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[172774_x_at] histone H3 /// histone H3 /// histone H3

Description F54E12.1 /REP_DB=WormBase Gene ID /WP=CE03253 /TR=SW:P08898 /GB=CAB05209.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=histone H3
Cluster 6grp_highest_10_10 > 96      6grp_high1_10_10 > 69      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 68      6grp_total > 69      4grp_total > 02      6grp_highest_sub > Cu      6grp_cgc > 29      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1725
1 2 3 4 range
A 2567.9
(-0.9)
P 		2184
(-3)
P 		2859.7
(0.8)
P 		3264.1
(3)
P 		1080
B 2078
(-1.3)
P 		2120
(-1.1)
P 		1587.1
(-3)
P 		3311.6
(3)
P 		1725
C 1916.8
(-3)
P 		2312.2
(-1)
P 		2135.8
(-1.9)
P 		3088.8
(3)
P 		1172
avr 2187.6
(-3) 		2205.4
(-2.9) 		2194.2
(-3) 		3221.5
(3) 		1034

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2520
1 2 3 4 5 6 range
A 2555.9
(3)
P 		1547.3
(-3)
P 		1700.4
(-2.1)
P 		2087.2
(0.2)
P 		2199.1
(0.9)
P 		2355.5
(1.8)
P 		1009
B 2263.1
(-0.7)
P 		2036.3
(-1.2)
P 		1301.9
(-3)
P 		1792.7
(-1.8)
P 		2610.9
(0.2)
P 		3794
(3)
P 		2492
C 1650.2
(-1.5)
P 		2450.7
(1.6)
P 		1405.7
(-2.5)
P 		1274.5
(-3)
P 		1850.5
(-0.8)
P 		2819.2
(3)
P 		1545
avr 2156.4
(-0.3) 		2011.4
(-0.9) 		1469.3
(-3) 		1718.1
(-2) 		2220.2
(-0) 		2989.6
(3) 		1520
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 567
1 2 3 4 range
A 935
(3)
P 		474.1
(-3)
P 		747.6
(0.6)
P 		477.8
(-3)
P 		461
B 662.7
(2.2)
P 		523.6
(-0.2)
P 		367.8
(-3)
P 		705.7
(3)
P 		338
C 634.5
(0.1)
P 		664.8
(0.9)
P 		744.4
(3)
P 		520.8
(-3)
P 		224
avr 744.1
(3) 		554.2
(-3) 		619.9
(-0.9) 		568.1
(-2.6) 		190

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1159
1 2 3 4 5 6 range
A 471.2
(-0.9)
P 		550.3
(0.7)
P 		370.3
(-3)
P 		529.4
(0.3)
P 		663.6
(3)
P 		573.5
(1.2)
P 		293
B 787.5
(-0.4)
P 		677.8
(-1)
P 		316.1
(-3)
P 		474.8
(-2.1)
P 		1060.8
(1.1)
P 		1414.8
(3)
P 		1099
C 611.7
(0.1)
P 		747.8
(1.3)
P 		357.8
(-2.1)
P 		256.3
(-3)
P 		598.8
(-0)
P 		943.8
(3)
P 		688
avr 623.5
(-0.4) 		658.6
(-0) 		348.1
(-3) 		420.2
(-2.3) 		774.4
(1.1) 		977.4
(3) 		629
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172774_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9036
Sequence Type Exemplar sequence
Representative Public ID F54E12.1 NCBI
Target Description F54E12.1 /REP_DB=WormBase Gene ID /WP=CE03253 /TR=SW:P08898 /GB=CAB05209.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=histone H3
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_069752(10), NM_069733(11), NM_069737(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069752 NCBI Caenorhabditis elegans HIStone family member (his-63) (his-63) mRNA, complete cds. 10/11 A 
NM_069733 NCBI Caenorhabditis elegans HIStone family member (his-45) (his-45) mRNA, complete cds. 11/11 A 
NM_069737 NCBI Caenorhabditis elegans HIStone family member (his-55) (his-55) mRNA, complete cds. 11/11 A 
SNAP00000002621 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11337824:11338234:-1 11/11 None
GENEFINDER00000002632 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11337824:11338234:-1 11/11 None
SNAP00000028586 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11406422:11406832:-1 10/11 None
GENEFINDER00000028598 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11406422:11406832:-1 10/11 None
SNAP00000035840 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11326559:11326969:1 11/11 None
GENEFINDER00000035856 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11326559:11326969:1 11/11 None
B0035.10 ENSEMBL cdna:known chromosome:CEL140:IV:11326559:11326969:1 gene:B0035.10 11/11 A 
F54E12.1 ENSEMBL cdna:known chromosome:CEL140:IV:11337824:11338234:-1 gene:F54E12.1 11/11 A 
F22B3.2 ENSEMBL cdna:known chromosome:CEL140:IV:11406422:11406832:-1 gene:F22B3.2 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_068803 2/11 Cross Hyb Matching Probes A 
NM_065410 2/11 Cross Hyb Matching Probes A 
NM_072896 1/11 Cross Hyb Matching Probes A B 
NM_072875 1/11 Cross Hyb Matching Probes A B 
NM_069006 2/11 Cross Hyb Matching Probes A B 
NM_072891 1/11 Cross Hyb Matching Probes A B 
SNAP00000010986 6/11 Cross Hyb Matching Probes None
GENEFINDER00000010992 6/11 Cross Hyb Matching Probes None
SNAP00000016640 2/11 Cross Hyb Matching Probes None
GENEFINDER00000016651 2/11 Cross Hyb Matching Probes None
SNAP00000000480 2/11 Cross Hyb Matching Probes None
GENEFINDER00000000500 2/11 Cross Hyb Matching Probes None
SNAP00000005174 2/11 Cross Hyb Matching Probes None
GENEFINDER00000005184 2/11 Cross Hyb Matching Probes None
SNAP00000015092 1/11 Cross Hyb Matching Probes None
GENEFINDER00000015146 1/11 Cross Hyb Matching Probes None
SNAP00000018183 1/11 Cross Hyb Matching Probes None
SNAP00000018188 1/11 Cross Hyb Matching Probes None
GENEFINDER00000018196 1/11 Cross Hyb Matching Probes None
GENEFINDER00000018198 1/11 Cross Hyb Matching Probes None
W09H1.2 6/11 Cross Hyb Matching Probes A 
E03A3.3 2/11 Cross Hyb Matching Probes A 
F55G1.2 2/11 Cross Hyb Matching Probes A 
F17E9.10 2/11 Cross Hyb Matching Probes A B 
F07B7.5 1/11 Cross Hyb Matching Probes A B 
K06C4.13 1/11 Cross Hyb Matching Probes A B 
K06C4.5 1/11 Cross Hyb Matching Probes A B 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:13823541-13823952(+) 92.46 92.46
chrII:13820103-13820514(+) 92.46 92.46
chrIV:11326564-11326975(+) 100.0 100.0
chrIV:7488238-7488649(+) 95.38 95.38
chrIV:8334292-8334703(+) 93.92 93.92
chrII:13824742-13825153(-) 92.46 92.46
chrII:13828180-13828591(-) 91.97 91.97
chrIV:11337829-11338240(-) 100.0 100.0
chrIV:11406427-11406838(-) 98.78 98.78
Public Domain and Genome References
Gene Title histone H3
histone H3
histone H3
Gene Symbol his-45
his-63
his-55
Ensembl B0035.10
F54E12.1
F22B3.2
Entrez Gene 181821 Entrez gene
184804 Entrez gene
186250 Entrez gene
SwissProt P08898 EMBL-EBI
WormBase CE03253 Wormbase
CE03253 Wormbase
CE03253 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:252824_AT histone H3.2 at
CANINE_2:CFAAFFX.16507.1.S1_AT similar to histone 1, H2ai (predicted) cfa
CANINE_2:CFAAFFX.945.1.S1_AT similar to histone 1, H2ai (predicted) cfa
CANINE_2:CFAAFFX.945.1.S1_S_AT similar to histone 1, H2ai (predicted) cfa
HUGENEFL:M60746_AT histone 1, H3e hs
U133_X3P:HS.143522.0.S2_3P_AT histone 1, H3e hs
HG-U133A_2:214616_AT histone 1, H3e hs
HG-FOCUS:214616_AT histone 1, H3e hs
HG-U133_PLUS_2:214616_AT histone 1, H3e hs
HG-U133A:214616_AT histone 1, H3e hs
HG-U95AV2:35598_AT histone 1, H3e hs
HU35KSUBD:RC_AA400914_AT Histone 1, H3e hs
MG-U74AV2:93024_AT histone 1, H3g mm
MOE430A:1460314_S_AT histone 1, H3g mm
MOUSE430_2:1460314_S_AT histone 1, H3g mm
MOUSE430A_2:1460314_S_AT histone 1, H3g mm
MU11KSUBA:M32460_AT histone 1, H3g mm
MG-U74AV2:96416_F_AT histone 1, H3g mm
MG-U74AV2:93023_F_AT histone 1, H3g mm
MOE430A:1460314_S_AT histone 1, H3h mm
MOUSE430_2:1460314_S_AT histone 1, H3h mm
MOUSE430A_2:1460314_S_AT histone 1, H3h mm
MG-U74AV2:94756_AT histone 1, H3h mm
MOUSE430A_2:1427864_AT histone 1, H3h mm
MOE430A:1427864_AT histone 1, H3h mm
MOUSE430_2:1427864_AT histone 1, H3h mm
MU11KSUBA:M32461_S_AT histone 1, H3h mm
MG-U74AV2:96416_F_AT histone 1, H3h mm
MG-U74AV2:93023_F_AT histone 1, H3h mm
MOE430A:1431231_AT histone 1, H3h mm
MOUSE430A_2:1431231_AT histone 1, H3h mm
MOUSE430_2:1431231_AT histone 1, H3h mm
MOE430A:1460314_S_AT histone 1, H3i mm
MOUSE430_2:1460314_S_AT histone 1, H3i mm
MOUSE430A_2:1460314_S_AT histone 1, H3i mm
MG-U74AV2:94756_AT histone 1, H3i mm
MOUSE430A_2:1427864_AT histone 1, H3i mm
MOE430A:1427864_AT histone 1, H3i mm
MOUSE430_2:1427864_AT histone 1, H3i mm
MU11KSUBA:M32461_S_AT histone 1, H3i mm
MG-U74AV2:96416_F_AT histone 1, H3i mm
MG-U74AV2:93023_F_AT histone 1, H3i mm
MOE430A:1431231_AT histone 1, H3i mm
MOUSE430A_2:1431231_AT histone 1, H3i mm
MOUSE430_2:1431231_AT histone 1, H3i mm
MOE430A:1460314_S_AT histone 1, H3a mm
MOUSE430_2:1460314_S_AT histone 1, H3a mm
MOUSE430A_2:1460314_S_AT histone 1, H3a mm
MG-U74AV2:93023_F_AT histone 1, H3a mm
MOUSE430_2:1443475_AT Histone 1, H3i (Hist1h3i), mRNA mm
MOE430B:1443475_AT Histone 1, H3i (Hist1h3i), mRNA mm
MU19KSUBB:TC34010_AT Histone 1, H3i (Hist1h3i), mRNA mm
RG-U34A:U95113CDS_F_AT Histone H2a rn
RG-U34C:AA944116_F_AT Histone H2a rn
RAE230A:1371279_AT Histone H2a rn
RAT230_2:1371279_AT Histone H2a rn
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 CAB05834 Hypothetical protein ZK131.7 [Caenorhabditis elegans] emb|CAB05833.1| Hypothetical protein ZK131.3 [Caenorhabditis elegans] emb|CAB05831.1| Hypothetical protein ZK131.2 [Caenorhabditis elegans] emb|CAA97411.1| Hypothetical protein B0035.10 [Caenorhabditis elegans] emb|CAA92733.1| Hypothetical protein F22B3.2 [Caenorhabditis elegans] emb|CAB07653.1| Hypothetical protein T10C6.13 [Caenorhabditis elegans] emb|CAB05209.1| Hypothetical protein F54E12.1 [Caenorhabditis elegans] emb|CAB04057.1| Hypothetical protein F08G2.3 [Caenorhabditis elegans] gb|AAC05102.1| Histone protein 32 [Caenorhabditis elegans] gb|AAK84514.1| Histone protein 49 [Caenorhabditis elegans] gb|AAF98226.1| Histone protein 17 [Caenorhabditis elegans] gb|AAF98231.1| Histone protein 27 [Caenorhabditis elegans] emb|CAA33644.1| Histone protein [Caenorhabditis elegans] gb|AAB00650.1| Histone protein 59 [Caenorhabditis elegans] gb|AAC48033.1| Histone protein 6 [Caenorhabditis elegans] ref|NP_505292.1| HIStone family member (his-27) [Caenorhabditis elegans] ref|NP_505297.1| HIStone family member (his-17) [Caenorhabditis elegans] ref|NP_496890.1| HIStone family member (his-13) [Caenorhabditis elegans] ref|NP_505199.1| HIStone family member (his-6) [Caenorhabditis elegans] ref|NP_501204.1| F55G1.2 [Caenorhabditis elegans] ref|NP_502138.1| HIStone family member (his-55) [Caenorhabditis elegans] ref|NP_502153.1| HIStone family member (his-63) [Caenorhabditis elegans] ref|NP_496899.1| HIStone family member (his-42) [Caenorhabditis elegans] ref|NP_505276.1| HIStone family member (his-49) [Caenorhabditis elegans] ref|NP_502134.1| HIStone family member (his-45) [Caenorhabditis elegans] ref|NP_507033.1| HIStone family member (his-2) [Caenorhabditis elegans] ref|NP_501407.1| HIStone family member (his-32) [Caenorhabditis elegans] ref|NP_496895.1| HIStone family member (his-25) [Caenorhabditis elegans] ref|NP_496894.1| HIStone family member (his-9) [Caenorhabditis elegans] gb|AAG50235.1| histone H3 [Caenorhabditis elegans] pir||HSKW3 histone H3 - Caenorhabditis elegans 5.0E-70
Protein Domains
Database ID Description E-Value
Pfam IPR007125 EMBL-EBI Histone core 1.6E-29
Sequence
Target Sequence 
>C. ELEGANS:172774_X_AT
aagcaattggccaccaaagctgcccgcaaatcggctccagcttccggaggagtcaagaaa
ccacatcgttatcgcccaggaaccgtcgctcttcgtgagatcagacgttaccagaaatca
accgaacttctaatccgcagagcaccattccagcgccttgttcgtgagattgctcaggat
ttcaagaccgatcttcgattccaatcttccgctgtcatggctcttcaggaggctgccgag
gcttaccttgtcggactcttcgaggacaccaacttgtgtgccatccacgctaagcgagtc
accatcatgccaaaggat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGCAATTGGCCACCAAAGCTGCCC 121 151 67 Antisense
CAAGAAACCACATCGTTATCGCCCA 279 185 120 Antisense
GTCGCTCTTCGTGAGATCAGACGTT 426 475 151 Antisense
CAACCGAACTTCTAATCCGCAGAGC 452 187 185 Antisense
TCCAGCGCCTTGTTCGTGAGATTGC 95 587 215 Antisense
AAGACCGATCTTCGATTCCAATCTT 709 153 250 Antisense
TTCAGGAGGCTGCCGAGGCTTACCT 561 683 290 Antisense
TTACCTTGTCGGACTCTTCGAGGAC 554 681 309 Antisense
GAGGACACCAACTTGTGTGCCATCC 305 405 328 Antisense
GTGCCATCCACGCTAAGCGAGTCAC 148 479 344 Antisense
GCGAGTCACCATCATGCCAAAGGAT 188 291 360 Antisense
Sequence Source Affymetrix Proprietary Database