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[173394_s_at]

Description AV176310_rc /REP_DB=TREMBL Accession /GB=AV176310 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk511d10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 93      6grp_high1_10_10 > 48      4grp_highest_8_8 > 03      4grp_high_8_8 > 46      6grp_highest_nonorm > 48      6grp_total > 59      4grp_total > 41      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1405
1 2 3 4 range
A 3561.6
(-3)
P 		4940
(3)
P 		4582.3
(1.4)
P 		4359.1
(0.5)
P 		1378
B 3659.1
(-3)
P 		4353.1
(0.5)
P 		4849.8
(3)
P 		3835.4
(-2.1)
P 		1191
C 3535.2
(-3)
P 		4549.2
(3)
P 		4148
(0.6)
P 		3799.7
(-1.4)
P 		1014
avr 3585.3
(-3) 		4614.1
(3) 		4526.7
(2.5) 		3998.1
(-0.6) 		1029

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1998
1 2 3 4 5 6 range
A 4907.9
(2.7)
P 		3723.6
(-1.1)
P 		3785.8
(-0.9)
P 		3131.1
(-3)
P 		3955.4
(-0.4)
P 		5016.2
(3)
P 		1885
B 4027
(1.7)
P 		3394.1
(-3)
P 		4133.3
(2.5)
P 		3642.3
(-1.2)
P 		3908.4
(0.8)
P 		4201.3
(3)
P 		807
C 4084.7
(2.1)
P 		3018
(-3)
P 		3970.4
(1.6)
P 		3375.6
(-1.3)
P 		4270.9
(3)
P 		4037
(1.9)
P 		1253
avr 4339.9
(2.5) 		3378.6
(-3) 		3963.2
(0.4) 		3383
(-3) 		4044.9
(0.8) 		4418.2
(3) 		1040
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 808
1 2 3 4 range
A 1296.8
(3)
P 		1072.3
(1)
P 		1197.9
(2.1)
P 		638.1
(-3)
P 		659
B 1166.9
(3)
P 		1075.1
(1.4)
P 		1123.8
(2.3)
P 		817.3
(-3)
P 		350
C 1170.2
(0.9)
P 		1307.9
(2)
P 		1445.7
(3)
P 		640.7
(-3)
P 		805
avr 1211.3
(2.5) 		1151.8
(1.9) 		1255.8
(3) 		698.7
(-3) 		557

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 909
1 2 3 4 5 6 range
A 904.7
(-1.7)
P 		1324.3
(3)
P 		824.5
(-2.7)
P 		794.1
(-3)
P 		1193.6
(1.5)
P 		1221.3
(1.8)
P 		530
B 1401.2
(1.2)
P 		1129.7
(-1.4)
P 		1003.7
(-2.6)
P 		964.7
(-3)
P 		1588
(3)
P 		1566.7
(2.8)
P 		623
C 1514
(3)
P 		920.9
(-1.3)
P 		1010.5
(-0.6)
P 		678.8
(-3)
P 		1382
(2.1)
P 		1351.4
(1.8)
P 		835
avr 1273.3
(1.8) 		1125
(0.3) 		946.2
(-1.6) 		812.5
(-3) 		1387.9
(3) 		1379.8
(2.9) 		575
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173394_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27747
Sequence Type Exemplar sequence
Representative Public ID AV176310 NCBI
Target Description AV176310_rc /REP_DB=TREMBL Accession /GB=AV176310 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk511d10 : 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_058632(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058632 NCBI Caenorhabditis elegans Y71F9B.3 (Y71F9B.3) mRNA, complete cds. 11/11 A 
SNAP00000013305 ENSEMBL cdna:SNAP chromosome:CEL140:I:2730011:2731246:1 11/11 None
GENEFINDER00000013341 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:2730011:2731246:1 11/11 None
Y71F9B.3.1 ENSEMBL cdna:known chromosome:CEL140:I:2730003:2731454:1 gene:Y71F9B.3 11/11 None
Y71F9B.3.2 ENSEMBL cdna:known chromosome:CEL140:I:2730005:2731454:1 gene:Y71F9B.3 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:2731079-2731313(+) 75.08 75.08
Public Domain and Genome References
Gene Title
Ensembl Y71F9B.3
Entrez Gene 171835 Entrez gene
SwissProt Q9N4G8 EMBL-EBI
WormBase CE24624 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1633559_AT dm
DROSGENOME1:153351_AT dm
HG-U133_PLUS_2:208873_S_AT chromosome 5 open reading frame 18 hs
HG-U133A:208873_S_AT chromosome 5 open reading frame 18 hs
HG-U133A_2:208873_S_AT chromosome 5 open reading frame 18 hs
HG-U133A_2:208872_S_AT chromosome 5 open reading frame 18 hs
HG-U133A:208872_S_AT chromosome 5 open reading frame 18 hs
HG-U133_PLUS_2:208872_S_AT chromosome 5 open reading frame 18 hs
HG-U95AV2:1252_AT chromosome 5 open reading frame 18 hs
HC-G110:1252_AT chromosome 5 open reading frame 18 hs
HU35KSUBD:RC_H99648_S_AT chromosome 5 open reading frame 18 hs
HUGENEFL:M73547_AT chromosome 5 open reading frame 18 hs
U133_X3P:G12652946_3P_A_AT chromosome 5 open reading frame 18 hs
U133_X3P:HS.178112.0.S1_3P_A_AT chromosome 5 open reading frame 18 hs
U133_X3P:HS.128842.0.S1_3P_X_AT Chromosome 5 open reading frame 18 hs
HG-U133_PLUS_2:233081_AT Chromosome 5 open reading frame 18 hs
HG-U133B:233081_AT Chromosome 5 open reading frame 18 hs
HG-U95C:54148_AT Chromosome 5 open reading frame 18 hs
HG-U133_PLUS_2:244031_AT Chromosome 5 open reading frame 18 hs
HG-U133B:244031_AT Chromosome 5 open reading frame 18 hs
HG-U95E:73852_R_AT Chromosome 5 open reading frame 18 hs
HG-U95D:85554_R_AT Chromosome 5 open reading frame 18 hs
U133_X3P:HS.271378.0.A1_3P_AT Chromosome 5 open reading frame 18 hs
MOE430A:1438001_X_AT deleted in polyposis 1 mm
MOUSE430A_2:1438001_X_AT deleted in polyposis 1 mm
MOUSE430_2:1438001_X_AT deleted in polyposis 1 mm
MOE430A:1419398_A_AT deleted in polyposis 1 mm
MOUSE430_2:1419398_A_AT deleted in polyposis 1 mm
MOUSE430A_2:1419398_A_AT deleted in polyposis 1 mm
MG-U74BV2:117036_AT deleted in polyposis 1 mm
MU11KSUBA:U28168_S_AT deleted in polyposis 1 mm
MU11KSUBA:AA032557_S_AT deleted in polyposis 1 mm
MG-U74AV2:103886_AT deleted in polyposis 1 mm
MG-U74AV2:96115_AT deleted in polyposis 1 mm
MOE430A:1426376_AT deleted in polyposis 1 mm
MOUSE430A_2:1426376_AT deleted in polyposis 1 mm
MOUSE430_2:1426376_AT deleted in polyposis 1 mm
MOE430B:1442128_AT Deleted in polyposis 1, mRNA (cDNA clone MGC:5997 IMAGE:3585290) mm
MOUSE430_2:1442128_AT Deleted in polyposis 1, mRNA (cDNA clone MGC:5997 IMAGE:3585290) mm
RG-U34B:RC_AI044771_AT deleted in polyposis 1 (predicted) rn
RG-U34B:RC_AA848813_AT deleted in polyposis 1 (predicted) rn
RG-U34B:RC_AA848813_G_AT deleted in polyposis 1 (predicted) rn
RAE230A:1371481_AT deleted in polyposis 1 (predicted) rn
RAT230_2:1371481_AT deleted in polyposis 1 (predicted) rn
YEAST_2:1780246_AT Membrane protein that interacts with Yip1p to mediate membrane traffic; overexpression results in cell death and accumulation of internal cell membranes; regulates vesicular traffic in stressed cells Sc
Protein Similarities
Method ID Description E-Value
blast AAF36016 Hypothetical protein Y71F9B.3 [Caenorhabditis elegans] ref|NP_491033.1| Y71F9B.3 [Caenorhabditis elegans] 1.0E-100
blast CAE60497 Hypothetical protein CBG04115 [Caenorhabditis briggsae] 4.0E-93
Protein Domains
Database ID Description E-Value
Pfam IPR004345 EMBL-EBI TB2/DP1 and HVA22 related protein 2.0E-44
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491033.1 3 49-71,92-114,124-141
Y71F9B.3.1 3 49-71,92-114,124-141
Y71F9B.3.2 3 49-71,92-114,124-141
SNAP00000013305 3 49-71,92-114,124-141
GENEFINDER00000013341 3 49-71,92-114,124-141
Sequence
Target Sequence 
>C. ELEGANS:173394_S_AT
atagatttgtgaagccagtcgccgccagacactcgggatccattgacgccaagattggaa
atttcgccgatagagtgaacagtgccgccggaaagctcgccaacgaagtccgagatcaca
tggaatga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATAGATTTGTGAAGCCAGTCGCCGC 194 23 52 Antisense
ACTCGGGATCCATTGACGCCAAGAT 520 97 82 Antisense
CGGGATCCATTGACGCCAAGATTGG 267 243 85 Antisense
CGCCAAGATTGGAAATTTCGCCGAT 277 257 98 Antisense
AAGATTGGAAATTTCGCCGATAGAG 104 155 102 Antisense
GCCGATAGAGTGAACAGTGCCGCCG 632 283 117 Antisense
TAGAGTGAACAGTGCCGCCGGAAAG 531 635 122 Antisense
TGAACAGTGCCGCCGGAAAGCTCGC 550 573 127 Antisense
CGGAAAGCTCGCCAACGAAGTCCGA 34 49 140 Antisense
CGCCAACGAAGTCCGAGATCACATG 657 255 149 Antisense
CGAAGTCCGAGATCACATGGAATGA 256 253 155 Antisense
Sequence Source Affymetrix Proprietary Database