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[193207_s_at] --- /// chromatin organization modifier domain

Description Y57G11C.19 /REP_DB=WormBase Gene ID /WP=CE14962 /TR=O18243 /GB=CAB16520.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=chromatin organization modifier domain
Cluster 6grp_total > 56      4grp_total > 07      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 1.1
(-3)
A 		2.9
(-2.3)
A 		11.3
(0.9)
A 		16.8
(3)
A 		16
B 14.7
(1.1)
A 		1.9
(-2.7)
A 		20.9
(3)
A 		1
(-3)
A 		20
C 7.2
(2.9)
A 		1.3
(-2.7)
A 		1
(-3)
A 		7.3
(3)
A 		6
avr 7.7
(0.8) 		2
(-3) 		11.1
(3) 		8.4
(1.2) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10
1 2 3 4 5 6 range
A 1.3
(-2.6)
A 		1.3
(-2.6)
A 		2
(-2.2)
A 		0.7
(-3)
A 		1.9
(-2.3)
A 		10.4
(3)
A 		10
B 3.2
(-0.9)
A 		8.1
(3)
A 		4.5
(0.1)
A 		3.8
(-0.4)
A 		3.3
(-0.8)
A 		0.6
(-3)
A 		8
C 1.2
(-3)
A 		1.7
(-0.3)
A 		1.8
(0.3)
A 		1.6
(-0.8)
A 		2
(1.4)
A 		2.3
(3)
A 		1
avr 1.9
(-3) 		3.7
(1.3) 		2.8
(-0.8) 		2
(-2.8) 		2.4
(-1.8) 		4.4
(3) 		3
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5
1 2 3 4 range
A 0.4
(-3)
A 		0.6
(-2.5)
A 		2.9
(3)
A 		2.5
(2)
A 		3
B 4.7
(2.9)
A 		0.5
(-2.6)
A 		4.8
(3)
A 		0.2
(-3)
A 		5
C 2.4
(3)
A 		0.4
(-3)
A 		0.4
(-3)
A 		1.2
(-0.6)
A 		2
avr 2.5
(2.5) 		0.5
(-3) 		2.7
(3) 		1.3
(-0.8) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3
1 2 3 4 5 6 range
A 0.2
(-3)
A 		0.5
(-2.2)
A 		0.4
(-2.5)
A 		0.2
(-3)
A 		0.6
(-2)
A 		2.5
(3)
A 		2
B 1.1
(-0.8)
A 		2.7
(3)
A 		1.1
(-0.8)
A 		1
(-1.1)
A 		1.4
(-0.1)
A 		0.2
(-3)
A 		3
C 0.5
(-0.6)
A 		0.5
(-0.6)
A 		0.5
(-0.6)
A 		0.3
(-3)
A 		0.6
(0.6)
A 		0.8
(3)
A 		1
avr 0.6
(-2.1) 		1.2
(3) 		0.7
(-1.3) 		0.5
(-3) 		0.9
(0.4) 		1.2
(3) 		1
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193207_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9118
Sequence Type Exemplar sequence
Representative Public ID Y57G11C.19 NCBI
Target Description Y57G11C.19 /REP_DB=WormBase Gene ID /WP=CE14962 /TR=O18243 /GB=CAB16520.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=chromatin organization modifier domain
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_070396(11), NM_066332(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070396 NCBI Caenorhabditis elegans Y57G11C.19 (Y57G11C.19) mRNA, complete cds. 11/11 A 
NM_066332 NCBI Caenorhabditis elegans F54H12.3 (F54H12.3) mRNA, complete cds. 11/11 None
SNAP00000022457 ENSEMBL cdna:SNAP chromosome:CEL140:III:7960429:7961481:-1 11/11 None
GENEFINDER00000022469 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7960429:7962665:-1 11/11 None
SNAP00000003491 ENSEMBL cdna:SNAP chromosome:CEL140:IV:14839181:14840233:-1 11/11 None
GENEFINDER00000003616 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:14839181:14842574:-1 11/11 None
F54H12.3 ENSEMBL cdna:known chromosome:CEL140:III:7958597:7961455:-1 gene:F54H12.3 11/11 None
Y57G11C.19 ENSEMBL cdna:known chromosome:CEL140:IV:14839181:14840233:-1 gene:Y57G11C.19 11/11 A 
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:7960426-7961479(-) 98.1 98.29
chrIV:14839186-14840239(-) 99.81 100.0
Public Domain and Genome References
Gene Title
chromatin organization modifier domain
Ensembl F54H12.3
Y57G11C.19
Entrez Gene 186267 Entrez gene
190376 Entrez gene
SwissProt P34457 EMBL-EBI
O18243 EMBL-EBI
WormBase CE00545 Wormbase
CE14962 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6310 DNA recombination 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 CAB16520 Hypothetical protein Y57G11C.19 [Caenorhabditis elegans] ref|NP_502797.1| Y57G11C.19 [Caenorhabditis elegans] 0.0
blast AAA28053 Hypothetical protein F54H12.4 [Caenorhabditis elegans] ref|NP_498734.1| F54H12.4 [Caenorhabditis elegans] sp|P34458|YMD4_CAEEL Hypothetical protein F54H12.4 in chromosome III 0.0
blast CAB16519 Hypothetical protein Y57G11C.18 [Caenorhabditis elegans] ref|NP_502798.1| Y57G11C.18 [Caenorhabditis elegans] 1.0E-159
blast T32093 hypothetical protein K09F6.1 - Caenorhabditis elegans 1.0E-158
blast AAA28053 Hypothetical protein F54H12.4 [Caenorhabditis elegans] ref|NP_498734.1| F54H12.4 [Caenorhabditis elegans] sp|P34458|YMD4_CAEEL Hypothetical protein F54H12.4 in chromosome III 1.0E-151
Protein Domains
Database ID Description E-Value
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 4.2E-22
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 1.1E-22
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 1.1E-22
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 5.9E-21
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 4.2E-22
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_498733.1 1 215-237
F54H12.3 1 215-237
Sequence
Target Sequence 
>C. ELEGANS:193207_S_AT
ggaattttacaactcgcatgtcaaagagttgttggccaagaattttgtgaatctattttc
acccaaaagcgaaataaagtgtgcaattgtggagagggcaaacaggactctgaaaactcg
attggcaaagtacatgactcaaaagtacaaccgacgttatgtggacgttttacaacaagt
tgtgaatggtatcaacaatagcgttaatcgtggaattggtaaaaaaccagtagacgttga
gcggggagatttttcaactccgatgcctgtagacagcgttaaaatcaaattcagagtagg
agatcacgtcagaatcgctgcaaaacgaggacaatttgacaagggctacgaacaaggatg
gactaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAATTTTACAACTCGCATGTCAAA 221 531 438 Antisense
GCATGTCAAAGAGTTGTTGGCCAAG 342 311 453 Antisense
GAATCTATTTTCACCCAAAAGCGAA 668 327 486 Antisense
ACAGGACTCTGAAAACTCGATTGGC 544 107 539 Antisense
GACTCAAAAGTACAACCGACGTTAT 420 259 573 Antisense
AAACCAGTAGACGTTGAGCGGGGAG 177 121 661 Antisense
GGAGATTTTTCAACTCCGATGCCTG 35 519 682 Antisense
ATTCAGAGTAGGAGATCACGTCAGA 445 3 726 Antisense
TCACGTCAGAATCGCTGCAAAACGA 338 625 741 Antisense
GAGGACAATTTGACAAGGGCTACGA 227 405 764 Antisense
GGGCTACGAACAAGGATGGACTACA 107 493 780 Antisense
Sequence Source Affymetrix Proprietary Database