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[171806_x_at]

Description CEC3771_rc /REP_DB=TREMBL Accession /GB=C08377 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk187e8 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 83      6grp_high1_10_10 > 48      4grp_highest_8_8 > 41      4grp_high_8_8 > 49      6grp_highest_nonorm > 76      6grp_total > 38      4grp_total > 54      6grp_highest_sub > Cu      6grp_cgc > 07      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1080
1 2 3 4 range
A 2030.4
(3)
P 		1697.3
(-0.3)
P 		1682.9
(-0.4)
P 		1416.7
(-3)
P 		614
B 2460
(3)
P 		1902.4
(-1.1)
P 		1965.2
(-0.6)
P 		1646
(-3)
P 		814
C 2122
(3)
P 		1710.9
(-0.3)
P 		1830.1
(0.6)
P 		1380.5
(-3)
P 		742
avr 2204.1
(3) 		1770.2
(-0.6) 		1826.1
(-0.1) 		1481.1
(-3) 		723

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 855
1 2 3 4 5 6 range
A 1390.4
(3)
P 		1265.7
(1.8)
P 		1008.5
(-0.5)
P 		743.8
(-3)
P 		857
(-1.9)
P 		1280.9
(2)
P 		647
B 1420.1
(2.2)
P 		894.3
(-3)
P 		909.7
(-2.8)
P 		1012.3
(-1.8)
P 		924.9
(-2.7)
P 		1502.6
(3)
P 		608
C 1335.8
(3)
P 		980.2
(-0.1)
P 		845.1
(-1.3)
P 		647.8
(-3)
P 		1158.7
(1.5)
P 		1027.5
(0.3)
P 		688
avr 1382.1
(3) 		1046.7
(-0.5) 		921.1
(-1.8) 		801.3
(-3) 		980.2
(-1.2) 		1270.3
(1.8) 		581
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 577
1 2 3 4 range
A 739.3
(3)
P 		368.4
(-1.2)
P 		439.9
(-0.4)
P 		207.4
(-3)
P 		532
B 784.5
(3)
P 		469.8
(-1.4)
P 		455.4
(-1.6)
P 		350.8
(-3)
P 		434
C 702.4
(3)
P 		491.9
(0.3)
P 		637.9
(2.2)
P 		232.8
(-3)
P 		470
avr 742.1
(3) 		443.4
(-0.7) 		511.1
(0.1) 		263.7
(-3) 		478

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 430
1 2 3 4 5 6 range
A 256.3
(-1.4)
P 		450.1
(3)
P 		219.6
(-2.3)
P 		188.6
(-3)
P 		258.6
(-1.4)
P 		311.9
(-0.2)
P 		262
B 494.1
(1.8)
P 		297.7
(-1.6)
P 		220.9
(-3)
P 		268.1
(-2.2)
P 		375.8
(-0.3)
P 		560.3
(3)
P 		339
C 495.1
(3)
P 		299.1
(-0.2)
P 		215.1
(-1.6)
P 		130.3
(-3)
P 		374.9
(1)
P 		344
(0.5)
P 		365
avr 415.2
(3) 		349
(1.2) 		218.5
(-2.4) 		195.7
(-3) 		336.4
(0.8) 		405.4
(2.7) 		220
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171806_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27730
Sequence Type Exemplar sequence
Representative Public ID CEC3771 NCBI
Target Description CEC3771_rc /REP_DB=TREMBL Accession /GB=C08377 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk187e8 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_064041
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
GENEFINDER00000002926 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11453886:11455538:1 None
W02B12.3c ENSEMBL cdna:known chromosome:CEL140:II:11453885:11455702:1 gene:W02B12.3 None
W02B12.3b.2 ENSEMBL cdna:known chromosome:CEL140:II:11453885:11455677:1 gene:W02B12.3 None
NM_064041 NCBI Caenorhabditis elegans SR Protein (splicing factor) family member (rsp-1) (rsp-1) mRNA, complete cds. A 
W02B12.3a ENSEMBL cdna:known chromosome:CEL140:II:11453885:11455712:1 gene:W02B12.3 A 
SNAP00000002907 ENSEMBL cdna:SNAP chromosome:CEL140:II:11453886:11455538:1 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
chrII:11455297-11455644(+) 92.81 92.81
Public Domain and Genome References
Ensembl W02B12.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA91395 Hypothetical protein W02B12.3a [Caenorhabditis elegans] ref|NP_496442.1| SR Protein (splicing factor) family member (rsp-1) [Caenorhabditis elegans] sp|Q23121|RSP1_CAEEL Probable splicing factor, arginine/serine-rich 1 (RNA-binding protein srp-5) (CeSRp75) 1.0E-83
blast CAE59504 Hypothetical protein CBG02890 [Caenorhabditis briggsae] 3.0E-81
blast CAD59160 Hypothetical protein W02B12.3c [Caenorhabditis elegans] ref|NP_871914.1| SR Protein (splicing factor) family member (rsp-1) [Caenorhabditis elegans] 3.0E-51
blast CAD59159 Hypothetical protein W02B12.3b [Caenorhabditis elegans] ref|NP_871913.1| SR Protein (splicing factor) family member (rsp-1) [Caenorhabditis elegans] 1.0E-49
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 5.9E-19
Sequence
Target Sequence 
>C. ELEGANS:171806_X_AT
gggatggagtccaagtttcgcagcagaagccgttttcgcagcgctgacaacagaaagttt
cgttcgccatcaagatctccaaagaaggtcgatcgctctccatctccaccacgcggatcg
cgttcgccttcggaaaagggatccccgagacgttcgagaagcgcatctccaatggataat
ggagacggtgacaactaaactcgcttcggttccaaaacaaatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGATGGAGTCCAAGTTTCGCAGCA 12 497 16 Antisense
TTTCGCAGCAGAAGCCGTTTTCGCA 528 669 31 Antisense
CCGTTTTCGCAGCGCTGACAACAGA 217 265 45 Antisense
AACAGAAAGTTTCGTTCGCCATCAA 213 137 64 Antisense
CGTTCGCCATCAAGATCTCCAAAGA 699 245 76 Antisense
TCCAAAGAAGGTCGATCGCTCTCCA 331 587 93 Antisense
TCGCGTTCGCCTTCGGAAAAGGGAT 192 403 133 Antisense
GATCCCCGAGACGTTCGAGAAGCGC 291 417 155 Antisense
GTTCGAGAAGCGCATCTCCAATGGA 59 443 167 Antisense
GACGGTGACAACTAAACTCGCTTCG 502 377 199 Antisense
ACTCGCTTCGGTTCCAAAACAAATG 343 99 214 Antisense
Sequence Source Affymetrix Proprietary Database