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[175977_s_at]

Description Y55F3C.F /REP_DB=WormBase Gene ID /WP=CE22564 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_highest_10_10 > 94      6grp_high1_10_10 > 59      4grp_highest_8_8 > 23      4grp_high_8_8 > 13      6grp_highest_nonorm > 82      6grp_total > 49      4grp_total > 11      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 464
1 2 3 4 range
A 328.4
(-1.4)
P 		254.9
(-2.6)
P 		233.8
(-3)
P 		589.3
(3)
P 		356
B 299.3
(-2.6)
P 		314.1
(-2.4)
P 		271.5
(-3)
P 		697.8
(3)
P 		426
C 301.5
(-3)
P 		363.6
(-1.5)
P 		301.7
(-3)
P 		544.1
(3)
P 		243
avr 309.7
(-2.3) 		310.9
(-2.3) 		269
(-3) 		610.4
(3) 		341

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 337
1 2 3 4 5 6 range
A 336.7
(0.3)
P 		385.9
(1.5)
P 		207.1
(-2.6)
P 		188.3
(-3)
P 		334.8
(0.3)
P 		454.6
(3)
P 		266
B 408
(0.9)
P 		381.3
(0.5)
P 		186.6
(-3)
P 		243.5
(-2)
P 		321.8
(-0.6)
P 		523.4
(3)
P 		337
C 415.3
(1.9)
P 		347.5
(0.3)
P 		213.5
(-3)
P 		286.9
(-1.2)
P 		311.8
(-0.6)
P 		460
(3)
P 		247
avr 386.7
(1) 		371.6
(0.7) 		202.4
(-3) 		239.6
(-2.2) 		322.8
(-0.4) 		479.3
(3) 		277
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 93
1 2 3 4 range
A 119.6
(3)
P 		55.3
(-3)
P 		61.1
(-2.5)
P 		86.3
(-0.1)
P 		64
B 95.4
(-0.7)
P 		77.6
(-2)
P 		62.9
(-3)
P 		148.7
(3)
P 		86
C 99.8
(0.6)
P 		104.5
(2.7)
P 		105.2
(3)
P 		91.7
(-3)
P 		14
avr 104.9
(2.3) 		79.1
(-2.5) 		76.4
(-3) 		108.9
(3) 		33

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 150
1 2 3 4 5 6 range
A 62.1
(-1.9)
P 		137.2
(3)
P 		45.1
(-3)
P 		47.8
(-2.8)
P 		101
(0.6)
P 		110.7
(1.3)
P 		92
B 142
(0.9)
P 		126.9
(0.3)
P 		45.3
(-3)
P 		64.5
(-2.2)
P 		130.7
(0.4)
P 		195.2
(3)
P 		150
C 154
(3)
P 		106
(0.1)
P 		54.3
(-3)
P 		57.7
(-2.8)
P 		100.9
(-0.2)
P 		154
(3)
P 		100
avr 119.4
(1.1) 		123.4
(1.3) 		48.2
(-3) 		56.7
(-2.5) 		110.9
(0.6) 		153.3
(3) 		105
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175977_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19334
Sequence Type Exemplar sequence
Representative Public ID Y55F3C.F NCBI
Target Description Y55F3C.F /REP_DB=WormBase Gene ID /WP=CE22564 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster Evidence This cluster is supported by a Sanger Annotation.
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_067577(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067577 NCBI Caenorhabditis elegans Y55F3C.3 (Y55F3C.3) mRNA, complete cds. 11/11 None
SNAP00000015008 ENSEMBL cdna:SNAP chromosome:CEL140:IV:748707:752928:1 11/11 None
GENEFINDER00000015017 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:748838:752928:1 11/11 None
Y55F3C.3 ENSEMBL cdna:known chromosome:CEL140:IV:742083:753320:1 gene:Y55F3C.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
chrIV:748843-752934(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y55F3C.3
Entrez Gene 176899 Entrez gene
SwissProt Q95XV8 EMBL-EBI
WormBase CE29886 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.2030.1.S1_AT similar to potassium channel, subfamily V, member 1 cfa
CHICKEN:GGAAFFX.11299.1.S1_AT similar to potassium channel, subfamily V, member 1; neuronal potassium channel alpha subunit; potassium channel Kv8.1 gga
HG-U133_PLUS_2:220294_AT potassium channel, subfamily V, member 1 hs
HG-U133A:220294_AT potassium channel, subfamily V, member 1 hs
HG-FOCUS:220294_AT potassium channel, subfamily V, member 1 hs
HG-U133A_2:220294_AT potassium channel, subfamily V, member 1 hs
HU35KSUBB:RC_T89084_AT potassium channel, subfamily V, member 1 hs
HU35KSUBD:RC_F10179_S_AT potassium channel, subfamily V, member 1 hs
U133_X3P:G7657288_3P_AT potassium channel, subfamily V, member 1 hs
HG-U95C:55820_AT potassium channel, subfamily V, member 1 hs
MOUSE430_2:1453273_AT potassium channel, subfamily V, member 1 mm
MOE430B:1453273_AT potassium channel, subfamily V, member 1 mm
MOE430B:1429741_AT potassium channel, subfamily V, member 1 mm
MOUSE430_2:1429741_AT potassium channel, subfamily V, member 1 mm
MOE430B:1439333_AT potassium channel, subfamily V, member 1 mm
MOUSE430_2:1439333_AT potassium channel, subfamily V, member 1 mm
MG-U74CV2:167171_AT Potassium channel, subfamily V, member 1 (Kcnv1), mRNA mm
RAE230A:1387881_AT potassium channel, subfamily V, member 1 rn
RAT230_2:1387881_AT potassium channel, subfamily V, member 1 rn
RN-U34:X98564CDS_AT potassium channel, subfamily V, member 1 rn
RG-U34A:X98564CDS_AT potassium channel, subfamily V, member 1 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6811 ion transport inferred from electronic annotation QuickGO AmiGO
6813 potassium ion transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
8076 voltage-gated potassium channel complex inferred from electronic annotation QuickGO AmiGO
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5216 ion channel activity inferred from electronic annotation QuickGO AmiGO
5249 voltage-gated potassium channel activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK72074 Hypothetical protein Y55F3C.3 [Caenorhabditis elegans] ref|NP_499978.2| Y55F3C.3 [Caenorhabditis elegans] 0.0
blast CAE65650 Hypothetical protein CBG10711 [Caenorhabditis briggsae] 0.0
blast AAC25887 Expulsion defective (defecation) protein 2, isoform a [Caenorhabditis elegans] ref|NP_001023789.1| EXPulsion defective (defecation) family member (exp-2) [Caenorhabditis elegans] 1.0E-96
Protein Domains
Database ID Description E-Value
Pfam IPR005821 EMBL-EBI Ion transport protein 4.0E-37
Pfam IPR003131 EMBL-EBI K+ channel tetramerisation 4.0E-28
Pfam IPR005821 EMBL-EBI Ion transport protein 4.0E-37
Pfam IPR003131 EMBL-EBI K+ channel tetramerisation 4.0E-28
Pfam IPR005821 EMBL-EBI Ion transport protein 4.0E-37
Pfam IPR003131 EMBL-EBI K+ channel tetramerisation 4.0E-28
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499978.2 4 343-365,417-436,446-468,475-497
Y55F3C.3 4 343-365,417-436,446-468,475-497
SNAP00000015008 4 351-373,425-444,454-476,483-505
GENEFINDER00000015017 4 332-354,406-425,435-457,464-486
Sequence
Target Sequence 
>C. ELEGANS:175977_S_AT
aaacgtctgtgtcatctatttctcgattgaatatgccatgcgatttattgttgctccaag
aaagttagcgtttgctcgtcaaattctgaacgtcatcgatctgctctctattgccccatt
ctactttgagcttcttctctggatctgtggaatcagtggtgagaacgttcgaaaggttcg
ttgggcgttcctgacagtccgtcttcttcgtgtacttcgtgtcattagaatcgccaagct
aggaagattctcaccgggtctcgcaaactttgcacttacaattcgaaaatccaagaaaca
aatgcaaatggttggtgttgtgatgatgactgtgattatcttcttctcaactcttatcta
cttcctggaaagagatgagccaggaaccaagttcacgagtattccagcaacgttctggtg
gtgcgtcgtgactatggcaaccgtcggatacggagatctcgtgccagttacagtagctgg
aaaactcgtcggaagtggagcaatcgtgtgcggagttatggttttagcccttccaattac
tat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAACGTCTGTGTCATCTATTTCTCG 434 127 921 Antisense
GCCATGCGATTTATTGTTGCTCCAA 328 281 955 Antisense
TTCTGAACGTCATCGATCTGCTCTC 113 693 1004 Antisense
GCTTCTTCTCTGGATCTGTGGAATC 491 305 1050 Antisense
CTTCTTCGTGTACTTCGTGTCATTA 485 221 1123 Antisense
GACTGTGATTATCTTCTTCTCAACT 63 377 1248 Antisense
TCAACTCTTATCTACTTCCTGGAAA 350 631 1267 Antisense
CAGCAACGTTCTGGTGGTGCGTCGT 403 203 1325 Antisense
GTCGTGACTATGGCAACCGTCGGAT 555 471 1345 Antisense
GAGATCTCGTGCCAGTTACAGTAGC 490 395 1373 Antisense
TGGTTTTAGCCCTTCCAATTACTAT 280 549 1439 Antisense
Sequence Source Affymetrix Proprietary Database