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[177862_at]

Description C50H2.6 /REP_DB=WormBase Gene ID /WP=CE05484 /TR=Q18764 /GB=CAA98254.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 39      4grp_total > 11      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 82
1 2 3 4 range
A 42.8
(-0.1)
A 		15
(-3)
A 		19.9
(-2.5)
A 		72.9
(3)
A 		58
B 45
(1.2)
A 		6.8
(-2.9)
A 		6.3
(-3)
A 		61.5
(3)
A 		55
C 6.6
(-3)
A 		81.5
(2.5)
A 		48.1
(0.1)
A 		88
(3)
A 		81
avr 31.5
(-2.2) 		34.4
(-1.8) 		24.8
(-3) 		74.1
(3) 		49

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 76
1 2 3 4 5 6 range
A 80.5
(3)
A 		37
(-0.6)
A 		7.5
(-3)
A 		7.4
(-3)
A 		45.4
(0.1)
A 		69.8
(2.1)
A 		73
B 51.9
(2.5)
A 		56.4
(3)
A 		7.7
(-2.6)
A 		37.5
(0.8)
A 		47
(1.9)
A 		4.6
(-3)
A 		52
C 45.8
(0.9)
A 		64.3
(3)
A 		11.2
(-3)
A 		24.3
(-1.5)
A 		58.5
(2.3)
A 		34.3
(-0.4)
A 		53
avr 59.4
(3) 		52.6
(2.2) 		8.8
(-3) 		23.1
(-1.3) 		50.3
(1.9) 		36.2
(0.2) 		51
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 22
1 2 3 4 range
A 15.6
(3)
A 		3.3
(-3)
A 		5.2
(-2.1)
A 		10.7
(0.6)
A 		12
B 14.4
(3)
A 		1.7
(-2.9)
A 		1.5
(-3)
A 		13.1
(2.4)
A 		13
C 2.2
(-3)
A 		23.4
(3)
A 		16.8
(1.1)
A 		14.8
(0.6)
A 		21
avr 10.7
(0.4) 		9.5
(-1) 		7.8
(-3) 		12.9
(3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 14.8
(2.1)
A 		13.1
(1.5)
A 		1.6
(-3)
A 		1.9
(-2.9)
A 		13.7
(1.7)
A 		17
(3)
A 		15
B 18
(2.6)
A 		18.8
(2.9)
A 		1.9
(-2.9)
A 		9.9
(-0.2)
A 		19.1
(3)
A 		1.7
(-3)
A 		17
C 17
(2.1)
A 		19.6
(3)
A 		2.8
(-3)
A 		4.9
(-2.3)
A 		18.9
(2.8)
A 		11.5
(0.1)
A 		17
avr 16.6
(2.8) 		17.2
(3) 		2.1
(-3) 		5.6
(-1.6) 		17.2
(3) 		10.1
(0.2) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177862_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12236
Sequence Type Exemplar sequence
Representative Public ID C50H2.6 NCBI
Target Description C50H2.6 /REP_DB=WormBase Gene ID /WP=CE05484 /TR=Q18764 /GB=CAA98254.1 /SUBMIT=HINXTON /CHR=5 /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_073153(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073153 NCBI Caenorhabditis elegans C50H2.6 (C50H2.6) mRNA, complete cds. 11/11 None
SNAP00000033470 ENSEMBL cdna:SNAP chromosome:CEL140:V:9923919:9924628:1 11/11 None
GENEFINDER00000033474 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:9919655:9924628:1 11/11 None
C50H2.6 ENSEMBL cdna:known chromosome:CEL140:V:9923919:9924748:1 gene:C50H2.6 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:9923918-9924748(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C50H2.6
Entrez Gene 183690 Entrez gene
SwissProt Q18764 EMBL-EBI
WormBase CE05484 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
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
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA98253 Hypothetical protein C50H2.5 [Caenorhabditis elegans] ref|NP_505553.1| C50H2.5 [Caenorhabditis elegans] 1.0E-127
blast CAA98254 Hypothetical protein C50H2.6 [Caenorhabditis elegans] ref|NP_505554.1| C50H2.6 [Caenorhabditis elegans] 1.0E-112
blast CAA98252 Hypothetical protein C50H2.4 [Caenorhabditis elegans] ref|NP_505552.1| C50H2.4 [Caenorhabditis elegans] 1.0E-112
blast CAA98254 Hypothetical protein C50H2.6 [Caenorhabditis elegans] ref|NP_505554.1| C50H2.6 [Caenorhabditis elegans] 2.0E-95
blast CAA98254 Hypothetical protein C50H2.6 [Caenorhabditis elegans] ref|NP_505554.1| C50H2.6 [Caenorhabditis elegans] 7.0E-90
blast CAE62628 Hypothetical protein CBG06757 [Caenorhabditis briggsae] 1.0E-11
blast CAE62628 Hypothetical protein CBG06757 [Caenorhabditis briggsae] 4.0E-9
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 4.69999980926514
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 1.70000004768372
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 0.25
Sequence
Target Sequence 
>C. ELEGANS:177862_AT
gtattgtgttgactgccattggtgaaggacgtgtttctgttgacaaaattaaggccttca
tcccgcgagttccaatgaatgacttatttcgattgaaatgtgaaatggcagttgctttga
gagaagcgagaccacaagatgtcctaatgatgtcggaaaatcttcaagcttctgaagatg
atctcacttttattaacaacatgataaaatgtgctcataatcaaatctcaatggataacg
cgtttttggctttgggacttgttccaccactgcctgccactttttgctccgctgcttcaa
ttgataataacgctgtaaaaagttgcaaaaacaaatccacaacactacatgccaaaatat
tactttcgaaagaagtaaggttccaactcacgatgaaatttgagagaaactgcggggtct
tcagtaaagccgaaatacagacacttgccgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTATTGTGTTGACTGCCATTGGTGA 217 453 32 Antisense
GGTGAAGGACGTGTTTCTGTTGACA 425 499 52 Antisense
GACAAAATTAAGGCCTTCATCCCGC 149 365 73 Antisense
CTTCATCCCGCGAGTTCCAATGAAT 575 221 87 Antisense
GAAGCGAGACCACAAGATGTCCTAA 43 345 154 Antisense
TTTGGCTTTGGGACTTGTTCCACCA 40 667 276 Antisense
TTTGCTCCGCTGCTTCAATTGATAA 154 669 314 Antisense
ACAAATCCACAACACTACATGCCAA 686 109 362 Antisense
GAAGTAAGGTTCCAACTCACGATGA 208 335 403 Antisense
ACTGCGGGGTCTTCAGTAAAGCCGA 514 93 440 Antisense
AGCCGAAATACAGACACTTGCCGAA 579 81 459 Antisense
Sequence Source Affymetrix Proprietary Database