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[193829_at] inward rectifier potassium channel (IRK)

Description R03E9.4 /REP_DB=WormBase Gene ID /WP=CE04787 /GEN=irk-4 /TR=SW:P52192 /GB=AAC48070.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=inward rectifier potassium channel (IRK)
Cluster 6grp_total > 01      4grp_total > 29      6grp_cgc > 64      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 86
1 2 3 4 range
A 93.1
(-2.7)
P 		127.1
(3)
A 		91
(-3)
A 		103.8
(-0.9)
A 		36
B 142.4
(3)
A 		87
(-1.7)
A 		71.4
(-3)
A 		86.2
(-1.7)
A 		71
C 115.5
(2.3)
M 		83.4
(-0.6)
A 		56.2
(-3)
A 		123.2
(3)
P 		67
avr 117
(3) 		99.2
(0.6) 		72.9
(-3) 		104.4
(1.3) 		44

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 107
1 2 3 4 5 6 range
A 8.7
(-3)
A 		75.8
(2.9)
A 		52
(0.8)
A 		65.6
(2)
A 		68.8
(2.3)
A 		76.7
(3)
A 		68
B 90
(0.2)
A 		115.7
(3)
A 		82
(-0.7)
A 		96.5
(0.9)
A 		74.3
(-1.6)
A 		61.4
(-3)
A 		54
C 96
(2.1)
P 		88
(1.2)
A 		63.9
(-1.8)
A 		54.3
(-3)
A 		103
(3)
P 		61.4
(-2.1)
M 		49
avr 64.9
(-3) 		93.2
(3) 		66
(-2.8) 		72.1
(-1.5) 		82
(0.6) 		66.5
(-2.7) 		28
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 30
1 2 3 4 range
A 33.9
(3)
P 		27.6
(1)
A 		23.8
(-0.2)
A 		15.2
(-3)
A 		19
B 45.4
(3)
A 		21.5
(-2)
A 		16.5
(-3)
A 		18.4
(-2.6)
A 		29
C 38.2
(3)
M 		24
(-1.6)
A 		19.6
(-3)
A 		20.8
(-2.6)
P 		19
avr 39.2
(3) 		24.4
(-1.2) 		20
(-2.5) 		18.1
(-3) 		21

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 37
1 2 3 4 5 6 range
A 1.6
(-3)
A 		26.9
(3)
A 		11.3
(-0.7)
A 		16.6
(0.6)
A 		20.8
(1.6)
A 		18.7
(1.1)
A 		25
B 31.3
(0.7)
A 		38.5
(3)
A 		19.9
(-3)
A 		25.6
(-1.2)
A 		30.2
(0.3)
A 		22.9
(-2)
A 		19
C 35.6
(3)
P 		26.8
(0.9)
A 		16.3
(-1.7)
A 		10.9
(-3)
A 		33.3
(2.4)
P 		20.5
(-0.7)
M 		25
avr 22.8
(-0.2) 		30.7
(3) 		15.8
(-3) 		17.7
(-2.2) 		28.1
(2) 		20.7
(-1) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193829_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16542
Sequence Type Exemplar sequence
Representative Public ID R03E9.4 NCBI
Target Description R03E9.4 /REP_DB=WormBase Gene ID /WP=CE04787 /GEN=irk-4 /TR=SW:P52192 /GB=AAC48070.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=inward rectifier potassium channel (IRK)
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_076737(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076737 NCBI Caenorhabditis elegans Inward Rectifying K (potassium) channel family member (irk-1) (irk-1) mRNA, complete cds. 11/11 None
SNAP00000044145 ENSEMBL cdna:SNAP chromosome:CEL140:X:6766532:6769401:-1 11/11 None
GENEFINDER00000044146 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6766532:6769912:-1 11/11 None
R03E9.4 ENSEMBL cdna:known chromosome:CEL140:X:6767199:6771598:-1 gene:R03E9.4 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
chrX:6767198-6771598(-) 100.0 100.0
Public Domain and Genome References
Gene Title inward rectifier potassium channel (IRK)
Gene Symbol irk-1
Ensembl R03E9.4
Entrez Gene 180944 Entrez gene
SwissProt P52192 EMBL-EBI
WormBase CE04787 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1582618_AT potassium inwardly-rectifying channel, subfamily J, member 2 cfa
CANINE_2:CFA.3583.1.S1_S_AT potassium inwardly-rectifying channel, subfamily J, member 2 cfa
CHICKEN:GGA.254.1.S1_AT potassium inwardly-rectifying channel, subfamily J, member 2 gga
HG-U95AV2:36349_AT potassium inwardly-rectifying channel, subfamily J, member 2 hs
HG-U133_PLUS_2:206765_AT potassium inwardly-rectifying channel, subfamily J, member 2 hs
HG-U133A:206765_AT potassium inwardly-rectifying channel, subfamily J, member 2 hs
HG-FOCUS:206765_AT potassium inwardly-rectifying channel, subfamily J, member 2 hs
HG-U133A_2:206765_AT potassium inwardly-rectifying channel, subfamily J, member 2 hs
HU35KSUBC:RC_AA393850_AT potassium inwardly-rectifying channel, subfamily J, member 2 hs
HUGENEFL:U16861_AT potassium inwardly-rectifying channel, subfamily J, member 2 hs
U133_X3P:G8132296_3P_AT potassium inwardly-rectifying channel, subfamily J, member 2 hs
HG-U95B:48919_AT potassium inwardly-rectifying channel, subfamily J, member 2 hs
HG-U133_PLUS_2:231513_AT Potassium inwardly-rectifying channel, subfamily J, member 2 hs
HG-U133B:231513_AT Potassium inwardly-rectifying channel, subfamily J, member 2 hs
HG-U95B:47287_AT Potassium inwardly-rectifying channel, subfamily J, member 2 hs
HU35KSUBC:RC_W31344_AT Potassium inwardly-rectifying channel, subfamily J, member 2 hs
U133_X3P:HS.1547.1.A1_3P_AT Potassium inwardly-rectifying channel, subfamily J, member 2 hs
MG-U74AV2:98823_AT potassium inwardly-rectifying channel, subfamily J, member 2 mm
MU11KSUBB:X73052_S_AT potassium inwardly-rectifying channel, subfamily J, member 2 mm
MOE430A:1450503_AT potassium inwardly-rectifying channel, subfamily J, member 2 mm
MOUSE430A_2:1450503_AT potassium inwardly-rectifying channel, subfamily J, member 2 mm
MOUSE430_2:1450503_AT potassium inwardly-rectifying channel, subfamily J, member 2 mm
RN-U34:AF021137_S_AT potassium inwardly-rectifying channel, subfamily J, member 2 rn
RG-U34A:AF021137_S_AT potassium inwardly-rectifying channel, subfamily J, member 2 rn
RAE230A:1368793_AT potassium inwardly-rectifying channel, subfamily J, member 2 rn
RAT230_2:1368793_AT potassium inwardly-rectifying channel, subfamily J, member 2 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6813 potassium ion 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
5242 inward rectifier potassium channel activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_509138 Inward Rectifying K (potassium) channel family member (irk-1) [Caenorhabditis elegans] gb|AAC48070.1| Inward rectifying k (potassium) channel family protein 1 [Caenorhabditis elegans] sp|P52192|IRK1_CAEEL Inward rectifier potassium channel irk-1 0.0
blast CAE65786 Hypothetical protein CBG10884 [Caenorhabditis briggsae] 0.0
blast CAE63630 Hypothetical protein CBG08126 [Caenorhabditis briggsae] 7.0E-97
Protein Domains
Database ID Description E-Value
Pfam IPR001838 EMBL-EBI K+ channel, inward rectifier 1.0E-126
Pfam IPR001838 EMBL-EBI K+ channel, inward rectifier 1.0E-126
Pfam IPR001838 EMBL-EBI K+ channel, inward rectifier 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509138.1 3 114-136,146-168,189-211
R03E9.4 3 114-136,146-168,189-211
SNAP00000044145 2 12-34,84-106
GENEFINDER00000044146 3 78-100,110-132,153-175
Sequence
Target Sequence 
>C. ELEGANS:193829_AT
tcaagcgaaaacttcctatctcccatcagaagttctatggggtcaccggtttcgtaaact
tgttacttatcaacgatcaaatggttcttatcaaatcgactatgatctcttccacagcac
atatccagttcgtactcctgcaatgagccctgccgagttctactcatcgaaaccaaatct
caaggactattattgtcatgacagtcacgaacacaaacttgaagataatcgttcttctga
ttccactccattgccatctccatctccatacagctacccttcaactccgctgaaccattt
tcaatcgtcatcaaactccccagtattttccaataatcattcaaaattcaacacagaggc
ggtgacatgtgaggctggaatgctgtgtcctccaactatcgttgtgcaatgtccgtcaac
atgtgcctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAAGCGAAAACTTCCTATCTCCCA 79 633 1035 Antisense
AAATCGACTATGATCTCTTCCACAG 691 117 1127 Antisense
TTCCACAGCACATATCCAGTTCGTA 461 701 1144 Antisense
CCAGTTCGTACTCCTGCAATGAGCC 277 271 1159 Antisense
ATAATCGTTCTTCTGATTCCACTCC 328 25 1259 Antisense
TTCAACTCCGCTGAACCATTTTCAA 391 685 1314 Antisense
ATTTTCAATCGTCATCAAACTCCCC 160 13 1331 Antisense
ATCAAACTCCCCAGTATTTTCCAAT 614 23 1344 Antisense
TGAGGCTGGAATGCTGTGTCCTCCA 577 567 1404 Antisense
GTGTCCTCCAACTATCGTTGTGCAA 442 487 1419 Antisense
TGCAATGTCCGTCAACATGTGCCTC 310 577 1439 Antisense
Sequence Source Affymetrix Proprietary Database