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[193736_at] RNA recognition motif. (aka RRM, RBD, or RNP domain)

Description C01F6.5 /REP_DB=WormBase Gene ID /WP=CE02954 /TR=Q17561 /GB=CAA92438.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain)
Cluster 6grp_highest_10_10 > 12      6grp_high1_10_10 > 02      4grp_highest_8_8 > 04      4grp_high_8_8 > 38      6grp_highest_nonorm > 76      6grp_total > 07      4grp_total > 33      6grp_cgc > 20      6grp_high1_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 317
1 2 3 4 range
A 880.1
(-3)
P 		1125.4
(2.5)
P 		1072.5
(1.3)
P 		1148.1
(3)
P 		268
B 928.5
(-3)
P 		1132.6
(1.7)
P 		1101.3
(1)
P 		1188.2
(3)
P 		260
C 901.5
(-3)
P 		1197.3
(3)
P 		1050.2
(0)
P 		1072.9
(0.5)
P 		296
avr 903.4
(-3) 		1151.8
(3) 		1074.7
(1.1) 		1136.4
(2.6) 		248

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 818
1 2 3 4 5 6 range
A 1564.9
(3)
P 		1108.2
(-0.4)
P 		1100.4
(-0.4)
P 		1084.4
(-0.5)
P 		747.3
(-3)
P 		897.5
(-1.9)
P 		818
B 1304.1
(3)
P 		1039
(-0)
P 		1114.5
(0.8)
P 		946.3
(-1.1)
P 		777.2
(-3)
P 		787.2
(-2.9)
P 		527
C 1167.6
(2.9)
P 		988.8
(0.3)
P 		1173.4
(3)
P 		1011.8
(0.6)
P 		768.2
(-3)
P 		928.5
(-0.6)
P 		405
avr 1345.5
(3) 		1045.3
(-0.1) 		1129.4
(0.8) 		1014.2
(-0.4) 		764.2
(-3) 		871.1
(-1.9) 		581
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 198
1 2 3 4 range
A 320.4
(3)
P 		244.3
(0)
P 		280.4
(1.4)
P 		168.1
(-3)
P 		152
B 296.1
(3)
P 		279.7
(0.7)
P 		255.2
(-2.7)
P 		253.2
(-3)
P 		43
C 298.4
(0.8)
P 		344.2
(2.3)
P 		366
(3)
P 		180.9
(-3)
P 		185
avr 305
(3) 		289.4
(2.1) 		300.5
(2.7) 		200.7
(-3) 		104

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 250
1 2 3 4 5 6 range
A 288.5
(-0.6)
P 		394.1
(3)
P 		239.7
(-2.3)
P 		275
(-1.1)
P 		225.5
(-2.8)
P 		218.5
(-3)
P 		176
B 453.8
(3)
P 		345.8
(-0.2)
P 		270.6
(-2.4)
P 		250.6
(-3)
P 		315.8
(-1.1)
P 		293.5
(-1.7)
P 		203
C 432.8
(3)
P 		301.7
(-0.4)
P 		298.7
(-0.5)
P 		203.5
(-3)
P 		248.6
(-1.8)
P 		310.8
(-0.2)
P 		229
avr 391.7
(3) 		347.2
(1.2) 		269.7
(-1.9) 		243
(-3) 		263.3
(-2.2) 		274.3
(-1.7) 		149
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193736_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10345
Sequence Type Exemplar sequence
Representative Public ID C01F6.5 NCBI
Target Description C01F6.5 /REP_DB=WormBase Gene ID /WP=CE02954 /TR=Q17561 /GB=CAA92438.1 /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_069187(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069187 NCBI Caenorhabditis elegans Ref/ALY RNA export adaptor family member (aly-1) (aly-1) mRNA, complete cds. 11/11 None
SNAP00000031441 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9108926:9109646:1 11/11 None
GENEFINDER00000031450 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9108926:9109646:1 11/11 None
C01F6.5 ENSEMBL cdna:known chromosome:CEL140:IV:9108911:9109731:1 gene:C01F6.5 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
chrIV:9108931-9109652(+) 100.0 100.0
Public Domain and Genome References
Gene Title RNA recognition motif. (aka RRM, RBD, or RNP domain)
Gene Symbol aly-1
Ensembl C01F6.5
Entrez Gene 177735 Entrez gene
SwissProt Q17561 EMBL-EBI
WormBase CE02954 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA92438 Hypothetical protein C01F6.5 [Caenorhabditis elegans] ref|NP_501588.1| Ref/ALY RNA export adaptor family member (aly-1) [Caenorhabditis elegans] 1.0E-111
blast CAE74114 Hypothetical protein CBG21775 [Caenorhabditis briggsae] 1.0E-66
blast CAE74115 Hypothetical protein CBG21776 [Caenorhabditis briggsae] 3.0E-58
Sequence
Target Sequence 
>C. ELEGANS:193736_AT
tctccactggaactgctggaccatcaagaagaccaactgcgcaaccaagacgccaaagtg
gaggaatcagaacagttgacagatctattccagcaaatgaaaaccgtgaagtacgtatca
acttgtcaaacttggcccacaccgttcactccggggaccttcgtcaactcttcgctgaat
tcaaaattcgaaacgtctccgtgaacttcaacgagcacggaaaaccagtaggaaccggag
atgtgactctcccaaaacgtcacgctgatcgtctcatccaaaagtttgccggagtctcac
tcgacggaaaggagatcaaattcgctatcattgattcagcaaatattgcaaaccgtgtca
agttcccaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTCCACTGGAACTGCTGGACCATC 309 609 116 Antisense
GGACCATCAAGAAGACCAACTGCGC 132 523 133 Antisense
CCAACTGCGCAACCAAGACGCCAAA 658 275 148 Antisense
AACAGTTGACAGATCTATTCCAGCA 312 137 186 Antisense
TCAACTTGTCAAACTTGGCCCACAC 165 631 233 Antisense
TTCGTCAACTCTTCGCTGAATTCAA 346 695 275 Antisense
ATTCGAAACGTCTCCGTGAACTTCA 5 7 301 Antisense
GAGATGTGACTCTCCCAAAACGTCA 116 333 353 Antisense
CCAAAACGTCACGCTGATCGTCTCA 644 275 367 Antisense
GATCGTCTCATCCAAAAGTTTGCCG 557 417 382 Antisense
TTGCAAACCGTGTCAAGTTCCCAGA 3 703 461 Antisense
Sequence Source Affymetrix Proprietary Database