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[173999_at] RNA recognition motif. (aka RRM, RBD, or RNP domain)

Description AV195786 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T12D8.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV195786 /WB_GENE_ID=T12D8.2 /WP=CE16399 /CHR=3 /FEA=Genomic Cluster /GEN=taf-10 /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain); Caenorhabditis elegans cDNA clone:yk645h9 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 12      6grp_high1_10_10 > 02      4grp_highest_8_8 > 25      4grp_high_8_8 > 60      6grp_highest_nonorm > 57      6grp_total > 07      4grp_total > 60      6grp_cgc > 20      6grp_high1_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1489
1 2 3 4 range
A 3527.5
(1)
P 		3808.3
(2.2)
P 		3999.1
(3)
P 		2573.3
(-3)
P 		1426
B 3978.3
(3)
P 		3608
(1.4)
P 		3851.1
(2.4)
P 		2624.5
(-3)
P 		1354
C 3330.4
(1.8)
P 		3535.5
(3)
P 		3430.4
(2.4)
P 		2510
(-3)
P 		1026
avr 3612.1
(2.3) 		3650.6
(2.4) 		3760.2
(3) 		2569.3
(-3) 		1191

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1622
1 2 3 4 5 6 range
A 3306.4
(3)
P 		2376.1
(-2.7)
P 		2533.1
(-1.8)
P 		2329.7
(-3)
P 		2340.6
(-2.9)
P 		2379.5
(-2.7)
P 		977
B 2824.7
(3)
P 		2605.4
(1.8)
P 		2471.5
(1.1)
P 		2521.1
(1.4)
P 		1684.1
(-3)
P 		2314.2
(0.3)
P 		1141
C 2458.2
(1.7)
P 		2634
(2.9)
P 		2646.7
(3)
P 		2315.1
(0.8)
P 		1749.5
(-3)
P 		2068.1
(-0.9)
P 		897
avr 2863.1
(3) 		2538.5
(0.9) 		2550.4
(1) 		2388.6
(-0) 		1924.7
(-3) 		2253.9
(-0.9) 		938
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 908
1 2 3 4 range
A 1284.4
(3)
P 		826.7
(-0)
P 		1045.4
(1.4)
P 		376.7
(-3)
P 		908
B 1268.7
(3)
P 		891.1
(-0.2)
P 		892.4
(-0.2)
P 		559.3
(-3)
P 		709
C 1102.5
(2.3)
P 		1016.5
(1.6)
P 		1195.6
(3)
P 		423.2
(-3)
P 		772
avr 1218.5
(3) 		911.4
(0.6) 		1044.5
(1.6) 		453.1
(-3) 		765

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 517
1 2 3 4 5 6 range
A 609.5
(-1.8)
P 		845
(3)
P 		551.7
(-3)
P 		590.9
(-2.2)
P 		706.3
(0.2)
P 		579.3
(-2.4)
P 		293
B 982.8
(3)
P 		867.2
(1.2)
P 		600.1
(-3)
P 		667.8
(-1.9)
P 		684.2
(-1.7)
P 		862.9
(1.1)
P 		383
C 911.1
(3)
P 		803.7
(1.6)
P 		673.6
(-0.2)
P 		465.6
(-3)
P 		566.1
(-1.6)
P 		692.3
(0.1)
P 		446
avr 834.5
(2.9) 		838.6
(3) 		608.5
(-2.2) 		574.8
(-3) 		652.2
(-1.2) 		711.5
(0.1) 		264
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173999_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24225
Sequence Type Exemplar sequence
Representative Public ID AV195786 NCBI
Target Description AV195786 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T12D8.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV195786 /WB_GENE_ID=T12D8.2 /WP=CE16399 /CHR=3 /FEA=Genomic Cluster /GEN=taf-10 /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain); Caenorhabditis elegans cDNA clone:yk645h9 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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
T12D8.2.1 ENSEMBL cdna:known chromosome:CEL140:III:13641945:13643092:-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:13641955-13643051(-) 98.84 100.0
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
blast XP_788335 PREDICTED: similar to eukaryotic translation initiation factor 4H [Strongylocentrotus purpuratus] 3.0E-10
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:173999_AT
ttttccctgaatttcgatccgcgaatgacacgaaatcctgcaatcataggagcctatccc
ctaatttgtcccctcgtcactttccgtcaagttccgctggtataaccatttcttcaaccc
cttctgaatgtctaatgatcacaaattacctcagaatcctttcacataaaaagtttgttt
gttgttaaaccccaaaaagtcccaaaagcatatattttcccccacctacttgttgttctg
ttgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTTCCCTGAATTTCGATCCGCGAA 560 675 651 Antisense
GATCCGCGAATGACACGAAATCCTG 124 417 666 Antisense
GCGAATGACACGAAATCCTGCAATC 61 289 671 Antisense
GAAATCCTGCAATCATAGGAGCCTA 430 357 682 Antisense
TCATAGGAGCCTATCCCCTAATTTG 270 411 694 Antisense
TTCCGTCAAGTTCCGCTGGTATAAC 618 697 732 Antisense
GTTCCGCTGGTATAACCATTTCTTC 302 437 741 Antisense
TGGTATAACCATTTCTTCAACCCCT 12 553 748 Antisense
TTCTTCAACCCCTTCTGAATGTCTA 421 689 760 Antisense
AACCCCTTCTGAATGTCTAATGATC 370 145 766 Antisense
CCCACCTACTTGTTGTTCTGTTGAT 365 259 871 Antisense
Sequence Source Affymetrix Proprietary Database