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[171935_s_at]

Description AV185524_rc /REP_DB=TREMBL Accession /GB=AV185524 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk679d4 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 29      6grp_high1_10_10 > 92      6grp_highest_nonorm > 82      6grp_total > 92      4grp_total > 50      6grp_highest_sub > 04_05      6grp_high1_sub > 04_05      6grp_rule_based > S5      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 132
1 2 3 4 range
A 28.2
(-3)
A 		108.4
(3)
P 		107.2
(2.9)
P 		34.8
(-2.5)
A 		80
B 29.8
(-2.6)
A 		152.1
(3)
P 		108.6
(1)
P 		20.3
(-3)
A 		132
C 50.5
(-3)
A 		139.4
(3)
P 		107.7
(0.9)
P 		57.7
(-2.5)
A 		89
avr 36.2
(-3) 		133.3
(3) 		107.8
(1.4) 		37.6
(-2.9) 		97

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 812
1 2 3 4 5 6 range
A 151.9
(-2.5)
P 		92.7
(-3)
P 		100.3
(-2.9)
P 		655.7
(1.4)
P 		855.6
(3)
P 		218.3
(-2)
P 		763
B 110.2
(-2.5)
P 		140.8
(-2.3)
P 		58.7
(-3)
P 		734.9
(3)
P 		728.4
(2.9)
P 		174.8
(-2)
P 		676
C 125.8
(-2.9)
P 		127.7
(-2.8)
P 		108.1
(-3)
P 		543.8
(0.4)
P 		870.8
(3)
P 		131.1
(-2.8)
P 		763
avr 129.3
(-2.7) 		120.4
(-2.7) 		89
(-3) 		644.8
(1.6) 		818.3
(3) 		174.7
(-2.3) 		729
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 36
1 2 3 4 range
A 10.3
(-1.6)
A 		23.5
(1.8)
P 		28
(3)
P 		5.1
(-3)
A 		23
B 9.5
(-2.1)
A 		37.6
(3)
P 		25.2
(0.8)
P 		4.3
(-3)
A 		33
C 16.7
(-1.6)
A 		40.1
(3)
P 		37.6
(2.5)
P 		9.7
(-3)
A 		30
avr 12.2
(-1.7) 		33.7
(3) 		30.3
(2.3) 		6.4
(-3) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 282
1 2 3 4 5 6 range
A 28
(-2.8)
P 		33
(-2.7)
P 		21.9
(-3)
P 		166.3
(0.7)
P 		258.2
(3)
P 		53.1
(-2.2)
P 		236
B 38.4
(-2.5)
P 		46.9
(-2.3)
P 		14.3
(-3)
P 		194.7
(0.8)
P 		295.9
(3)
P 		65.2
(-1.9)
P 		282
C 46.6
(-2.5)
P 		39
(-2.7)
P 		27.5
(-3)
P 		109.4
(-1.1)
P 		281.8
(3)
P 		43.9
(-2.6)
P 		254
avr 37.7
(-2.6) 		39.6
(-2.6) 		21.2
(-3) 		156.8
(0.2) 		278.6
(3) 		54.1
(-2.2) 		257
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171935_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27693
Sequence Type Exemplar sequence
Representative Public ID AV185524 NCBI
Target Description AV185524_rc /REP_DB=TREMBL Accession /GB=AV185524 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk679d4 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
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_065780(11), NM_065782(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065780 NCBI Caenorhabditis elegans D1044.2a (D1044.2) mRNA, complete cds. 11/11 A 
NM_065782 NCBI Caenorhabditis elegans D1044.2b (D1044.2) mRNA, complete cds. 11/11 A 
GENEFINDER00000008695 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:5527060:5535237:1 11/11 None
D1044.2c ENSEMBL cdna:known chromosome:CEL140:III:5526026:5535427:1 gene:D1044.2 11/11 A 
D1044.2a ENSEMBL cdna:known chromosome:CEL140:III:5526059:5535435:1 gene:D1044.2 11/11 A 
D1044.2b ENSEMBL cdna:known chromosome:CEL140:III:5531077:5535190:1 gene:D1044.2 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_065781 8/11 Cross Hyb Matching Probes A 
SNAP00000008690 8/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175761 3 2 NM_065780 171935_s_at (11)
NM_065782 171935_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:5533657-5535382(+) 100.0 100.0
Public Domain and Genome References
Ensembl D1044.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAL02472 Hypothetical protein D1044.2a [Caenorhabditis elegans] ref|NP_498181.1| D1044.2a [Caenorhabditis elegans] 0.0
blast AAL02474 Hypothetical protein D1044.2c [Caenorhabditis elegans] ref|NP_498182.1| D1044.2c [Caenorhabditis elegans] sp|P41950|YLK2_CAEEL Hypothetical protein D1044.2 precursor 0.0
blast CAE56925 Hypothetical protein CBG24770 [Caenorhabditis briggsae] 0.0
blast AAL02473 Hypothetical protein D1044.2b [Caenorhabditis elegans] ref|NP_498183.1| D1044.2b [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006209 EMBL-EBI EGF-like domain 1.6E-7
Pfam IPR010362 EMBL-EBI Nid 2.4E-35
Pfam IPR010362 EMBL-EBI Nid 2.0E-36
Pfam IPR006209 EMBL-EBI EGF-like domain 1.6E-7
Pfam IPR010362 EMBL-EBI Nid 2.4E-35
Pfam IPR010362 EMBL-EBI Nid 2.0E-36
Pfam IPR010362 EMBL-EBI Nid 1.2E-27
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_498181.1 2 21-40,958-980
NP_498183.1 1 408-430
D1044.2c 2 21-40,958-980
D1044.2a 2 21-40,958-980
D1044.2b 1 408-430
GENEFINDER00000008695 3 15-37,50-67,991-1013
Sequence
Target Sequence 
>C. ELEGANS:171935_S_AT
gaagatcatttggaaagagccgctcggttaagtggacaaccagctctttctggacaacag
aaaacaacatccgaatcaactttaatcgagtgcgtcagat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGATCATTTGGAAAGAGCCGCTC 638 337 17 Antisense
GATCATTTGGAAAGAGCCGCTCGGT 443 419 20 Antisense
AGAGCCGCTCGGTTAAGTGGACAAC 74 69 32 Antisense
GCCGCTCGGTTAAGTGGACAACCAG 687 285 35 Antisense
GTTAAGTGGACAACCAGCTCTTTCT 661 445 43 Antisense
AGTGGACAACCAGCTCTTTCTGGAC 236 59 47 Antisense
GGACAACCAGCTCTTTCTGGACAAC 180 527 50 Antisense
ACAACCAGCTCTTTCTGGACAACAG 464 113 52 Antisense
AACAACATCCGAATCAACTTTAATC 545 135 79 Antisense
GAATCAACTTTAATCGAGTGCGTCA 116 327 89 Antisense
TCAACTTTAATCGAGTGCGTCAGAT 163 631 92 Antisense
Sequence Source Affymetrix Proprietary Database