[Home] | [Total List]

[175112_s_at]

Description AV202093 /REP_DB=TREMBL Accession /GB=AV202093 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk545f3 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 57      6grp_high1_10_10 > 85      4grp_highest_8_8 > 14      4grp_high_8_8 > 14      6grp_highest_nonorm > 82      6grp_total > 65      4grp_total > 17      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 902
1 2 3 4 range
A 282.2
(-3)
P 		497.4
(-1.2)
P 		427.8
(-1.8)
P 		1006.4
(3)
P 		724
B 219.9
(-3)
P 		363.3
(-2)
P 		399.2
(-1.8)
P 		1121.5
(3)
P 		902
C 278.5
(-3)
P 		369.1
(-2.2)
P 		387.4
(-2.1)
P 		988.2
(3)
P 		710
avr 260.2
(-3) 		409.9
(-1.8) 		404.8
(-1.9) 		1038.7
(3) 		779

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 341
1 2 3 4 5 6 range
A 245.8
(-3)
P 		264.4
(-2.5)
P 		461.8
(3)
P 		292.1
(-1.7)
P 		314.7
(-1.1)
P 		463.3
(3)
P 		218
B 187.1
(-3)
P 		274
(-1.5)
P 		483.6
(2.3)
P 		384.7
(0.5)
P 		360.3
(0.1)
P 		524.5
(3)
P 		337
C 183.1
(-3)
P 		323.9
(-0.5)
P 		384.7
(0.6)
P 		296.6
(-1)
P 		414.2
(1.1)
P 		521.9
(3)
P 		339
avr 205.3
(-3) 		287.4
(-1.3) 		443.4
(1.8) 		324.5
(-0.6) 		363.1
(0.2) 		503.2
(3) 		298
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 169
1 2 3 4 range
A 102.7
(-3)
P 		108
(-2.3)
P 		111.8
(-1.8)
P 		147.3
(3)
P 		45
B 70.1
(-3)
P 		89.7
(-2.3)
P 		92.5
(-2.2)
P 		239
(3)
P 		169
C 92.2
(-3)
P 		106.1
(-1.9)
P 		135
(0.5)
P 		166.6
(3)
P 		74
avr 88.3
(-3) 		101.3
(-2.2) 		113.1
(-1.5) 		184.3
(3) 		96

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 150
1 2 3 4 5 6 range
A 45.3
(-3)
P 		94
(1.3)
P 		100.6
(1.9)
P 		74.1
(-0.4)
P 		95
(1.4)
P 		112.8
(3)
P 		68
B 65.1
(-3)
P 		91.2
(-1.8)
P 		117.4
(-0.6)
P 		101.9
(-1.3)
P 		146.4
(0.7)
P 		195.6
(3)
P 		131
C 67.9
(-2.6)
P 		98.8
(-1)
P 		97.9
(-1)
P 		59.6
(-3)
P 		134
(0.9)
P 		174.7
(3)
P 		115
avr 59.4
(-3) 		94.7
(-0.9) 		105.3
(-0.3) 		78.5
(-1.9) 		125.1
(0.9) 		161
(3) 		102
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175112_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21244
Sequence Type Exemplar sequence
Representative Public ID AV202093 NCBI
Target Description AV202093 /REP_DB=TREMBL Accession /GB=AV202093 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk545f3 : 5prime 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_064943(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064943 NCBI Caenorhabditis elegans Y119D3B.13 (Y119D3B.13) mRNA, complete cds. 11/11 A 
SNAP00000002014 ENSEMBL cdna:SNAP chromosome:CEL140:III:1177700:1212208:1 9/11 None
Y119D3B.13 ENSEMBL cdna:known chromosome:CEL140:III:1182050:1184913:1 gene:Y119D3B.13 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000002031 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:1183407-1184903(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y119D3B.13
Entrez Gene 175283 Entrez gene
SwissProt Q95Y74 EMBL-EBI
WormBase CE27241 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK29717 Hypothetical protein Y119D3B.13 [Caenorhabditis elegans] ref|NP_497344.1| Y119D3B.13 [Caenorhabditis elegans] 1.0E-139
blast NP_497340 Y71D11A.1 [Caenorhabditis elegans] 1.0E-131
blast AAN84810 Hypothetical protein Y119D3B.12a [Caenorhabditis elegans] ref|NP_497348.2| Y119D3B.12a [Caenorhabditis elegans] 1.0E-127
blast CAE69121 Hypothetical protein CBG15147 [Caenorhabditis briggsae] 1.0E-117
blast CAE69117 Hypothetical protein CBG15143 [Caenorhabditis briggsae] 4.0E-94
blast CAE57622 Hypothetical protein CBG00605 [Caenorhabditis briggsae] 2.0E-19
Protein Domains
Database ID Description E-Value
Pfam IPR004882 EMBL-EBI Protein of unknown function DUF259 8.1E-24
Pfam IPR004882 EMBL-EBI Protein of unknown function DUF259 1.8E-14
Pfam IPR009673 EMBL-EBI Protein of unknown function DUF1261 2.4E-68
Pfam IPR009673 EMBL-EBI Protein of unknown function DUF1261 2.4E-68
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000002014 1 217-239
Sequence
Target Sequence 
>C. ELEGANS:175112_S_AT
gattgtcggaagcagtatgacgcggaaattttgaagaccccatccagcctgtgccaggct
tctgcggactttgagacctgcgtccggtcccagtactctgcaacttgcggcccggaggtc
tcctggtgggcttgtgaacgtacacgacgtggattattgattgattccgactgcccatcg
gatagctgcagtttggtggctcaggaagctcctgggtccgcaaaaagcgtgtttcagcgg
gagcccgaggtggcacacgtgattcggagcattt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATTGTCGGAAGCAGTATGACGCGG 510 433 43 Antisense
GACGCGGAAATTTTGAAGACCCCAT 275 381 61 Antisense
GGAAATTTTGAAGACCCCATCCAGC 561 525 66 Antisense
CGGACTTTGAGACCTGCGTCCGGTC 393 243 107 Antisense
TCCTGGTGGGCTTGTGAACGTACAC 147 593 163 Antisense
GTGGGCTTGTGAACGTACACGACGT 206 487 168 Antisense
CCCATCGGATAGCTGCAGTTTGGTG 628 257 216 Antisense
GCTGCAGTTTGGTGGCTCAGGAAGC 652 295 227 Antisense
CGTGTTTCAGCGGGAGCCCGAGGTG 402 243 270 Antisense
GCCCGAGGTGGCACACGTGATTCGG 613 285 285 Antisense
GTGGCACACGTGATTCGGAGCATTT 528 491 292 Antisense
Sequence Source Affymetrix Proprietary Database