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[180085_at]

Description Y39E4B.7 /REP_DB=WormBase Gene ID /WP=CE21719 /TR=Q9U2K0 /GB=CAB54433.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 66      4grp_total > 39      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 38
1 2 3 4 range
A 25.6
(3)
A 		8.2
(-1.7)
A 		3.4
(-3)
A 		14.4
(-0)
A 		22
B 10.9
(3)
A 		5
(-2.5)
A 		4.5
(-3)
A 		4.6
(-2.9)
A 		6
C 40.1
(3)
A 		5.2
(-2.6)
A 		2.6
(-3)
A 		4
(-2.8)
A 		38
avr 25.5
(3) 		6.1
(-2.3) 		3.5
(-3) 		7.7
(-1.9) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10
1 2 3 4 5 6 range
A 5.8
(2.8)
A 		4.3
(-0.4)
A 		3.3
(-2.6)
A 		3.1
(-3)
A 		5.9
(3)
A 		3.6
(-1.9)
A 		3
B 3.9
(3)
A 		2.6
(-3)
A 		3.3
(0.2)
A 		3.6
(1.6)
A 		3.6
(1.6)
A 		3.1
(-0.7)
A 		1
C 3.2
(-2.3)
A 		3.3
(-2.2)
A 		6.2
(-0.5)
A 		7.3
(0.1)
A 		2
(-3)
A 		12.2
(3)
A 		10
avr 4.3
(-1.1) 		3.4
(-3) 		4.3
(-1.1) 		4.7
(-0.3) 		3.8
(-2.2) 		6.3
(3) 		3
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13
1 2 3 4 range
A 9.3
(3)
A 		1.8
(-2.4)
A 		0.9
(-3)
A 		2.1
(-2.1)
A 		8
B 3.5
(3)
A 		1.2
(-2.5)
A 		1
(-3)
A 		1
(-3)
A 		3
C 13.3
(3)
A 		1.5
(-2.6)
A 		0.9
(-2.9)
A 		0.7
(-3)
A 		13
avr 8.7
(3) 		1.5
(-2.5) 		0.9
(-3) 		1.3
(-2.7) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4
1 2 3 4 5 6 range
A 1.1
(-0.8)
A 		1.5
(1.4)
A 		0.7
(-3)
A 		0.8
(-2.5)
A 		1.8
(3)
A 		0.9
(-1.9)
A 		1
B 1.3
(2)
A 		0.9
(-2)
A 		0.8
(-3)
A 		1
(-1)
A 		1.4
(3)
A 		1.2
(1)
A 		1
C 1.2
(-2)
A 		1
(-2.3)
A 		1.6
(-1.3)
A 		1.5
(-1.5)
A 		0.6
(-3)
A 		4.1
(3)
A 		4
avr 1.2
(-1.9) 		1.1
(-2.5) 		1
(-3) 		1.1
(-2.5) 		1.3
(-1.4) 		2.1
(3) 		1
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180085_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6556
Sequence Type Exemplar sequence
Representative Public ID Y39E4B.7 NCBI
Target Description Y39E4B.7 /REP_DB=WormBase Gene ID /WP=CE21719 /TR=Q9U2K0 /GB=CAB54433.1 /SUBMIT=HINXTON /CHR=3 /FEA=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_067312(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067312 NCBI Caenorhabditis elegans Y39E4B.7 (Y39E4B.7) mRNA, complete cds. 11/11 None
SNAP00000012011 ENSEMBL cdna:SNAP chromosome:CEL140:III:13107208:13118297:1 11/11 None
GENEFINDER00000012030 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13107208:13118297:1 11/11 None
Y39E4B.7 ENSEMBL cdna:known chromosome:CEL140:III:13107208:13116207:1 gene:Y39E4B.7 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:13107203-13113587(+) 99.75 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39E4B.7
Entrez Gene 176731 Entrez gene
SwissProt Q9U2K0 EMBL-EBI
WormBase CE33733 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
46872 metal ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB54433 Hypothetical protein Y39E4B.7 [Caenorhabditis elegans] ref|NP_499713.2| Y39E4B.7 [Caenorhabditis elegans] 0.0
blast CAB54433 Hypothetical protein Y39E4B.7 [Caenorhabditis elegans] ref|NP_499713.2| Y39E4B.7 [Caenorhabditis elegans] 1.0E-150
blast CAE56454 Hypothetical protein CBG24160 [Caenorhabditis briggsae] 8.0E-77
blast AAF46491 CG32705-PA [Drosophila melanogaster] ref|NP_727339.2| CG32705-PA [Drosophila melanogaster] 6.0E-63
blast CAE56453 Hypothetical protein CBG24159 [Caenorhabditis briggsae] 3.0E-40
blast CAE56454 Hypothetical protein CBG24160 [Caenorhabditis briggsae] 4.0E-40
Protein Domains
Database ID Description E-Value
scop a.3.1.monodomain cytochrome c All alpha proteins; Cytochrome c; Cytochrome c; monodomain cytochrome c 0.569999992847443
Pfam IPR001594 EMBL-EBI Zn-finger, DHHC type 4.1E-30
Pfam IPR001594 EMBL-EBI Zn-finger, DHHC type 8.9E-9
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499713.2 4 7-29,39-61,149-171,191-213
Y39E4B.7 4 7-29,39-61,149-171,191-213
SNAP00000012011 3 7-29,39-61,137-159
GENEFINDER00000012030 4 7-29,39-61,191-213,233-255
Sequence
Target Sequence 
>C. ELEGANS:180085_AT
aattgtacttctggctctttgtgcagttctttgtgttccggtcattgggctgaccgtatt
ccatttggtgctcgtggctcgaggacgaactacaaatgagcaagttactggaaaattcac
gtctggatataatccatttacaattggatgctggggaaattgcaagaaaactctgtgtca
tagtcaactgccgactttcaaatcccatgtgatggaattccgaaagcaacgaaaagaaga
gcaagctcgtcttgcgaaccgtataaatggcccagttgaagagcaaaatgcgcatgcaga
tgatgaacgtgacgagacatctgtactatatgttcccgatcagaaacgagccgacggaaa
aatggtcgcagtcgtggaattcaataagaacaactctgtgttacgtcagcagaacacgac
gacaacgacgtcacggtctgaaagtcaaaatcggataactgaaagtcaaagtcaatcgat
gtcgatgagttcggggtgtgatgagtcgaggattactgtaggaggaggaggcggaggagc
tgaagccgatggttctacgtgtaatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATTGTACTTCTGGCTCTTTGTGCA 447 179 582 Antisense
CTTTGTGCAGTTCTTTGTGTTCCGG 550 221 598 Antisense
GTCATTGGGCTGACCGTATTCCATT 190 469 622 Antisense
GTATTCCATTTGGTGCTCGTGGCTC 250 453 637 Antisense
AACTCTGTGTCATAGTCAACTGCCG 337 141 750 Antisense
TGCCGACTTTCAAATCCCATGTGAT 490 585 770 Antisense
CAAGCTCGTCTTGCGAACCGTATAA 62 187 823 Antisense
CATCTGTACTATATGTTCCCGATCA 292 213 899 Antisense
GAACAACTCTGTGTTACGTCAGCAG 297 353 969 Antisense
ACGACAACGACGTCACGGTCTGAAA 252 93 1000 Antisense
GAAGCCGATGGTTCTACGTGTAATT 282 345 1123 Antisense
Sequence Source Affymetrix Proprietary Database