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[193678_at]

Description W02B12.3 /REP_DB=WormBase Gene ID /WP=CE03763 /GEN=rsp-1 /TR=Q23121 /GB=CAA91395.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=pre-mRNA splicing factor like protein
Cluster 6grp_highest_10_10 > 92      6grp_high1_10_10 > 39      4grp_highest_8_8 > 32      4grp_high_8_8 > 43      6grp_highest_nonorm > 0      6grp_total > 28      4grp_total > 52      6grp_highest_sub > Cu      6grp_cgc > 08      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1995
1 2 3 4 range
A 3129.8
(0.4)
P 		3767.9
(3)
P 		2825.8
(-0.9)
P 		2322.5
(-3)
P 		1445
B 3507.2
(3)
P 		3248.7
(2.1)
P 		3122.4
(1.7)
P 		1772.5
(-3)
P 		1735
C 3301.1
(3)
P 		2835
(1.1)
P 		2643
(0.2)
P 		1866.1
(-3)
P 		1435
avr 3312.7
(3) 		3283.9
(2.9) 		2863.7
(1) 		1987
(-3) 		1326

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1476
1 2 3 4 5 6 range
A 2549.4
(3)
P 		1484.7
(-1.7)
P 		1240.6
(-2.7)
P 		1179.3
(-3)
P 		1749.1
(-0.5)
P 		2039
(0.8)
P 		1370
B 2074
(3)
P 		1543.5
(-2.4)
P 		1641.5
(-1.4)
P 		1481.2
(-3)
P 		1700.3
(-0.8)
P 		1955.2
(1.8)
P 		593
C 2166.2
(3)
P 		1611.8
(-0)
P 		1423.3
(-1.1)
P 		1073.1
(-3)
P 		1817.4
(1.1)
P 		1449.3
(-0.9)
P 		1093
avr 2263.2
(3) 		1546.7
(-1.2) 		1435.1
(-1.9) 		1244.5
(-3) 		1755.6
(0) 		1814.5
(0.4) 		1019
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 825
1 2 3 4 range
A 1139.6
(3)
P 		817.9
(0.6)
P 		738.7
(-0)
P 		340
(-3)
P 		800
B 1118.4
(3)
P 		802.3
(0.4)
P 		723.5
(-0.2)
P 		377.7
(-3)
P 		741
C 1092.8
(3)
P 		815.1
(0.9)
P 		921.2
(1.7)
P 		314.7
(-3)
P 		778
avr 1116.9
(3) 		811.8
(0.6) 		794.5
(0.5) 		344.1
(-3) 		773

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 587
1 2 3 4 5 6 range
A 470
(1.7)
P 		528
(3)
P 		270.2
(-3)
P 		299.1
(-2.3)
P 		527.8
(3)
P 		496.4
(2.3)
P 		258
B 721.6
(2.9)
P 		513.8
(-0.8)
P 		398.6
(-2.9)
P 		392.3
(-3)
P 		690.8
(2.3)
P 		729.1
(3)
P 		337
C 802.9
(3)
P 		491.8
(-0.2)
P 		362.3
(-1.5)
P 		215.8
(-3)
P 		588.1
(0.8)
P 		485.2
(-0.2)
P 		587
avr 664.8
(3) 		511.2
(0.5) 		343.7
(-2.3) 		302.4
(-3) 		602.2
(2) 		570.2
(1.4) 		362
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193678_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3747
Sequence Type Exemplar sequence
Representative Public ID W02B12.3 NCBI
Target Description W02B12.3 /REP_DB=WormBase Gene ID /WP=CE03763 /GEN=rsp-1 /TR=Q23121 /GB=CAA91395.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=pre-mRNA splicing factor like protein
Cluster Evidence This cluster is supported by a 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_064041(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064041 NCBI Caenorhabditis elegans SR Protein (splicing factor) family member (rsp-1) (rsp-1) mRNA, complete cds. 11/11 None
SNAP00000002907 ENSEMBL cdna:SNAP chromosome:CEL140:II:11453886:11455538:1 11/11 None
GENEFINDER00000002926 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11453886:11455538:1 11/11 None
W02B12.3c ENSEMBL cdna:known chromosome:CEL140:II:11453885:11455702:1 gene:W02B12.3 11/11 None
W02B12.3b.2 ENSEMBL cdna:known chromosome:CEL140:II:11453885:11455677:1 gene:W02B12.3 11/11 None
W02B12.3a ENSEMBL cdna:known chromosome:CEL140:II:11453885:11455712:1 gene:W02B12.3 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_182113 3/11 Cross Hyb Matching Probes None
NM_182114 3/11 Cross Hyb Matching Probes None
W02B12.3b.1 3/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
174748 3 1 NM_064041 193678_at (11), 194244_x_at (10)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:11453882-11455535(+) 100.0 100.0
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:193678_AT
gatcgttatgatcgtggaccaccaagaagagaaagtcgctacggtcgtccatacagcact
cgtcatcgcgtcgtcgtcgagaatctctcatctcgaatttcttggcaggatctcaaagac
caagtccgccgccaaggagttgaaccaacctatgccgaagctcataagagaccaaatgaa
gcacttctctgcttcgcaacaccatccgatcttaaaagatgcattgagaaatgcgatgga
atggatttgaatggaagaaagatcaagatgatcgacgactcgcaagctggacgctcacgt
tctcgatccaacagtcgctctcgcagccgttctcgcagtcgtgatcgtcgccgctcccgc
tctcgcagctcgagtcgctcaaagagccgtagccgttccccaccaaaacgctctcgacgc
gaatcgaagtccaagtctcgcagca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATCGTTATGATCGTGGACCACCAA 453 417 334 Antisense
AGAGAAAGTCGCTACGGTCGTCCAT 552 69 361 Antisense
GTCGTCGTCGAGAATCTCTCATCTC 388 473 403 Antisense
CAAGTCCGCCGCCAAGGAGTTGAAC 665 173 454 Antisense
AGTTGAACCAACCTATGCCGAAGCT 263 61 471 Antisense
TGAAGCACTTCTCTGCTTCGCAACA 507 573 510 Antisense
CTTCGCAACACCATCCGATCTTAAA 286 219 525 Antisense
ATGATCGACGACTCGCAAGCTGGAC 32 47 601 Antisense
TCTCGCAGCTCGAGTCGCTCAAAGA 458 611 694 Antisense
ACCAAAACGCTCTCGACGCGAATCG 438 69 735 Antisense
GAATCGAAGTCCAAGTCTCGCAGCA 451 327 754 Antisense
Sequence Source Affymetrix Proprietary Database