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[193851_at] RNA recognition motif. (aka RRM, RBD, or RNP domain)

Description Y57G11A.5 /REP_DB=WormBase Gene ID /WP=CE14916 /TR=O18219 /GB=CAB16494.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain)
Cluster 6grp_total > 01      4grp_total > 21      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 60
1 2 3 4 range
A 42.1
(3)
A 		4.2
(-3)
A 		35
(1.9)
A 		9
(-2.2)
A 		38
B 19
(-1)
A 		46
(3)
A 		5.3
(-3)
A 		18.4
(-1.1)
A 		41
C 15.6
(-1.9)
A 		7.6
(-2.7)
A 		4.7
(-3)
A 		64.5
(3)
A 		60
avr 25.6
(1.1) 		19.3
(-1.3) 		15
(-3) 		30.6
(3) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 42
1 2 3 4 5 6 range
A 6.6
(-1.3)
A 		4.9
(-2.1)
A 		7.6
(-0.8)
A 		15.6
(3)
A 		3.2
(-2.9)
A 		2.9
(-3)
A 		13
B 7.2
(-1.8)
A 		32.3
(3)
A 		9.7
(-1.4)
A 		6.1
(-2.1)
A 		12.1
(-0.9)
A 		1.2
(-3)
A 		31
C 3.5
(-2.8)
A 		43.6
(3)
A 		3
(-2.8)
A 		4.8
(-2.6)
A 		2.5
(-2.9)
A 		1.8
(-3)
A 		42
avr 5.8
(-2.1) 		26.9
(3) 		6.8
(-1.8) 		8.8
(-1.4) 		5.9
(-2.1) 		2
(-3) 		25
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14
1 2 3 4 range
A 15.3
(3)
A 		0.9
(-3)
A 		9.1
(0.4)
A 		1.3
(-2.8)
A 		14
B 6
(-0.2)
A 		11.4
(3)
A 		1.2
(-3)
A 		3.9
(-1.4)
A 		10
C 5.2
(-0.7)
A 		2.2
(-2.6)
A 		1.6
(-3)
A 		10.9
(3)
A 		9
avr 8.8
(3) 		4.8
(-2) 		4
(-3) 		5.4
(-1.3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13
1 2 3 4 5 6 range
A 1.2
(-2.1)
A 		1.7
(-1.1)
A 		1.7
(-1.1)
A 		3.9
(3)
A 		1
(-2.4)
A 		0.7
(-3)
A 		3
B 2.5
(-1.8)
A 		10.8
(3)
A 		2.3
(-2)
A 		1.6
(-2.4)
A 		4.9
(-0.4)
A 		0.5
(-3)
A 		10
C 1.3
(-2.7)
A 		13.3
(3)
A 		0.8
(-2.9)
A 		1
(-2.8)
A 		0.8
(-2.9)
A 		0.6
(-3)
A 		13
avr 1.7
(-2.2) 		8.6
(3) 		1.6
(-2.3) 		2.2
(-1.8) 		2.2
(-1.8) 		0.6
(-3) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193851_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9313
Sequence Type Exemplar sequence
Representative Public ID Y57G11A.5 NCBI
Target Description Y57G11A.5 /REP_DB=WormBase Gene ID /WP=CE14916 /TR=O18219 /GB=CAB16494.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain)
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_070356(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070356 NCBI Caenorhabditis elegans Y57G11A.5 (Y57G11A.5) mRNA, complete cds. 11/11 None
GENEFINDER00000030458 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:14505227:14512472:-1 10/11 None
Y57G11A.5 ENSEMBL cdna:known chromosome:CEL140:IV:14511851:14512472:-1 gene:Y57G11A.5 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000030456 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:14511856-14512478(-) 96.99 100.0
Public Domain and Genome References
Gene Title RNA recognition motif. (aka RRM, RBD, or RNP domain)
Ensembl Y57G11A.5
Entrez Gene 190364 Entrez gene
SwissProt O18219 EMBL-EBI
WormBase CE14916 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB16494 Hypothetical protein Y57G11A.5 [Caenorhabditis elegans] ref|NP_502757.1| Y57G11A.5 [Caenorhabditis elegans] 1.0E-64
blast CAB16494 Hypothetical protein Y57G11A.5 [Caenorhabditis elegans] ref|NP_502757.1| Y57G11A.5 [Caenorhabditis elegans] 2.0E-62
blast CAE68772 Hypothetical protein CBG14713 [Caenorhabditis briggsae] 9.0E-43
blast CAE68772 Hypothetical protein CBG14713 [Caenorhabditis briggsae] 3.0E-41
blast AAA82270 Sr protein (splicing factor) protein 6, isoform a [Caenorhabditis elegans] ref|NP_741446.1| SR Protein (splicing factor) family member (rsp-6) [Caenorhabditis elegans] sp|Q18409|RSP6_CAEEL Probable splicing factor, arginine/serine-rich 6 (RNA-binding protein srp-1) (CeSRp20) 1.0E-11
blast AAA82270 Sr protein (splicing factor) protein 6, isoform a [Caenorhabditis elegans] ref|NP_741446.1| SR Protein (splicing factor) family member (rsp-6) [Caenorhabditis elegans] sp|Q18409|RSP6_CAEEL Probable splicing factor, arginine/serine-rich 6 (RNA-binding protein srp-1) (CeSRp20) 1.0E-10
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 6.3E-8
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 6.3E-8
Sequence
Target Sequence 
>C. ELEGANS:193851_AT
atgtccgtaattccacaaaatcgaaaacgaaaaagaaatgttgaaaatcgacaggtttac
gtcggaaatatgccatttgatgctactgagaaagagttgaataatgatgccttgaccatc
tatgatgctattgaagcagtgttttccgtgatgggaccgattaaatcgatttggatggca
aaaaggccacctggattcgcatttgttacatttaagcggactgttcatgcatttgacgct
gtgaaatatcttaatggaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGTCCGTAATTCCACAAAATCGAA 373 49 13 Antisense
GACAGGTTTACGTCGGAAATATGCC 617 367 62 Antisense
AATATGCCATTTGATGCTACTGAGA 407 173 79 Antisense
AGAGTTGAATAATGATGCCTTGACC 286 67 105 Antisense
GATGCCTTGACCATCTATGATGCTA 254 415 118 Antisense
GCTATTGAAGCAGTGTTTTCCGTGA 39 305 139 Antisense
GTGTTTTCCGTGATGGGACCGATTA 33 487 151 Antisense
AAAGGCCACCTGGATTCGCATTTGT 23 121 194 Antisense
GTTACATTTAAGCGGACTGTTCATG 16 447 217 Antisense
GACTGTTCATGCATTTGACGCTGTG 669 375 231 Antisense
GACGCTGTGAAATATCTTAATGGAA 290 381 247 Antisense
Sequence Source Affymetrix Proprietary Database