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[190029_s_at] RNA-binding protein

Description D1007.7 /REP_DB=WormBase Gene ID /WP=CE26916 /TR=O01864 /GB=AAK18922.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=RNA-binding protein
Cluster 6grp_total > 27      4grp_total > 07      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 94
1 2 3 4 range
A 165.1
(3)
A 		121
(-3)
A 		136.9
(-0.8)
A 		162.3
(2.6)
A 		44
B 127.2
(1)
A 		92.7
(-3)
A 		139.7
(2.5)
A 		144.2
(3)
A 		52
C 136.9
(-0.1)
A 		91.5
(-3)
A 		185.3
(3)
A 		94.3
(-2.8)
M 		94
avr 143.1
(1.7) 		101.7
(-3) 		154
(3) 		133.6
(0.7) 		52

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 171
1 2 3 4 5 6 range
A 162.2
(1.4)
A 		188.5
(3)
A 		91
(-3)
A 		122.2
(-1.1)
A 		108.9
(-1.9)
A 		127.7
(-0.7)
A 		98
B 147.5
(0.3)
A 		223.1
(3)
A 		52.4
(-3)
A 		106.7
(-1.1)
A 		114.5
(-0.8)
A 		104.1
(-1.2)
A 		171
C 173.3
(3)
A 		151
(1.3)
A 		141.6
(0.6)
A 		93.6
(-3)
A 		161.2
(2.1)
P 		141.8
(0.6)
A 		80
avr 161
(1.3) 		187.5
(3) 		95
(-3) 		107.5
(-2.2) 		128.2
(-0.8) 		124.5
(-1.1) 		93
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 49
1 2 3 4 range
A 60.1
(3)
A 		26.3
(-2.6)
A 		35.8
(-1)
A 		23.8
(-3)
A 		36
B 40.5
(3)
A 		22.9
(-3)
A 		32.4
(0.2)
A 		30.7
(-0.3)
A 		18
C 45.3
(0.6)
A 		26.3
(-1.7)
A 		64.6
(3)
A 		15.9
(-3)
M 		49
avr 48.6
(3) 		25.2
(-2.6) 		44.3
(2) 		23.5
(-3) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 62
1 2 3 4 5 6 range
A 29.9
(-1.7)
A 		67
(3)
A 		19.8
(-3)
A 		31
(-1.6)
A 		32.9
(-1.3)
A 		31.1
(-1.6)
A 		47
B 51.3
(0.8)
A 		74.2
(3)
A 		12.7
(-3)
A 		28.3
(-1.5)
A 		46.5
(0.3)
A 		38.8
(-0.5)
A 		62
C 64.2
(3)
A 		46.1
(0.6)
A 		36
(-0.7)
A 		18.8
(-3)
A 		52.1
(1.4)
P 		47.5
(0.8)
A 		45
avr 48.5
(0.9) 		62.4
(3) 		22.8
(-3) 		26
(-2.5) 		43.8
(0.2) 		39.1
(-0.5) 		40
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190029_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2428
Sequence Type Exemplar sequence
Representative Public ID D1007.7 NCBI
Target Description D1007.7 /REP_DB=WormBase Gene ID /WP=CE26916 /TR=O01864 /GB=AAK18922.1 /SUBMIT=ST.LOUIS /CHR=1 /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_059002(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059002 NCBI Caenorhabditis elegans D1007.7 (D1007.7) mRNA, complete cds. 11/11 None
SNAP00000011285 ENSEMBL cdna:SNAP chromosome:CEL140:I:4598299:4602640:-1 11/11 None
GENEFINDER00000011302 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4598299:4602640:-1 11/11 None
D1007.7 ENSEMBL cdna:known chromosome:CEL140:I:4597941:4602667:-1 gene:D1007.7 11/11 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
chrI:4598298-4602640(-) 96.2 98.0
Public Domain and Genome References
Gene Title RNA-binding protein
Ensembl D1007.7
Entrez Gene 172064 Entrez gene
SwissProt O01864 EMBL-EBI
WormBase CE26916 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1632281_AT dm
DROSGENOME1:154472_AT dm
CHICKEN:GGA.17330.1.S1_AT splicing factor, arginine/serine-rich 15 gga
CHICKEN:GGAAFFX.24790.1.S1_AT splicing factor, arginine/serine-rich 15 gga
HG-U133_PLUS_2:222310_AT splicing factor, arginine/serine-rich 15 hs
HG-U133A_2:222310_AT splicing factor, arginine/serine-rich 15 hs
HG-U133A:222310_AT splicing factor, arginine/serine-rich 15 hs
HG-U133_PLUS_2:222311_S_AT splicing factor, arginine/serine-rich 15 hs
HG-U133A_2:222311_S_AT splicing factor, arginine/serine-rich 15 hs
HG-U133A:222311_S_AT splicing factor, arginine/serine-rich 15 hs
HG-U133_PLUS_2:233753_AT splicing factor, arginine/serine-rich 15 hs
HG-U133B:233753_AT splicing factor, arginine/serine-rich 15 hs
U133_X3P:HS.291979.0.A1_3P_S_AT splicing factor, arginine/serine-rich 15 hs
U133_X3P:HS.291979.0.A1_3P_AT splicing factor, arginine/serine-rich 15 hs
U133_X3P:HS.125134.2.S1_3P_AT splicing factor, arginine/serine-rich 15 hs
HG-U133_PLUS_2:226082_S_AT splicing factor, arginine/serine-rich 15 hs
HG-U133B:226082_S_AT splicing factor, arginine/serine-rich 15 hs
HG-U95E:73832_AT splicing factor, arginine/serine-rich 15 hs
HG-U95E:80307_AT splicing factor, arginine/serine-rich 15 hs
HG-U95E:88816_AT splicing factor, arginine/serine-rich 15 hs
U133_X3P:HS.125134.0.S1_3P_A_AT Splicing factor, arginine/serine-rich 15 hs
HG-U133_PLUS_2:243759_AT Splicing factor, arginine/serine-rich 15 hs
HG-U133B:243759_AT Splicing factor, arginine/serine-rich 15 hs
HG-U95C:65352_AT Splicing factor, arginine/serine-rich 15 hs
HG-U95D:73463_AT Splicing factor, arginine/serine-rich 15 hs
HU35KSUBB:RC_T93802_AT Splicing factor, arginine/serine-rich 15 hs
U133_X3P:HS.17255.0.A1_3P_AT Splicing factor, arginine/serine-rich 15 hs
MOUSE430A_2:1459999_AT splicing factor, arginine/serine-rich 15 mm
MOE430A:1459999_AT splicing factor, arginine/serine-rich 15 mm
MOUSE430_2:1459999_AT splicing factor, arginine/serine-rich 15 mm
MG-U74BV2:112886_F_AT splicing factor, arginine/serine-rich 15 mm
MG-U74BV2:112885_I_AT splicing factor, arginine/serine-rich 15 mm
MG-U74BV2:163338_AT splicing factor, arginine/serine-rich 15 mm
MG-U74CV2:169255_R_AT splicing factor, arginine/serine-rich 15 mm
MOE430A:1452396_AT splicing factor, arginine/serine-rich 15 mm
MOUSE430A_2:1452396_AT splicing factor, arginine/serine-rich 15 mm
MOUSE430_2:1452396_AT splicing factor, arginine/serine-rich 15 mm
MOE430A:1427333_S_AT splicing factor, arginine/serine-rich 15 mm
MOUSE430A_2:1427333_S_AT splicing factor, arginine/serine-rich 15 mm
MOUSE430_2:1427333_S_AT splicing factor, arginine/serine-rich 15 mm
MG-U74CV2:129476_AT Splicing factor, arginine/serine-rich 15, mRNA (cDNA clone IMAGE:5358991) mm
MOE430B:1440896_AT Splicing factor, arginine/serine-rich 15, mRNA (cDNA clone IMAGE:5358991) mm
MOUSE430_2:1440896_AT Splicing factor, arginine/serine-rich 15, mRNA (cDNA clone IMAGE:5358991) mm
MU19KSUBA:TC17878_AT Splicing factor, arginine/serine-rich 15, mRNA (cDNA clone IMAGE:5358991) mm
MU19KSUBB:TC25951_AT Splicing factor, arginine/serine-rich 15, mRNA (cDNA clone IMAGE:5358991) mm
RG-U34A:U49058_AT splicing factor, arginine/serine-rich 15 rn
RAE230A:1379685_AT splicing factor, arginine/serine-rich 15 rn
RAT230_2:1379685_AT splicing factor, arginine/serine-rich 15 rn
Protein Similarities
Method ID Description E-Value
blast AAK18922 Hypothetical protein D1007.7 [Caenorhabditis elegans] ref|NP_491403.1| D1007.7 [Caenorhabditis elegans] 0.0
blast T30930 hypothetical protein D1007.7 - Caenorhabditis elegans 0.0
blast CAE74516 Hypothetical protein CBG22270 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.5E-5
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.5E-5
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.5E-5
Sequence
Target Sequence 
>C. ELEGANS:190029_S_AT
cgtggaggacacggtggtccaccaccaccacattttgatagacgaggtggtggaggtcca
ccattccgtccggaaaatggacgtggacgtcttttggatcaatctgaaatgtggaatcgt
gaacaacgagagatgcgcggcggcggtggtgcaggaagagatggaggaagagaacatcgt
gattatgatcgtgatcgttctcaaattgatcgtcgtagacaagatgatatgggagctagg
agacgttctcgttggggagatgatgatcgtcgtgatgatgaccgccgtgatgatagacgt
gatgatcgtcgtgaatcaagacgccgctctccacggtctccacgttccccggatcggcgt
acaagacgttctccaagctatgaaagagaggaaccaccagtcaaaaaaactagtgtcgaa
gaagaaaccgtatcctctacaacccttgatgaattgaaaccatcagtcgaaccgactcca
gttccag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGTGGAGGACACGGTGGTCCACCAC 359 243 2413 Antisense
ACCACCACCACATTTTGATAGACGA 708 85 2433 Antisense
GGTGGTGGAGGTCCACCATTCCGTC 390 495 2458 Antisense
GACGTGGACGTCTTTTGGATCAATC 381 377 2492 Antisense
GAACAACGAGAGATGCGCGGCGGCG 643 351 2533 Antisense
GGGAGCTAGGAGACGTTCTCGTTGG 129 495 2643 Antisense
ATCGTCGTGATGATGACCGCCGTGA 552 35 2678 Antisense
TCGTCGTGAATCAAGACGCCGCTCT 309 603 2718 Antisense
GGATCGGCGTACAAGACGTTCTCCA 557 509 2763 Antisense
GTATCCTCTACAACCCTTGATGAAT 161 455 2842 Antisense
TCAGTCGAACCGACTCCAGTTCCAG 178 623 2875 Antisense
Sequence Source Affymetrix Proprietary Database