[Home] | [Total List]

[190658_at] Histone H3 similarity

Description F54C8.2 /REP_DB=WormBase Gene ID /WP=CE00188 /TR=SW:P34440 /GB=CAA80154.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Histone H3 similarity
Cluster 6grp_total > 97      4grp_total > 11      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 144
1 2 3 4 range
A 69.2
(-0.1)
A 		92.1
(1.5)
A 		29.6
(-3)
A 		112.9
(3)
P 		83
B 71.6
(-1.1)
A 		71.4
(-1.1)
A 		35.9
(-3)
A 		146.7
(3)
P 		111
C 33.7
(-3)
A 		53.6
(-2.1)
A 		68.9
(-1.5)
A 		173.8
(3)
P 		140
avr 58.2
(-2.2) 		72.4
(-1.3) 		44.8
(-3) 		144.5
(3) 		100

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 779
1 2 3 4 5 6 range
A 84.6
(-2.9)
A 		77.6
(-3)
A 		93.4
(-2.9)
P 		191.7
(-1.9)
P 		533.7
(1.2)
P 		727.4
(3)
P 		650
B 91.6
(-2.9)
M 		86.8
(-3)
P 		103.6
(-2.8)
P 		170
(-2.1)
P 		512.9
(1.6)
P 		644.2
(3)
P 		557
C 73.6
(-3)
A 		113.6
(-2.7)
P 		87.4
(-2.9)
M 		148.4
(-2.4)
P 		416.2
(-0.4)
P 		852.3
(3)
P 		779
avr 83.3
(-3) 		92.7
(-2.9) 		94.8
(-2.9) 		170
(-2.2) 		487.6
(0.7) 		741.3
(3) 		658
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 24
1 2 3 4 range
A 25.2
(3)
A 		20
(1.2)
A 		7.7
(-3)
A 		16.5
(0)
P 		18
B 22.8
(0.8)
A 		17.6
(-0.6)
A 		8.3
(-3)
A 		31.3
(3)
P 		23
C 11.2
(-3)
A 		15.4
(-1.6)
A 		24
(1.2)
A 		29.3
(3)
P 		18
avr 19.7
(0.1) 		17.7
(-0.9) 		13.3
(-3) 		25.7
(3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 270
1 2 3 4 5 6 range
A 15.6
(-3)
A 		27.6
(-2.6)
A 		20.3
(-2.8)
P 		48.6
(-1.8)
P 		161.1
(2.4)
P 		177.1
(3)
P 		162
B 31.9
(-2.8)
M 		28.9
(-2.9)
P 		25.2
(-3)
P 		45
(-2.4)
P 		208.4
(2.1)
P 		240.2
(3)
P 		215
C 27.3
(-2.9)
A 		34.7
(-2.7)
P 		22.2
(-3)
M 		29.8
(-2.8)
P 		134.7
(-0.4)
P 		285.3
(3)
P 		263
avr 24.9
(-2.9) 		30.4
(-2.8) 		22.6
(-3) 		41.1
(-2.5) 		168.1
(1.1) 		234.2
(3) 		212
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190658_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7669
Sequence Type Exemplar sequence
Representative Public ID F54C8.2 NCBI
Target Description F54C8.2 /REP_DB=WormBase Gene ID /WP=CE00188 /TR=SW:P34440 /GB=CAA80154.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Histone H3 similarity
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_066672(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066672 NCBI Caenorhabditis elegans F54C8.2 (F54C8.2) mRNA, complete cds. 11/11 None
SNAP00000014859 ENSEMBL cdna:SNAP chromosome:CEL140:III:9433970:9434902:1 11/11 None
GENEFINDER00000014872 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9433970:9434902:1 11/11 None
F54C8.2 ENSEMBL cdna:known chromosome:CEL140:III:9433970:9434902:1 gene:F54C8.2 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
chrIII:9433965-9434898(+) 100.0 100.0
Public Domain and Genome References
Gene Title Histone H3 similarity
Ensembl F54C8.2
Entrez Gene 186223 Entrez gene
SwissProt P34440 EMBL-EBI
WormBase CE00188 Wormbase
Functional Annotations
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 CAA80154 Hypothetical protein F54C8.2 [Caenorhabditis elegans] ref|NP_499073.1| F54C8.2 [Caenorhabditis elegans] sp|P34440|YL82_CAEEL Hypothetical histone H3-like protein F54C8.2 in chromosome III 1.0E-132
blast CAA80160 Hypothetical protein F58A4.3 [Caenorhabditis elegans] ref|NP_499128.1| HoloCentric chromosome binding Protein family member (hcp-3) [Caenorhabditis elegans] sp|P34470|HCP3_CAEEL Holocentric chromosome binding protein 2.0E-84
blast CAE65163 Hypothetical protein CBG10032 [Caenorhabditis briggsae] 3.0E-34
Sequence
Target Sequence 
>C. ELEGANS:190658_AT
gaacgaccttgaggctgttggattcaacgacttagagcaagctcgaagaagagctccttc
tgtggatattacggtcggcagtaattcaactaatcttgtcgattactcccacggccgtca
tgatatgccctcacaccgtcgacacgatagctccgatgaagaaatcacggcagccaacag
tcaccatcagtcaccaataaatgtggggaatcgtaatgacacggatggtacaaatggcag
aaatggaagtagagctggttcatcgagctccgatcgcgtgcggatgatagccggaaggaa
cagaatctcgaaaacgagacgttatagaccgggccagaaggcattggaagagattcgcaa
ataccaagaatctgaagaccttctgattccaaaggctccgttcgcacgcctcgtccgcga
aattatgcagacttccactccattttcctcagaccttcgcattcgttctgacgccatcaa
tgctcttcaggaagcatcggaagcactgttggtccaaatgttcgatggttcatcactcat
ttccgcccattccaaacgtgccacactgacgactacagacgtgcagct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACGACCTTGAGGCTGTTGGATTC 391 347 180 Antisense
GAAGAGCTCCTTCTGTGGATATTAC 266 339 227 Antisense
AATCACGGCAGCCAACAGTCACCAT 354 171 342 Antisense
ACAGTCACCATCAGTCACCAATAAA 603 107 356 Antisense
AGAGCTGGTTCATCGAGCTCCGATC 494 69 430 Antisense
CTCAGACCTTCGCATTCGTTCTGAC 42 225 627 Antisense
ACGCCATCAATGCTCTTCAGGAAGC 458 91 650 Antisense
GAAGCATCGGAAGCACTGTTGGTCC 48 343 670 Antisense
GTTCGATGGTTCATCACTCATTTCC 54 443 699 Antisense
ATTCCAAACGTGCCACACTGACGAC 649 7 728 Antisense
CACTGACGACTACAGACGTGCAGCT 188 199 743 Antisense
Sequence Source Affymetrix Proprietary Database