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[172778_x_at] histone H2A

Description T23D8.6 /REP_DB=WormBase Gene ID /WP=CE04501 /TR=SW:P09588 /GB=CAB03399.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=histone H2A
Cluster 6grp_highest_10_10 > 79      6grp_high1_10_10 > 97      4grp_highest_8_8 > 11      4grp_high_8_8 > 47      6grp_highest_nonorm > 96      6grp_total > 88      4grp_total > 41      6grp_highest_sub > In      6grp_cgc > 58      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 945
1 2 3 4 range
A 603.4
(-3)
P 		1287.7
(1.4)
P 		1546.6
(3)
P 		1119.2
(0.3)
P 		943
B 601.3
(-3)
P 		959.1
(0.4)
P 		1231.9
(3)
P 		958
(0.4)
P 		631
C 665.9
(-3)
P 		1251.2
(3)
P 		1142.7
(1.9)
P 		733.1
(-2.3)
P 		585
avr 623.5
(-3) 		1166
(1.8) 		1307.1
(3) 		936.8
(-0.3) 		684

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 739
1 2 3 4 5 6 range
A 495.8
(-3)
P 		757.9
(-0.9)
P 		810.2
(-0.4)
P 		773.4
(-0.7)
P 		861.4
(-0)
P 		1234.7
(3)
P 		739
B 591.1
(-3)
P 		711.3
(-1.5)
P 		692.6
(-1.7)
P 		654.5
(-2.2)
P 		942
(1.5)
P 		1058.5
(3)
P 		467
C 612.8
(-3)
P 		720.4
(-1.8)
P 		740.7
(-1.6)
P 		680.4
(-2.3)
P 		1003.6
(1.3)
P 		1164.2
(3)
P 		551
avr 566.6
(-3) 		729.9
(-1.3) 		747.8
(-1.1) 		702.8
(-1.6) 		935.7
(0.8) 		1152.5
(3) 		586
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 281
1 2 3 4 range
A 219.7
(-1.6)
P 		279.5
(-0.1)
P 		404.3
(3)
P 		163.8
(-3)
P 		241
B 191.8
(-3)
P 		236.9
(-0.1)
P 		285.5
(3)
P 		204.1
(-2.2)
P 		94
C 220.4
(-0.9)
P 		359.7
(2.2)
P 		398.3
(3)
P 		123.6
(-3)
P 		275
avr 210.6
(-1.6) 		292
(0.9) 		362.7
(3) 		163.8
(-3) 		199

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 303
1 2 3 4 5 6 range
A 91.4
(-3)
P 		269.5
(2.1)
P 		176.4
(-0.6)
P 		196.1
(0)
P 		259.9
(1.8)
P 		300.6
(3)
P 		209
B 205.7
(-2)
P 		236.8
(-1.2)
P 		168.2
(-3)
P 		173.4
(-2.9)
P 		382.7
(2.7)
P 		394.7
(3)
P 		227
C 227.1
(-0.9)
P 		219.8
(-1)
P 		188.5
(-1.8)
P 		136.8
(-3)
P 		324.8
(1.5)
P 		389.7
(3)
P 		253
avr 174.7
(-2.8) 		242
(-0.7) 		177.7
(-2.7) 		168.8
(-3) 		322.5
(1.8) 		361.7
(3) 		193
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172778_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1697
Sequence Type Exemplar sequence
Representative Public ID T23D8.6 NCBI
Target Description T23D8.6 /REP_DB=WormBase Gene ID /WP=CE04501 /TR=SW:P09588 /GB=CAB03399.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=histone H2A
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_060241(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060241 NCBI Caenorhabditis elegans HIStone family member (his-68) (his-68) mRNA, complete cds. 11/11 None
SNAP00000036752 ENSEMBL cdna:SNAP chromosome:CEL140:I:9997253:9997636:1 11/11 None
GENEFINDER00000036755 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9997253:9997636:1 11/11 None
T23D8.6 ENSEMBL cdna:known chromosome:CEL140:I:9997253:9997636:1 gene:T23D8.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_069003 1/11 Cross Hyb Matching Probes A B 
NM_069007 1/11 Cross Hyb Matching Probes A B 
NM_068800 3/11 Cross Hyb Matching Probes A B 
NM_069749 3/11 Cross Hyb Matching Probes A B 
NM_064486 2/11 Cross Hyb Matching Probes A B 
NM_064490 2/11 Cross Hyb Matching Probes A B 
NM_064497 2/11 Cross Hyb Matching Probes A B 
NM_069730 3/11 Cross Hyb Matching Probes A B 
NM_069740 3/11 Cross Hyb Matching Probes A B 
SNAP00000009812 2/11 Cross Hyb Matching Probes None
SNAP00000009816 2/11 Cross Hyb Matching Probes None
GENEFINDER00000009836 2/11 Cross Hyb Matching Probes None
GENEFINDER00000009839 2/11 Cross Hyb Matching Probes None
SNAP00000034713 2/11 Cross Hyb Matching Probes None
GENEFINDER00000034721 2/11 Cross Hyb Matching Probes None
SNAP00000000481 1/11 Cross Hyb Matching Probes None
GENEFINDER00000000494 1/11 Cross Hyb Matching Probes None
SNAP00000002624 3/11 Cross Hyb Matching Probes None
GENEFINDER00000002630 3/11 Cross Hyb Matching Probes None
SNAP00000005171 3/11 Cross Hyb Matching Probes None
GENEFINDER00000005180 3/11 Cross Hyb Matching Probes None
SNAP00000035837 3/11 Cross Hyb Matching Probes None
GENEFINDER00000035847 3/11 Cross Hyb Matching Probes None
SNAP00000036324 3/11 Cross Hyb Matching Probes None
GENEFINDER00000036332 3/11 Cross Hyb Matching Probes None
SNAP00000039431 1/11 Cross Hyb Matching Probes None
GENEFINDER00000039433 1/11 Cross Hyb Matching Probes None
ZK131.10 2/11 Cross Hyb Matching Probes A B 
ZK131.6 2/11 Cross Hyb Matching Probes A B 
F08G2.2 2/11 Cross Hyb Matching Probes A B 
F55G1.10 3/11 Cross Hyb Matching Probes A 
F35H10.1 1/11 Cross Hyb Matching Probes A B 
F17E9.13 1/11 Cross Hyb Matching Probes A B 
B0035.7 3/11 Cross Hyb Matching Probes A B 
F54E12.5 3/11 Cross Hyb Matching Probes A B 
H02I12.7 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:11401068-11401452(+) 95.57 95.57
chrIV:11340388-11340772(+) 95.57 95.57
chrIV:8331653-8332037(+) 92.45 92.45
chrV:8535968-8536351(+) 90.36 90.36
chrI:9997183-9997567(+) 100.0 100.0
chrII:13827219-13827602(+) 92.45 92.45
chrIV:11324032-11324416(-) 95.57 95.57
chrIV:7485823-7486207(-) 94.27 94.27
chrIV:8335322-8335706(-) 92.45 92.45
chrII:13817653-13818037(-) 92.71 92.71
chrII:13821092-13821475(-) 92.45 92.45
Public Domain and Genome References
Gene Title histone H2A
Gene Symbol his-68
Ensembl T23D8.6
Entrez Gene 172860 Entrez gene
SwissProt P09588 EMBL-EBI
WormBase CE04501 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:256666_AT histone H2A, putative at
HG-U133_PLUS_2:215071_S_AT histone 1, H2ac hs
HG-U133A_2:215071_S_AT histone 1, H2ac hs
HG-FOCUS:215071_S_AT histone 1, H2ac hs
HG-U133A:215071_S_AT histone 1, H2ac hs
HU35KSUBB:RC_N50797_S_AT histone 1, H2ac hs
HUGENEFL:U90551_AT histone 1, H2ac hs
U133_X3P:HS.28777.3.A1_3P_A_AT histone 1, H2ac hs
HG-U95AV2:34308_AT histone 1, H2ac hs
RG-U34A:X59962CDS#2_AT testis-specific histone 2a rn
RAE230A:1382473_AT testis-specific histone 2a rn
RAT230_2:1382473_AT testis-specific histone 2a rn
RAE230A:1369893_AT testis-specific histone 2a rn
RAT230_2:1369893_AT testis-specific histone 2a 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 CAE60212 Hypothetical protein CBG03776 [Caenorhabditis briggsae] 9.0E-42
blast CAB05838 Hypothetical protein ZK131.10 [Caenorhabditis elegans] emb|CAB05836.1| Hypothetical protein ZK131.6 [Caenorhabditis elegans] emb|CAB03399.1| Hypothetical protein T23D8.6 [Caenorhabditis elegans] emb|CAA97414.1| Hypothetical protein B0035.7 [Caenorhabditis elegans] emb|CAB07656.1| Hypothetical protein T10C6.12 [Caenorhabditis elegans] emb|CAB07221.1| Hypothetical protein H02I12.7 [Caenorhabditis elegans] emb|CAB05212.1| Hypothetical protein F54E12.5 [Caenorhabditis elegans] emb|CAB04056.1| Hypothetical protein F08G2.2 [Caenorhabditis elegans] gb|AAC05100.1| Histone protein 33 [Caenorhabditis elegans] gb|AAK84512.1| Histone protein 53 [Caenorhabditis elegans] gb|AAK84506.1| Histone protein 51 [Caenorhabditis elegans] gb|AAF98219.1| Histone protein 21 [Caenorhabditis elegans] gb|AAF98222.1| Histone protein 19 [Caenorhabditis elegans] emb|CAA33641.1| histone protein [Caenorhabditis elegans] gb|AAB00647.1| Histone protein 61 [Caenorhabditis elegans] gb|AAA81686.1| Histone protein 30 [Caenorhabditis elegans] gb|AAC48024.1| Histone protein 7 [Caenorhabditis elegans] ref|NP_505296.1| HIStone family member (his-19) [Caenorhabditis elegans] ref|NP_501408.1| HIStone family member (his-33) [Caenorhabditis elegans] ref|NP_501404.1| HIStone family member (his-30) [Caenorhabditis elegans] ref|NP_505198.1| HIStone family member (his-7) [Caenorhabditis elegans] ref|NP_502150.1| HIStone family member (his-65) [Caenorhabditis elegans] ref|NP_505280.1| HIStone family member (his-53) [Caenorhabditis elegans] ref|NP_507032.1| HIStone family member (his-3) [Caenorhabditis elegans] ref|NP_505293.1| HIStone family member (his-21) [Caenorhabditis elegans] ref|NP_505277.1| HIStone family member (his-51) [Caenorhabditis elegans] ref|NP_502141.1| HIStone family member (his-57) [Caenorhabditis elegans] ref|NP_502131.1| HIStone family member (his-47) [Caenorhabditis elegans] ref|NP_501201.1| F55G1.10 [Caenorhabditis elegans] ref|NP_496898.1| HIStone family member (his-43) [Caenorhabditis elegans] ref|NP_496891.1| HIStone family member (his-12) [Caenorhabditis elegans] ref|NP_496887.1| HIStone family member (his-16) [Caenorhabditis elegans] ref|NP_492642.1| HIStone family member (his-68) [Caenorhabditis elegans] sp|P09588|H2A_CAEEL Histone H2A emb|CAE62045.1| Hypothetical protein CBG06061 [Caenorhabditis briggsae] emb|CAE61892.1| Hypothetical protein CBG05883 [Caenorhabditis briggsae] emb|CAE61866.1| Hypothetical protein CBG05844 [Caenorhabditis briggsae] emb|CAE75451.1| Hypothetical protein CBG23445 [Caenorhabditis briggsae] emb|CAE75446.1| Hypothetical protein CBG23440 [Caenorhabditis briggsae] emb|CAE75442.1| Hypothetical protein CBG23436 [Caenorhabditis briggsae] emb|CAE65734.1| Hypothetical protein CBG10817 [Caenorhabditis briggsae] emb|CAE58377.1| Hypothetical protein CBG01506 [Caenorhabditis briggsae] 1.0E-41
blast CAE58371 Hypothetical protein CBG01498 [Caenorhabditis briggsae] 3.0E-41
Protein Domains
Database ID Description E-Value
Pfam IPR007125 EMBL-EBI Histone core 3.6E-55
Sequence
Target Sequence 
>C. ELEGANS:172778_X_AT
gccaagtcacgctcgtcaagagctggacttcaattcccagtcggccgtcttcaccgtatt
cttcgcaaaggaaactatgctcaacgtgttggagccggagccccagtctacctggccgct
gttctcgaatacctcgctgctgaagttctcgagttggccggtaatgctgcccgtgacaac
aagaagacccgtatcgccccaagacatcttcaacttgctgtccgtaacgacgaagagctc
aacaagcttttggccggagtgacaatcgcacaaggaggagttcttccaaatatccaagcc
gttcttctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCAAGTCACGCTCGTCAAGAGCTG 674 277 58 Antisense
GAGCTGGACTTCAATTCCCAGTCGG 144 385 77 Antisense
TCTTCACCGTATTCTTCGCAAAGGA 220 615 105 Antisense
CGAATACCTCGCTGCTGAAGTTCTC 71 253 183 Antisense
GAAGTTCTCGAGTTGGCCGGTAATG 494 335 199 Antisense
GTAATGCTGCCCGTGACAACAAGAA 80 463 218 Antisense
GACAACAAGAAGACCCGTATCGCCC 151 365 232 Antisense
TCGCCCCAAGACATCTTCAACTTGC 211 599 251 Antisense
AACTTGCTGTCCGTAACGACGAAGA 513 137 269 Antisense
TTGGCCGGAGTGACAATCGCACAAG 291 709 307 Antisense
TCCAAATATCCAAGCCGTTCTTCTC 183 589 342 Antisense
Sequence Source Affymetrix Proprietary Database