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[175139_s_at]

Description AV190685 /REP_DB=TREMBL Accession /GB=AV190685 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk585a1 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 06      6grp_high1_10_10 > 50      4grp_highest_8_8 > 01      4grp_high_8_8 > 53      6grp_highest_nonorm > 42      6grp_total > 40      4grp_total > 50      6grp_highest_sub > 04      6grp_high1_sub > 03_04      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 570
1 2 3 4 range
A 626.6
(-0.6)
P 		965.8
(3)
P 		855
(1.8)
P 		395.6
(-3)
P 		570
B 550.6
(-2.5)
P 		865.4
(2.5)
P 		893.6
(3)
P 		521.8
(-3)
P 		372
C 635.9
(-1.1)
P 		901.5
(3)
P 		835.5
(2)
P 		515.2
(-3)
P 		386
avr 604.4
(-1.2) 		910.9
(3) 		861.4
(2.3) 		477.5
(-3) 		433

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 563
1 2 3 4 5 6 range
A 851.6
(-0.3)
P 		976.1
(1.8)
P 		983.8
(1.9)
P 		1051.1
(3)
P 		717.3
(-2.6)
P 		690.9
(-3)
P 		360
B 975.1
(2.4)
P 		1001.2
(3)
P 		857.6
(-0.2)
P 		892
(0.5)
P 		734.1
(-3)
P 		739.2
(-2.9)
P 		267
C 820.6
(-1.5)
P 		1118.7
(1.7)
P 		989.3
(0.3)
P 		1242
(3)
P 		679.4
(-3)
P 		745.6
(-2.3)
P 		563
avr 882.4
(-0.1) 		1032
(2.5) 		943.6
(1) 		1061.7
(3) 		710.3
(-3) 		725.2
(-2.7) 		351
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 233
1 2 3 4 range
A 228.1
(3)
P 		209.6
(2.3)
P 		223.5
(2.8)
P 		57.9
(-3)
P 		170
B 175.6
(0.8)
P 		213.7
(3)
P 		207.1
(2.6)
P 		111.2
(-3)
P 		103
C 210.5
(0.6)
P 		259.2
(2.1)
P 		291.2
(3)
P 		86.9
(-3)
P 		204
avr 204.7
(1.6) 		227.5
(2.5) 		240.6
(3) 		85.3
(-3) 		155

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 190
1 2 3 4 5 6 range
A 157
(-3)
P 		347.2
(3)
P 		214.2
(-1.2)
P 		266.6
(0.5)
P 		216.5
(-1.1)
P 		168.2
(-2.6)
P 		190
B 339.3
(3)
P 		333.2
(2.7)
P 		208.3
(-3)
P 		236.3
(-1.7)
P 		298.2
(1.1)
P 		275.6
(0.1)
P 		131
C 304.2
(1.2)
P 		341.3
(3)
P 		251.8
(-1.4)
P 		249.8
(-1.5)
P 		219.9
(-3)
P 		249.6
(-1.5)
P 		121
avr 266.8
(-0.8) 		340.6
(3) 		224.8
(-3) 		250.9
(-1.6) 		244.9
(-2) 		231.1
(-2.7) 		116
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175139_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20237
Sequence Type Exemplar sequence
Representative Public ID AV190685 NCBI
Target Description AV190685 /REP_DB=TREMBL Accession /GB=AV190685 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk585a1 : 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_059922(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059922 NCBI Caenorhabditis elegans R05D11.5 (R05D11.5) mRNA, complete cds. 11/11 None
SNAP00000034018 ENSEMBL cdna:SNAP chromosome:CEL140:I:8600217:8604195:1 11/11 None
GENEFINDER00000034026 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8600217:8600926:1 11/11 None
R05D11.5 ENSEMBL cdna:known chromosome:CEL140:I:8600217:8601051:1 gene:R05D11.5 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
chrI:8600518-8600907(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R05D11.5
Entrez Gene 172649 Entrez gene
SwissProt Q21737 EMBL-EBI
WormBase CE27195 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAC42331 Hypothetical protein R05D11.9 [Caenorhabditis elegans] ref|NP_492324.2| R05D11.9 [Caenorhabditis elegans] 0.0
blast CAE67099 Hypothetical protein CBG12510 [Caenorhabditis briggsae] 1.0E-144
blast CAA99892 Hypothetical protein R05D11.5 [Caenorhabditis elegans] ref|NP_492323.1| R05D11.5 [Caenorhabditis elegans] 2.0E-72
blast CAA99892 Hypothetical protein R05D11.5 [Caenorhabditis elegans] ref|NP_492323.1| R05D11.5 [Caenorhabditis elegans] 3.0E-70
blast CAE67100 Hypothetical protein CBG12511 [Caenorhabditis briggsae] 5.0E-66
blast NP_996983 hypothetical protein LOC404632 [Danio rerio] gb|AAH66516.1| Hypothetical protein zgc:77041 [Danio rerio] 2.0E-11
Protein Domains
Database ID Description E-Value
Pfam IPR008506 EMBL-EBI Protein of unknown function DUF788 1.0E-81
Pfam IPR008506 EMBL-EBI Protein of unknown function DUF788 9.0E-81
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492323.1 3 20-42,49-66,100-122
R05D11.5 3 20-42,49-66,100-122
SNAP00000034018 5 20-42,49-66,100-122,536-558,562-584
GENEFINDER00000034026 3 20-42,49-66,100-122
Sequence
Target Sequence 
>C. ELEGANS:175139_S_AT
gagaatactgtaaagacgccattattctgacagtcattattcaaatcatctcactctatt
ctacatacggattccttttgctcctcgcctttcctggagcagccacatacaaatttgttg
ctggattccttctaccatggttgaccgctggatcagactcagatgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGAATACTGTAAAGACGCCATTAT 355 391 26 Antisense
AGACGCCATTATTCTGACAGTCATT 113 71 39 Antisense
GACAGTCATTATTCAAATCATCTCA 415 369 54 Antisense
TCATCTCACTCTATTCTACATACGG 170 621 71 Antisense
TACATACGGATTCCTTTTGCTCCTC 264 645 87 Antisense
CCTTTCCTGGAGCAGCCACATACAA 276 269 113 Antisense
GAGCAGCCACATACAAATTTGTTGC 569 389 122 Antisense
ATTTGTTGCTGGATTCCTTCTACCA 128 19 138 Antisense
TGGATTCCTTCTACCATGGTTGACC 650 549 147 Antisense
CTACCATGGTTGACCGCTGGATCAG 279 225 157 Antisense
GACCGCTGGATCAGACTCAGATGAA 89 381 168 Antisense
Sequence Source Affymetrix Proprietary Database