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[180295_s_at]

Description Y63D3A.4 /REP_DB=WormBase Gene ID /WP=CE20335 /TR=Q9XWG3 /GB=CAA21707.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 96      4grp_total > 34      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 124
1 2 3 4 range
A 87.4
(-2.4)
A 		197.8
(3)
A 		74.9
(-3)
A 		164.2
(1.4)
A 		123
B 103.7
(-3)
A 		129.7
(-0.6)
A 		169.8
(3)
A 		110.6
(-2.4)
A 		66
C 73.9
(-3)
A 		161.3
(3)
A 		113.3
(-0.3)
A 		153.5
(2.5)
A 		87
avr 88.3
(-3) 		162.9
(3) 		119.3
(-0.5) 		142.8
(1.4) 		75

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 297
1 2 3 4 5 6 range
A 45.8
(-3)
A 		124.3
(-1.4)
A 		79.4
(-2.3)
A 		159
(-0.7)
A 		219.2
(0.5)
M 		343.2
(3)
P 		297
B 68
(-3)
A 		68.8
(-3)
A 		129.5
(-1.6)
A 		183.9
(-0.3)
A 		323.1
(3)
P 		299.5
(2.4)
P 		255
C 88.4
(-2.6)
A 		74.6
(-3)
A 		125.1
(-1.6)
A 		214.4
(1)
A 		276.6
(2.8)
P 		283.8
(3)
P 		209
avr 67.4
(-3) 		89.2
(-2.5) 		111.3
(-1.9) 		185.8
(-0.1) 		273
(2.1) 		308.8
(3) 		241
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 31.8
(0.1)
A 		42.9
(3)
A 		19.6
(-3)
A 		24
(-1.9)
A 		23
B 33.1
(0.6)
A 		32
(0.2)
A 		39.3
(3)
A 		23.6
(-3)
A 		16
C 24.4
(-3)
A 		46.4
(3)
A 		39.5
(1.1)
A 		25.9
(-2.6)
A 		22
avr 29.8
(-1) 		40.4
(3) 		32.8
(0.1) 		24.5
(-3) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 123
1 2 3 4 5 6 range
A 8.4
(-3)
A 		44.2
(-0.1)
A 		17.3
(-2.3)
A 		40.3
(-0.5)
A 		66.1
(1.6)
M 		83.6
(3)
P 		75
B 23.7
(-3)
A 		22.9
(-3)
A 		31.4
(-2.5)
A 		48.7
(-1.6)
A 		131.3
(3)
P 		111.7
(1.9)
P 		108
C 32.8
(-2.2)
A 		22.8
(-3)
A 		31.8
(-2.3)
A 		43.1
(-1.3)
A 		89.5
(2.5)
P 		95
(3)
P 		72
avr 21.6
(-3) 		30
(-2.3) 		26.8
(-2.6) 		44
(-1.2) 		95.6
(2.9) 		96.8
(3) 		75
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 180295_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1170
Sequence Type Exemplar sequence
Representative Public ID Y63D3A.4 NCBI
Target Description Y63D3A.4 /REP_DB=WormBase Gene ID /WP=CE20335 /TR=Q9XWG3 /GB=CAA21707.1 /SUBMIT=HINXTON /CHR=1 /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_061060(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061060 NCBI Caenorhabditis elegans Y63D3A.4 (Y63D3A.4) mRNA, complete cds. 11/11 None
SNAP00000002948 ENSEMBL cdna:SNAP chromosome:CEL140:I:14105821:14109201:-1 11/11 None
GENEFINDER00000002953 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:14105821:14109201:-1 11/11 None
Y63D3A.4 ENSEMBL cdna:known chromosome:CEL140:I:14105673:14109201:-1 gene:Y63D3A.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
chrI:14105751-14109132(-) 99.45 100.0
Public Domain and Genome References
Gene Title
Ensembl Y63D3A.4
Entrez Gene 173276 Entrez gene
SwissProt Q9XWG3 EMBL-EBI
WormBase CE20335 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.16307.1.S1_AT similar to TRAF and TNF receptor-associated protein cfa
CHICKEN:GGAAFFX.24237.1.S1_AT similar to TRAF and TNF receptor-associated protein; ETS1-associated protein 2 gga
HG-U133_PLUS_2:202266_AT TRAF and TNF receptor associated protein hs
HG-U133A:202266_AT TRAF and TNF receptor associated protein hs
HG-U133A_2:202266_AT TRAF and TNF receptor associated protein hs
HU35KSUBC:RC_AA256524_AT TRAF and TNF receptor associated protein hs
U133_X3P:G7705261_3P_AT TRAF and TNF receptor associated protein hs
HG-U95AV2:34825_AT TRAF and TNF receptor associated protein hs
HG-U95E:87031_AT TRAF and TNF receptor associated protein hs
HU35KSUBD:RC_H53454_AT TRAF and TNF receptor associated protein hs
MG-U74AV2:93538_AT Traf and Tnf receptor associated protein mm
MOE430A:1448706_AT Traf and Tnf receptor associated protein mm
MOUSE430A_2:1448706_AT Traf and Tnf receptor associated protein mm
MOUSE430_2:1448706_AT Traf and Tnf receptor associated protein mm
MU19KSUBB:TC34452_AT Traf and Tnf receptor associated protein (Ttrap), mRNA mm
RAE230A:1374170_AT Similar to putative TRAF and TNF receptor associated protein rn
RAT230_2:1374170_AT Similar to putative TRAF and TNF receptor associated protein rn
RG-U34C:RC_AI172069_AT Similar to putative TRAF and TNF receptor associated protein rn
Protein Similarities
Method ID Description E-Value
blast CAA21707 Hypothetical protein Y63D3A.4 [Caenorhabditis elegans] ref|NP_493461.1| Y63D3A.4 [Caenorhabditis elegans] 0.0
blast CAA21707 Hypothetical protein Y63D3A.4 [Caenorhabditis elegans] ref|NP_493461.1| Y63D3A.4 [Caenorhabditis elegans] 1.0E-176
blast CAE71809 Hypothetical protein CBG18823 [Caenorhabditis briggsae] 1.0E-140
blast CAE71809 Hypothetical protein CBG18823 [Caenorhabditis briggsae] 1.0E-138
blast CAE71809 Hypothetical protein CBG18823 [Caenorhabditis briggsae] 1.0E-123
blast XP_874991 PREDICTED: similar to TRAF and TNF receptor-associated protein isoform 2 [Bos taurus] 2.0E-39
Protein Domains
Database ID Description E-Value
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 5.8E-33
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 5.8E-33
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 5.8E-33
Sequence
Target Sequence 
>C. ELEGANS:180295_S_AT
agaagtcgtcgaccgtgatttggcgccgattgataagcttcaatcgctgtataaaatcta
ttattcgaacaaaggctgccaatattatacggcgattcttgtgtcgaaaatgttcgacgt
cgagaagcatgacgtcattcattttcagaattctggaatgtacagaactttgcagatttt
ggagggatctattggcggtttgaaggtattcctacttaacacccatctcgaatcaacacg
tgagcaccgcccgcaacgttgtgctcaattcggcttctgcatggacaaagtccgtgaaat
catcgctcaaaacccgggcgccctcgtctttttcggcggcgatttgaacttacgagacga
ggaggtcagccgtgtgcctgacggtgttaaggatgcctgggaggctgccggcagtgataa
taagacaaaattcacgtgggacaccttcaaaaatgacaataaacagggattccatggcgc
taagatgagattcgaccgcctatactggtctggaccactggacaaagtcaaattcacact
tgaaggccgccaacgca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGAAGTCGTCGACCGTGATTTGGCG 553 73 483 Antisense
AGGTATTCCTACTTAACACCCATCT 551 55 686 Antisense
AACACCCATCTCGAATCAACACGTG 568 135 700 Antisense
TGCTCAATTCGGCTTCTGCATGGAC 557 577 744 Antisense
GAAATCATCGCTCAAAACCCGGGCG 439 361 778 Antisense
TCGTCTTTTTCGGCGGCGATTTGAA 362 601 806 Antisense
CGAGACGAGGAGGTCAGCCGTGTGC 255 251 835 Antisense
TAAGGATGCCTGGGAGGCTGCCGGC 288 637 870 Antisense
AACAGGGATTCCATGGCGCTAAGAT 525 133 944 Antisense
TCGACCGCCTATACTGGTCTGGACC 641 601 974 Antisense
TTCACACTTGAAGGCCGCCAACGCA 567 685 1015 Antisense
Sequence Source Affymetrix Proprietary Database