874_X_AT
aagaatcctactccgtgtacatctaccgtgtgctcaagcaggttcatccagacactggag
tctcttccaaggctatgtccatcatgaactctttcgtcaacgacgtcttcgagcgtatcg
ctgctgaagcatctcgtcttgctcactacaacaagagatccaccatctcttctcgcgaaa
ttcaaactgccgtccgtttgattcttccaggagagcttgccaagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGAATCCTACTCCGTGTACATCTA 243 151 107 Antisense
TGTACATCTACCGTGTGCTCAAGCA 616 559 122 Antisense
GCTCAAGCAGGTTCATCCAGACACT 117 303 138 Antisense
TCTCTTCCAAGGCTATGTCCATCAT 209 613 167 Antisense
GTCCATCATGAACTCTTTCGTCAAC 173 477 183 Antisense
GTCAACGACGTCTTCGAGCGTATCG 22 465 202 Antisense
GTATCGCTGCTGAAGCATCTCGTCT 681 453 221 Antisense
ATCTCGTCTTGCTCACTACAACAAG 46 31 237 Antisense
ACCATCTCTTCTCGCGAAATTCAAA 687 85 268 Antisense
CAAACTGCCGTCCGTTTGATTCTTC 65 193 289 Antisense
ATTCTTCCAGGAGAGCTTGCCAAGC 538 7 307 Antisense
Sequence Source Affymetrix Proprietary Database