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[188418_at]

Description Y105C5B.13 /REP_DB=WormBase Gene ID /WP=CE24062 /GEN=skr-10 /TR=Q9NAM6 /GB=CAB54358.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 58      4grp_total > 42      6grp_cgc > 28      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 84
1 2 3 4 range
A 41.2
(-3)
A 		68.1
(-0.7)
A 		80.5
(0.4)
A 		110
(3)
A 		69
B 41
(-2.9)
A 		111.6
(3)
A 		65.2
(-0.9)
A 		39.9
(-3)
A 		72
C 51.4
(-2)
A 		121.4
(3)
A 		42.2
(-2.7)
A 		37.3
(-3)
A 		84
avr 44.5
(-3) 		100.4
(3) 		62.6
(-1.1) 		62.4
(-1.1) 		56

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 441
1 2 3 4 5 6 range
A 173.9
(-0.7)
P 		58.4
(-2.3)
A 		38.1
(-2.5)
A 		4.2
(-3)
A 		114.7
(-1.5)
A 		445.6
(3)
P 		441
B 209.8
(-0.5)
P 		84.9
(-2.4)
A 		76.9
(-2.5)
A 		48
(-3)
A 		109.4
(-2)
A 		430.9
(3)
P 		383
C 248.3
(0.4)
P 		44
(-3)
A 		68.1
(-2.6)
A 		78.6
(-2.4)
A 		78.9
(-2.4)
A 		406.8
(3)
P 		363
avr 210.7
(-0.4) 		62.4
(-2.7) 		61
(-2.7) 		43.6
(-3) 		101
(-2.1) 		427.8
(3) 		384
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 15
(-2.8)
A 		14.8
(-3)
A 		21.1
(3)
A 		16.1
(-1.8)
A 		6
B 13.1
(-1.6)
A 		27.6
(3)
A 		15.1
(-0.9)
A 		8.5
(-3)
A 		19
C 17
(-0.8)
A 		34.9
(3)
A 		14.7
(-1.2)
A 		6.3
(-3)
A 		29
avr 15
(-1.2) 		25.8
(3) 		17
(-0.4) 		10.3
(-3) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 160
1 2 3 4 5 6 range
A 32.1
(-1.3)
P 		20.8
(-1.9)
A 		8.3
(-2.6)
A 		1.1
(-3)
A 		34.6
(-1.1)
A 		108.5
(3)
P 		107
B 73
(-0.6)
P 		28.3
(-2.4)
A 		18.7
(-2.8)
A 		12.7
(-3)
A 		44.4
(-1.7)
A 		160.7
(3)
P 		148
C 92
(0.8)
P 		13.4
(-3)
A 		17.3
(-2.8)
A 		15.8
(-2.9)
A 		25.5
(-2.4)
A 		136.2
(3)
P 		123
avr 65.7
(-0.3) 		20.8
(-2.5) 		14.8
(-2.8) 		9.9
(-3) 		34.8
(-1.8) 		135.1
(3) 		125
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188418_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9784
Sequence Type Exemplar sequence
Representative Public ID Y105C5B.13 NCBI
Target Description Y105C5B.13 /REP_DB=WormBase Gene ID /WP=CE24062 /GEN=skr-10 /TR=Q9NAM6 /GB=CAB54358.1 /SUBMIT=HINXTON /CHR=4 /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_070501(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070501 NCBI Caenorhabditis elegans SKp1 Related (ubiquitin ligase complex component) family member (skr-10) (skr-10) mRNA, complete cds. 11/11 None
SNAP00000018397 ENSEMBL cdna:SNAP chromosome:CEL140:IV:15946769:15947347:1 11/11 None
GENEFINDER00000018421 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:15946769:15947347:1 11/11 None
Y105C5B.13 ENSEMBL cdna:known chromosome:CEL140:IV:15946769:15947558:1 gene:Y105C5B.13 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
chrIV:15946774-15947353(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol skr-10
Ensembl Y105C5B.13
Entrez Gene 178447 Entrez gene
SwissProt Q9NAM6 EMBL-EBI
WormBase CE24062 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
19005 SCF ubiquitin ligase complex inferred from physical interaction QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB54358 Hypothetical protein Y105C5B.13 [Caenorhabditis elegans] ref|NP_502902.1| SKp1 Related (ubiquitin ligase complex component) family member (skr-10) [Caenorhabditis elegans] gb|AAL34100.1| SKR-10 [Caenorhabditis elegans] 4.0E-87
blast NP_503043 SKp1 Related (ubiquitin ligase complex component) family member (skr-9) [Caenorhabditis elegans] gb|AAK77209.1| Skp1 related (ubiquitin ligase complex component) protein 9 [Caenorhabditis elegans] gb|AAL34099.1| SKR-9 [Caenorhabditis elegans] 8.0E-80
blast NP_503044 SKp1 Related (ubiquitin ligase complex component) family member (skr-8) [Caenorhabditis elegans] gb|AAK77211.1| Skp1 related (ubiquitin ligase complex component) protein 8 [Caenorhabditis elegans] gb|AAL34098.1| SKR-8 [Caenorhabditis elegans] 8.0E-80
Protein Domains
Database ID Description E-Value
Pfam IPR001232 EMBL-EBI SKP1 component 7.0E-36
Pfam IPR001232 EMBL-EBI SKP1 component 7.8E-25
Sequence
Target Sequence 
>C. ELEGANS:188418_AT
cgctgaagtcgctgccgttgaaatccaagaagctccagttgctgctccaatcatgtacaa
agttgaatcaaatgatggaacagttttcgaaatcagtgatgaagcagtaaaacaatcaaa
tacactctccaatctaatctctacatgtgctccagaagatgtagcttcaatggatccaat
tccaattacaaatgtcactggaaacatcctgaagatggtcattgaatggtgtgagaaaca
caaaggagaagcacttccagttgatgatgacagtgttccaaagcatatcactgttcccga
atgggataccaacttcttgaaaatcgacaacgaagtgctcttcgacttgattgttgcctg
caactaccttgatgtgcctggattaatgaattatggatgcaagatggttgccatgatggc
tatcggaaagtctcctgatgagttgagaatcatctttgcaattccaactgatgaagagga
tgaagctgctgagagagctgcaaaggagaaggctgaagctgagaagaaggcgaatgctga
ga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGCTGAAGTCGCTGCCGTTGAAATC 151 255 18 Antisense
GTCGCTGCCGTTGAAATCCAAGAAG 44 475 25 Antisense
TGGAACAGTTTTCGAAATCAGTGAT 508 545 93 Antisense
ACAATCAAATACACTCTCCAATCTA 286 115 129 Antisense
AAATACACTCTCCAATCTAATCTCT 327 117 135 Antisense
CCAATCTAATCTCTACATGTGCTCC 333 277 146 Antisense
TAATCTCTACATGTGCTCCAGAAGA 579 635 152 Antisense
GTGCTCCAGAAGATGTAGCTTCAAT 426 479 164 Antisense
TGTTCCAAAGCATATCACTGTTCCC 419 563 291 Antisense
AGCATATCACTGTTCCCGAATGGGA 365 77 299 Antisense
GCTGAGAAGAAGGCGAATGCTGAGA 192 297 535 Antisense
Sequence Source Affymetrix Proprietary Database