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[175442_at]

Description AV182900_rc /REP_DB=TREMBL Accession /GB=AV182900 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk644b10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 67      6grp_high1_10_10 > 76      4grp_highest_8_8 > 44      4grp_high_8_8 > 08      6grp_highest_nonorm > 83      6grp_total > 66      4grp_total > 31      6grp_highest_sub > In      6grp_high1_sub > Da      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 295
1 2 3 4 range
A 460.3
(3)
P 		293.1
(-3)
P 		301.7
(-2.7)
P 		340.5
(-1.3)
P 		167
B 566.2
(3)
P 		271.2
(-3)
P 		354.8
(-1.3)
P 		506.7
(1.8)
P 		295
C 478.6
(3)
P 		372.3
(-3)
P 		386.7
(-2.2)
P 		389.4
(-2)
P 		106
avr 501.7
(3) 		312.2
(-3) 		347.7
(-1.9) 		412.2
(0.2) 		190

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 442
1 2 3 4 5 6 range
A 329.1
(-3)
P 		490.5
(0.5)
P 		514.9
(1)
P 		467.7
(-0)
P 		545.5
(1.6)
P 		609.5
(3)
P 		280
B 453.2
(-2.6)
P 		518.2
(-1.5)
P 		593.4
(-0.1)
P 		430.7
(-3)
P 		455.7
(-2.6)
P 		771
(3)
P 		340
C 393.1
(-2.9)
P 		508.6
(-1)
P 		481.6
(-1.5)
P 		563.3
(-0.2)
P 		386
(-3)
P 		762.5
(3)
P 		377
avr 391.8
(-3) 		505.8
(-0.9) 		530
(-0.4) 		487.2
(-1.2) 		462.4
(-1.7) 		714.3
(3) 		323
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 131
1 2 3 4 range
A 167.6
(3)
P 		63.6
(-2.3)
P 		78.9
(-1.5)
P 		49.8
(-3)
P 		118
B 180.6
(3)
P 		67
(-3)
P 		82.2
(-2.2)
P 		108
(-0.8)
P 		114
C 158.4
(3)
P 		107
(-0.3)
P 		134.8
(1.5)
P 		65.7
(-3)
P 		93
avr 168.9
(3) 		79.2
(-2.7) 		98.6
(-1.5) 		74.5
(-3) 		94

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 227
1 2 3 4 5 6 range
A 60.7
(-3)
P 		174.4
(3)
P 		112.1
(-0.3)
P 		118.6
(0.1)
P 		164.6
(2.5)
P 		148.4
(1.6)
P 		114
B 157.7
(-1.5)
P 		172.5
(-1)
P 		144.1
(-2)
P 		114.1
(-3)
P 		185.1
(-0.5)
P 		287.5
(3)
P 		173
C 145.7
(-1.6)
P 		155.2
(-1.2)
P 		122.6
(-2.6)
P 		113.3
(-3)
P 		124.9
(-2.5)
P 		255.3
(3)
P 		142
avr 121.4
(-2.7) 		167.4
(-0.3) 		126.3
(-2.4) 		115.3
(-3) 		158.2
(-0.8) 		230.4
(3) 		115
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175442_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20739
Sequence Type Exemplar sequence
Representative Public ID AV182900 NCBI
Target Description AV182900_rc /REP_DB=TREMBL Accession /GB=AV182900 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk644b10 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic 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_062491(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062491 NCBI Caenorhabditis elegans R05F9.9 (R05F9.9) mRNA, complete cds. 11/11 None
R05F9.9 ENSEMBL cdna:known chromosome:CEL140:II:4899920:4902085:-1 gene:R05F9.9 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000043870 4/11 Cross Hyb Matching Probes None
GENEFINDER00000043879 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:4899927-4900207(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R05F9.9
Entrez Gene 173845 Entrez gene
SwissProt Q21745 EMBL-EBI
WormBase CE04812 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_494892 R05F9.9 [Caenorhabditis elegans] gb|AAA83169.1| Hypothetical protein R05F9.9 [Caenorhabditis elegans] 1.0E-151
blast CAE58996 Hypothetical protein CBG02269 [Caenorhabditis briggsae] 3.0E-85
Sequence
Target Sequence 
>C. ELEGANS:175442_AT
ttccgattcagatgttggttctccaaattctatatcttcggaatcttcagcttctattat
gacacgataaaacactcgtttaaaaatcatttgttttcaaccccgctagaacacttttta
ctatcagttttccatctaattcttcaccaaaaaatcaaaaatcgatactcacagctgctc
ctttacaatttcagccgttgagttctcatcatgactggaaatgtatcatttggctgagtc
tattc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCCGATTCAGATGTTGGTTCTCCA 440 699 18 Antisense
TGGTTCTCCAAATTCTATATCTTCG 311 551 33 Antisense
CTTCGGAATCTTCAGCTTCTATTAT 112 221 53 Antisense
TCTTCAGCTTCTATTATGACACGAT 132 617 61 Antisense
CCCGCTAGAACACTTTTTACTATCA 493 259 119 Antisense
CACTTTTTACTATCAGTTTTCCATC 43 195 129 Antisense
GTTTTCCATCTAATTCTTCACCAAA 223 449 144 Antisense
AAAAATCGATACTCACAGCTGCTCC 482 129 174 Antisense
CACAGCTGCTCCTTTACAATTTCAG 626 195 187 Antisense
AATTTCAGCCGTTGAGTTCTCATCA 383 175 204 Antisense
ATGTATCATTTGGCTGAGTCTATTC 471 47 238 Antisense
Sequence Source Affymetrix Proprietary Database