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[189360_s_at] ribonuleoprotein

Description T04A8.6 /REP_DB=WormBase Gene ID /WP=CE01075 /TR=Q22135 /GB=CAA84724.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=ribonuleoprotein
Cluster 6grp_highest_10_10 > 88      6grp_high1_10_10 > 88      4grp_highest_8_8 > 09      4grp_high_8_8 > 62      6grp_highest_nonorm > 95      6grp_total > 88      4grp_total > 58      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1103
1 2 3 4 range
A 945.5
(-1.1)
P 		1478.8
(1.8)
P 		1701
(3)
P 		597.8
(-3)
P 		1103
B 1025.1
(-0.6)
P 		1290.4
(1)
P 		1615.3
(3)
P 		635.6
(-3)
P 		980
C 1002.6
(-0.5)
P 		1524.8
(2.9)
P 		1547.8
(3)
P 		625.3
(-3)
P 		923
avr 991.1
(-0.8) 		1431.3
(1.9) 		1621.4
(3) 		619.6
(-3) 		1002

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 708
1 2 3 4 5 6 range
A 594.9
(-2.5)
P 		682.6
(-1.1)
P 		629.1
(-1.9)
P 		562.8
(-3)
P 		933.3
(3)
P 		913.8
(2.7)
P 		371
B 673
(-2.4)
P 		625.9
(-3)
P 		744.3
(-1.4)
P 		688.8
(-2.1)
P 		823.6
(-0.3)
P 		1068
(3)
P 		442
C 637.5
(-2.3)
P 		661.9
(-2.1)
P 		560.7
(-3)
P 		631.5
(-2.4)
P 		801.2
(-1)
P 		1269.1
(3)
P 		708
avr 635.1
(-2.9) 		656.8
(-2.6) 		644.7
(-2.8) 		627.7
(-3) 		852.7
(-0) 		1083.6
(3) 		456
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 452
1 2 3 4 range
A 344.3
(1.3)
P 		321
(0.9)
P 		444.7
(3)
P 		87.5
(-3)
P 		357
B 326.9
(1.8)
P 		318.7
(1.6)
P 		374.3
(3)
P 		135.5
(-3)
P 		239
C 331.9
(0.1)
P 		438.4
(1.6)
P 		539.5
(3)
P 		105.4
(-3)
P 		434
avr 334.4
(0.9) 		359.4
(1.4) 		452.8
(3) 		109.5
(-3) 		343

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 315
1 2 3 4 5 6 range
A 109.7
(-3)
P 		242.8
(1.6)
P 		137
(-2)
P 		142.7
(-1.8)
P 		281.6
(3)
P 		222.5
(0.9)
P 		172
B 234.2
(-1.5)
P 		208.3
(-2.2)
P 		180.7
(-3)
P 		182.4
(-3)
P 		334.6
(1.2)
P 		398.3
(3)
P 		218
C 236.3
(-0.8)
P 		202
(-1.5)
P 		142.7
(-2.7)
P 		127
(-3)
P 		259.3
(-0.3)
P 		424.8
(3)
P 		298
avr 193.4
(-1.7) 		217.7
(-1) 		153.5
(-2.9) 		150.7
(-3) 		291.8
(1.3) 		348.5
(3) 		198
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189360_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6383
Sequence Type Exemplar sequence
Representative Public ID T04A8.6 NCBI
Target Description T04A8.6 /REP_DB=WormBase Gene ID /WP=CE01075 /TR=Q22135 /GB=CAA84724.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=ribonuleoprotein
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_065558(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065558 NCBI Caenorhabditis elegans T04A8.6 (ribonuleoprotein) mRNA, complete cds. 11/11 None
SNAP00000041093 ENSEMBL cdna:SNAP chromosome:CEL140:III:4692191:4693251:-1 11/11 None
GENEFINDER00000041116 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4692191:4693251:-1 11/11 None
T04A8.6 ENSEMBL cdna:known chromosome:CEL140:III:4692125:4693261:-1 gene:T04A8.6 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:4692190-4693251(-) 100.0 100.0
Public Domain and Genome References
Gene Title ribonuleoprotein
Ensembl T04A8.6
Entrez Gene 175614 Entrez gene
SwissProt Q22135 EMBL-EBI
WormBase CE01075 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA84724 Hypothetical protein T04A8.6 [Caenorhabditis elegans] ref|NP_497959.1| T04A8.6 [Caenorhabditis elegans] 1.0E-107
blast CAE71156 Hypothetical protein CBG18012 [Caenorhabditis briggsae] 7.0E-67
blast XP_505404 hypothetical protein [Yarrowia lipolytica] emb|CAG78213.1| unnamed protein product [Yarrowia lipolytica CLIB99] 3.0E-18
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 7.4E-15
Sequence
Target Sequence 
>C. ELEGANS:189360_S_AT
caacgtctcgggtgcacggtgatgaaaccagaacttatcccgaaggcaatgcgccatggc
ccactgcttgtgatgcgtccatcttacttgggcatcgctaaaaaagatacaattgccaga
aacaataccaccggaaaaaatgacgtcatcaatgccaagaaacgcgtgcaaaatctcaac
aaaactttgaagaagctgcagaatatggggatcaactatgatttctctgtgtctggaaca
ccaagaacgccacttaagaaggtcattgacaatgaggttcaatttatcagtgatgtcacc
ccgaaaagcacgactccgaaaattgtgaaagctgcaactccaaaagcagctactccaaag
gccgtgactccaaaacaagcaactccgaaagtttccactccagtcaccaaaaaggttgtc
atcaagactcctaaaactgaaaagccggaacccaaacagttcactccaaaaactcgcgca
ggaaagaaggcagctgctgctgctactccacaggctaaatctacgctatccaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAACGTCTCGGGTGCACGGTGATGA 681 187 313 Antisense
ATCCCGAAGGCAATGCGCCATGGCC 491 37 349 Antisense
TGCGTCCATCTTACTTGGGCATCGC 648 583 386 Antisense
GTGTCTGGAACACCAAGAACGCCAC 448 487 541 Antisense
GTGATGTCACCCCGAAAAGCACGAC 3 483 602 Antisense
AAAAGCAGCTACTCCAAAGGCCGTG 703 127 654 Antisense
AGGCCGTGACTCCAAAACAAGCAAC 105 53 671 Antisense
CAAGCAACTCCGAAAGTTTCCACTC 514 181 688 Antisense
TTTCCACTCCAGTCACCAAAAAGGT 517 665 704 Antisense
GTTCACTCCAAAAACTCGCGCAGGA 494 445 771 Antisense
CACAGGCTAAATCTACGCTATCCAA 667 193 821 Antisense
Sequence Source Affymetrix Proprietary Database