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[173449_s_at]

Description g304340 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=C15F1.3A /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=C15F1.3A /WP=CE23546 /CHR=2 /FEA=Genomic Cluster /GEN=tra-2 /DEF=membrane protein; sex-determination protein
Cluster 6grp_highest_10_10 > 83      6grp_high1_10_10 > 48      4grp_highest_8_8 > 60      4grp_high_8_8 > 26      6grp_highest_nonorm > 82      6grp_total > 48      4grp_total > 38      6grp_highest_sub > Cu      6grp_cgc > 17      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 318
1 2 3 4 range
A 482.4
(3)
P 		332.2
(-0.5)
P 		225.7
(-3)
P 		315.9
(-0.9)
P 		257
B 484.1
(3)
P 		269.2
(-1.1)
P 		166.4
(-3)
P 		258.6
(-1.3)
P 		318
C 466.8
(3)
P 		288
(-1)
P 		198.1
(-3)
P 		310.4
(-0.5)
P 		269
avr 477.8
(3) 		296.5
(-0.9) 		196.7
(-3) 		295
(-0.9) 		281

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 185
1 2 3 4 5 6 range
A 480.8
(3)
P 		381.2
(-0.5)
P 		311.1
(-3)
P 		391.6
(-0.2)
P 		401.2
(0.2)
P 		463.5
(2.4)
P 		170
B 496
(3)
P 		393.2
(-0.5)
P 		321.3
(-3)
P 		358.4
(-1.7)
P 		320.4
(-3)
P 		417.4
(0.3)
P 		176
C 358.3
(-2.9)
P 		357
(-3)
P 		401.7
(0.9)
P 		400.3
(0.7)
P 		359.5
(-2.8)
P 		426.3
(3)
P 		69
avr 445
(3) 		377.1
(-1.1) 		344.7
(-3) 		383.4
(-0.7) 		360.4
(-2.1) 		435.7
(2.4) 		100
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 137
1 2 3 4 range
A 175.7
(3)
P 		72.1
(-1.8)
P 		59
(-2.4)
P 		46.2
(-3)
P 		130
B 154.4
(3)
P 		66.5
(-1.6)
P 		38.6
(-3)
P 		55.1
(-2.1)
P 		116
C 154.5
(3)
P 		82.8
(-1.2)
P 		69
(-2)
P 		52.3
(-3)
P 		102
avr 161.5
(3) 		73.8
(-1.8) 		55.5
(-2.8) 		51.2
(-3) 		110

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 105
1 2 3 4 5 6 range
A 88.6
(-1.2)
P 		135.6
(3)
P 		67.7
(-3)
P 		99.3
(-0.2)
P 		121.1
(1.7)
P 		112.8
(1)
P 		68
B 172.6
(3)
P 		130.9
(0.4)
P 		78
(-3)
P 		94.9
(-1.9)
P 		130.2
(0.3)
P 		155.7
(1.9)
P 		95
C 132.8
(2)
P 		108.9
(-0.3)
P 		102.2
(-0.9)
P 		80.5
(-3)
P 		116.3
(0.5)
P 		142.7
(3)
P 		62
avr 131.3
(2.4) 		125.1
(1.7) 		82.6
(-3) 		91.6
(-2) 		122.5
(1.4) 		137.1
(3) 		55
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173449_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23552
Sequence Type Exemplar sequence
Representative Public ID 304340 NCBI
Target Description g304340 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=C15F1.3A /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=C15F1.3A /WP=CE23546 /CHR=2 /FEA=Genomic Cluster /GEN=tra-2 /DEF=membrane protein; sex-determination protein
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_063025(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063025 NCBI Caenorhabditis elegans TRAnsformer : XX animals transformed into males family member (tra-2) (tra-2) mRNA, complete cds. 11/11 None
SNAP00000007580 ENSEMBL cdna:SNAP chromosome:CEL140:II:6955550:6957317:-1 11/11 None
GENEFINDER00000007593 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6955603:6965214:-1 10/11 None
C15F1.3a ENSEMBL cdna:known chromosome:CEL140:II:6955333:6965618:-1 gene:C15F1.3 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
174137 2 1 NM_001026783 188199_s_at (11)
NM_063025 173449_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:6955401-6965601(-) 99.04 100.0
Public Domain and Genome References
Ensembl C15F1.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF39755 Transformer : xx animals transformed into males protein 2, isoform a [Caenorhabditis elegans] ref|NP_495426.1| TRAnsformer : XX animals transformed into males family member (tra-2) [Caenorhabditis elegans] gb|AAB22845.1| pTra2A [Caenorhabditis elegans] sp|P34709|TRA2_CAEEL Sex-determining transformer protein 2 precursor (Ce-Tra-2) gb|AAA28150.1| membrane protein 0.0
blast AAF39756 Transformer : xx animals transformed into males protein 2, isoform b [Caenorhabditis elegans] ref|NP_001021954.1| TRAnsformer : XX animals transformed into males family member (tra-2) [Caenorhabditis elegans] 0.0
blast Q17307 Sex-determining transformer protein 2 precursor (Cb-Tra-2A) 0.0
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495426.1 10 7-29,447-469,476-498,585-607,736-758,922-944,951-973,983-1002,1023-1045,1060-1082
C15F1.3a 10 7-29,447-469,476-498,585-607,736-758,922-944,951-973,983-1002,1023-1045,1060-1082
SNAP00000007580 1 24-46
GENEFINDER00000007593 9 378-400,407-429,516-538,667-689,853-875,882-904,914-933,954-976,991-1013
Sequence
Target Sequence 
>C. ELEGANS:173449_S_AT
accacttccaccagttggtcgattgtatattgtggagcatgtccttccagaagaatatcg
gcgagatccattaaccgagccaccatcaatggaagattgcattcgagctcactctgaccc
caaccttccacctcatccgcgtgctgatcaatacccagcctcattcacccgtccaatggt
tgaatattgcgaagatatttactggacacaccgaactggacagctacctccaggacttca
agtaccccgtcgaccgtacgattattatcacattaccgagcgtacaccaccaccggaaga
tctcaactgggtcccaccagccgaatccccaccgatcccgattcctcagcaagcattcga
tttgctagaagaaagaagacgaaatcatcgtgagcaacaagatgaagcacgggaaggcga
cctatcagacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACCACTTCCACCAGTTGGTCGATTG 78 85 4000 Antisense
ATTGTGGAGCATGTCCTTCCAGAAG 308 5 4028 Antisense
GGCGAGATCCATTAACCGAGCCACC 576 541 4059 Antisense
GGAAGATTGCATTCGAGCTCACTCT 445 531 4090 Antisense
TCCGCGTGCTGATCAATACCCAGCC 591 595 4135 Antisense
TGGACACACCGAACTGGACAGCTAC 181 547 4202 Antisense
ACAGCTACCTCCAGGACTTCAAGTA 504 107 4219 Antisense
TTATCACATTACCGAGCGTACACCA 692 679 4264 Antisense
ACCGGAAGATCTCAACTGGGTCCCA 231 1 4291 Antisense
TCCCGATTCCTCAGCAAGCATTCGA 690 595 4335 Antisense
GCACGGGAAGGCGACCTATCAGACC 653 315 4406 Antisense
Sequence Source GenBank