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[174177_at]

Description C57935_rc /REP_DB=TREMBL Accession /GB=C57935 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk310c9 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 39      6grp_high1_10_10 > 82      4grp_highest_8_8 > 39      4grp_high_8_8 > 04      6grp_highest_nonorm > 54      6grp_total > 80      4grp_total > 04      6grp_highest_sub > 04      6grp_cgc > 86      6grp_high1_sub > 04      6grp_cgc_sub > 04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3692
1 2 3 4 range
A 1392.8
(-1.5)
P 		679.6
(-2.7)
P 		476.6
(-3)
P 		4141.1
(3)
P 		3665
B 1475
(-0.9)
P 		552.7
(-2.8)
P 		449.4
(-3)
P 		3386.2
(3)
P 		2937
C 1450.9
(-1)
P 		490.4
(-3)
P 		541.3
(-2.9)
P 		3439.7
(3)
P 		2949
avr 1439.6
(-1.2) 		574.2
(-2.8) 		489.1
(-3) 		3655.7
(3) 		3167

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1248
1 2 3 4 5 6 range
A 1168.6
(-0.6)
P 		879.1
(-3)
P 		1282.3
(0.3)
P 		1618
(3)
P 		1492.5
(2)
P 		1222.7
(-0.2)
P 		739
B 1387
(-0.5)
P 		1065.9
(-3)
P 		1148.4
(-2.3)
P 		1823.6
(3)
P 		1224.4
(-1.7)
P 		1425.9
(-0.1)
P 		758
C 964
(-3)
P 		1043.6
(-2.6)
P 		1126.1
(-2.2)
P 		2127.4
(3)
P 		1207
(-1.7)
P 		1227.7
(-1.6)
P 		1163
avr 1173.2
(-1.8) 		996.2
(-3) 		1185.6
(-1.7) 		1856.3
(3) 		1308
(-0.8) 		1292.1
(-0.9) 		860
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 618
1 2 3 4 range
A 507.1
(1.8)
P 		147.5
(-2.7)
P 		124.6
(-3)
P 		606.2
(3)
P 		482
B 470.4
(0.6)
P 		136.5
(-2.7)
P 		104.1
(-3)
P 		721.6
(3)
P 		618
C 480.3
(1.6)
P 		141
(-3)
P 		188.6
(-2.3)
P 		580
(3)
P 		439
avr 485.9
(1.2) 		141.7
(-3) 		139.1
(-3) 		635.9
(3) 		497

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 316
1 2 3 4 5 6 range
A 215.4
(-3)
P 		312.6
(-0.5)
P 		279.3
(-1.4)
P 		410.4
(2)
P 		450.4
(3)
P 		297.7
(-0.9)
P 		235
B 482.6
(1.8)
P 		354.8
(-1.2)
P 		278.9
(-3)
P 		483
(1.8)
P 		497.4
(2.2)
P 		531.7
(3)
P 		253
C 357.3
(0)
P 		318.4
(-1.6)
P 		286.6
(-3)
P 		427.8
(3)
P 		390.6
(1.4)
P 		411
(2.3)
P 		141
avr 351.8
(-0.4) 		328.6
(-1.3) 		281.6
(-3) 		440.4
(2.8) 		446.1
(3) 		413.5
(1.8) 		165
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174177_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21000
Sequence Type Exemplar sequence
Representative Public ID C57935 NCBI
Target Description C57935_rc /REP_DB=TREMBL Accession /GB=C57935 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk310c9 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_066398(11), NM_171211(11), NM_171210(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066398 NCBI Caenorhabditis elegans Rad-51 (Fifty one) like, Short family member (rfs-1) (rfs-1) mRNA, complete cds. 11/11 None
NM_171211 NCBI Caenorhabditis elegans C02F5.7a (C02F5.7) mRNA, complete cds. 11/11 None
NM_171210 NCBI Caenorhabditis elegans C02F5.7b (C02F5.7) mRNA, complete cds. 11/11 None
C30A5.2 ENSEMBL cdna:known chromosome:CEL140:III:8226394:8232470:1 gene:C30A5.2 11/11 None
C02F5.7a.3 ENSEMBL cdna:known chromosome:CEL140:III:8229641:8232460:1 gene:C02F5.7 11/11 None
C02F5.7a.2 ENSEMBL cdna:known chromosome:CEL140:III:8229706:8232469:1 gene:C02F5.7 11/11 A 
C02F5.7a.1 ENSEMBL cdna:known chromosome:CEL140:III:8229707:8232469:1 gene:C02F5.7 11/11 A 
C02F5.7b ENSEMBL cdna:known chromosome:CEL140:III:8229789:8232827:1 gene:C02F5.7 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000031520 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:8232109-8232405(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rfs-1
Ensembl C30A5.2
C02F5.7
Entrez Gene 3565472 Entrez gene
SwissProt P34348 EMBL-EBI
WormBase CE00094 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA27922 Hypothetical protein C02F5.7a [Caenorhabditis elegans] ref|NP_741249.1| C02F5.7a [Caenorhabditis elegans] 0.0
blast AAM15540 Hypothetical protein C02F5.7b [Caenorhabditis elegans] ref|NP_741248.1| C02F5.7b [Caenorhabditis elegans] sp|P34284|YKK7_CAEEL Hypothetical F-box/LRR-repeat protein C02F5.7 0.0
blast CAE70185 Hypothetical protein CBG16659 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.021
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.058
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.046
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 1.2E-8
Sequence
Target Sequence 
>C. ELEGANS:174177_AT
gtctgacatcaacagggcaccgtgcgctcaccgggttgaggcacaactttggtattcaat
taaaaatgttctgaaattttgaagcttaactattcagtagatttatattgtttcttggaa
attcttcatctattgcccgctattttttgtattccttcgtttctatcctgatcctactgt
agctactggtaaatttgttgaaattgtttccaaagggaaatcggtgtaaacacgctccat
agaatttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCTGACATCAACAGGGCACCGTGC 265 471 22 Antisense
GTGCGCTCACCGGGTTGAGGCACAA 460 479 43 Antisense
GGTTGAGGCACAACTTTGGTATTCA 94 507 55 Antisense
GAAGCTTAACTATTCAGTAGATTTA 558 341 102 Antisense
GTAGATTTATATTGTTTCTTGGAAA 412 457 118 Antisense
TTGGAAATTCTTCATCTATTGCCCG 113 709 136 Antisense
CTATTGCCCGCTATTTTTTGTATTC 392 223 151 Antisense
TTTCTATCCTGATCCTACTGTAGCT 630 669 181 Antisense
GATCCTACTGTAGCTACTGGTAAAT 262 415 191 Antisense
GGAAATCGGTGTAAACACGCTCCAT 273 527 237 Antisense
GTGTAAACACGCTCCATAGAATTTT 334 485 245 Antisense
Sequence Source Affymetrix Proprietary Database