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[194201_x_at]

Description C47487 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y39E4A.2B /5_PRIME_EXT_DB=WormBase Gene ID /GB=C47487 /WB_GENE_ID=Y39E4A.2B /WP=CE16617 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk447c2 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 91      6grp_high1_10_10 > 99      4grp_highest_8_8 > 03      4grp_high_8_8 > 37      6grp_highest_nonorm > 73      6grp_total > 39      4grp_total > 42      6grp_cgc > 89      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 317
1 2 3 4 range
A 480.8
(-3)
P 		780.5
(3)
P 		591.2
(-0.8)
P 		596.6
(-0.7)
P 		300
B 633.5
(3)
P 		604.8
(-2.9)
P 		604.5
(-3)
P 		631.8
(2.6)
P 		29
C 463.5
(-3)
P 		539.7
(1.9)
P 		556.4
(3)
P 		481.9
(-1.8)
P 		93
avr 525.9
(-3) 		641.7
(3) 		584
(0) 		570.1
(-0.7) 		116

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 388
1 2 3 4 5 6 range
A 749.5
(3)
P 		460.6
(-1.7)
P 		383.2
(-3)
P 		448.4
(-1.9)
P 		700.5
(2.2)
P 		550
(-0.3)
P 		366
B 500.9
(-3)
P 		570.7
(-1.5)
P 		559.2
(-1.7)
P 		619.8
(-0.4)
P 		771.5
(3)
P 		635.4
(-0)
P 		271
C 502.8
(-0.8)
P 		595.3
(3)
P 		471.4
(-2)
P 		447.4
(-3)
P 		572
(2.1)
P 		546.6
(1)
P 		148
avr 584.4
(0.2) 		542.2
(-1) 		471.3
(-3) 		505.2
(-2) 		681.3
(3) 		577.3
(0) 		210
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 121
1 2 3 4 range
A 175.1
(3)
P 		169.4
(2.6)
P 		154.6
(1.6)
P 		87.3
(-3)
P 		88
B 202
(3)
P 		149.4
(-1.7)
P 		140.1
(-2.5)
P 		134.6
(-3)
P 		67
C 153.4
(0.8)
P 		155.2
(0.9)
P 		193.9
(3)
P 		81.3
(-3)
P 		113
avr 176.8
(3) 		158
(1.5) 		162.9
(1.9) 		101.1
(-3) 		76

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 230
1 2 3 4 5 6 range
A 138.2
(-0.4)
P 		163.8
(0.8)
P 		83.5
(-3)
P 		113.7
(-1.6)
P 		211.4
(3)
P 		133.9
(-0.6)
P 		128
B 174.3
(-1.7)
P 		190
(-1.2)
P 		135.8
(-3)
P 		164.2
(-2)
P 		313.5
(3)
P 		237
(0.4)
P 		178
C 186.4
(3)
P 		181.7
(2.7)
P 		120
(-1.1)
P 		90
(-3)
P 		185.1
(2.9)
P 		183
(2.8)
P 		96
avr 166.3
(-0.4) 		178.5
(0.2) 		113.1
(-3) 		122.6
(-2.5) 		236.7
(3) 		184.6
(0.5) 		124
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194201_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23956
Sequence Type Exemplar sequence
Representative Public ID C47487 NCBI
Target Description C47487 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y39E4A.2B /5_PRIME_EXT_DB=WormBase Gene ID /GB=C47487 /WB_GENE_ID=Y39E4A.2B /WP=CE16617 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk447c2 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_067291(11), NM_067290(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067291 NCBI Caenorhabditis elegans Toxin-regulated Target of p38MAPK family member (ttm-1) (ttm-1) mRNA, complete cds. 11/11 A 
NM_067290 NCBI Caenorhabditis elegans Toxin-regulated Target of p38MAPK family member (ttm-1) (ttm-1) mRNA, complete cds. 9/11 A 
GENEFINDER00000009413 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:12952721:12956528:-1 9/11 None
SNAP00000009408 ENSEMBL cdna:SNAP chromosome:CEL140:III:12952746:12956528:-1 9/11 None
Y39E4A.2b ENSEMBL cdna:known chromosome:CEL140:III:12952497:12956528:-1 gene:Y39E4A.2 11/11 A 
Y39E4A.2a ENSEMBL cdna:known chromosome:CEL140:III:12952721:12966511:-1 gene:Y39E4A.2 9/11 A 
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
chrIII:12952554-12956525(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y39E4A.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA16327 Hypothetical protein Y39E4A.2a [Caenorhabditis elegans] ref|NP_499691.1| Toxin-regulated Target of p38MAPK family member (ttm-1) [Caenorhabditis elegans] 1.0E-176
blast CAA16328 Hypothetical protein Y39E4A.2b [Caenorhabditis elegans] ref|NP_499692.1| Toxin-regulated Target of p38MAPK family member (ttm-1) [Caenorhabditis elegans] 1.0E-146
blast CAA16328 Hypothetical protein Y39E4A.2b [Caenorhabditis elegans] ref|NP_499692.1| Toxin-regulated Target of p38MAPK family member (ttm-1) [Caenorhabditis elegans] 1.0E-142
blast CAA16328 Hypothetical protein Y39E4A.2b [Caenorhabditis elegans] ref|NP_499692.1| Toxin-regulated Target of p38MAPK family member (ttm-1) [Caenorhabditis elegans] 1.0E-139
blast CAA16327 Hypothetical protein Y39E4A.2a [Caenorhabditis elegans] ref|NP_499691.1| Toxin-regulated Target of p38MAPK family member (ttm-1) [Caenorhabditis elegans] 1.0E-137
Protein Domains
Database ID Description E-Value
Pfam IPR002524 EMBL-EBI Cation efflux protein 1.7E-92
Pfam IPR002524 EMBL-EBI Cation efflux protein 1.7E-92
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499692.1 6 104-126,130-152,172-194,209-231,257-279,284-306
NP_499691.1 6 85-107,111-133,153-175,190-212,238-260,265-287
Y39E4A.2b 6 104-126,130-152,172-194,209-231,257-279,284-306
Y39E4A.2a 6 85-107,111-133,153-175,190-212,238-260,265-287
GENEFINDER00000009413 6 104-126,130-152,172-194,209-231,257-279,284-306
SNAP00000009408 6 104-126,130-152,172-194,209-231,257-279,284-306
Sequence
Target Sequence 
>C. ELEGANS:194201_X_AT
gagctgctctgattcatgtcattggagatttggtgcaatccattggagtcctgattgctg
cccttatcattaggtttaccggatggacacttgccgatccgatttgcacattccttttct
cgattatcgtgctcttcacgacggttacagttatgcgggacatctttttcgttttgatgg
aagccacaccgagccactatgacttgagtgatgtgaagaaggcgttgagtgcgttggaag
gtgtaaaaggtgttcatgatttgcatttatggtctattggaatggataagactgcgtttt
cggtgcatttggcacttgaatctcctaaccgcgccatggaaaatgttgccgaagcccgtt
ccctgatccgccggcgattcggagttgccgtcgccactgtccaagtggagccgttcgacg
agaaaatcgattcctgtgacacgtgtcaacaacaggaaactgcttgattccagtcctcca
tcgttcttctaatctattacgatacgggcaaacttctacgttttttttttccaatcaatt
tcatttttttcaaaacgtttacttttctcgacttttcctgtcagtttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGCTGCTCTGATTCATGTCATTGG 372 387 780 Antisense
TCCATTGGAGTCCTGATTGCTGCCC 442 591 818 Antisense
ACACTTGCCGATCCGATTTGCACAT 96 111 866 Antisense
ACATTCCTTTTCTCGATTATCGTGC 323 105 887 Antisense
GTGCTCTTCACGACGGTTACAGTTA 187 479 908 Antisense
ATGCGGGACATCTTTTTCGTTTTGA 44 41 932 Antisense
GACTGCGTTTTCGGTGCATTTGGCA 510 375 1069 Antisense
TTTGGCACTTGAATCTCCTAACCGC 4 667 1087 Antisense
CGCCGGCGATTCGGAGTTGCCGTCG 226 255 1148 Antisense
GGAAACTGCTTGATTCCAGTCCTCC 624 527 1234 Antisense
TTTCTCGACTTTTCCTGTCAGTTTT 62 671 1343 Antisense
Sequence Source Affymetrix Proprietary Database