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[185331_at]

Description Y50D7A.2 /REP_DB=WormBase Gene ID /WP=CE26139 /TR=Q9N3L2 /GB=AAF59650.2 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 41      6grp_high1_10_10 > 15      6grp_highest_nonorm > 90      6grp_total > 05      4grp_total > 59      6grp_highest_sub > De      6grp_high1_sub > De      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 285
1 2 3 4 range
A 165.2
(-0.7)
P 		180.7
(-0.3)
P 		308.5
(3)
P 		77.9
(-3)
A 		231
B 139
(-0.4)
P 		188.6
(1.1)
P 		248.6
(3)
P 		54.3
(-3)
A 		194
C 194.3
(0.9)
P 		243.3
(2)
P 		285.2
(3)
P 		23.7
(-3)
A 		262
avr 166.2
(-0) 		204.2
(1) 		280.8
(3) 		52
(-3) 		229

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 106
1 2 3 4 5 6 range
A 217.1
(3)
P 		182.7
(0.7)
P 		178.4
(0.4)
P 		128.6
(-3)
P 		157.7
(-1)
P 		148.4
(-1.7)
P 		89
B 178.3
(0)
P 		195.8
(1.6)
P 		144.8
(-3)
P 		162.6
(-1.4)
P 		211.8
(3)
P 		165.4
(-1.2)
P 		67
C 235
(3)
P 		232
(2.8)
P 		177.1
(-0.6)
P 		173.8
(-0.8)
P 		159.8
(-1.7)
P 		139.2
(-3)
P 		96
avr 210.1
(3) 		203.5
(2.3) 		166.8
(-1.4) 		155
(-2.6) 		176.4
(-0.4) 		151
(-3) 		59
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 95
1 2 3 4 range
A 60.2
(1.2)
P 		39.2
(-0.6)
P 		80.7
(3)
P 		11.4
(-3)
A 		69
B 44.3
(1.3)
P 		46.6
(1.6)
P 		57.6
(3)
P 		11.6
(-3)
A 		46
C 64.3
(0.8)
P 		69.9
(1.1)
P 		99.4
(3)
P 		4
(-3)
A 		95
avr 56.3
(1) 		51.9
(0.7) 		79.2
(3) 		9
(-3) 		70

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 55
1 2 3 4 5 6 range
A 40
(-1.6)
P 		65
(3)
P 		38.9
(-1.8)
P 		32.6
(-3)
P 		47.6
(-0.2)
P 		36.1
(-2.4)
P 		32
B 62.1
(0.2)
P 		65.2
(0.5)
P 		35.2
(-3)
P 		43.1
(-2.1)
P 		86.1
(3)
P 		61.7
(0.1)
P 		51
C 87.1
(3)
P 		70.8
(1.1)
P 		45.1
(-1.8)
P 		35
(-3)
P 		51.7
(-1.1)
P 		46.6
(-1.7)
P 		52
avr 63.1
(2.2) 		67
(3) 		39.7
(-2.4) 		36.9
(-3) 		61.8
(2) 		48.1
(-0.8) 		30
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185331_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8284
Sequence Type Exemplar sequence
Representative Public ID Y50D7A.2 NCBI
Target Description Y50D7A.2 /REP_DB=WormBase Gene ID /WP=CE26139 /TR=Q9N3L2 /GB=AAF59650.2 /SUBMIT=ST.LOUIS /CHR=3 /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_064782(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064782 NCBI Caenorhabditis elegans Y50D7A.9 (Y50D7A.9) mRNA, complete cds. 11/11 None
SNAP00000021187 ENSEMBL cdna:SNAP chromosome:CEL140:III:234727:293898:1 11/11 None
GENEFINDER00000021194 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:265096:285518:1 9/11 None
Y50D7A.9 ENSEMBL cdna:known chromosome:CEL140:III:284116:289426:1 gene:Y50D7A.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000021196 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:265095-289200(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y50D7A.9
Entrez Gene 175191 Entrez gene
SwissProt Q965T4 EMBL-EBI
WormBase CE28994 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:17701_AT YebC-related at
ATH1-121501:266662_AT YebC-related at
CANINE_2:CFAAFFX.20047.1.S1_AT similar to clone HQ0477 PRO0477p cfa
DROSOPHILA_2:1634565_AT dm
DROSGENOME1:142449_AT dm
HG-U133_PLUS_2:221069_S_AT clone HQ0477 PRO0477p hs
HG-U133A:221069_S_AT clone HQ0477 PRO0477p hs
HG-FOCUS:221069_S_AT clone HQ0477 PRO0477p hs
HG-U133A_2:221069_S_AT clone HQ0477 PRO0477p hs
U133_X3P:G7705952_3P_A_AT clone HQ0477 PRO0477p hs
HG-U95C:60456_AT clone HQ0477 PRO0477p hs
MU19KSUBC:TC35471_AT RIKEN cDNA 2310066I18 gene, mRNA (cDNA clone MGC:36842 IMAGE:4195338) mm
RAE230B:1394918_AT similar to clone HQ0477 PRO0477p (predicted) rn
RAT230_2:1394918_AT similar to clone HQ0477 PRO0477p (predicted) rn
Protein Similarities
Method ID Description E-Value
blast AAK68511 Hypothetical protein Y50D7A.4 [Caenorhabditis elegans] ref|NP_497180.3| Y50D7A.4 [Caenorhabditis elegans] 0.0
blast CAE69502 Hypothetical protein CBG15710 [Caenorhabditis briggsae] 0.0
blast CAE69505 Hypothetical protein CBG15713 [Caenorhabditis briggsae] 0.0
blast AAK95892 Hypothetical protein Y50D7A.2 [Caenorhabditis elegans] ref|NP_497182.2| Y50D7A.2 [Caenorhabditis elegans] 0.0
blast NP_000391 excision repair cross-complementing rodent repair deficiency, complementation group 2 protein [Homo sapiens] sp|P18074|ERCC2_HUMAN TFIIH basal transcription factor complex helicase subunit (DNA-repair protein complementing XP-D cells) (Xeroderma pigmentosum group D complementing protein) (CXPD) (DNA excision repair protein ERCC-2) gb|AAL48323.1| ERCC2 [Homo sapiens] 0.0
blast AAK95893 Hypothetical protein Y50D7A.9 [Caenorhabditis elegans] ref|NP_497183.1| Y50D7A.9 [Caenorhabditis elegans] 1.0E-148
blast CAE69506 Hypothetical protein CBG15714 [Caenorhabditis briggsae] 1.0E-126
Protein Families
Method ID Description E-Value
ec A2S7_HUMAN (Q96Q40) Serine/threonine-protein kinase ALS2CR7 (EC 2.7.1.37) (Amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 7) 1.0E-62
hanks 2.1.20 CaMK Group; CaMK I Regulated by Ca2+/CaM and close relatives; PhKgT 5.0E-80
Protein Domains
Database ID Description E-Value
Pfam IPR002876 EMBL-EBI Protein of unknown function DUF28 1.2E-73
Pfam IPR010643 EMBL-EBI Protein of unknown function DUF1227 4.4E-111
Pfam IPR000719 EMBL-EBI Protein kinase 1.3E-82
Pfam IPR001440 EMBL-EBI TPR repeat 1.6E-5
Pfam IPR001440 EMBL-EBI TPR repeat 0.25
Pfam IPR010614 EMBL-EBI DEAD_2 2.0E-63
Pfam IPR002876 EMBL-EBI Protein of unknown function DUF28 1.6E-45
Pfam IPR010643 EMBL-EBI Protein of unknown function DUF1227 1.2E-73
Pfam IPR010614 EMBL-EBI DEAD_2 1.5E-13
Pfam IPR010614 EMBL-EBI DEAD_2 7.1E-37
Pfam IPR002876 EMBL-EBI Protein of unknown function DUF28 2.8E-81
Sequence
Target Sequence 
>C. ELEGANS:185331_AT
gtggcgggttcgacatgaagctcaatcgagaactcgctgatttggagtccgaattcagag
cacaaggacttccactggacacgttgaagaactttttgcaaaaaatgaaggacaagcccg
aagtagaatactcgttcgatatcattggaccatctggaatattccttatcgtaaccgccg
aaacttcgaacaaaaaagcgtttgaaaacgatttacggaagtatttcaacaagttgggcg
gtttccggttggcagctgatggtggtgttcgtagttggttcgaggagaagggtgttgtgc
atgttgacacgaaaaaaggcggaaaaattctgaatattgaagaaatggaagaaatcggtc
tggaattcgatgctgaagaggttttactgattgaagaggactcaacgaagaaattcgaac
taatttgtgatgcaaaatcacttcaaactcttgaaaacggcctcggaaagggtggattct
cgattttacagtcggaaattgaattccgacctgttcatccaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGGCGGGTTCGACATGAAGCTCAA 287 491 2513 Antisense
GAGAACTCGCTGATTTGGAGTCCGA 32 393 2540 Antisense
TGGAGTCCGAATTCAGAGCACAAGG 643 547 2555 Antisense
GAGCACAAGGACTTCCACTGGACAC 187 391 2570 Antisense
TACTCGTTCGATATCATTGGACCAT 272 647 2641 Antisense
GAATATTCCTTATCGTAACCGCCGA 604 153 2669 Antisense
TTCCGGTTGGCAGCTGATGGTGGTG 452 657 2755 Antisense
GATGGTGGTGTTCGTAGTTGGTTCG 220 407 2770 Antisense
GGAGAAGGGTGTTGTGCATGTTGAC 477 519 2796 Antisense
AGGGTGGATTCTCGATTTTACAGTC 698 55 2981 Antisense
TTGAATTCCGACCTGTTCATCCAAT 131 705 3011 Antisense
Sequence Source Affymetrix Proprietary Database