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[190805_at] histone H2A

Description C50F4.13 /REP_DB=WormBase Gene ID /WP=CE05477 /GEN=his-35 /TR=Q27485 /GB=CAA94747.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=histone H2A
Cluster 6grp_highest_10_10 > 02      6grp_high1_10_10 > 10      4grp_highest_8_8 > 14      4grp_high_8_8 > 14      6grp_highest_nonorm > 14      6grp_total > 23      4grp_total > 09      6grp_cgc > 60      6grp_total_sub > Decrease      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1331
1 2 3 4 range
A 3266.7
(-3)
P 		3938.7
(0.3)
P 		3749
(-0.6)
P 		4473.4
(3)
P 		1207
B 3690.8
(-2.4)
P 		3617.3
(-3)
P 		3763.5
(-1.8)
P 		4359.7
(3)
P 		742
C 3473.9
(-2.9)
P 		3462
(-3)
P 		3544
(-2.6)
P 		4598
(3)
P 		1136
avr 3477.1
(-3) 		3672.7
(-1.8) 		3685.5
(-1.7) 		4477
(3) 		1000

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2179
1 2 3 4 5 6 range
A 4279.1
(3)
P 		3855.8
(1.8)
P 		4169.3
(2.7)
P 		4283.9
(3)
P 		2532.9
(-1.8)
P 		2105.2
(-3)
P 		2179
B 4015.3
(3)
P 		3847.9
(2.4)
P 		3966.1
(2.8)
P 		3747.4
(2.1)
P 		2671.7
(-1.5)
P 		2234.2
(-3)
P 		1781
C 3840.6
(2.3)
P 		3760
(2)
P 		3907.5
(2.6)
P 		4014.7
(3)
P 		2803.6
(-1.6)
P 		2435.7
(-3)
P 		1579
avr 4045
(3) 		3821.2
(2.2) 		4014.3
(2.9) 		4015.3
(2.9) 		2669.4
(-1.6) 		2258.4
(-3) 		1787
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 580
1 2 3 4 range
A 1189.4
(3)
P 		855
(-0.8)
P 		980.1
(0.7)
P 		654.8
(-3)
P 		535
B 1177
(3)
P 		893.4
(-2.6)
P 		872.1
(-3)
P 		929.1
(-1.9)
P 		305
C 1150
(1.9)
P 		995.4
(-0.1)
P 		1235.2
(3)
P 		775.3
(-3)
P 		460
avr 1172.1
(3) 		914.6
(-1) 		1029.1
(0.8) 		786.4
(-3) 		386

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 911
1 2 3 4 5 6 range
A 788.8
(-1.1)
P 		1371.3
(3)
P 		908
(-0.2)
P 		1086.5
(1)
P 		764.3
(-1.2)
P 		512.5
(-3)
P 		859
B 1397.1
(3)
P 		1280.8
(1.8)
P 		963.1
(-1.6)
P 		992.5
(-1.3)
P 		1085.5
(-0.3)
P 		833.1
(-3)
P 		564
C 1423.5
(3)
P 		1147.3
(0.3)
P 		994.5
(-1.2)
P 		807.4
(-3)
P 		907.2
(-2)
P 		815.4
(-2.9)
P 		616
avr 1203.1
(2.3) 		1266.5
(3) 		955.2
(-0.4) 		962.1
(-0.3) 		919
(-0.8) 		720.3
(-3) 		546
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190805_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12376
Sequence Type Exemplar sequence
Representative Public ID C50F4.13 NCBI
Target Description C50F4.13 /REP_DB=WormBase Gene ID /WP=CE05477 /GEN=his-35 /TR=Q27485 /GB=CAA94747.1 /SUBMIT=HINXTON /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_073062(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073062 NCBI Caenorhabditis elegans HIStone family member (his-35) (his-35) mRNA, complete cds. 11/11 None
SNAP00000009316 ENSEMBL cdna:SNAP chromosome:CEL140:V:9547352:9547867:-1 11/11 None
GENEFINDER00000009334 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:9547352:9547867:-1 11/11 None
C50F4.13.1 ENSEMBL cdna:known chromosome:CEL140:V:9547134:9547872:-1 gene:C50F4.13 11/11 None
C50F4.13.2 ENSEMBL cdna:known chromosome:CEL140:V:9547134:9548119:-1 gene:C50F4.13 11/11 None
C50F4.13.3 ENSEMBL cdna:known chromosome:CEL140:V:9547235:9547872:-1 gene:C50F4.13 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:9547351-9547867(-) 100.0 100.0
Public Domain and Genome References
Gene Title histone H2A
Gene Symbol his-35
Ensembl C50F4.13
Entrez Gene 179339 Entrez gene
SwissProt Q27485 EMBL-EBI
WormBase CE05477 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264651_AT histone H2A, putative at
HUGENEFL:X14850_AT H2A histone family, member X hs
HG-U133A:205436_S_AT H2A histone family, member X hs
HG-U133_PLUS_2:205436_S_AT H2A histone family, member X hs
HG-U133A_2:205436_S_AT H2A histone family, member X hs
U133_X3P:G4504252_3P_A_AT H2A histone family, member X hs
U133_X3P:HS.147097.1.A1_3P_A_AT H2A histone family, member X hs
U133_X3P:212525_3P_S_AT H2A histone family, member X hs
HG-U133A_2:212525_S_AT H2A histone family, member X hs
HG-U133_PLUS_2:212525_S_AT H2A histone family, member X hs
HG-U133A:212525_S_AT H2A histone family, member X hs
HG-U95AV2:40195_AT H2A histone family, member X hs
HG-U133A_2:212524_X_AT H2A histone family, member X hs
HG-U133_PLUS_2:212524_X_AT H2A histone family, member X hs
HG-U133A:212524_X_AT H2A histone family, member X hs
HG-U133A_2:213344_S_AT H2A histone family, member X hs
HG-FOCUS:213344_S_AT H2A histone family, member X hs
HG-U133_PLUS_2:213344_S_AT H2A histone family, member X hs
HG-U133A:213344_S_AT H2A histone family, member X hs
HU35KSUBA:AA252929_AT H2A histone family, member X hs
U133_X3P:HS.147097.2.S1_3P_A_AT H2A histone family, member X hs
MU11KSUBA:AA269806_S_AT H2A histone family, member X mm
MU11KSUBB:X58069_S_AT H2A histone family, member X mm
MG-U74AV2:93019_AT H2A histone family, member X mm
MOE430A:1416746_AT H2A histone family, member X mm
MOUSE430A_2:1416746_AT H2A histone family, member X mm
MOUSE430_2:1416746_AT H2A histone family, member X mm
RG-U34A:RC_AA875257_AT similar to Histone H2A.x (H2a/x) rn
RAE230A:1390384_AT similar to Histone H2A.x (H2a/x) rn
RAT230_2:1390384_AT similar to Histone H2A.x (H2a/x) rn
RAE230B:1378847_X_AT similar to Histone H2A.x (H2a/x) rn
RAT230_2:1378847_X_AT similar to Histone H2A.x (H2a/x) rn
YEAST_2:1775235_AT One of two nearly identical (see also HTA1) histone H2A subtypes; core histone required for chromatin assembly and chromosome function; DNA damage-dependent phosphorylation by Mec1p facilitates DNA repair; acetylated by Nat4p Sc
YEAST_2:1777647_S_AT One of two nearly identical (see also HTA1) histone H2A subtypes; core histone required for chromatin assembly and chromosome function; DNA damage-dependent phosphorylation by Mec1p facilitates DNA repair; acetylated by Nat4p Sc
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 CAA94747 Hypothetical protein C50F4.13 [Caenorhabditis elegans] ref|NP_505463.1| HIStone family member (his-35) [Caenorhabditis elegans] 2.0E-41
blast CAE60212 Hypothetical protein CBG03776 [Caenorhabditis briggsae] 5.0E-41
Protein Domains
Database ID Description E-Value
Pfam IPR007125 EMBL-EBI Histone core 3.6E-55
Sequence
Target Sequence 
>C. ELEGANS:190805_AT
aagtcccgttcgtcgagagctggacttcaattcccagttggtcgtcttcatcgtattctc
cgtaaaggaaactacgcacaacgtgttggagcaggagcaccggtgtacctcgcagcagtt
ctggagtacctcgccgccgaagttctcgagttggctggaaacgctgcccgtgacaacaag
aaaacccgtattgcaccaagacatctccaactcgctgtccgtaatgacgaggaatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGTCCCGTTCGTCGAGAGCTGGAC 497 155 61 Antisense
CCGTTCGTCGAGAGCTGGACTTCAA 270 261 66 Antisense
ACTACGCACAACGTGTTGGAGCAGG 570 101 131 Antisense
AACGTGTTGGAGCAGGAGCACCGGT 489 141 140 Antisense
TTGGAGCAGGAGCACCGGTGTACCT 307 709 146 Antisense
TGTACCTCGCAGCAGTTCTGGAGTA 309 557 164 Antisense
TCGCAGCAGTTCTGGAGTACCTCGC 684 597 170 Antisense
GACAACAAGAAAACCCGTATTGCAC 52 365 232 Antisense
AACCCGTATTGCACCAAGACATCTC 628 145 243 Antisense
TCCAACTCGCTGTCCGTAATGACGA 532 587 266 Antisense
TCGCTGTCCGTAATGACGAGGAATT 336 597 272 Antisense
Sequence Source Affymetrix Proprietary Database