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[194008_s_at] RNA recognition motif. (aka RRM, RBD, or RNP domain)

Description T12D8.2 /REP_DB=WormBase Gene ID /WP=CE16399 /GEN=taf-10 /TR=O45781 /GB=CAB03342.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain)
Cluster 6grp_highest_10_10 > 50      6grp_high1_10_10 > 03      4grp_highest_8_8 > 33      4grp_high_8_8 > 58      6grp_highest_nonorm > 81      6grp_total > 06      4grp_total > 61      6grp_highest_sub > De      6grp_cgc > 21      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 286
1 2 3 4 range
A 475.8
(3)
P 		256.9
(-1.6)
P 		382.5
(1)
P 		190
(-3)
P 		286
B 333.5
(0)
P 		426.8
(3)
P 		416.4
(2.7)
P 		238.3
(-3)
P 		189
C 465.6
(3)
P 		416.2
(1.9)
P 		359.4
(0.6)
P 		194.7
(-3)
P 		271
avr 425
(3) 		366.6
(1.4) 		386.1
(1.9) 		207.7
(-3) 		217

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 185
1 2 3 4 5 6 range
A 233.3
(-0.2)
P 		233.4
(-0.2)
P 		308.6
(3)
P 		247.3
(0.4)
P 		168.2
(-3)
P 		187.4
(-2.2)
P 		140
B 343.2
(3)
P 		306.7
(1.4)
P 		298.5
(1.1)
P 		204.2
(-3)
P 		213.5
(-2.6)
P 		274.3
(0)
P 		139
C 338.8
(3)
P 		253.3
(0.2)
P 		158.4
(-3)
P 		160.1
(-2.9)
P 		257.6
(0.3)
P 		196
(-1.7)
P 		180
avr 305.1
(3) 		264.5
(0.6) 		255.2
(0) 		203.9
(-3) 		213.1
(-2.5) 		219.2
(-2.1) 		101
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 145
1 2 3 4 range
A 173.2
(3)
P 		55.8
(-1.8)
P 		100
(-0)
P 		27.8
(-3)
P 		145
B 106.4
(3)
P 		105.4
(2.9)
P 		96.5
(1.9)
P 		50.8
(-3)
P 		56
C 154.1
(3)
P 		119.7
(1.3)
P 		125.3
(1.6)
P 		32.8
(-3)
P 		121
avr 144.6
(3) 		93.6
(0.2) 		107.3
(0.9) 		37.1
(-3) 		108

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 93
1 2 3 4 5 6 range
A 43
(-3)
P 		83
(3)
P 		67.2
(0.6)
P 		62.7
(-0)
P 		50.8
(-1.8)
P 		45.6
(-2.6)
P 		40
B 119.4
(3)
P 		102.1
(1.4)
P 		72.5
(-1.3)
P 		54.1
(-3)
P 		86.7
(-0)
P 		102.3
(1.4)
P 		65
C 125.6
(3)
P 		77.3
(-0.1)
P 		40.3
(-2.5)
P 		32.2
(-3)
P 		83.3
(0.3)
P 		65.6
(-0.9)
P 		93
avr 96
(3) 		87.5
(1.9) 		60
(-1.7) 		49.7
(-3) 		73.6
(0.1) 		71.2
(-0.2) 		46
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194008_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6709
Sequence Type Exemplar sequence
Representative Public ID T12D8.2 NCBI
Target Description T12D8.2 /REP_DB=WormBase Gene ID /WP=CE16399 /GEN=taf-10 /TR=O45781 /GB=CAB03342.1 /SUBMIT=HINXTON /CHR=3 /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_067417(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067417 NCBI Caenorhabditis elegans T12D8.2 (T12D8.2) mRNA, complete cds. 11/11 None
SNAP00000041270 ENSEMBL cdna:SNAP chromosome:CEL140:III:13642281:13643054:-1 11/11 None
GENEFINDER00000041280 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13642281:13643054:-1 11/11 None
T12D8.2.1 ENSEMBL cdna:known chromosome:CEL140:III:13641945:13643092:-1 gene:T12D8.2 11/11 None
T12D8.2.2 ENSEMBL cdna:known chromosome:CEL140:III:13642281:13643086:-1 gene:T12D8.2 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
chrIII:13642276-13643050(-) 100.0 100.0
Public Domain and Genome References
Gene Title RNA recognition motif. (aka RRM, RBD, or RNP domain)
Gene Symbol drr-2
Ensembl T12D8.2
Entrez Gene 259546 Entrez gene
SwissProt O45781 EMBL-EBI
WormBase CE16399 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03342 Hypothetical protein T12D8.2 [Caenorhabditis elegans] ref|NP_499818.1| T12D8.2 [Caenorhabditis elegans] 3.0E-61
blast CAE71343 Hypothetical protein CBG18245 [Caenorhabditis briggsae] 3.0E-34
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.5E-12
Sequence
Target Sequence 
>C. ELEGANS:194008_S_AT
tttaaggcattcatcggtgggctcccctatgactccatcgccactgacatcgaaactata
ttaaagcactgcaagttcacagatgaagagctcaaaaagttcgatattcatcttgtgcac
gacagagattctggaagtttcaagggattcgcatatgtcacttttgagaatgaacaacag
atgaatactgctatcagtggccttaatggagccgatttcggaaatcgcgtactcaaggtt
aatcgtgcccaacagcgcgatcgcagtgaccgcggaggtggtcgtggaggacgcggagga
aacttcggagatcgcggaggacgtggtcgtggagcaggaggcttccggcgtggcggtgaa
ggtggccgcttcaacgaaggagagcgtcgtggcggatttggcggcggaggacatcgcggt
ggataccgacaacgtcgcgagagcgaagaacaacacaaagccgaggaaacttcagatcca
tcagctccgccagcagaacgtccacgtctcaacctgaagccccgtaccacagatgccgct
gagatcgaggctcgcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTAAGGCATTCATCGGTGGGCTCC 558 671 28 Antisense
GGGATTCGCATATGTCACTTTTGAG 657 495 171 Antisense
GGCCTTAATGGAGCCGATTTCGGAA 520 539 226 Antisense
GCGTACTCAAGGTTAATCGTGCCCA 482 291 254 Antisense
CGATCGCAGTGACCGCGGAGGTGGT 197 249 285 Antisense
GAAACTTCGGAGATCGCGGAGGACG 589 355 326 Antisense
CGTGGTCGTGGAGCAGGAGGCTTCC 663 239 349 Antisense
GAAGGAGAGCGTCGTGGCGGATTTG 129 335 403 Antisense
ATTTGGCGGCGGAGGACATCGCGGT 123 13 423 Antisense
GCGGTGGATACCGACAACGTCGCGA 659 291 443 Antisense
ATGCCGCTGAGATCGAGGCTCGCAA 566 41 560 Antisense
Sequence Source Affymetrix Proprietary Database