[Home] | [Total List]

[172641_x_at] --- /// --- /// histone H2A /// histone H2A

Description K06C4.11 /REP_DB=WormBase Gene ID /WP=CE04501 /GEN=his-19 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=histone H2A
Cluster 6grp_highest_10_10 > 49      6grp_high1_10_10 > 93      4grp_highest_8_8 > 10      4grp_high_8_8 > 55      6grp_highest_nonorm > 49      6grp_total > 84      4grp_total > 48      6grp_highest_sub > 04_05_06      6grp_cgc > 77      6grp_high1_sub > 04      6grp_cgc_sub > 04_05_06      6grp_total_sub > Hat      6grp_rule_based > S5      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4688
1 2 3 4 range
A 2800.5
(-3)
P 		5494
(0.7)
P 		7224.5
(3)
P 		2929.8
(-2.8)
P 		4424
B 3145
(-3)
P 		4719.8
(-0.8)
P 		7488.1
(3)
P 		3202.1
(-2.9)
P 		4343
C 2832.7
(-3)
P 		4814.7
(0.8)
P 		5941
(3)
P 		3028
(-2.6)
P 		3108
avr 2926.1
(-3) 		5009.5
(0.2) 		6884.5
(3) 		3053.3
(-2.8) 		3958

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2563
1 2 3 4 5 6 range
A 4657.5
(-0.1)
P 		3486
(-3)
P 		4253.9
(-1.1)
P 		5870
(3)
P 		5752.6
(2.7)
P 		5055.1
(0.9)
P 		2384
B 3573.3
(-2.4)
P 		3388.4
(-3)
P 		3637.9
(-2.2)
P 		5209.6
(2.8)
P 		5258.1
(3)
P 		4813.4
(1.6)
P 		1870
C 3307.4
(-3)
P 		3520.4
(-2.3)
P 		4495
(0.8)
P 		4948.8
(2.2)
P 		5109
(2.7)
P 		5188
(3)
P 		1881
avr 3846.1
(-1.8) 		3464.9
(-3) 		4128.9
(-0.9) 		5342.8
(2.9) 		5373.2
(3) 		5018.8
(1.9) 		1908
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1642
1 2 3 4 range
A 1019.7
(-0.6)
P 		1192.6
(0.1)
P 		1888.6
(3)
P 		428.9
(-3)
P 		1460
B 1002.9
(-1.2)
P 		1165.7
(-0.2)
P 		1735.2
(3)
P 		682.4
(-3)
P 		1053
C 937.7
(-1.4)
P 		1384.3
(0.4)
P 		2070.6
(3)
P 		510.6
(-3)
P 		1560
avr 986.8
(-1) 		1247.5
(0.1) 		1898.1
(3) 		540.6
(-3) 		1358

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1278
1 2 3 4 5 6 range
A 858.6
(-3)
P 		1239.8
(-0.4)
P 		926.4
(-2.5)
P 		1488.8
(1.3)
P 		1735.9
(3)
P 		1230.8
(-0.5)
P 		877
B 1243.3
(-1.3)
P 		1127.9
(-1.8)
P 		883.4
(-3)
P 		1379.9
(-0.6)
P 		2136.3
(3)
P 		1794.9
(1.4)
P 		1253
C 1225.9
(-1.1)
P 		1074.2
(-2.4)
P 		1144
(-1.8)
P 		995.2
(-3)
P 		1653.2
(2.3)
P 		1736.7
(3)
P 		742
avr 1109.3
(-2.1) 		1147.3
(-1.9) 		984.6
(-3) 		1288
(-0.9) 		1841.8
(3) 		1587.5
(1.2) 		857
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172641_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11731
Sequence Type Exemplar sequence
Representative Public ID K06C4.11 NCBI
Target Description K06C4.11 /REP_DB=WormBase Gene ID /WP=CE04501 /GEN=his-19 /SUBMIT=ST.LOUIS /CHR=5 /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_072876(11), NM_072892(11), NM_072879(11), NM_072895(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072876 NCBI Caenorhabditis elegans HIStone family member (his-51) (his-51) mRNA, complete cds. 11/11 A 
NM_072892 NCBI Caenorhabditis elegans HIStone family member (his-21) (his-21) mRNA, complete cds. 11/11 A 
NM_072879 NCBI Caenorhabditis elegans HIStone family member (his-53) (his-53) mRNA, complete cds. 11/11 A 
NM_072895 NCBI Caenorhabditis elegans HIStone family member (his-19) (his-19) mRNA, complete cds. 11/11 A 
SNAP00000015093 ENSEMBL cdna:SNAP chromosome:CEL140:V:8852375:8852758:-1 11/11 None
SNAP00000015096 ENSEMBL cdna:SNAP chromosome:CEL140:V:8856257:8856640:1 11/11 None
GENEFINDER00000015145 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8856257:8856640:1 11/11 None
GENEFINDER00000015151 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8852375:8852758:-1 11/11 None
SNAP00000018184 ENSEMBL cdna:SNAP chromosome:CEL140:V:8894470:8894853:-1 11/11 None
SNAP00000018187 ENSEMBL cdna:SNAP chromosome:CEL140:V:8898352:8898735:1 11/11 None
GENEFINDER00000018197 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8898352:8898735:1 11/11 None
GENEFINDER00000018200 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8894470:8894853:-1 11/11 None
F07B7.10 ENSEMBL cdna:known chromosome:CEL140:V:8852375:8852758:-1 gene:F07B7.10 11/11 A 
F07B7.3 ENSEMBL cdna:known chromosome:CEL140:V:8856257:8856640:1 gene:F07B7.3 11/11 A 
K06C4.3 ENSEMBL cdna:known chromosome:CEL140:V:8894470:8894853:-1 gene:K06C4.3 11/11 A 
K06C4.11 ENSEMBL cdna:known chromosome:CEL140:V:8898352:8898735:1 gene:K06C4.11 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_072797 8/11 Cross Hyb Matching Probes A B 
NM_068800 1/11 Cross Hyb Matching Probes A B 
NM_069749 2/11 Cross Hyb Matching Probes A B 
NM_073062 2/11 Cross Hyb Matching Probes A 
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_074631 5/11 Cross Hyb Matching Probes A B 
NM_069730 2/11 Cross Hyb Matching Probes A B 
NM_069740 2/11 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
SNAP00000002624 2/11 Cross Hyb Matching Probes None
GENEFINDER00000002630 2/11 Cross Hyb Matching Probes None
SNAP00000005171 1/11 Cross Hyb Matching Probes None
GENEFINDER00000005180 1/11 Cross Hyb Matching Probes None
SNAP00000035837 2/11 Cross Hyb Matching Probes None
GENEFINDER00000035847 2/11 Cross Hyb Matching Probes None
SNAP00000036324 2/11 Cross Hyb Matching Probes None
GENEFINDER00000036332 2/11 Cross Hyb Matching Probes None
SNAP00000009316 2/11 Cross Hyb Matching Probes None
GENEFINDER00000009334 2/11 Cross Hyb Matching Probes None
SNAP00000027915 5/11 Cross Hyb Matching Probes None
GENEFINDER00000027922 5/11 Cross Hyb Matching Probes None
SNAP00000030772 8/11 Cross Hyb Matching Probes None
GENEFINDER00000030788 8/11 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 1/11 Cross Hyb Matching Probes A 
B0035.7 2/11 Cross Hyb Matching Probes A B 
F54E12.5 2/11 Cross Hyb Matching Probes A B 
H02I12.7 2/11 Cross Hyb Matching Probes A B 
F45F2.4 8/11 Cross Hyb Matching Probes A B 
C50F4.13.1 2/11 Cross Hyb Matching Probes A 
C50F4.13.2 2/11 Cross Hyb Matching Probes A 
C50F4.13.3 2/11 Cross Hyb Matching Probes A 
T10C6.12 5/11 Cross Hyb Matching Probes A B 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:8331653-8332036(+) 91.15 91.15
chrIV:11401068-11401448(+) 90.36 90.36
chrIV:11340388-11340768(+) 90.36 90.36
chrV:8898352-8898736(+) 100.0 100.0
chrV:8856257-8856641(+) 100.0 100.0
chrV:8535968-8536352(+) 99.22 99.22
chrV:16043390-16043774(+) 96.88 96.88
chrII:13827219-13827603(+) 91.93 91.93
chrIV:7485824-7486207(-) 91.67 91.67
chrIV:8335323-8335706(-) 91.15 91.15
chrIV:11324036-11324416(-) 90.36 90.36
chrV:8894470-8894854(-) 100.0 100.0
chrV:8852375-8852759(-) 100.0 100.0
chrII:13821091-13821475(-) 91.93 91.93
chrII:13817654-13818037(-) 91.67 91.67
Public Domain and Genome References
Gene Title

histone H2A
histone H2A
Gene Symbol his-51
his-53
his-19
his-21
Ensembl F07B7.10
F07B7.3
K06C4.3
K06C4.11
Entrez Gene 179261 Entrez gene
179265 Entrez gene
184112 Entrez gene
259800 Entrez gene
SwissProt P09588 EMBL-EBI
WormBase CE04501 Wormbase
CE04501 Wormbase
CE04501 Wormbase
CE04501 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:17944_AT histone H2A, putative at
ATH1-121501:253920_AT histone H2A, putative at
ATGENOME1:17944_AT histone H2A, putative at
ATH1-121501:253920_AT histone H2A, putative at
CANINE_2:CFAAFFX.17024.1.S1_AT similar to Histone H2A.1 cfa
CANINE_2:CFAAFFX.17664.1.S1_X_AT similar to Histone H2A.1 cfa
CANINE_2:CFAAFFX.17680.1.S1_X_AT similar to Histone H2A.1 cfa
CANINE_2:CFAAFFX.17024.1.S1_AT similar to Histone H2A.1 cfa
CANINE_2:CFAAFFX.17664.1.S1_X_AT similar to Histone H2A.1 cfa
CANINE_2:CFAAFFX.17680.1.S1_X_AT similar to Histone H2A.1 cfa
CHICKEN:GGAAFFX.23665.1.A1_AT similar to histone 2, H2ac gga
CHICKEN:GGAAFFX.23666.1.S1_AT similar to histone 2, H2ac gga
CHICKEN:GGAAFFX.23665.1.A1_AT similar to histone 2, H2ac gga
CHICKEN:GGAAFFX.23666.1.S1_AT similar to histone 2, H2ac gga
U133_X3P:HS.134999.0.S1_3P_AT Histone 1, H2am hs
HG-U133A_2:214481_AT Histone 1, H2am hs
HG-FOCUS:214481_AT Histone 1, H2am hs
HG-U133_PLUS_2:214481_AT Histone 1, H2am hs
HG-U133A:214481_AT Histone 1, H2am hs
HG-U95AV2:33023_AT Histone 1, H2am hs
U133_X3P:HS.134999.0.S1_3P_AT Histone 1, H2am hs
HG-U133A_2:214481_AT Histone 1, H2am hs
HG-FOCUS:214481_AT Histone 1, H2am hs
HG-U133_PLUS_2:214481_AT Histone 1, H2am hs
HG-U133A:214481_AT Histone 1, H2am hs
HG-U95AV2:33023_AT Histone 1, H2am hs
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
Protein Domains
Database ID Description E-Value
Pfam IPR007125 EMBL-EBI Histone core 3.6E-55
Sequence
Target Sequence 
>C. ELEGANS:172641_X_AT
aagtcccgctcatcaagagccggactccaattcccagttggtcgtcttcatcgtattctc
cgtaaaggaaactacgctcaacgtgttggagccggagccccagtttacctggctgctgtt
cttgagtacctcgctgctgaggttctcgagttggctggaaacgctgcccgtgacaacaag
aagaccagaattgccccaagacatctccaacttgccgtccgtaacgacgaggagttgaac
aaactgttggctggagtgaccatcgcccaaggaggagttctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGTCCCGCTCATCAAGAGCCGGAC 281 159 61 Antisense
TCCAATTCCCAGTTGGTCGTCTTCA 205 587 86 Antisense
TCGTCTTCATCGTATTCTCCGTAAA 392 605 102 Antisense
TTACCTGGCTGCTGTTCTTGAGTAC 188 683 165 Antisense
GAGTACCTCGCTGCTGAGGTTCTCG 315 399 184 Antisense
TCGAGTTGGCTGGAAACGCTGCCCG 378 595 206 Antisense
ACGCTGCCCGTGACAACAAGAAGAC 259 91 221 Antisense
AGACCAGAATTGCCCCAAGACATCT 132 71 242 Antisense
CCAACTTGCCGTCCGTAACGACGAG 377 275 267 Antisense
TGTTGGCTGGAGTGACCATCGCCCA 704 561 305 Antisense
GACCATCGCCCAAGGAGGAGTTCTT 366 381 318 Antisense
Sequence Source Affymetrix Proprietary Database