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[176925_at]

Description Y42H9B.C /REP_DB=WormBase Gene ID /WP=CE25281 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF60567.1
Cluster 6grp_total > 10      4grp_total > 49      6grp_cgc > 64      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2317
1 2 3 4 range
A 245.4
(-3)
A 		1655.8
(1.1)
P 		2329.5
(3)
P 		246.7
(-3)
A 		2084
B 184.8
(-3)
A 		2154.6
(3)
P 		1937.9
(2.3)
P 		172
(-3)
A 		1983
C 211.9
(-2.9)
A 		2489
(3)
P 		1215.5
(-0.3)
P 		183.6
(-3)
A 		2305
avr 214
(-3) 		2099.8
(3) 		1827.6
(2.1) 		200.8
(-3) 		1899

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1179
1 2 3 4 5 6 range
A 320.3
(-3)
A 		1431.6
(3)
P 		918.2
(0.2)
P 		735.6
(-0.8)
P 		1082.3
(1.1)
P 		518
(-1.9)
P 		1111
B 401.7
(-3)
A 		1499.5
(3)
P 		1003
(0.3)
P 		623.4
(-1.8)
P 		1061.6
(0.6)
P 		643.4
(-1.7)
P 		1098
C 491.5
(-2.9)
A 		1398.4
(3)
P 		924.6
(-0.1)
P 		659.7
(-1.8)
A 		806.9
(-0.8)
P 		472.7
(-3)
P 		926
avr 404.5
(-3) 		1443.2
(3) 		948.6
(0.1) 		672.9
(-1.4) 		983.6
(0.3) 		544.7
(-2.2) 		1039
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 685
1 2 3 4 range
A 89.3
(-2.4)
A 		359.4
(0.4)
P 		609
(3)
P 		36.1
(-3)
A 		573
B 58.9
(-2.7)
A 		532.1
(3)
P 		449.1
(2)
P 		36.6
(-3)
A 		496
C 70.2
(-2.7)
A 		715.6
(3)
P 		423.6
(0.4)
P 		31
(-3)
A 		685
avr 72.8
(-2.5) 		535.7
(3) 		493.9
(2.5) 		34.6
(-3) 		501

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 450
1 2 3 4 5 6 range
A 59
(-3)
A 		509.2
(3)
P 		200
(-1.1)
P 		186.6
(-1.3)
P 		326.6
(0.6)
P 		126.1
(-2.1)
P 		450
B 139.8
(-3)
A 		499.1
(3)
P 		243.6
(-1.3)
P 		165.1
(-2.6)
P 		431.3
(1.9)
P 		239.9
(-1.3)
P 		359
C 182.2
(-2)
A 		426.7
(3)
P 		235.3
(-0.9)
P 		132.7
(-3)
A 		261.1
(-0.4)
P 		158.2
(-2.5)
P 		294
avr 127
(-3) 		478.3
(3) 		226.3
(-1.3) 		161.5
(-2.4) 		339.7
(0.6) 		174.7
(-2.2) 		351
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176925_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19112
Sequence Type Exemplar sequence
Representative Public ID Y42H9B.C NCBI
Target Description Y42H9B.C /REP_DB=WormBase Gene ID /WP=CE25281 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF60567.1
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_068937(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068937 NCBI Caenorhabditis elegans COLlagen family member (col-115) (col-115) mRNA, complete cds. 11/11 None
SNAP00000008105 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7988671:7991296:1 11/11 None
GENEFINDER00000008111 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7988671:7991296:1 11/11 None
Y42H9B.1 ENSEMBL cdna:known chromosome:CEL140:IV:7988671:7991296:1 gene:Y42H9B.1 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
chrIV:7988676-7991302(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol col-115
Ensembl Y42H9B.1
Entrez Gene 189843 Entrez gene
SwissProt Q9N3X9 EMBL-EBI
WormBase CE25281 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6817 phosphate transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5737 cytoplasm inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF60567 Collagen protein 115 [Caenorhabditis elegans] ref|NP_501338.1| COLlagen family member (col-115) [Caenorhabditis elegans] 1.0E-118
blast CAE70925 Hypothetical protein CBG17725 [Caenorhabditis briggsae] 1.0E-92
Protein Domains
Database ID Description E-Value
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 5.0E-4
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 6.4E-4
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 3.4E-13
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501338.1 1 20-42
Y42H9B.1 1 20-42
SNAP00000008105 1 20-42
GENEFINDER00000008111 1 20-42
Sequence
Target Sequence 
>C. ELEGANS:176925_AT
gttgtattccacgttatggtccacctggtgctccaggagcttcaggacaatcaggacgtg
atggacaagatggacaaccaggaacagatggtcaacaaggtagagacgggattgctgata
ttgatcgtgaaccatgtcaagtatgtgctccagcaccacaaggttatccaggaccacctg
gaccaaaggggcgtacaggagaacagggaccaccgggattagacggagaaactattgatg
gagaagatggatcaccaggtcttccaggaccaccgggaccaccaggacctccaggattac
atggatcaccaggatcatatggagaatcgaaagaagaagaaattgcaggaccaccaggcc
caccaggtgtcagagggattcagggaggagttggatcaagaggagctgaaggtaatccag
gaccaaagggaccaccaggactacaaggagacattggatcacatggaatagcaggccgac
ctggtcttcaaggtcgtccaggtaaccctggggctcctggctccccagcttcatgtgatc
attgtgctccaccagtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTGTATTCCACGTTATGGTCCACC 420 437 581 Antisense
TTATGGTCCACCTGGTGCTCCAGGA 89 677 594 Antisense
GGAGCTTCAGGACAATCAGGACGTG 615 519 616 Antisense
GAACCATGTCAAGTATGTGCTCCAG 613 345 709 Antisense
TGCTCCAGCACCACAAGGTTATCCA 584 581 726 Antisense
GAACAGGGACCACCGGGATTAGACG 622 283 781 Antisense
GAAGAAATTGCAGGACCACCAGGCC 247 339 916 Antisense
CCAGGCCCACCAGGTGTCAGAGGGA 502 271 934 Antisense
GAATAGCAGGCCGACCTGGTCTTCA 622 323 1046 Antisense
CTTCAAGGTCGTCCAGGTAACCCTG 404 1 1066 Antisense
ATGTGATCATTGTGCTCCACCAGTT 414 49 1113 Antisense
Sequence Source Affymetrix Proprietary Database