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[191814_at] Probable RNA binding protein

Description C30B5.4 /REP_DB=WormBase Gene ID /WP=CE02523 /TR=Q18318 /GB=AAK31468.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Probable RNA binding protein
Cluster 6grp_highest_10_10 > 66      6grp_high1_10_10 > 66      4grp_highest_8_8 > 23      4grp_high_8_8 > 13      6grp_highest_nonorm > 91      6grp_total > 67      4grp_total > 03      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 266
1 2 3 4 range
A 163.6
(-2.1)
P 		131
(-3)
P 		151.2
(-2.4)
P 		350.8
(3)
P 		220
B 127.9
(-2.9)
P 		137
(-2.7)
P 		122.7
(-3)
P 		388.5
(3)
P 		266
C 181.1
(-1.8)
P 		171.5
(-2)
P 		129.9
(-3)
P 		385.9
(3)
P 		256
avr 157.5
(-2.4) 		146.5
(-2.7) 		134.6
(-3) 		375.1
(3) 		241

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 290
1 2 3 4 5 6 range
A 130.9
(-1.3)
P 		139.6
(-1)
P 		235.9
(3)
P 		89.9
(-3)
P 		151.4
(-0.5)
P 		198.4
(1.5)
P 		146
B 171
(-1.5)
P 		183
(-1.2)
P 		226.4
(-0.3)
P 		101.7
(-3)
P 		174.5
(-1.4)
P 		380.2
(3)
P 		279
C 192.1
(-0.9)
P 		220
(-0.1)
P 		121.6
(-3)
P 		178
(-1.3)
P 		126.8
(-2.8)
P 		324.4
(3)
P 		203
avr 164.7
(-1.6) 		180.9
(-1.1) 		194.6
(-0.6) 		123.2
(-3) 		150.9
(-2.1) 		301
(3) 		178
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 54
1 2 3 4 range
A 59.6
(3)
P 		28.4
(-3)
P 		39.5
(-0.9)
P 		51.3
(1.4)
P 		31
B 40.8
(-1.6)
P 		33.8
(-2.4)
P 		28.4
(-3)
P 		82.8
(3)
P 		54
C 59.9
(1.4)
P 		49.3
(-1.8)
P 		45.3
(-3)
P 		65.1
(3)
P 		20
avr 53.4
(0.3) 		37.2
(-3) 		37.7
(-2.9) 		66.4
(3) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 119
1 2 3 4 5 6 range
A 24.1
(-2.7)
P 		49.6
(2.6)
P 		51.4
(3)
P 		22.8
(-3)
P 		45.7
(1.8)
P 		48.3
(2.3)
P 		29
B 59.5
(-1.3)
P 		60.9
(-1.2)
P 		55
(-1.5)
P 		26.9
(-3)
P 		70.9
(-0.7)
P 		141.8
(3)
P 		115
C 71.2
(0.1)
P 		67.1
(-0.2)
P 		31
(-3)
P 		35.8
(-2.6)
P 		41
(-2.2)
P 		108.6
(3)
P 		78
avr 51.6
(-1.1) 		59.2
(-0.4) 		45.8
(-1.5) 		28.5
(-3) 		52.5
(-1) 		99.6
(3) 		71
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191814_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5156
Sequence Type Exemplar sequence
Representative Public ID C30B5.4 NCBI
Target Description C30B5.4 /REP_DB=WormBase Gene ID /WP=CE02523 /TR=Q18318 /GB=AAK31468.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Probable 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_062836(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062836 NCBI Caenorhabditis elegans C30B5.4 (C30B5.4) mRNA, complete cds. 11/11 None
SNAP00000017615 ENSEMBL cdna:SNAP chromosome:CEL140:II:6195806:6196851:-1 11/11 None
GENEFINDER00000017631 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6195806:6196887:-1 11/11 None
C30B5.4 ENSEMBL cdna:known chromosome:CEL140:II:6195806:6196887:-1 gene:C30B5.4 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
chrII:6195802-6196884(-) 92.3 100.0
Public Domain and Genome References
Gene Title Probable RNA binding protein
Ensembl C30B5.4
Entrez Gene 183040 Entrez gene
SwissProt Q18318 EMBL-EBI
WormBase CE02523 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:252453_AT RNA recognition motif (RRM)-containing protein at
DROSGENOME1:146513_AT dm
DROSOPHILA_2:1627627_AT dm
HG-U95AV2:36527_AT RNA binding motif protein, X-linked 2 hs
HG-U133A_2:204097_S_AT RNA binding motif protein, X-linked 2 hs
HG-U133A:204097_S_AT RNA binding motif protein, X-linked 2 hs
HG-U133_PLUS_2:204097_S_AT RNA binding motif protein, X-linked 2 hs
HU35KSUBB:RC_AA025315_AT RNA binding motif protein, X-linked 2 hs
HG-U133A:204098_AT RNA binding motif protein, X-linked 2 hs
HG-U133_PLUS_2:204098_AT RNA binding motif protein, X-linked 2 hs
HG-U133A_2:204098_AT RNA binding motif protein, X-linked 2 hs
U133_X3P:G7706315_3P_AT RNA binding motif protein, X-linked 2 hs
U133_X3P:G5531844_3P_A_AT RNA binding motif protein, X-linked 2 hs
Protein Similarities
Method ID Description E-Value
blast AAK31468 Hypothetical protein C30B5.4 [Caenorhabditis elegans] ref|NP_495237.1| C30B5.4 [Caenorhabditis elegans] 1.0E-144
blast CAE59261 Hypothetical protein CBG02589 [Caenorhabditis briggsae] 1.0E-141
blast AAK31468 Hypothetical protein C30B5.4 [Caenorhabditis elegans] ref|NP_495237.1| C30B5.4 [Caenorhabditis elegans] 1.0E-136
blast CAE59261 Hypothetical protein CBG02589 [Caenorhabditis briggsae] 1.0E-133
blast AAD44497 RNA-binding protein [Homo sapiens] 9.0E-51
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 5.6E-22
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 5.6E-22
Sequence
Target Sequence 
>C. ELEGANS:191814_AT
ggcagtggacaacttcaatggaatcagcttacacaaacgaatgattcgtgtagatcatgt
ggaagaatataaagtcccgaaatacaaagaagatgccgatgatgaaacgaaacgattatg
ggaagaaggatgtgctccaaaaccagtaatgagagaagcagcacctatggaagttcaaga
acagagaatcaagaaagccaaagaagtattattagatattggagatgttgatgaagagtt
gctgaaaaaaatcaaaaaagataagaagaaagcaaaaaaggagaagaagcgggaaaagaa
gagagcaaagaaaattcgaaaattggagaagaaagctgcaagagatccagatggggattg
gaataataaagccaaacttatcgataaagttgtggctgaagatgatttgtatggtgagaa
caagcactttgattttggaaagaagaaagaagttgaagaagttaaacataatccaagacc
agattttgagaaagctgattggagagatattgaaatctggaaagtcatccgagaacgaga
gaaggcagagaaagcagcaagaggagaaacatcagaagcgtggggtccagaggatcat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGCAGTGGACAACTTCAATGGAATC 75 535 294 Antisense
ATGGAATCAGCTTACACAAACGAAT 209 53 311 Antisense
GATTCGTGTAGATCATGTGGAAGAA 621 431 336 Antisense
ATGCCGATGATGAAACGAAACGATT 78 41 386 Antisense
AGGATGTGCTCCAAAACCAGTAATG 355 57 420 Antisense
GAAGCAGCACCTATGGAAGTTCAAG 481 341 448 Antisense
GAAAGCTGCAAGAGATCCAGATGGG 474 359 624 Antisense
GTGGCTGAAGATGATTTGTATGGTG 440 489 685 Antisense
GAAATCTGGAAAGTCATCCGAGAAC 191 363 805 Antisense
GAAACATCAGAAGCGTGGGGTCCAG 645 355 859 Antisense
AGAAGCGTGGGGTCCAGAGGATCAT 391 73 867 Antisense
Sequence Source Affymetrix Proprietary Database