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[188268_at]

Description C06A8.4 /REP_DB=WormBase Gene ID /WP=CE02455 /GEN=skr-17 /TR=Q17696 /GB=AAA81051.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 97      4grp_total > 24      6grp_cgc > 78      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 200
1 2 3 4 range
A 141.7
(-2.6)
A 		132.7
(-3)
A 		138.5
(-2.7)
A 		254
(3)
P 		121
B 53.9
(-3)
A 		128.9
(-0.5)
A 		231.8
(3)
A 		213.8
(2.4)
P 		178
C 152.2
(-3)
A 		175.4
(-0.5)
A 		203.6
(2.5)
P 		207.9
(3)
P 		56
avr 115.9
(-3) 		145.7
(-1.4) 		191.3
(1.1) 		225.2
(3) 		109

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 599
1 2 3 4 5 6 range
A 113.9
(-2.7)
A 		99.2
(-2.9)
A 		89.7
(-3)
A 		207
(-1.4)
P 		505.8
(2.6)
P 		533.2
(3)
P 		444
B 103.6
(-2.5)
A 		62.5
(-3)
A 		155.6
(-2)
P 		257.5
(-0.8)
P 		495.4
(1.9)
P 		596.8
(3)
P 		534
C 88.9
(-3)
A 		107.2
(-2.8)
A 		136.5
(-2.5)
A 		279.2
(-1)
P 		407.3
(0.3)
P 		661.5
(3)
P 		573
avr 102.1
(-2.9) 		89.6
(-3) 		127.3
(-2.6) 		247.9
(-1.1) 		469.5
(1.5) 		597.2
(3) 		508
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 54
1 2 3 4 range
A 51.6
(3)
A 		28.8
(-3)
A 		36.2
(-1.1)
A 		37.2
(-0.8)
P 		23
B 17.2
(-3)
A 		31.8
(-0.6)
A 		53.7
(3)
A 		45.6
(1.7)
P 		37
C 50.4
(-0.4)
A 		50.4
(-0.4)
A 		71
(3)
P 		35
(-3)
P 		36
avr 39.7
(-2) 		37
(-3) 		53.6
(3) 		39.3
(-2.2) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 203
1 2 3 4 5 6 range
A 21
(-2.9)
A 		35.3
(-2.3)
A 		19.5
(-3)
A 		52.5
(-1.5)
P 		152.6
(3)
P 		129.8
(2)
P 		133
B 36.1
(-2.5)
A 		20.8
(-3)
A 		37.8
(-2.5)
P 		68.2
(-1.6)
P 		201.3
(2.4)
P 		222.6
(3)
P 		202
C 32.9
(-3)
A 		32.7
(-3)
A 		34.7
(-2.9)
A 		56.1
(-2.3)
P 		131.8
(0.2)
P 		221.4
(3)
P 		189
avr 30
(-3) 		29.6
(-3) 		30.7
(-3) 		58.9
(-1.9) 		161.9
(1.9) 		191.3
(3) 		162
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188268_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5821
Sequence Type Exemplar sequence
Representative Public ID C06A8.4 NCBI
Target Description C06A8.4 /REP_DB=WormBase Gene ID /WP=CE02455 /GEN=skr-17 /TR=Q17696 /GB=AAA81051.1 /SUBMIT=ST.LOUIS /CHR=2 /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_063237(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063237 NCBI Caenorhabditis elegans SKp1 Related (ubiquitin ligase complex component) family member (skr-17) (skr-17) mRNA, complete cds. 11/11 None
SNAP00000042212 ENSEMBL cdna:SNAP chromosome:CEL140:II:7783799:7784390:1 11/11 None
GENEFINDER00000042221 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7783799:7784390:1 11/11 None
C06A8.4 ENSEMBL cdna:known chromosome:CEL140:II:7783774:7784565:1 gene:C06A8.4 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
chrII:7783795-7784387(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol skr-17
Ensembl C06A8.4
Entrez Gene 174257 Entrez gene
SwissProt Q17696 EMBL-EBI
WormBase CE02455 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA81051 Skp1 related (ubiquitin ligase complex component) protein 17 [Caenorhabditis elegans] ref|NP_495638.1| SKp1 Related (ubiquitin ligase complex component) family member (skr-17) [Caenorhabditis elegans] gb|AAL34105.1| SKR-17 [Caenorhabditis elegans] 6.0E-87
blast CAE67456 Hypothetical protein CBG12957 [Caenorhabditis briggsae] 1.0E-64
blast AAL32222 Hypothetical protein F56B3.12 [Caenorhabditis elegans] ref|NP_741300.1| F56B3.12 [Caenorhabditis elegans] 1.0E-51
Protein Domains
Database ID Description E-Value
Pfam IPR001232 EMBL-EBI SKP1 component 1.5E-36
Pfam IPR001232 EMBL-EBI SKP1 component 2.5E-26
Sequence
Target Sequence 
>C. ELEGANS:188268_AT
gagcaccaccaagtgtaccaaagccgtccggtccgccacctcgattacttcaactgacat
cctcagatggacatttgttgcagggagacatccgggccctcctcctctcaagtacacttg
ctgcaaccatcagagagctaggatatgacaaggaatactgtgctgaattaaaaccggtac
ctgtgaacaatgttgttggatttacattaaaattactgattgaatggtgcgataaacaca
aagaagatgatcctgcaattgcactggccgagaaggacaagaaaaatatttgcattcctt
cctgggatagacattttctcagtagactgccaatgtcaaatttgttcgatctgattactg
ctgcatatcatttggacgttaccggacttatcaattacggctgcaaaacagttgccaatt
ctgcgaaaggaaaaaatgccgaggaaatgcgagaacttttcggaatacctgaaccat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGCACCACCAAGTGTACCAAAGCC 637 389 38 Antisense
CCACCTCGATTACTTCAACTGACAT 456 273 73 Antisense
TGTTGCAGGGAGACATCCGGGCCCT 608 561 113 Antisense
ACACTTGCTGCAACCATCAGAGAGC 217 109 151 Antisense
TGATCCTGCAATTGCACTGGCCGAG 14 567 285 Antisense
AAAATATTTGCATTCCTTCCTGGGA 630 133 320 Antisense
TCCTTCCTGGGATAGACATTTTCTC 74 587 333 Antisense
GTTCGATCTGATTACTGCTGCATAT 660 441 381 Antisense
GCTGCATATCATTTGGACGTTACCG 265 297 397 Antisense
CGGACTTATCAATTACGGCTGCAAA 344 241 420 Antisense
GAACTTTTCGGAATACCTGAACCAT 183 349 490 Antisense
Sequence Source Affymetrix Proprietary Database