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[174093_at]

Description CEC0742 /REP_DB=TREMBL Accession /GB=C10074 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk187a6 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 68      6grp_high1_10_10 > 85      4grp_highest_8_8 > 11      4grp_high_8_8 > 47      6grp_highest_nonorm > 87      6grp_total > 76      4grp_total > 40      6grp_highest_sub > In      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 657
1 2 3 4 range
A 813
(-3)
P 		1213.6
(3)
P 		1166.6
(2.3)
P 		1006.8
(-0.1)
P 		401
B 862.2
(-3)
P 		1261
(0.9)
P 		1470.2
(3)
P 		1302.6
(1.3)
P 		608
C 988.8
(-1.4)
P 		1054.5
(1.4)
P 		1092.1
(3)
P 		950.2
(-3)
P 		142
avr 888
(-3) 		1176.4
(1.9) 		1243
(3) 		1086.5
(0.4) 		355

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 890
1 2 3 4 5 6 range
A 997.4
(-3)
P 		1104.7
(-1.8)
P 		1287.3
(0.3)
P 		1042.2
(-2.5)
P 		1126.8
(-1.5)
P 		1517.8
(3)
P 		520
B 801.1
(-3)
P 		1000.7
(-1.4)
P 		1297.2
(0.9)
P 		1170.6
(-0.1)
P 		1312.2
(1)
P 		1570.2
(3)
P 		769
C 806.5
(-3)
P 		929.8
(-2.2)
P 		1120.6
(-0.9)
P 		1189.6
(-0.4)
P 		1241.3
(-0.1)
P 		1690.9
(3)
P 		884
avr 868.3
(-3) 		1011.7
(-1.8) 		1235
(0) 		1134.1
(-0.8) 		1226.8
(-0) 		1593
(3) 		725
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 233
1 2 3 4 range
A 296
(2.7)
P 		263.4
(1.4)
P 		305
(3)
P 		147.4
(-3)
P 		158
B 275
(-3)
P 		311.4
(0.3)
P 		340.7
(3)
P 		277.6
(-2.8)
P 		66
C 327.3
(1.5)
P 		303.2
(0.9)
P 		380.6
(3)
P 		160.2
(-3)
P 		220
avr 299.4
(1.3) 		292.7
(1) 		342.1
(3) 		195.1
(-3) 		147

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 402
1 2 3 4 5 6 range
A 183.9
(-3)
P 		392.9
(3)
P 		280.4
(-0.2)
P 		264.3
(-0.7)
P 		340
(1.5)
P 		369.5
(2.3)
P 		209
B 278.7
(-3)
P 		333.1
(-1.9)
P 		315
(-2.3)
P 		310
(-2.4)
P 		533.1
(2)
P 		585.5
(3)
P 		307
C 299
(-1.9)
P 		283.7
(-2.2)
P 		285.2
(-2.2)
P 		239.2
(-3)
P 		401.7
(-0)
P 		566.1
(3)
P 		327
avr 253.9
(-3) 		336.6
(-1) 		293.5
(-2.1) 		271.2
(-2.6) 		424.9
(1.1) 		507
(3) 		253
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174093_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21523
Sequence Type Exemplar sequence
Representative Public ID CEC0742 NCBI
Target Description CEC0742 /REP_DB=TREMBL Accession /GB=C10074 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk187a6 : 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_001028334(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028334 NCBI Caenorhabditis elegans Y54G2A.5a (Y54G2A.5) mRNA, complete cds. 11/11 None
SNAP00000036497 ENSEMBL cdna:SNAP chromosome:CEL140:IV:2890924:2891491:1 11/11 None
GENEFINDER00000036612 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:2890765:2891491:1 11/11 None
Y54G2A.5a.1 ENSEMBL cdna:known chromosome:CEL140:IV:2887049:2891501:1 gene:Y54G2A.5 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Y54G2A.5a.2 1/11 Cross Hyb Matching Probes A 
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
177071 2 1 NM_001028334 174093_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:2891198-2891497(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y54G2A.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK68529 Hypothetical protein Y54G2A.5a [Caenorhabditis elegans] ref|NP_001023505.1| Y54G2A.5a [Caenorhabditis elegans] 1.0E-125
blast AAP13745 Hypothetical protein Y54G2A.5b [Caenorhabditis elegans] ref|NP_001023506.1| Y54G2A.5b [Caenorhabditis elegans] 1.0E-101
blast CAE67931 Hypothetical protein CBG13531 [Caenorhabditis briggsae] 3.0E-80
blast XP_615554 PREDICTED: similar to dim1 isoform 1 [Bos taurus] ref|XP_418903.1| PREDICTED: similar to dim1; dim1 (S. pombe) [Gallus gallus] ref|XP_533363.2| PREDICTED: similar to dim1 isoform 1 [Canis familiaris] 6.0E-73
blast NP_079575 dim1 [Mus musculus] ref|NP_006692.1| thioredoxin-like 4A [Homo sapiens] ref|XP_499552.1| PREDICTED: thioredoxin-like 4 [Homo sapiens] gb|AAH01046.1| Thioredoxin-like 4A [Homo sapiens] gb|AAH19272.1| Thioredoxin-like 4A [Homo sapiens] gb|AAH31634.1| Txnl4 protein [Mus musculus] dbj|BAE28459.1| unnamed protein product [Mus musculus] dbj|BAE38809.1| unnamed protein product [Mus musculus] dbj|BAB24966.1| unnamed protein product [Mus musculus] dbj|BAB23137.1| unnamed protein product [Mus musculus] sp|P83877|TXN4A_MOUSE Thioredoxin-like protein 4A (Thioredoxin-like U5 snRNP protein U5-15kD) (Spliceosomal U5 snRNP-specific 15 kDa protein) (DIM1 protein homolog) sp|P83876|TXN4A_HUMAN Thioredoxin-like protein 4A (Thioredoxin-like U5 snRNP protein U5-15kD) (Spliceosomal U5 snRNP-specific 15 kDa protein) (DIM1 protein homolog) gb|AAF17332.1| thioredoxin-like U5 snRNP protein U5-15kD [Homo sapiens] gb|AAB81950.1| Dim1p homolog [Homo sapiens] pdb|1QGV|A Chain A, Human Spliceosomal Protein U5-15kd 7.0E-73
blast CAE67931 Hypothetical protein CBG13531 [Caenorhabditis briggsae] 2.0E-71
blast XP_615554 PREDICTED: similar to dim1 isoform 1 [Bos taurus] ref|XP_418903.1| PREDICTED: similar to dim1; dim1 (S. pombe) [Gallus gallus] ref|XP_533363.2| PREDICTED: similar to dim1 isoform 1 [Canis familiaris] 1.0E-64
blast NP_079575 dim1 [Mus musculus] ref|NP_006692.1| thioredoxin-like 4A [Homo sapiens] ref|XP_499552.1| PREDICTED: thioredoxin-like 4 [Homo sapiens] gb|AAH01046.1| Thioredoxin-like 4A [Homo sapiens] gb|AAH19272.1| Thioredoxin-like 4A [Homo sapiens] gb|AAH31634.1| Txnl4 protein [Mus musculus] dbj|BAE28459.1| unnamed protein product [Mus musculus] dbj|BAE38809.1| unnamed protein product [Mus musculus] dbj|BAB24966.1| unnamed protein product [Mus musculus] dbj|BAB23137.1| unnamed protein product [Mus musculus] sp|P83877|TXN4A_MOUSE Thioredoxin-like protein 4A (Thioredoxin-like U5 snRNP protein U5-15kD) (Spliceosomal U5 snRNP-specific 15 kDa protein) (DIM1 protein homolog) sp|P83876|TXN4A_HUMAN Thioredoxin-like protein 4A (Thioredoxin-like U5 snRNP protein U5-15kD) (Spliceosomal U5 snRNP-specific 15 kDa protein) (DIM1 protein homolog) gb|AAF17332.1| thioredoxin-like U5 snRNP protein U5-15kD [Homo sapiens] gb|AAB81950.1| Dim1p homolog [Homo sapiens] pdb|1QGV|A Chain A, Human Spliceosomal Protein U5-15kd 1.0E-64
Protein Domains
Database ID Description E-Value
Pfam IPR004123 EMBL-EBI Pre-mRNA splicing protein 1.1E-94
Pfam IPR004123 EMBL-EBI Pre-mRNA splicing protein 7.4E-86
Sequence
Target Sequence 
>C. ELEGANS:174093_AT
aagtcaagaatttcgccgtcgtctacctcgtcgacatcacgaaggtgccggatttcaaca
aaatgtacgagctgtacgatccgtgcaccgccatgttcttcttccgtaacaagcatatta
tggtggatctgggaaccggtaacaacaacaaaatcaactgggcagtgaccgacgggcagg
agctgatcgacatcatcgagacggtctatcgtggagctcgtaaaggacgtggtcttgtca
tctcgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGTCAAGAATTTCGCCGTCGTCTA 666 157 34 Antisense
TCTACCTCGTCGACATCACGAAGGT 84 615 55 Antisense
ATCACGAAGGTGCCGGATTTCAACA 238 27 69 Antisense
TGTACGAGCTGTACGATCCGTGCAC 81 559 97 Antisense
GTTCTTCTTCCGTAACAAGCATATT 300 443 128 Antisense
GTGGATCTGGGAACCGGTAACAACA 709 489 156 Antisense
ATCAACTGGGCAGTGACCGACGGGC 539 25 186 Antisense
GACGGGCAGGAGCTGATCGACATCA 475 375 204 Antisense
TCGACATCATCGAGACGGTCTATCG 520 601 220 Antisense
GACGGTCTATCGTGGAGCTCGTAAA 101 377 233 Antisense
AAAGGACGTGGTCTTGTCATCTCGC 487 119 255 Antisense
Sequence Source Affymetrix Proprietary Database