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[193842_at] RNA recognition motif. (aka RRM, RBD, or RNP domain)

Description Y37D8A.21 /REP_DB=WormBase Gene ID /WP=CE20224 /TR=Q9XWV4 /GB=CAA21536.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain)
Cluster 6grp_high1_10_10 > 58      4grp_highest_8_8 > 53      4grp_high_8_8 > 09      6grp_total > 47      4grp_total > 31      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 112
1 2 3 4 range
A 160.2
(1.5)
P 		176.5
(2.9)
P 		110.2
(-3)
P 		177.1
(3)
P 		67
B 198
(3)
P 		114.1
(-3)
P 		138.3
(-1.3)
P 		143.6
(-0.9)
P 		84
C 219
(3)
P 		107.2
(-3)
P 		151.2
(-0.6)
P 		182.6
(1)
P 		112
avr 192.4
(3) 		132.6
(-3) 		133.2
(-2.9) 		167.8
(0.5) 		60

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 216
1 2 3 4 5 6 range
A 168.6
(3)
P 		109.3
(-0.4)
P 		162.2
(2.6)
P 		65.2
(-3)
P 		94.1
(-1.3)
P 		138.5
(1.3)
P 		103
B 157.7
(0.6)
P 		157.8
(0.6)
P 		146.3
(-0.1)
P 		98
(-3)
P 		160.7
(0.8)
P 		197.8
(3)
P 		100
C 180.7
(0.5)
P 		152.2
(-0.3)
P 		91.3
(-2)
P 		54
(-3)
A 		97.3
(-1.8)
P 		270
(3)
P 		216
avr 169
(1.5) 		139.8
(0.1) 		133.3
(-0.2) 		72.4
(-3) 		117.4
(-0.9) 		202.1
(3) 		130
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 47
1 2 3 4 range
A 58.3
(3)
P 		38.3
(-0.7)
P 		28.8
(-2.5)
P 		25.9
(-3)
P 		32
B 63.1
(3)
P 		28.2
(-3)
P 		32.1
(-2.3)
P 		30.6
(-2.6)
P 		35
C 72.5
(3)
P 		30.8
(-3)
P 		52.7
(0.2)
P 		30.8
(-3)
P 		42
avr 64.6
(3) 		32.4
(-2.4) 		37.9
(-1.5) 		29.1
(-3) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 80
1 2 3 4 5 6 range
A 31.1
(0.9)
P 		38.9
(3)
P 		35.3
(2)
P 		16.5
(-3)
P 		28.4
(0.2)
P 		33.7
(1.6)
P 		22
B 54.9
(0.6)
P 		52.5
(0.3)
P 		35.5
(-1.8)
P 		26
(-3)
P 		65.3
(1.9)
P 		73.8
(3)
P 		48
C 67
(1.2)
P 		46.4
(-0.3)
P 		23.2
(-2.1)
P 		10.9
(-3)
A 		31.5
(-1.4)
P 		90.4
(3)
P 		80
avr 51
(1.1) 		45.9
(0.5) 		31.3
(-1.3) 		17.8
(-3) 		41.7
(-0) 		66
(3) 		48
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193842_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7519
Sequence Type Exemplar sequence
Representative Public ID Y37D8A.21 NCBI
Target Description Y37D8A.21 /REP_DB=WormBase Gene ID /WP=CE20224 /TR=Q9XWV4 /GB=CAA21536.1 /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_067285(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067285 NCBI Caenorhabditis elegans Y37D8A.21 (Y37D8A.21) mRNA, complete cds. 11/11 None
SNAP00000028786 ENSEMBL cdna:SNAP chromosome:CEL140:III:12927990:12931377:-1 9/11 None
Y37D8A.21 ENSEMBL cdna:known chromosome:CEL140:III:12927573:12931383:-1 gene:Y37D8A.21 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:12927568-12931373(-) 100.0 100.0
Public Domain and Genome References
Gene Title RNA recognition motif. (aka RRM, RBD, or RNP domain)
Ensembl Y37D8A.21
Entrez Gene 176710 Entrez gene
SwissProt Q9XWV4 EMBL-EBI
WormBase CE20224 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA21536 Hypothetical protein Y37D8A.21 [Caenorhabditis elegans] ref|NP_499686.1| Y37D8A.21 [Caenorhabditis elegans] 1.0E-102
blast CAA21536 Hypothetical protein Y37D8A.21 [Caenorhabditis elegans] ref|NP_499686.1| Y37D8A.21 [Caenorhabditis elegans] 4.0E-78
blast CAE69545 Hypothetical protein CBG15757 [Caenorhabditis briggsae] 4.0E-28
blast CAE69545 Hypothetical protein CBG15757 [Caenorhabditis briggsae] 5.0E-28
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.0E-14
Sequence
Target Sequence 
>C. ELEGANS:193842_AT
ggagtgcgacttttcaatcaagaactacaagtaaagccgcgaaatggcacaaatcaggag
gaattatataagcgaaaaaaaggagaaatcgaggaaagagttcgatcggtagcggcaccg
gatcgagacggaagacgggatagctatagagatgatcggaacaggaatagaaacggaaac
aaccgtgactcatggcagcagcagcagcctcctcgtcatcatcgacaatatgatcctctt
ccacctccaccgccacctccactgatgggaggatccggaggacattggagaagcggaggg
gaaagaggtcctccacaatattcgactccgcaaatgcttcctcatcaacattttgtaaat
caaatgatgcagcaacaaattaatagatccgctcctccgtacaatggacgtcatcagaat
tccacgccacaccgtcatcacgatcgtcatggatatgaccgaagctcgagccggcatcat
cgcaatgatgacagaagacgctccgcccacttcctggatatccggaaatttcaagctccg
cccacttcttgggcattcggaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGTGCGACTTTTCAATCAAGAAC 379 517 232 Antisense
GAACTACAAGTAAAGCCGCGAAATG 283 347 253 Antisense
CCGCGAAATGGCACAAATCAGGAGG 332 263 268 Antisense
AAAGAGTTCGATCGGTAGCGGCACC 338 121 326 Antisense
ATCGGTAGCGGCACCGGATCGAGAC 446 33 336 Antisense
GGATCGAGACGGAAGACGGGATAGC 321 511 351 Antisense
GGAAACAACCGTGACTCATGGCAGC 156 527 406 Antisense
CGTGACTCATGGCAGCAGCAGCAGC 340 241 415 Antisense
ATCATCGACAATATGATCCTCTTCC 99 31 449 Antisense
TCCGGAAATTTCAAGCTCCGCCCAC 580 593 752 Antisense
CCGCCCACTTCTTGGGCATTCGGAA 29 263 769 Antisense
Sequence Source Affymetrix Proprietary Database