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[177204_s_at]

Description JC8.2 /REP_DB=WormBase Gene ID /WP=CE23841 /TR=Q9NAQ2 /GB=CAB05230.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 76      6grp_high1_10_10 > 66      4grp_highest_8_8 > 30      4grp_high_8_8 > 05      6grp_highest_nonorm > 96      6grp_total > 67      4grp_total > 04      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3773
1 2 3 4 range
A 1372.9
(-1.8)
P 		787
(-3)
P 		882.1
(-2.8)
P 		3612
(3)
P 		2825
B 1427.5
(-1.7)
P 		829.7
(-2.7)
P 		610.9
(-3)
P 		4383.4
(3)
P 		3773
C 1507.3
(-1.8)
P 		846.3
(-3)
P 		874.8
(-2.9)
P 		4108
(3)
P 		3262
avr 1435.9
(-1.8) 		821
(-2.9) 		789.3
(-3) 		4034.5
(3) 		3245

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 769
1 2 3 4 5 6 range
A 865.8
(-0.6)
P 		734.7
(-2.5)
P 		885.1
(-0.3)
P 		807.9
(-1.4)
P 		696.6
(-3)
P 		1119.4
(3)
P 		423
B 828.9
(-1.6)
P 		841.8
(-1.5)
P 		806.6
(-1.8)
P 		683.5
(-3)
P 		807.4
(-1.8)
P 		1316.3
(3)
P 		633
C 923.1
(-1.5)
P 		829.6
(-2.2)
P 		794.7
(-2.5)
P 		823.1
(-2.3)
P 		739.6
(-3)
P 		1452.8
(3)
P 		713
avr 872.6
(-1.6) 		802
(-2.4) 		828.8
(-2.1) 		771.5
(-2.7) 		747.9
(-3) 		1296.2
(3) 		548
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 793
1 2 3 4 range
A 499.9
(2.5)
P 		170.8
(-3)
P 		230.6
(-2)
P 		528.7
(3)
P 		358
B 455.2
(-0.6)
P 		204.9
(-2.5)
P 		141.6
(-3)
P 		934.1
(3)
P 		793
C 499
(0.4)
P 		243.3
(-3)
P 		304.9
(-2.2)
P 		692.7
(3)
P 		449
avr 484.7
(0.3) 		206.3
(-3) 		225.7
(-2.8) 		718.5
(3) 		512

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 331
1 2 3 4 5 6 range
A 159.6
(-3)
P 		261.3
(2.4)
P 		192.7
(-1.2)
P 		204.9
(-0.6)
P 		210.2
(-0.3)
P 		272.5
(3)
P 		113
B 288.4
(-0.9)
P 		280.2
(-1.1)
P 		195.9
(-2.7)
P 		181
(-3)
P 		328
(-0.2)
P 		490.8
(3)
P 		310
C 342.2
(0.3)
P 		253.2
(-1.4)
P 		202.3
(-2.3)
P 		165.5
(-3)
P 		239.3
(-1.6)
P 		486.3
(3)
P 		321
avr 263.4
(-0.9) 		264.9
(-0.9) 		197
(-2.7) 		183.8
(-3) 		259.2
(-1.1) 		416.5
(3) 		233
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 177204_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9536
Sequence Type Exemplar sequence
Representative Public ID JC8.2 NCBI
Target Description JC8.2 /REP_DB=WormBase Gene ID /WP=CE23841 /TR=Q9NAQ2 /GB=CAB05230.2 /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_070140(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070140 NCBI Caenorhabditis elegans JC8.2 (JC8.2) mRNA, complete cds. 11/11 A 
SNAP00000008998 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13233105:13239381:-1 11/11 None
GENEFINDER00000009014 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13233105:13236576:-1 11/11 None
JC8.2.2 ENSEMBL cdna:known chromosome:CEL140:IV:13232912:13236554:-1 gene:JC8.2 11/11 None
JC8.2.1 ENSEMBL cdna:known chromosome:CEL140:IV:13232912:13236556:-1 gene:JC8.2 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:13233110-13236582(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl JC8.2
Entrez Gene 178277 Entrez gene
SwissProt Q9NAQ2 EMBL-EBI
WormBase CE37529 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:17958_AT transducin family protein / WD-40 repeat family protein at
ATH1-121501:254593_S_AT transducin family protein / WD-40 repeat family protein at
CANINE:1588486_AT similar to Periodic tryptophan protein 1 homolog (Keratinocyte protein IEF SSP 9502) cfa
CANINE_2:CFA.10480.1.A1_AT similar to Periodic tryptophan protein 1 homolog (Keratinocyte protein IEF SSP 9502) cfa
CANINE_2:CFAAFFX.3557.1.S1_S_AT similar to Periodic tryptophan protein 1 homolog (Keratinocyte protein IEF SSP 9502) cfa
DROSOPHILA_2:1625030_AT dm
DROSGENOME1:154076_AT dm
CHICKEN:GGAAFFX.13042.1.S1_S_AT PWP1 homolog (S. cerevisiae) gga
CHICKEN:GGAAFFX.8012.1.S1_AT PWP1 homolog (S. cerevisiae) gga
HG-FOCUS:201606_S_AT PWP1 homolog (S. cerevisiae) hs
HG-U133A:201606_S_AT PWP1 homolog (S. cerevisiae) hs
HG-U133A_2:201606_S_AT PWP1 homolog (S. cerevisiae) hs
HG-U133_PLUS_2:201606_S_AT PWP1 homolog (S. cerevisiae) hs
HG-U133A:201608_S_AT PWP1 homolog (S. cerevisiae) hs
HG-U133_PLUS_2:201608_S_AT PWP1 homolog (S. cerevisiae) hs
HG-U133A_2:201608_S_AT PWP1 homolog (S. cerevisiae) hs
HU35KSUBC:RC_N92948_S_AT PWP1 homolog (S. cerevisiae) hs
HUGENEFL:L07758_AT PWP1 homolog (S. cerevisiae) hs
U133_X3P:G5902033_3P_A_AT PWP1 homolog (S. cerevisiae) hs
U133_X3P:HS.172589.0.S1_3P_A_AT PWP1 homolog (S. cerevisiae) hs
HG-U95AV2:40816_AT PWP1 homolog (S. cerevisiae) hs
HG-U133A:201607_AT PWP1 homolog (S. cerevisiae) hs
HG-U133A_2:201607_AT PWP1 homolog (S. cerevisiae) hs
HG-U133_PLUS_2:201607_AT PWP1 homolog (S. cerevisiae) hs
U133_X3P:HS.172589.0.S3_3P_AT PWP1 homolog (S. cerevisiae) hs
MG-U74AV2:103413_AT PWP1 homolog (S. cerevisiae) mm
MOUSE430_2:1454142_A_AT PWP1 homolog (S. cerevisiae) mm
MOE430A:1454142_A_AT PWP1 homolog (S. cerevisiae) mm
MOUSE430A_2:1454142_A_AT PWP1 homolog (S. cerevisiae) mm
MOE430A:1417873_AT PWP1 homolog (S. cerevisiae) mm
MOUSE430A_2:1417873_AT PWP1 homolog (S. cerevisiae) mm
MOUSE430_2:1417873_AT PWP1 homolog (S. cerevisiae) mm
MU19KSUBA:TC24047_AT PWP1 homolog (S. cerevisiae) (Pwp1), mRNA mm
MU19KSUBC:TC40550_AT PWP1 homolog (S. cerevisiae) (Pwp1), mRNA mm
RG-U34B:RC_AA899371_AT similar to periodic tryptophan protein 1 homolog; periodic tryptophan protein 1 homolog (S. cerevisiae) (predicted) rn
RAE230B:1380443_AT similar to periodic tryptophan protein 1 homolog; periodic tryptophan protein 1 homolog (S. cerevisiae) (predicted) rn
RAT230_2:1380443_AT similar to periodic tryptophan protein 1 homolog; periodic tryptophan protein 1 homolog (S. cerevisiae) (predicted) rn
YEAST_2:1774541_AT Protein with WD-40 repeats involved in rRNA processing; associates with trans-acting ribosome biogenesis factors; similar to beta-transducin superfamily Sc
Protein Similarities
Method ID Description E-Value
blast CAB05230 Hypothetical protein JC8.2 [Caenorhabditis elegans] ref|NP_502541.2| JC8.2 [Caenorhabditis elegans] 0.0
blast CAE58640 Hypothetical protein CBG01808 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.55
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 4.9E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.0091
Pfam IPR005062 EMBL-EBI SAC3/GANP family 2.8E-11
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.55
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 4.9E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.0091
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.55
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 4.9E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.0091
Sequence
Target Sequence 
>C. ELEGANS:177204_S_AT
gttcttgctagtggaggtgctgataaaacagttgtcctgtgggatcttgatgaagctaaa
ccggctcaaatcattcctgatcagggtggagagattcagacaatgaaatggcatccaaat
gaatccacattcttattgctcggaactatgaagggacaagtcaacgttgttgattgtcgt
gaatcttctggaaatgcttcagccgcgtggaaattcgatggacaaattgaaaaagtgatc
tggaatcattttaatccattcaccgcgttctgctcgtctgatgatggaagacttcgtcat
ttggatatgcggaaacctggtgaatgcctttgggaaggtgttgctcatgatggtccgatt
ggtggacttactctttctgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTCTTGCTAGTGGAGGTGCTGATA 591 443 820 Antisense
ACAGTTGTCCTGTGGGATCTTGATG 260 107 847 Antisense
AAACCGGCTCAAATCATTCCTGATC 75 127 877 Antisense
GAATCCACATTCTTATTGCTCGGAA 110 331 940 Antisense
AATGCTTCAGCCGCGTGGAAATTCG 565 163 1012 Antisense
AATCATTTTAATCCATTCACCGCGT 18 171 1063 Antisense
GCGTTCTGCTCGTCTGATGATGGAA 475 291 1084 Antisense
GTCATTTGGATATGCGGAAACCTGG 639 467 1115 Antisense
GGAAACCTGGTGAATGCCTTTGGGA 294 515 1130 Antisense
AGGTGTTGCTCATGATGGTCCGATT 589 57 1155 Antisense
CGATTGGTGGACTTACTCTTTCTGC 676 247 1175 Antisense
Sequence Source Affymetrix Proprietary Database