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[190506_s_at]

Description Y47G6A.20A /REP_DB=WormBase Gene ID /WP=CE24365 /TR=Q9N3S3 /GB=AAF60676.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=RNA-binding protein
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 97      4grp_highest_8_8 > 38      4grp_high_8_8 > 03      6grp_highest_nonorm > 95      6grp_total > 96      4grp_total > 06      6grp_highest_sub > In      6grp_cgc > 68      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 343
1 2 3 4 range
A 604.8
(-3)
P 		683.6
(-0.5)
P 		792.1
(3)
P 		646.3
(-1.7)
P 		187
B 687.3
(3)
P 		498.3
(-3)
P 		539.3
(-1.7)
P 		674.9
(2.6)
P 		189
C 580.2
(0.2)
P 		529.4
(-1)
P 		449.5
(-3)
P 		692.8
(3)
P 		243
avr 624.1
(0.2) 		570.4
(-3) 		593.6
(-1.6) 		671.3
(3) 		101

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 448
1 2 3 4 5 6 range
A 626
(-0.7)
P 		654.5
(-0.3)
P 		480
(-3)
P 		707.8
(0.6)
P 		726.8
(0.9)
P 		860.8
(3)
P 		381
B 606.1
(-1.6)
P 		582.2
(-1.9)
P 		505.2
(-3)
P 		694
(-0.3)
P 		927.6
(3)
P 		874.5
(2.2)
P 		422
C 537.5
(-3)
P 		652.3
(-1.2)
P 		608.1
(-1.9)
P 		864.5
(2.1)
P 		619.1
(-1.7)
P 		919.8
(3)
P 		382
avr 589.9
(-2) 		629.7
(-1.3) 		531.1
(-3) 		755.4
(0.8) 		757.8
(0.8) 		885
(3) 		354
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 126
1 2 3 4 range
A 220.2
(3)
P 		148.4
(-0.4)
P 		207.1
(2.4)
P 		94.6
(-3)
P 		126
B 219.2
(3)
P 		123.1
(-3)
P 		125
(-2.9)
P 		143.8
(-1.7)
P 		96
C 192.1
(3)
P 		152.2
(-0.2)
P 		156.7
(0.2)
P 		116.8
(-3)
P 		75
avr 210.5
(3) 		141.2
(-1.5) 		162.9
(-0.1) 		118.4
(-3) 		92

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 272
1 2 3 4 5 6 range
A 115.4
(-2.5)
P 		232.8
(3)
P 		104.5
(-3)
P 		179.5
(0.5)
P 		219.3
(2.4)
P 		209.6
(1.9)
P 		128
B 210.9
(-0.9)
P 		193.8
(-1.3)
P 		122.7
(-3)
P 		183.8
(-1.6)
P 		376.9
(3)
P 		326.1
(1.8)
P 		254
C 199.2
(-1.3)
P 		199
(-1.3)
P 		154.8
(-3)
P 		173.9
(-2.3)
P 		200.3
(-1.2)
P 		307.9
(3)
P 		153
avr 175.2
(-1.1) 		208.5
(0.2) 		127.3
(-3) 		179.1
(-1) 		265.5
(2.4) 		281.2
(3) 		154
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190506_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.117
Sequence Type Exemplar sequence
Representative Public ID Y47G6A.20A NCBI
Target Description Y47G6A.20A /REP_DB=WormBase Gene ID /WP=CE24365 /TR=Q9N3S3 /GB=AAF60676.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=RNA-binding protein
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_058775(11), NM_058776(11), NM_170843(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058775 NCBI Caenorhabditis elegans RNP (RRM RNA binding domain) containing family member (rnp-6) (rnp-6) mRNA, complete cds. 11/11 A 
NM_058776 NCBI Caenorhabditis elegans RNP (RRM RNA binding domain) containing family member (rnp-6) (rnp-6) mRNA, complete cds. 11/11 A 
NM_170843 NCBI Caenorhabditis elegans RNP (RRM RNA binding domain) containing family member (rnp-6) (rnp-6) mRNA, complete cds. 11/11 A 
GENEFINDER00000034097 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:3539327:3546896:-1 11/11 None
SNAP00000033987 ENSEMBL cdna:SNAP chromosome:CEL140:I:3539649:3551248:-1 11/11 None
Y47G6A.20b ENSEMBL cdna:known chromosome:CEL140:I:3539570:3546896:-1 gene:Y47G6A.20 11/11 A 
Y47G6A.20a ENSEMBL cdna:known chromosome:CEL140:I:3543515:3546896:-1 gene:Y47G6A.20 11/11 A 
Y47G6A.20c ENSEMBL cdna:known chromosome:CEL140:I:3543559:3546906:-1 gene:Y47G6A.20 11/11 A 
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
chrI:3543545-3546896(-) 99.61 100.0
Public Domain and Genome References
Ensembl Y47G6A.20
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_491176 RNP (RRM RNA binding domain) containing family member (rnp-6) [Caenorhabditis elegans] gb|AAF60666.1| Rnp (rrm rna binding domain) containing protein 6, isoform b [Caenorhabditis elegans] 0.0
blast CAE68956 Hypothetical protein CBG14936 [Caenorhabditis briggsae] 0.0
blast NP_740829 RNP (RRM RNA binding domain) containing family member (rnp-6) [Caenorhabditis elegans] gb|AAM81102.1| Rnp (rrm rna binding domain) containing protein 6, isoform c [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.5E-24
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.5E-14
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 7.0E-7
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 4.2E-12
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.5E-24
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.5E-14
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 7.0E-7
Sequence
Target Sequence 
>C. ELEGANS:190506_S_AT
tccagctactgggcaccacaaaacgttcgcatttgttgaatacgaagtcccagaagccgc
acttcttgctcaagaatcgatgaatggtcagatgctcggtggacgtaatcttaaagttaa
ttcgatgatgttccaggagatgagattgccacaaaatatgccacaggctcagccgattat
tgatatggttcagaaggatgcgaagaaatatttcagagtctacgtgtcctcagttcatcc
ggatttatcagagaccgacctgaaaagtgtattcgaagcgttcggagaaattgtaaaatg
tcagctggctcgtgctcccacaggacggggacatcgtggatttggatacctcgaattcaa
taatttgacgtcgcaaagtgaggctatcgctggaatgaatatgttcgatttgggaggaca
atatttgagagtcggcaaatgtgtaactccaccggatgctcttacctatcttcaaccggc
atccgtcagtgcaattccagcaagtgtatcagttgcgtgtgcagcaattaccgcaaaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCCAGCTACTGGGCACCACAAAACG 525 583 420 Antisense
TACGAAGTCCCAGAAGCCGCACTTC 15 647 460 Antisense
AAGCCGCACTTCTTGCTCAAGAATC 123 149 473 Antisense
GGTCAGATGCTCGGTGGACGTAATC 213 503 505 Antisense
AAATATGCCACAGGCTCAGCCGATT 294 117 573 Antisense
ATTTCAGAGTCTACGTGTCCTCAGT 30 17 629 Antisense
TGTCCTCAGTTCATCCGGATTTATC 632 555 644 Antisense
GTAAAATGTCAGCTGGCTCGTGCTC 426 461 712 Antisense
TGCTCCCACAGGACGGGGACATCGT 96 579 732 Antisense
CAAGTGTATCAGTTGCGTGTGCAGC 615 183 920 Antisense
GCGTGTGCAGCAATTACCGCAAAAG 109 291 934 Antisense
Sequence Source Affymetrix Proprietary Database