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[188076_s_at]

Description Y73F8A.1 /REP_DB=WormBase Gene ID /WP=CE25589 /GEN=pkd-2 /TR=Q9U1S7 /GB=CAB60565.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 07      4grp_total > 31      6grp_cgc > 11      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 150
1 2 3 4 range
A 128.8
(3)
A 		37.6
(-1.3)
A 		2.5
(-3)
A 		65.8
(0)
A 		126
B 152.2
(3)
A 		28.4
(-2.2)
A 		8.4
(-3)
A 		32.1
(-2)
A 		144
C 122.3
(3)
A 		11.3
(-2.8)
A 		8.1
(-3)
A 		96.8
(1.7)
A 		114
avr 134.4
(3) 		25.8
(-2.1) 		6.3
(-3) 		64.9
(-0.3) 		128

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 84
1 2 3 4 5 6 range
A 84.2
(3)
A 		47.1
(0.2)
A 		17.2
(-2)
A 		12.2
(-2.3)
A 		3.4
(-3)
A 		43.8
(-0)
A 		81
B 87.3
(3)
A 		11.4
(-2.5)
A 		7.8
(-2.7)
A 		4.1
(-3)
A 		14.4
(-2.3)
A 		14.6
(-2.2)
A 		83
C 65.2
(3)
A 		31.3
(-0.4)
A 		11.2
(-2.4)
A 		61.8
(2.7)
A 		7.1
(-2.8)
A 		5.2
(-3)
A 		60
avr 78.9
(3) 		29.9
(-1.2) 		12.1
(-2.7) 		26
(-1.5) 		8.3
(-3) 		21.2
(-1.9) 		71
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 48
1 2 3 4 range
A 46.9
(3)
A 		8.2
(-2)
A 		0.7
(-3)
A 		9.6
(-1.8)
A 		46
B 48.5
(3)
A 		7
(-2.3)
A 		1.9
(-3)
A 		6.8
(-2.4)
A 		47
C 40.5
(3)
A 		3.2
(-2.9)
A 		2.8
(-3)
A 		16.3
(-0.9)
A 		38
avr 45.3
(3) 		6.1
(-2.4) 		1.8
(-3) 		10.9
(-1.7) 		44

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 29
1 2 3 4 5 6 range
A 15.5
(2.5)
A 		16.8
(3)
A 		3.8
(-1.9)
A 		3.1
(-2.2)
A 		1
(-3)
A 		10.7
(0.7)
A 		16
B 30.4
(3)
A 		3.8
(-2.4)
A 		1.9
(-2.8)
A 		1.1
(-3)
A 		5.9
(-2)
A 		5.4
(-2.1)
A 		29
C 24.2
(3)
A 		9.6
(-0.9)
A 		2.9
(-2.7)
A 		12.4
(-0.2)
A 		2.3
(-2.9)
A 		1.8
(-3)
A 		22
avr 23.4
(3) 		10.1
(-0.9) 		2.9
(-3) 		5.5
(-2.2) 		3.1
(-2.9) 		6
(-2.1) 		21
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188076_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9815
Sequence Type Exemplar sequence
Representative Public ID Y73F8A.1 NCBI
Target Description Y73F8A.1 /REP_DB=WormBase Gene ID /WP=CE25589 /GEN=pkd-2 /TR=Q9U1S7 /GB=CAB60565.1 /SUBMIT=HINXTON /CHR=4 /FEA=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_070437(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070437 NCBI Caenorhabditis elegans human PKD2 (polycystic kidney disease) related family member (pkd-2) (pkd-2) mRNA, complete cds. 11/11 None
SNAP00000030800 ENSEMBL cdna:SNAP chromosome:CEL140:IV:15227904:15235423:-1 11/11 None
GENEFINDER00000030885 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:15227904:15230138:-1 11/11 None
Y73F8A.1 ENSEMBL cdna:known chromosome:CEL140:IV:15227845:15235976:-1 gene:Y73F8A.1 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:15227909-15235982(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol pkd-2
Ensembl Y73F8A.1
Entrez Gene 178424 Entrez gene
SwissProt Q9U1S7 EMBL-EBI
WormBase CE38663 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.15084.1.S1_S_AT similar to polycystin 2 cfa
CHICKEN:GGA.6054.1.S1_AT polycystic kidney disease 2 (autosomal dominant) gga
CHICKEN:GGA.6054.2.S1_S_AT polycystic kidney disease 2 (autosomal dominant) gga
HG-U133_PLUS_2:203688_AT polycystic kidney disease 2 (autosomal dominant) hs
HG-U133A_2:203688_AT polycystic kidney disease 2 (autosomal dominant) hs
HG-U133A:203688_AT polycystic kidney disease 2 (autosomal dominant) hs
HG-FOCUS:203688_AT polycystic kidney disease 2 (autosomal dominant) hs
HU35KSUBA:HUM_ALU_AT polycystic kidney disease 2 (autosomal dominant) hs
HU35KSUBB:HUM_ALU_AT polycystic kidney disease 2 (autosomal dominant) hs
HU35KSUBC:HUM_ALU_AT polycystic kidney disease 2 (autosomal dominant) hs
HU35KSUBD:HUM_ALU_AT polycystic kidney disease 2 (autosomal dominant) hs
HUGENEFL:HUM_ALU_AT polycystic kidney disease 2 (autosomal dominant) hs
HC-G110:HUM_ALU_AT polycystic kidney disease 2 (autosomal dominant) hs
HUGENEFL:U50928_AT polycystic kidney disease 2 (autosomal dominant) hs
U133_X3P:G4505834_3P_AT polycystic kidney disease 2 (autosomal dominant) hs
HG-U95AV2:34170_S_AT polycystic kidney disease 2 (autosomal dominant) hs
HG-U95AV2:38120_AT polycystic kidney disease 2 (autosomal dominant) hs
HG-U133_PLUS_2:240370_AT Polycystic kidney disease 2 (autosomal dominant) hs
HG-U133B:240370_AT Polycystic kidney disease 2 (autosomal dominant) hs
HG-U95C:61587_AT Polycystic kidney disease 2 (autosomal dominant) hs
HG-U95E:67117_AT Polycystic kidney disease 2 (autosomal dominant) hs
HG-U95D:68401_R_AT Polycystic kidney disease 2 (autosomal dominant) hs
HG-U95D:78564_AT Polycystic kidney disease 2 (autosomal dominant) hs
U133_X3P:HS.134131.0.A1_3P_AT Polycystic kidney disease 2 (autosomal dominant) hs
MU11KSUBA:AF014010_G_AT polycystic kidney disease 2 mm
MU11KSUBA:AF014010_AT polycystic kidney disease 2 mm
MG-U74AV2:100951_AT polycystic kidney disease 2 mm
MOE430A:1417753_AT polycystic kidney disease 2 mm
MOUSE430A_2:1417753_AT polycystic kidney disease 2 mm
MOUSE430_2:1417753_AT polycystic kidney disease 2 mm
MOE430B:1441870_S_AT polycystic kidney disease 2 mm
MOUSE430_2:1441870_S_AT polycystic kidney disease 2 mm
MU19KSUBC:TC35001_S_AT Polycystic kidney disease 2 (Pkd2), mRNA mm
RAE230B:1378522_AT Similar to polycystic kidney disease 2 rn
RAT230_2:1378522_AT Similar to polycystic kidney disease 2 rn
RAE230B:1379209_AT Similar to polycystic kidney disease 2 rn
RAT230_2:1379209_AT Similar to polycystic kidney disease 2 rn
RAE230B:1382021_AT Similar to polycystic kidney disease 2 rn
RAT230_2:1382021_AT Similar to polycystic kidney disease 2 rn
RAE230A:1386781_AT Similar to polycystic kidney disease 2 rn
RAT230_2:1386781_AT Similar to polycystic kidney disease 2 rn
RAE230B:1396689_AT Similar to polycystic kidney disease 2 rn
RAT230_2:1396689_AT Similar to polycystic kidney disease 2 rn
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5929 cilium inferred from direct assay QuickGO AmiGO
43025 cell soma inferred from direct assay QuickGO AmiGO
5886 plasma membrane inferred from direct assay QuickGO AmiGO
31090 organelle membrane inferred from direct assay QuickGO AmiGO
30425 dendrite inferred from direct assay QuickGO AmiGO
30424 axon inferred from direct assay QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB60565 Hypothetical protein Y73F8A.1 [Caenorhabditis elegans] ref|NP_502838.3| human PKD2 (polycystic kidney disease) related family member (pkd-2) [Caenorhabditis elegans] 0.0
blast CAE68097 Hypothetical protein CBG13737 [Caenorhabditis briggsae] 0.0
blast CAB60565 Hypothetical protein Y73F8A.1 [Caenorhabditis elegans] ref|NP_502838.3| human PKD2 (polycystic kidney disease) related family member (pkd-2) [Caenorhabditis elegans] 1.0E-128
blast CAE68097 Hypothetical protein CBG13737 [Caenorhabditis briggsae] 1.0E-116
blast AAP35006 polycystic kidney disease protein 2 [Strongylocentrotus purpuratus] ref|NP_999827.1| polycystic kidney disease protein 2 [Strongylocentrotus purpuratus] 1.0E-111
Protein Domains
Database ID Description E-Value
Pfam IPR005821 EMBL-EBI Ion transport protein 9.9E-33
Pfam IPR005821 EMBL-EBI Ion transport protein 9.9E-33
Pfam IPR005821 EMBL-EBI Ion transport protein 9.9E-33
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502838.3 5 74-93,323-345,355-377,448-470,506-528
Y73F8A.1 5 133-152,382-404,414-436,507-529,565-587
SNAP00000030800 5 120-139,369-391,401-423,494-516,552-574
GENEFINDER00000030885 2 13-35,45-67
Sequence
Target Sequence 
>C. ELEGANS:188076_S_AT
cttcgtctcgttcatcctattgaacatgttcttggctatcatcaatgattcctacgttga
agtgaaagcagagctggctagaaagaaagatggagaggggattttggattggtttatgaa
taaagttcgaggactcacaaaacgtggaaaacgcccggatgcccctggagaggatgccac
gtatgaagactacaaactgatgctctaccgtgccggatacgctgaaaaagacatcaatga
agcattcactcgattcaatgtaacatcaatgactgagcatgttccggagaaagtggctga
agatattgctgatgaggtggctagaatgacggaacagaaaagaaattatatggagaatca
cagggattacgcaaatttgaaccgccgtgtagatcaaatgcaagaatcagtgttcagcat
tgtggatcggattgaaggagtcaatgcaacactccagacaatcgaaaaacaaagagttca
acaacaagatggaggaaatttgatggatttgagtgccctcctcaccaaccaagtccgtaa
ccgtgaatctgccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTTCGTCTCGTTCATCCTATTGAAC 165 221 1860 Antisense
GAACATGTTCTTGGCTATCATCAAT 369 351 1881 Antisense
GGAGAGGATGCCACGTATGAAGACT 93 515 2026 Antisense
GACTACAAACTGATGCTCTACCGTG 288 371 2047 Antisense
TCTACCGTGCCGGATACGCTGAAAA 301 615 2063 Antisense
AAGCATTCACTCGATTCAATGTAAC 318 151 2099 Antisense
ATGACTGAGCATGTTCCGGAGAAAG 277 45 2128 Antisense
GAACCGCCGTGTAGATCAAATGCAA 303 347 2238 Antisense
CAGTGTTCAGCATTGTGGATCGGAT 401 207 2267 Antisense
TCAATGCAACACTCCAGACAATCGA 274 633 2300 Antisense
CAAGTCCGTAACCGTGAATCTGCCG 548 183 2389 Antisense
Sequence Source Affymetrix Proprietary Database