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[189415_at] six WD40 repeats

Description R06A4.9 /REP_DB=WormBase Gene ID /WP=CE21113 /TR=Q9NAN8 /GB=CAB76722.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=six WD40 repeats
Cluster 6grp_highest_10_10 > 61      6grp_high1_10_10 > 27      4grp_highest_8_8 > 31      4grp_high_8_8 > 20      6grp_highest_nonorm > 70      6grp_total > 17      4grp_total > 19      6grp_highest_sub > De      6grp_high1_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 143
1 2 3 4 range
A 340.5
(-1.2)
P 		392.7
(2.6)
P 		315.3
(-3)
P 		398.4
(3)
P 		83
B 318.7
(-0.9)
P 		268
(-3)
P 		355.7
(0.7)
P 		411.2
(3)
P 		143
C 349.4
(3)
P 		349.6
(3)
P 		271.2
(-3)
P 		348.3
(2.9)
P 		78
avr 336.2
(-1.2) 		336.8
(-1.1) 		314.1
(-3) 		386
(3) 		72

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 297
1 2 3 4 5 6 range
A 458.1
(3)
P 		329.9
(0.4)
P 		173.8
(-2.7)
P 		161.2
(-3)
P 		256.9
(-1.1)
P 		264.9
(-0.9)
P 		297
B 457.4
(3)
P 		306.1
(-0.8)
P 		274.2
(-1.6)
P 		261.1
(-1.9)
P 		215.9
(-3)
P 		281.4
(-1.4)
P 		242
C 407.9
(3)
P 		370.4
(1.9)
P 		273.1
(-0.9)
P 		259.9
(-1.3)
P 		200.6
(-3)
P 		257.7
(-1.3)
P 		207
avr 441.1
(3) 		335.5
(0.1) 		240.4
(-2.6) 		227.4
(-2.9) 		224.5
(-3) 		268
(-1.8) 		217
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 66
1 2 3 4 range
A 124
(3)
P 		85.2
(-0.5)
P 		82.4
(-0.8)
P 		58.3
(-3)
P 		66
B 101.6
(3)
P 		66.2
(-3)
P 		82.4
(-0.3)
P 		87.6
(0.6)
P 		35
C 115.7
(3)
P 		100.5
(1.4)
P 		94.5
(0.8)
P 		58.7
(-3)
P 		57
avr 113.8
(3) 		84
(-0.9) 		86.4
(-0.6) 		68.2
(-3) 		46

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 121
1 2 3 4 5 6 range
A 84.5
(0.5)
P 		117.3
(3)
P 		37.9
(-3)
P 		40.9
(-2.8)
P 		77.5
(-0)
P 		64.5
(-1)
P 		79
B 159.1
(3)
P 		101.9
(-0.7)
P 		66.6
(-3)
P 		69.2
(-2.8)
P 		87.7
(-1.6)
P 		104.9
(-0.5)
P 		93
C 151.2
(3)
P 		113
(0.7)
P 		69.5
(-2)
P 		52.3
(-3)
P 		64.9
(-2.2)
P 		86.3
(-0.9)
P 		99
avr 131.6
(3) 		110.7
(1.4) 		58
(-2.7) 		54.1
(-3) 		76.7
(-1.3) 		85.2
(-0.6) 		78
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189415_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2807
Sequence Type Exemplar sequence
Representative Public ID R06A4.9 NCBI
Target Description R06A4.9 /REP_DB=WormBase Gene ID /WP=CE21113 /TR=Q9NAN8 /GB=CAB76722.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=six WD40 repeats
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_064584(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064584 NCBI Caenorhabditis elegans R06A4.9 (R06A4.9) mRNA, complete cds. 11/11 None
SNAP00000043977 ENSEMBL cdna:SNAP chromosome:CEL140:II:14358377:14361376:1 11/11 None
GENEFINDER00000043986 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:14358377:14361376:1 11/11 None
R06A4.9.1 ENSEMBL cdna:known chromosome:CEL140:II:14358282:14361516:1 gene:R06A4.9 11/11 None
R06A4.9.2 ENSEMBL cdna:known chromosome:CEL140:II:14358295:14361516:1 gene:R06A4.9 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
chrII:14358373-14361373(+) 100.0 100.0
Public Domain and Genome References
Gene Title six WD40 repeats
Ensembl R06A4.9
Entrez Gene 175092 Entrez gene
SwissProt Q9NAN8 EMBL-EBI
WormBase CE21113 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:245848_AT WD-40 repeat family protein at
CANINE_2:CFA.17987.1.S1_S_AT similar to WD repeat domain 33 isoform 2 cfa
CANINE_2:CFA.18522.1.S1_AT similar to WD repeat domain 33 isoform 2 cfa
CANINE_2:CFA.19099.1.S1_AT similar to WD repeat domain 33 isoform 2 cfa
CANINE_2:CFAAFFX.7407.1.S1_AT similar to WD repeat domain 33 isoform 2 cfa
CANINE_2:CFAAFFX.7410.1.S1_S_AT similar to WD repeat domain 33 isoform 2 cfa
CANINE_2:CFAAFFX.7412.1.S1_AT similar to WD repeat domain 33 isoform 2 cfa
DROSOPHILA_2:1623656_S_AT dm
DROSGENOME1:154222_AT dm
CHICKEN:GGA.12640.1.S1_S_AT similar to WD repeat domain 33 gga
CHICKEN:GGAAFFX.25374.1.S1_AT similar to WD repeat domain 33 gga
CHICKEN:GGAAFFX.25374.2.S1_AT similar to WD repeat domain 33 gga
HG-U133B:223146_AT WD repeat domain 33 hs
HG-U133_PLUS_2:223146_AT WD repeat domain 33 hs
HG-U133_PLUS_2:218851_S_AT WD repeat domain 33 hs
HG-U133A:218851_S_AT WD repeat domain 33 hs
HG-U133A_2:218851_S_AT WD repeat domain 33 hs
HG-U133_PLUS_2:229141_AT WD repeat domain 33 hs
HG-U133B:229141_AT WD repeat domain 33 hs
HG-U133B:223147_S_AT WD repeat domain 33 hs
HG-U133_PLUS_2:223147_S_AT WD repeat domain 33 hs
HU35KSUBA:RC_AA235688_AT WD repeat domain 33 hs
HU35KSUBA:RC_AA417318_AT WD repeat domain 33 hs
HU35KSUBA:AA471221_AT WD repeat domain 33 hs
HU35KSUBC:RC_N62430_AT WD repeat domain 33 hs
HU35KSUBC:RC_N48582_AT WD repeat domain 33 hs
U133_X3P:G8922982_3P_A_AT WD repeat domain 33 hs
U133_X3P:G12862319_3P_X_AT WD repeat domain 33 hs
U133_X3P:HS.48541.0.S1_3P_A_AT WD repeat domain 33 hs
U133_X3P:HS.13250.0.A1_3P_AT WD repeat domain 33 hs
U133_X3P:HS.107000.0.S2_3P_AT WD repeat domain 33 hs
HG-U133_PLUS_2:222763_S_AT WD repeat domain 33 hs
HG-U133B:222763_S_AT WD repeat domain 33 hs
HG-U95B:47485_AT WD repeat domain 33 hs
HG-U95B:48067_AT WD repeat domain 33 hs
HG-U95C:62171_AT WD repeat domain 33 hs
HG-U95E:82067_AT WD repeat domain 33 hs
HG-U133_PLUS_2:243832_AT WD repeat domain 33 hs
HG-U133B:243832_AT WD repeat domain 33 hs
HG-U95C:49351_AT WD repeat domain 33 hs
HG-U95B:53512_AT WD repeat domain 33 hs
HG-U95D:76384_AT WD repeat domain 33 hs
U133_X3P:HS.303562.0.S1_3P_AT WD repeat domain 33 hs
MOE430A:1453554_A_AT WD repeat domain 33 mm
MOUSE430A_2:1453554_A_AT WD repeat domain 33 mm
MOUSE430_2:1453554_A_AT WD repeat domain 33 mm
MOUSE430_2:1418338_AT WD repeat domain 33 mm
MOUSE430A_2:1418338_AT WD repeat domain 33 mm
MOE430A:1418338_AT WD repeat domain 33 mm
MOUSE430A_2:1455281_AT WD repeat domain 33 mm
MOE430A:1455281_AT WD repeat domain 33 mm
MOUSE430_2:1455281_AT WD repeat domain 33 mm
MOUSE430_2:1453322_AT WD repeat domain 33 mm
MOE430B:1453322_AT WD repeat domain 33 mm
MG-U74BV2:111670_AT WD repeat domain 33 mm
MG-U74BV2:110793_AT WD repeat domain 33 mm
MG-U74BV2:112114_AT WD repeat domain 33 mm
MOE430A:1423874_AT WD repeat domain 33 mm
MOUSE430A_2:1423874_AT WD repeat domain 33 mm
MOUSE430_2:1423874_AT WD repeat domain 33 mm
MOE430A:1456488_AT WD repeat domain 33 mm
MOUSE430A_2:1456488_AT WD repeat domain 33 mm
MOUSE430_2:1456488_AT WD repeat domain 33 mm
MOE430B:1444434_AT WD repeat domain 33 mm
MOUSE430_2:1444434_AT WD repeat domain 33 mm
MG-U74BV2:114916_AT Putative WDC146 mm
MOE430B:1456825_AT Putative WDC146 mm
MOUSE430_2:1456825_AT Putative WDC146 mm
MG-U74CV2:139153_AT Putative WDC146 mm
MOUSE430_2:1444558_AT Putative WDC146 mm
MOE430B:1444558_AT Putative WDC146 mm
MOUSE430_2:1458255_AT Putative WDC146 mm
MOE430B:1458255_AT Putative WDC146 mm
MU19KSUBC:TC38350_AT Putative WDC146 mm
MU19KSUBC:TC39666_AT Putative WDC146 mm
RG-U34B:RC_AI070252_AT WD repeat domain 33 (predicted) rn
RG-U34C:RC_AI170621_AT WD repeat domain 33 (predicted) rn
RAE230A:1389993_AT WD repeat domain 33 (predicted) rn
RAT230_2:1389993_AT WD repeat domain 33 (predicted) rn
RAE230B:1382104_AT WD repeat domain 33 (predicted) rn
RAT230_2:1382104_AT WD repeat domain 33 (predicted) rn
RAE230B:1385240_AT WD repeat domain 33 (predicted) rn
RAT230_2:1385240_AT WD repeat domain 33 (predicted) rn
RAE230B:1385737_AT WD repeat domain 33 (predicted) rn
RAT230_2:1385737_AT WD repeat domain 33 (predicted) rn
YEAST_2:1776600_AT Integral subunit of the pre-mRNA cleavage and polyadenylation factor (CPF) complex; plays an essential role in mRNA 3'-end formation by bridging different processing factors and thereby promoting the assembly of the processing complex Sc
Protein Similarities
Method ID Description E-Value
blast CAB76722 Hypothetical protein R06A4.9 [Caenorhabditis elegans] ref|NP_496985.1| R06A4.9 [Caenorhabditis elegans] 0.0
blast CAE65932 Hypothetical protein CBG11105 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 7.5E-4
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 7.7E-6
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 2.0E-6
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 5.8E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.2E-10
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 5.2E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.3E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 2.4E-5
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 2.0E-6
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 5.8E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.2E-10
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 5.2E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.3E-7
Sequence
Target Sequence 
>C. ELEGANS:189415_AT
caggacaaggatacggaccgccgggtagaatgggtggaaatcaaggaggatggcaaaggc
ctccaccacaaggatcctatggagggcagggaccaccacaagggtcgtatggaggacaag
ggacactacaaggatcctatgcatctcagcaaggacctcctccacgacaaattcagcaca
ttccatccgatattgactaccgaaccgctccatcatcgtcaaatggatctactggcgatg
tggatatgcgtacgatggttcccaaccaaccgccttctggtgagccggagcattggaggg
gacctccgccagtttctcaccaacaacagagccagcagcagcatccacctccgatcaaca
tgcaaaggatggacccaagaagagatccgagaatgttaagtggaaggtctgatcaattga
gcccatcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAGGACAAGGATACGGACCGCCGGG 352 207 1853 Antisense
TATGGAGGGCAGGGACCACCACAAG 281 651 1930 Antisense
TACAAGGATCCTATGCATCTCAGCA 607 641 1979 Antisense
CTCCTCCACGACAAATTCAGCACAT 205 235 2009 Antisense
ATTCAGCACATTCCATCCGATATTG 394 11 2023 Antisense
ATATGCGTACGATGGTTCCCAACCA 331 17 2096 Antisense
CCTTCTGGTGAGCCGGAGCATTGGA 441 269 2125 Antisense
AGCATTGGAGGGGACCTCCGCCAGT 377 77 2141 Antisense
CGCCAGTTTCTCACCAACAACAGAG 255 257 2159 Antisense
AACAACAGAGCCAGCAGCAGCATCC 156 135 2174 Antisense
AAGGTCTGATCAATTGAGCCCATCC 522 159 2256 Antisense
Sequence Source Affymetrix Proprietary Database