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[187889_at]

Description Y18D10A.15 /REP_DB=WormBase Gene ID /WP=CE21411 /CHR=1 /FEA=Sanger Annotation /DEF=(HINXTON) TR:Q9XW08 protein_id:CAA22326.1
Cluster 6grp_highest_10_10 > 81      6grp_high1_10_10 > 18      4grp_highest_8_8 > 57      4grp_high_8_8 > 34      6grp_highest_nonorm > 70      6grp_total > 28      4grp_total > 45      6grp_highest_sub > Cu      6grp_cgc > 02      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 209
1 2 3 4 range
A 394.6
(3)
P 		277.1
(-0.4)
P 		237.7
(-1.5)
P 		185.4
(-3)
P 		209
B 305
(3)
P 		251
(0)
P 		195.4
(-3)
P 		216.1
(-1.9)
P 		110
C 310
(3)
P 		306.8
(2.8)
P 		228.1
(-1.7)
P 		206
(-3)
P 		104
avr 336.5
(3) 		278.3
(0.4) 		220.4
(-2.2) 		202.5
(-3) 		134

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 424
1 2 3 4 5 6 range
A 235.2
(0.1)
P 		311.6
(2.6)
P 		139.5
(-3)
P 		175.1
(-1.8)
P 		228.5
(-0.1)
P 		323.7
(3)
P 		184
B 299.1
(3)
P 		186.9
(-2.4)
P 		173.7
(-3)
P 		232.8
(-0.2)
P 		225.4
(-0.5)
P 		194.5
(-2)
P 		125
C 563.1
(3)
P 		234.2
(-1.7)
P 		307.6
(-0.7)
P 		194.5
(-2.3)
P 		340.1
(-0.2)
P 		145.9
(-3)
P 		417
avr 365.8
(3) 		244.2
(-1.4) 		206.9
(-2.8) 		200.8
(-3) 		264.7
(-0.7) 		221.4
(-2.3) 		165
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 117
1 2 3 4 range
A 143.7
(3)
P 		60.1
(-1.3)
P 		62.1
(-1.2)
P 		27.1
(-3)
P 		117
B 97.3
(3)
P 		62
(-1.1)
P 		45.3
(-3)
P 		46.1
(-2.9)
P 		52
C 102.6
(3)
P 		88.2
(1.7)
P 		79.5
(1)
P 		34.7
(-3)
P 		68
avr 114.5
(3) 		70.1
(-0.4) 		62.3
(-1) 		36
(-3) 		79

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 178
1 2 3 4 5 6 range
A 43.4
(-2)
P 		110.8
(3)
P 		30.4
(-3)
P 		44.4
(-2)
P 		69
(-0.1)
P 		78.8
(0.6)
P 		80
B 104.1
(3)
P 		62.2
(-1.1)
P 		42.2
(-3)
P 		61.7
(-1.1)
P 		91.6
(1.8)
P 		72.5
(-0.1)
P 		62
C 208.7
(3)
P 		71.5
(-1.9)
P 		78.3
(-1.6)
P 		39.1
(-3)
P 		110.1
(-0.5)
P 		48.8
(-2.7)
P 		170
avr 118.7
(3) 		81.5
(-0.2) 		50.3
(-2.8) 		48.4
(-3) 		90.2
(0.6) 		66.7
(-1.4) 		70
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187889_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2110
Sequence Type Exemplar sequence
Representative Public ID Y18D10A.15 NCBI
Target Description Y18D10A.15 /REP_DB=WormBase Gene ID /WP=CE21411 /CHR=1 /FEA=Sanger Annotation /DEF=(HINXTON) TR:Q9XW08 protein_id:CAA22326.1
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_060851(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060851 NCBI Caenorhabditis elegans PAtterning Defective family member (pad-1) (pad-1) mRNA, complete cds. 11/11 A 
GENEFINDER00000000443 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12886773:12910463:1 11/11 None
SNAP00000000423 ENSEMBL cdna:SNAP chromosome:CEL140:I:12895345:12910463:1 11/11 None
Y18D10A.13 ENSEMBL cdna:known chromosome:CEL140:I:12886716:12910902:1 gene:Y18D10A.13 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
chrI:12903942-12910394(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol pad-1
Ensembl Y18D10A.13
Entrez Gene 173156 Entrez gene
SwissProt Q9XW10 EMBL-EBI
WormBase CE27468 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA22324 Hypothetical protein Y18D10A.13 [Caenorhabditis elegans] ref|NP_493252.3| PAtterning Defective family member (pad-1) [Caenorhabditis elegans] 0.0
blast CAB59919 hypothetical protein [Caenorhabditis elegans] 0.0
blast CAE63510 Hypothetical protein CBG07989 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR007249 EMBL-EBI Dopey, N-terminal 1.0E-126
Pfam IPR007249 EMBL-EBI Dopey, N-terminal 1.0E-126
Pfam IPR007249 EMBL-EBI Dopey, N-terminal 7.8E-51
Sequence
Target Sequence 
>C. ELEGANS:187889_AT
ataatcttcgagtttcccaatctccggttatccgttcagccgtatttctgtgtattcgag
tacttcttctccgactccgcccacacagtttgattggtgtgtggcctattatggttacag
agctcgttcacgcactatcacagcttgaacaacaattacaaagtgatcaatggatgcaac
tatacgtggccgcttgtaaactattagaaactctgtgtactcttccagccggttatctct
cacatttccaaatgtttcactgggcatttgtatcatctgtatcagctgataaaactgaaa
tattcaaaccatttgccgagagaattaatgatttactggcgaaaaaatacggagaactgc
tgacgccagagacgatgagtaatcatacggcttcacttggtgccgttaaaattctcacgt
cttttgaagaacttcgaccattcttttatacacttgct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATAATCTTCGAGTTTCCCAATCTCC 573 25 947 Antisense
TCCGGTTATCCGTTCAGCCGTATTT 94 595 969 Antisense
TGTATTCGAGTACTTCTTCTCCGAC 429 561 997 Antisense
CTCCGCCCACACAGTTTGATTGGTG 556 233 1021 Antisense
ATGGTTACAGAGCTCGTTCACGCAC 260 51 1057 Antisense
ATGGATGCAACTATACGTGGCCGCT 211 51 1116 Antisense
TAGAAACTCTGTGTACTCTTCCAGC 536 651 1151 Antisense
CGGTTATCTCTCACATTTCCAAATG 32 245 1176 Antisense
GTTTCACTGGGCATTTGTATCATCT 102 451 1200 Antisense
GTAATCATACGGCTTCACTTGGTGC 482 463 1325 Antisense
TCGACCATTCTTTTATACACTTGCT 13 603 1380 Antisense
Sequence Source Affymetrix Proprietary Database