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[172702_x_at] Histone

Description F55G1.3 /REP_DB=WormBase Gene ID /WP=CE05165 /TR=Q27876 /GB=AAB00648.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=Histone
Cluster 6grp_highest_10_10 > 88      6grp_high1_10_10 > 97      4grp_highest_8_8 > 11      4grp_high_8_8 > 55      6grp_highest_nonorm > 93      6grp_total > 97      4grp_total > 48      6grp_highest_sub > Da      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.
4 675
1 2 3 4 range
A 301.7
(-2.5)
P 		377.2
(-1.8)
P 		857.8
(3)
P 		254.1
(-3)
P 		604
B 182.7
(-3)
P 		549.9
(1.9)
P 		634.1
(3)
P 		361.8
(-0.6)
P 		451
C 229
(-3)
P 		566.3
(1.9)
P 		642.9
(3)
P 		300.3
(-2)
P 		414
avr 237.8
(-3) 		497.8
(0.3) 		711.6
(3) 		305.4
(-2.1) 		474

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 532
1 2 3 4 5 6 range
A 349.2
(-1.5)
P 		213.3
(-3)
P 		365.9
(-1.3)
P 		351.3
(-1.4)
P 		367.7
(-1.3)
P 		744.8
(3)
P 		532
B 291.9
(-2.6)
P 		321.9
(-2)
P 		270.4
(-3)
P 		422.9
(0)
P 		514.4
(1.8)
P 		572.4
(3)
P 		302
C 268.3
(-2.6)
P 		286.4
(-2.2)
P 		248.9
(-3)
P 		382.7
(-0.2)
P 		515.9
(2.6)
P 		535.1
(3)
P 		286
avr 303.1
(-2.5) 		273.9
(-3) 		295.1
(-2.6) 		385.6
(-1) 		466
(0.4) 		617.4
(3) 		344
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 187
1 2 3 4 range
A 109.9
(-0.7)
P 		81.9
(-1.6)
P 		224.2
(3)
P 		37.2
(-3)
P 		187
B 58.3
(-3)
P 		135.8
(2.2)
P 		146.9
(3)
P 		77.1
(-1.7)
P 		89
C 75.8
(-2.1)
P 		162.8
(0.9)
P 		224.1
(3)
P 		50.6
(-3)
P 		174
avr 81.3
(-1.9) 		126.8
(0) 		198.4
(3) 		55
(-3) 		143

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 150
1 2 3 4 5 6 range
A 64.4
(-3)
P 		75.9
(-2.4)
P 		79.7
(-2.2)
P 		89.1
(-1.7)
P 		111
(-0.6)
P 		181.3
(3)
P 		117
B 101.6
(-1.5)
P 		107.2
(-1.3)
P 		65.7
(-3)
P 		112
(-1.1)
P 		209
(2.8)
P 		213.4
(3)
P 		148
C 99.5
(-1.1)
P 		87.4
(-1.8)
P 		63.3
(-3)
P 		77
(-2.3)
P 		166.9
(2.4)
P 		179.1
(3)
P 		116
avr 88.5
(-2.1) 		90.2
(-2) 		69.6
(-3) 		92.7
(-1.9) 		162.3
(1.6) 		191.3
(3) 		122
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172702_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10299
Sequence Type Exemplar sequence
Representative Public ID F55G1.3 NCBI
Target Description F55G1.3 /REP_DB=WormBase Gene ID /WP=CE05165 /TR=Q27876 /GB=AAB00648.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=Histone
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_068801(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068801 NCBI Caenorhabditis elegans F55G1.3 (Histone) mRNA, complete cds. 11/11 None
SNAP00000005172 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7486529:7486900:1 11/11 None
GENEFINDER00000005179 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7486529:7487440:1 11/11 None
F55G1.3 ENSEMBL cdna:known chromosome:CEL140:IV:7486529:7486900:1 gene:F55G1.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_072877 1/11 Cross Hyb Matching Probes A B 
NM_072893 1/11 Cross Hyb Matching Probes A B 
NM_072796 1/11 Cross Hyb Matching Probes A B 
NM_072894 1/11 Cross Hyb Matching Probes A B 
NM_069008 3/11 Cross Hyb Matching Probes A B 
NM_069748 4/11 Cross Hyb Matching Probes A 
NM_064487 1/11 Cross Hyb Matching Probes A 
NM_064491 1/11 Cross Hyb Matching Probes A 
NM_064496 1/11 Cross Hyb Matching Probes A 
NM_072878 1/11 Cross Hyb Matching Probes A B 
NM_069002 3/11 Cross Hyb Matching Probes A B 
NM_069731 4/11 Cross Hyb Matching Probes A 
NM_069739 4/11 Cross Hyb Matching Probes A 
SNAP00000009813 1/11 Cross Hyb Matching Probes None
SNAP00000009817 1/11 Cross Hyb Matching Probes None
GENEFINDER00000009832 1/11 Cross Hyb Matching Probes None
GENEFINDER00000009842 1/11 Cross Hyb Matching Probes None
SNAP00000034712 1/11 Cross Hyb Matching Probes None
GENEFINDER00000034726 1/11 Cross Hyb Matching Probes None
SNAP00000000482 3/11 Cross Hyb Matching Probes None
GENEFINDER00000000503 3/11 Cross Hyb Matching Probes None
SNAP00000002623 4/11 Cross Hyb Matching Probes None
GENEFINDER00000002629 4/11 Cross Hyb Matching Probes None
SNAP00000035838 4/11 Cross Hyb Matching Probes None
GENEFINDER00000035849 4/11 Cross Hyb Matching Probes None
SNAP00000036323 4/11 Cross Hyb Matching Probes None
GENEFINDER00000036334 4/11 Cross Hyb Matching Probes None
SNAP00000039430 3/11 Cross Hyb Matching Probes None
GENEFINDER00000039441 3/11 Cross Hyb Matching Probes None
SNAP00000015094 1/11 Cross Hyb Matching Probes None
SNAP00000015095 1/11 Cross Hyb Matching Probes None
GENEFINDER00000015150 1/11 Cross Hyb Matching Probes None
GENEFINDER00000015153 1/11 Cross Hyb Matching Probes None
SNAP00000018185 1/11 Cross Hyb Matching Probes None
SNAP00000018186 1/11 Cross Hyb Matching Probes None
GENEFINDER00000018201 1/11 Cross Hyb Matching Probes None
GENEFINDER00000018208 1/11 Cross Hyb Matching Probes None
SNAP00000030771 1/11 Cross Hyb Matching Probes None
GENEFINDER00000030780 1/11 Cross Hyb Matching Probes None
ZK131.9 1/11 Cross Hyb Matching Probes A 
ZK131.5 1/11 Cross Hyb Matching Probes A 
F08G2.1 1/11 Cross Hyb Matching Probes A 
F35H10.11 3/11 Cross Hyb Matching Probes A B 
F17E9.9 3/11 Cross Hyb Matching Probes A B 
B0035.8 4/11 Cross Hyb Matching Probes A 
F54E12.4 4/11 Cross Hyb Matching Probes A 
H02I12.6 4/11 Cross Hyb Matching Probes A 
F45F2.12 1/11 Cross Hyb Matching Probes A B 
F07B7.4 1/11 Cross Hyb Matching Probes A B 
F07B7.11 1/11 Cross Hyb Matching Probes A B 
K06C4.12 1/11 Cross Hyb Matching Probes R A B 
K06C4.4 1/11 Cross Hyb Matching Probes A B 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:7486534-7486906(+) 100.0 100.0
chrIV:11324721-11325093(+) 94.89 94.89
chrIV:8335959-8336328(+) 91.94 91.94
chrIV:11400391-11400763(-) 94.62 94.62
chrIV:11339711-11340083(-) 94.62 94.62
chrIV:8331031-8331400(-) 91.94 91.94
Public Domain and Genome References
Gene Title Histone
Gene Symbol his-62
Ensembl F55G1.3
Entrez Gene 186326 Entrez gene
SwissProt Q27876 EMBL-EBI
WormBase CE05165 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:16975_AT histone H2B at
ATH1-121501:252561_AT histone H2B at
CANINE_2:CFAAFFX.17046.1.S1_AT similar to H2B histone family, member F cfa
CANINE_2:CFAAFFX.17046.1.S1_X_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
HG-U133_PLUS_2:208547_AT histone 1, H2bb hs
HG-U133A:208547_AT histone 1, H2bb hs
HG-FOCUS:208547_AT histone 1, H2bb hs
HG-U133A_2:208547_AT histone 1, H2bb hs
U133_X3P:G10800139_3P_X_AT histone 1, H2bb hs
U133_X3P:G10800139_3P_AT histone 1, H2bb hs
MG-U74AV2:101654_AT histone 1, H2bb 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 6.0E-50
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
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 1.0E-49
blast CAA94740 Hypothetical protein C50F4.5 [Caenorhabditis elegans] ref|NP_505464.1| HIStone family member (his-41) [Caenorhabditis elegans] sp|Q27484|H2B3_CAEEL Probable histone H2B 1.0E-49
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 2.0E-49
blast CAA94740 Hypothetical protein C50F4.5 [Caenorhabditis elegans] ref|NP_505464.1| HIStone family member (his-41) [Caenorhabditis elegans] sp|Q27484|H2B3_CAEEL Probable histone H2B 2.0E-49
Protein Domains
Database ID Description E-Value
Pfam IPR007125 EMBL-EBI Histone core 8.6E-54
Sequence
Target Sequence 
>C. ELEGANS:172702_X_AT
caagaaggccgctaagaccgtcgttgccaagccaaaggacggaaagaagagacgccatgc
ccgcaaggaatcgtactccgtctacatctaccgtgttctcaagcaagttcacccagacac
cggagtctcctcaaaggccatgtctatcatgaactccttcgtcaatgatgtcttcgaacg
catcgcctcggaagcttctcgtctcgctcactacaacaagcgttctaccatctcttctcg
cgaaattcaaaccgctgttcgtttgattcttccaggagagcttgccaagcacgccgtgtc
tgaggga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAGAAGGCCGCTAAGACCGTCGTT 127 185 42 Antisense
GCAAGGAATCGTACTCCGTCTACAT 111 321 104 Antisense
TCTACATCTACCGTGTTCTCAAGCA 703 613 122 Antisense
TTCTCAAGCAAGTTCACCCAGACAC 528 691 137 Antisense
GTCTCCTCAAAGGCCATGTCTATCA 205 471 166 Antisense
GAACTCCTTCGTCAATGATGTCTTC 488 349 192 Antisense
TACAACAAGCGTTCTACCATCTCTT 137 643 253 Antisense
TACCATCTCTTCTCGCGAAATTCAA 306 649 267 Antisense
CCGCTGTTCGTTTGATTCTTCCAGG 686 259 293 Antisense
TTCTTCCAGGAGAGCTTGCCAAGCA 152 689 308 Antisense
TGCCAAGCACGCCGTGTCTGAGGGA 170 587 324 Antisense
Sequence Source Affymetrix Proprietary Database