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[192018_at]

Description D2089.1 /REP_DB=WormBase Gene ID /WP=CE09099 /GEN=rsp-7 /TR=O01159 /GB=CAA90135.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=RNA binding protein
Cluster 6grp_highest_10_10 > 85      6grp_high1_10_10 > 56      4grp_highest_8_8 > 28      4grp_high_8_8 > 0      6grp_highest_nonorm > 84      6grp_total > 56      4grp_total > 07      6grp_highest_sub > Cu      6grp_cgc > 27      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 246
1 2 3 4 range
A 555
(1)
P 		452.8
(-3)
P 		516.8
(-0.5)
P 		605
(3)
P 		152
B 563.9
(0.6)
P 		417.2
(-3)
P 		662.8
(3)
P 		630.6
(2.2)
P 		246
C 612.3
(3)
P 		477.4
(-3)
P 		565.6
(0.9)
P 		579.3
(1.5)
P 		135
avr 577.1
(1.9) 		449.1
(-3) 		581.7
(2.1) 		605
(3) 		156

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 446
1 2 3 4 5 6 range
A 530.8
(-0.6)
P 		701.9
(2.6)
P 		455.6
(-2)
P 		559.1
(-0.1)
P 		401.7
(-3)
P 		724.3
(3)
P 		323
B 533.9
(-1.9)
P 		613.2
(1)
P 		566.9
(-0.7)
P 		505.6
(-3)
P 		552.5
(-1.2)
P 		665.1
(3)
P 		160
C 673.3
(0.2)
P 		560.3
(-1.6)
P 		631.9
(-0.5)
P 		473.4
(-3)
P 		557.4
(-1.7)
P 		847.3
(3)
P 		374
avr 579.3
(-1.1) 		625.1
(0) 		551.5
(-1.8) 		512.7
(-2.8) 		503.9
(-3) 		745.6
(3) 		242
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 114
1 2 3 4 range
A 202.1
(3)
P 		98.3
(-2.5)
P 		135.1
(-0.5)
P 		88.6
(-3)
P 		114
B 179.8
(3)
P 		103
(-3)
P 		153.6
(1)
P 		134.4
(-0.5)
P 		77
C 202.7
(3)
P 		137.3
(-0.7)
P 		197.1
(2.7)
P 		97.7
(-3)
P 		105
avr 194.9
(3) 		112.9
(-2.6) 		161.9
(0.8) 		106.9
(-3) 		88

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 188
1 2 3 4 5 6 range
A 97.9
(-3)
P 		249.6
(3)
P 		99.2
(-2.9)
P 		141.8
(-1.3)
P 		121.2
(-2.1)
P 		176.3
(0.1)
P 		152
B 185.8
(-0.3)
P 		204.1
(0.7)
P 		137.7
(-2.8)
P 		133.9
(-3)
P 		224.5
(1.8)
P 		248
(3)
P 		114
C 249.6
(1.9)
P 		171
(-0.6)
P 		160.8
(-0.9)
P 		95.2
(-3)
P 		180.4
(-0.3)
P 		283.6
(3)
P 		188
avr 177.8
(-0.1) 		208.2
(1.5) 		132.6
(-2.5) 		123.6
(-3) 		175.4
(-0.2) 		236
(3) 		112
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192018_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3046
Sequence Type Exemplar sequence
Representative Public ID D2089.1 NCBI
Target Description D2089.1 /REP_DB=WormBase Gene ID /WP=CE09099 /GEN=rsp-7 /TR=O01159 /GB=CAA90135.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=RNA binding 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_171033(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171033 NCBI Caenorhabditis elegans SR Protein (splicing factor) family member (rsp-7) (rsp-7) mRNA, complete cds. 11/11 None
SNAP00000043961 ENSEMBL cdna:SNAP chromosome:CEL140:II:10659943:10662033:1 11/11 None
GENEFINDER00000043971 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10660985:10662033:1 11/11 None
D2089.1a ENSEMBL cdna:known chromosome:CEL140:II:10659117:10662217:1 gene:D2089.1 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
174646 2 1 NM_171033 192018_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:10659117-10662030(+) 100.0 100.0
Public Domain and Genome References
Ensembl D2089.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA90135 Hypothetical protein D2089.1a [Caenorhabditis elegans] emb|CAA85414.2| Hypothetical protein D2089.1a [Caenorhabditis elegans] ref|NP_741039.1| SR Protein (splicing factor) family member (rsp-7) [Caenorhabditis elegans] sp|O01159|RSP7_CAEEL Probable splicing factor, arginine/serine-rich 7 (p54) 1.0E-151
blast CAE59627 Hypothetical protein CBG03040 [Caenorhabditis briggsae] 1.0E-135
blast CAA90135 Hypothetical protein D2089.1a [Caenorhabditis elegans] emb|CAA85414.2| Hypothetical protein D2089.1a [Caenorhabditis elegans] ref|NP_741039.1| SR Protein (splicing factor) family member (rsp-7) [Caenorhabditis elegans] sp|O01159|RSP7_CAEEL Probable splicing factor, arginine/serine-rich 7 (p54) 4.0E-73
blast CAD30448 Hypothetical protein D2089.1b [Caenorhabditis elegans] emb|CAD30436.1| Hypothetical protein D2089.1b [Caenorhabditis elegans] ref|NP_741040.1| SR Protein (splicing factor) family member (rsp-7) [Caenorhabditis elegans] 1.0E-69
blast CAE59627 Hypothetical protein CBG03040 [Caenorhabditis briggsae] 2.0E-68
blast CAA90135 Hypothetical protein D2089.1a [Caenorhabditis elegans] emb|CAA85414.2| Hypothetical protein D2089.1a [Caenorhabditis elegans] ref|NP_741039.1| SR Protein (splicing factor) family member (rsp-7) [Caenorhabditis elegans] sp|O01159|RSP7_CAEEL Probable splicing factor, arginine/serine-rich 7 (p54) 3.0E-37
blast CAE59627 Hypothetical protein CBG03040 [Caenorhabditis briggsae] 2.0E-34
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 3.6E-11
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 3.6E-11
Sequence
Target Sequence 
>C. ELEGANS:192018_AT
acggagatgatcgggatcggcgccgttcgcgatcaccacgtcgtcgtcgttcgccgtcac
cgcgtcgcagacgggatagtcgtgatcgtgaccgtgacagagatcgtgacagaaggcgaa
gtcgcgaccgaagatctagaagtcgtgatcgtgaccgtgatcgtgacaggaagagaagcc
gtagcagagatcgtaaacgccgcagtcgcagtcgtgacaacaaggatcgtgataggaaac
ggtcgagaagcagagatcgcagaagacgttccaaatctcgtgatcgtaaacgtgaaaggt
ctcgttcaagatccaaagatcgaaagcgtgacaagaagcgcagtcgaagcagatcacctg
aaaaacgacgtgataaggaagatagaaaaaccgagaagaaagaaaacgagaatgaatctt
cgctacgtgagaagcttctcgagaaaaaggccgcccggaaagactcttctgatgatgaat
gggaggaaaagccaacaccgactaatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACGGAGATGATCGGGATCGGCGCCG 334 93 893 Antisense
GTCACCGCGTCGCAGACGGGATAGT 195 463 948 Antisense
GGATAGTCGTGATCGTGACCGTGAC 423 509 966 Antisense
GGCGAAGTCGCGACCGAAGATCTAG 561 539 1007 Antisense
CAGAGATCGTAAACGCCGCAGTCGC 634 205 1077 Antisense
CCGCAGTCGCAGTCGTGACAACAAG 44 263 1092 Antisense
AGACGTTCCAAATCTCGTGATCGTA 248 69 1156 Antisense
GAAAGGTCTCGTTCAAGATCCAAAG 219 361 1186 Antisense
GAAGCGCAGTCGAAGCAGATCACCT 546 343 1227 Antisense
CCGCCCGGAAAGACTCTTCTGATGA 268 263 1343 Antisense
GAGGAAAAGCCAACACCGACTAATG 4 405 1375 Antisense
Sequence Source Affymetrix Proprietary Database