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[174251_s_at]

Description C36557_rc /REP_DB=TREMBL Accession /GB=C36557 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk467a9 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 19      6grp_high1_10_10 > 81      4grp_highest_8_8 > 02      4grp_high_8_8 > 46      6grp_highest_nonorm > 63      6grp_total > 81      4grp_total > 49      6grp_highest_sub > 05      6grp_high1_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 857
1 2 3 4 range
A 179.1
(-3)
P 		951.7
(2.4)
P 		1036.5
(3)
P 		281
(-2.3)
P 		857
B 261.3
(-3)
P 		940.5
(2.6)
P 		990.3
(3)
P 		278.6
(-2.9)
P 		729
C 194.4
(-3)
P 		902.5
(2.5)
P 		962.2
(3)
P 		263.8
(-2.5)
P 		768
avr 211.6
(-3) 		931.6
(2.5) 		996.3
(3) 		274.5
(-2.5) 		785

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 772
1 2 3 4 5 6 range
A 604.6
(-1.6)
P 		679.9
(-0.5)
P 		593.1
(-1.8)
P 		908.7
(3)
P 		891.7
(2.7)
P 		514.9
(-3)
P 		394
B 458.3
(-2.4)
P 		765.7
(0.1)
P 		417.4
(-2.7)
P 		1115.1
(3)
P 		797.2
(0.4)
P 		384.1
(-3)
P 		731
C 395.2
(-2.5)
P 		646.7
(0.1)
P 		720.8
(0.8)
P 		936.8
(3)
P 		809.8
(1.7)
P 		343.2
(-3)
P 		594
avr 486
(-2.2) 		697.4
(-0) 		577.1
(-1.3) 		986.9
(3) 		832.9
(1.4) 		414.1
(-3) 		573
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 294
1 2 3 4 range
A 65.2
(-2.4)
P 		206.6
(1.3)
P 		271
(3)
P 		41.1
(-3)
P 		230
B 83.3
(-2.2)
P 		232.3
(3)
P 		229.5
(2.9)
P 		59.4
(-3)
P 		173
C 64.3
(-2.6)
P 		259.5
(1.4)
P 		335.3
(3)
P 		44.5
(-3)
P 		291
avr 70.9
(-2.4) 		232.8
(1.8) 		278.6
(3) 		48.3
(-3) 		230

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 223
1 2 3 4 5 6 range
A 111.4
(-3)
P 		241.8
(2)
P 		129.2
(-2.3)
P 		230.5
(1.5)
P 		269.1
(3)
P 		125.4
(-2.5)
P 		158
B 159.5
(-1.4)
P 		254.9
(1.1)
P 		101.4
(-3)
P 		295.3
(2.2)
P 		323.9
(3)
P 		143.2
(-1.9)
P 		223
C 146.5
(-1.7)
P 		197.3
(0.4)
P 		183.5
(-0.2)
P 		188.4
(-0)
P 		262
(3)
P 		114.9
(-3)
P 		147
avr 139.1
(-2.6) 		231.3
(1) 		138
(-2.6) 		238.1
(1.2) 		285
(3) 		127.8
(-3) 		157
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174251_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21555
Sequence Type Exemplar sequence
Representative Public ID C36557 NCBI
Target Description C36557_rc /REP_DB=TREMBL Accession /GB=C36557 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk467a9 : 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_067873(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067873 NCBI Caenorhabditis elegans Y54G2A.4 (Y54G2A.4) mRNA, complete cds. 11/11 None
SNAP00000036509 ENSEMBL cdna:SNAP chromosome:CEL140:IV:2931377:2936671:1 11/11 None
GENEFINDER00000036584 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:2930084:2936671:1 11/11 None
Y54G2A.4 ENSEMBL cdna:known chromosome:CEL140:IV:2931406:2936819:1 gene:Y54G2A.4 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
chrIV:2936383-2936761(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y54G2A.4
Entrez Gene 177075 Entrez gene
SwissProt Q9N3A9 EMBL-EBI
WormBase CE31654 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:261944_AT expressed protein at
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5215 transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF59574 Hypothetical protein Y54G2A.4 [Caenorhabditis elegans] ref|NP_500274.2| Y54G2A.4 [Caenorhabditis elegans] 0.0
blast CAE67930 Hypothetical protein CBG13530 [Caenorhabditis briggsae] 0.0
blast NP_912437 Putative transporter [Oryza sativa (japonica cultivar-group)] gb|AAO17028.1| Putative transporter [Oryza sativa (japonica cultivar-group)] 1.0E-100
Protein Domains
Database ID Description E-Value
Pfam IPR008509 EMBL-EBI Protein of unknown function DUF791 1.0E-126
Pfam IPR008509 EMBL-EBI Protein of unknown function DUF791 1.0E-126
Pfam IPR008509 EMBL-EBI Protein of unknown function DUF791 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_500274.2 12 2-24,39-61,73-92,102-119,126-148,163-182,189-211,273-295,307-324,328-347,367-384,389-411
Y54G2A.4 12 2-24,39-61,73-92,102-119,126-148,163-182,189-211,273-295,307-324,328-347,367-384,389-411
SNAP00000036509 10 66-88,98-120,153-175,190-209,216-238,300-322,334-351,355-374,394-411,416-438
GENEFINDER00000036584 11 35-54,74-96,106-128,161-183,198-217,224-246,308-330,342-359,363-382,402-419,424-446
Sequence
Target Sequence 
>C. ELEGANS:174251_S_AT
ggcacctatgtctccgaagagacccgctccacgacactgaacctgttccgtgtcccccta
aaccttattgtgatattcatcctctggcagaacttcaccatgatctccatcttcaaattc
tgcgtcttcttcctcttcgccgcctcgattgctcagcatgctcttttcatccgcaccgag
cacactccacgtcatcaaaagttgccgatcagtgtcgaggaggccgagaactt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGCACCTATGTCTCCGAAGAGACCC 63 537 18 Antisense
TCCACGACACTGAACCTGTTCCGTG 296 589 45 Antisense
CGACACTGAACCTGTTCCGTGTCCC 465 249 49 Antisense
TGTCCCCCTAAACCTTATTGTGATA 543 555 68 Antisense
TATTGTGATATTCATCCTCTGGCAG 528 665 83 Antisense
ATCCTCTGGCAGAACTTCACCATGA 23 39 96 Antisense
TTCACCATGATCTCCATCTTCAAAT 163 687 111 Antisense
TGATCTCCATCTTCAAATTCTGCGT 570 563 118 Antisense
CACACTCCACGTCATCAAAAGTTGC 417 195 198 Antisense
AAAAGTTGCCGATCAGTGTCGAGGA 445 129 214 Antisense
TCAGTGTCGAGGAGGCCGAGAACTT 262 619 226 Antisense
Sequence Source Affymetrix Proprietary Database