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[183830_at]

Description C06A5.9 /REP_DB=WormBase Gene ID /WP=CE07956 /TR=O01482 /GB=AAB52442.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 88      6grp_high1_10_10 > 88      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 93      6grp_total > 97      4grp_total > 02      6grp_highest_sub > Da      6grp_cgc > 69      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 556
1 2 3 4 range
A 160.2
(-2.5)
P 		129
(-3)
P 		129.9
(-3)
P 		537.8
(3)
P 		409
B 164.8
(-2.7)
P 		135.3
(-3)
P 		145.7
(-2.9)
P 		666.1
(3)
P 		531
C 165.2
(-2.1)
P 		110.1
(-3)
P 		132.2
(-2.6)
P 		471.9
(3)
P 		362
avr 163.4
(-2.5) 		124.8
(-3) 		135.9
(-2.8) 		558.6
(3) 		434

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 713
1 2 3 4 5 6 range
A 150.3
(-2.8)
P 		130.4
(-3)
P 		159.7
(-2.7)
P 		176.9
(-2.5)
P 		584.9
(1.9)
P 		689.3
(3)
P 		559
B 147.3
(-2.6)
P 		104.7
(-3)
P 		105.6
(-3)
P 		223.1
(-1.9)
P 		493.8
(0.5)
P 		780.2
(3)
P 		676
C 90.4
(-3)
P 		116.9
(-2.8)
P 		139.8
(-2.6)
P 		248.4
(-1.7)
P 		439.4
(-0.1)
P 		803.8
(3)
P 		713
avr 129.3
(-2.9) 		117.3
(-3) 		135
(-2.8) 		216.1
(-2.1) 		506
(0.6) 		757.8
(3) 		641
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 114
1 2 3 4 range
A 58.3
(0.6)
P 		28
(-3)
P 		34
(-2.3)
P 		78.7
(3)
P 		51
B 52.5
(-1.9)
P 		33.4
(-3)
P 		33.8
(-3)
P 		142
(3)
P 		109
C 54.7
(-0.1)
P 		31.6
(-3)
P 		46.1
(-1.2)
P 		79.6
(3)
P 		48
avr 55.2
(-0.9) 		31
(-3) 		38
(-2.4) 		100.1
(3) 		69

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 265
1 2 3 4 5 6 range
A 27.7
(-3)
P 		46.4
(-2.2)
P 		34.8
(-2.7)
P 		44.9
(-2.3)
P 		176.5
(3)
P 		167.8
(2.6)
P 		149
B 51.2
(-2.4)
P 		34.8
(-2.8)
P 		25.6
(-3)
P 		59.1
(-2.2)
P 		200.6
(1)
P 		290.9
(3)
P 		265
C 33.5
(-3)
P 		35.7
(-2.9)
P 		35.6
(-2.9)
P 		50
(-2.6)
P 		142.2
(-0.2)
P 		269.1
(3)
P 		236
avr 37.5
(-2.8) 		39
(-2.8) 		32
(-3) 		51.3
(-2.5) 		173.1
(1) 		242.6
(3) 		211
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183830_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1110
Sequence Type Exemplar sequence
Representative Public ID C06A5.9 NCBI
Target Description C06A5.9 /REP_DB=WormBase Gene ID /WP=CE07956 /TR=O01482 /GB=AAB52442.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=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_059337(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059337 NCBI Caenorhabditis elegans RiNg Finger protein family member (rnf-1) (rnf-1) mRNA, complete cds. 11/11 None
GENEFINDER00000012804 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6018010:6020071:-1 11/11 None
C06A5.9 ENSEMBL cdna:known chromosome:CEL140:I:6017927:6019639:-1 gene:C06A5.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000012792 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:6018009-6019605(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rnf-1
Ensembl C06A5.9
Entrez Gene 172277 Entrez gene
SwissProt O01482 EMBL-EBI
WormBase CE34249 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB52442 Ring finger protein protein 1 [Caenorhabditis elegans] ref|NP_491738.2| RiNg Finger protein family member (rnf-1) [Caenorhabditis elegans] 0.0
blast AAB52442 Ring finger protein protein 1 [Caenorhabditis elegans] ref|NP_491738.2| RiNg Finger protein family member (rnf-1) [Caenorhabditis elegans] 1.0E-142
blast AAB52441 Hypothetical protein C06A5.8a [Caenorhabditis elegans] ref|NP_491737.1| C06A5.8a [Caenorhabditis elegans] 3.0E-32
blast AAB52441 Hypothetical protein C06A5.8a [Caenorhabditis elegans] ref|NP_491737.1| C06A5.8a [Caenorhabditis elegans] 7.0E-22
blast AAO38676 Hypothetical protein C06A5.8b [Caenorhabditis elegans] ref|NP_871837.1| C06A5.8b [Caenorhabditis elegans] 8.0E-15
Protein Domains
Database ID Description E-Value
Pfam IPR001841 EMBL-EBI Zn-finger, RING 6.2E-11
Pfam IPR001841 EMBL-EBI Zn-finger, RING 6.2E-11
Sequence
Target Sequence 
>C. ELEGANS:183830_AT
gaatcaaatactactgtcccggacagaacactgggtggcggtttctatcgcaattttcgt
cgtctttttggagacgaaaacgaactagatgatccaggtgtggtttcaggtattgaggag
gcggccgcctaccgacgttttcgaggactttttggaaatgacaacgacagcatttcgcag
gtttccacaacttccggcagttttgggaatcatgagaatgatcatttttgtccgttttcc
gatgacgataatatctccgaatgttccgatgactactatcccacattggttatgcctgaa
acagatgaagaggagacgtacaaaagttttcgctgcctttttggagatgtatgtaaattt
attgtcagacggctattttttaaactaaaacagctgaaattaagaaaaaaattccaggaa
aacgggaacctcgacttttccgacgacgaaaaagaattctccgacaatgaatcttcactc
agctcagtttccactgaagactttccgaattcgcacatagaagaagccggcagagttctt
cacagatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATCAAATACTACTGTCCCGGACA 299 327 658 Antisense
ACTGGGTGGCGGTTTCTATCGCAAT 186 97 687 Antisense
CTATCGCAATTTTCGTCGTCTTTTT 384 221 702 Antisense
AACGACAGCATTTCGCAGGTTTCCA 94 137 820 Antisense
AATGATCATTTTTGTCCGTTTTCCG 432 163 874 Antisense
AATGTTCCGATGACTACTATCCCAC 24 165 917 Antisense
ACTATCCCACATTGGTTATGCCTGA 88 103 932 Antisense
AAGTTTTCGCTGCCTTTTTGGAGAT 294 157 981 Antisense
TTCACTCAGCTCAGTTTCCACTGAA 133 687 1131 Antisense
GAAGACTTTCCGAATTCGCACATAG 689 339 1153 Antisense
AAGCCGGCAGAGTTCTTCACAGATT 591 149 1181 Antisense
Sequence Source Affymetrix Proprietary Database