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[187967_at]

Description Y37H2C.2 /REP_DB=WormBase Gene ID /WP=CE19090 /GEN=skr-6 /TR=Q9U2N1 /GB=CAB63347.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 91      4grp_total > 28      6grp_cgc > 97      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 56
1 2 3 4 range
A 25.8
(-3)
A 		58.8
(3)
P 		26.4
(-2.9)
A 		58.3
(2.9)
A 		33
B 30.4
(3)
A 		26.4
(2.1)
A 		3.1
(-3)
A 		15.9
(-0.2)
A 		27
C 28.3
(-0)
M 		25.2
(-0.6)
A 		13.5
(-3)
A 		43.3
(3)
A 		30
avr 28.2
(0.3) 		36.8
(2.4) 		14.3
(-3) 		39.2
(3) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 67
1 2 3 4 5 6 range
A 39.1
(0.2)
A 		26.5
(-0.9)
A 		15.2
(-1.9)
A 		3.4
(-3)
A 		69.8
(3)
A 		12
(-2.2)
A 		66
B 17.5
(-1.1)
A 		19.6
(-0.8)
A 		22.1
(-0.4)
A 		44.6
(3)
A 		4.9
(-3)
A 		10.9
(-2.1)
A 		40
C 3.3
(-3)
A 		9.7
(-1.8)
A 		19.4
(0.1)
A 		34.9
(3)
A 		10.5
(-1.6)
A 		15.5
(-0.7)
A 		32
avr 20
(-0.2) 		18.6
(-0.8) 		18.9
(-0.7) 		27.6
(2.7) 		28.4
(3) 		12.8
(-3) 		16
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 9.4
(-0.5)
A 		12.8
(3)
P 		6.9
(-3)
A 		8.5
(-1.4)
A 		6
B 9.7
(3)
A 		6.5
(0.9)
A 		0.7
(-3)
A 		3.4
(-1.2)
A 		9
C 9.4
(3)
M 		7.2
(0.2)
A 		4.7
(-3)
A 		7.3
(0.3)
A 		5
avr 9.5
(3) 		8.8
(2.2) 		4.1
(-3) 		6.4
(-0.4) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 7.2
(-1.1)
A 		9.4
(-0.5)
A 		3.3
(-2.3)
A 		0.8
(-3)
A 		21.1
(3)
A 		2.9
(-2.4)
A 		20
B 6.1
(-0.5)
A 		6.5
(-0.2)
A 		5.4
(-0.9)
A 		11.8
(3)
A 		2
(-3)
A 		4.1
(-1.7)
A 		10
C 1.2
(-3)
A 		3
(-1.1)
A 		4.9
(0.8)
A 		7
(3)
A 		3.4
(-0.7)
A 		5.2
(1.1)
A 		6
avr 4.8
(-2.1) 		6.3
(-0.2) 		4.5
(-2.5) 		6.5
(0.1) 		8.8
(3) 		4.1
(-3) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187967_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12906
Sequence Type Exemplar sequence
Representative Public ID Y37H2C.2 NCBI
Target Description Y37H2C.2 /REP_DB=WormBase Gene ID /WP=CE19090 /GEN=skr-6 /TR=Q9U2N1 /GB=CAB63347.1 /SUBMIT=HINXTON /CHR=5 /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_075173(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075173 NCBI Caenorhabditis elegans SKp1 Related (ubiquitin ligase complex component) family member (skr-6) (skr-6) mRNA, complete cds. 11/11 None
GENEFINDER00000027740 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:18270946:18280312:-1 10/11 None
Y37H2C.2 ENSEMBL cdna:known chromosome:CEL140:V:18272190:18272896:-1 gene:Y37H2C.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000027737 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:18272189-18272896(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol skr-6
Ensembl Y37H2C.2
Entrez Gene 191763 Entrez gene
SwissProt Q9U2N1 EMBL-EBI
WormBase CE19090 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA19499 Hypothetical protein Y37H2C.1 [Caenorhabditis elegans] ref|NP_507576.1| Y37H2C.1 [Caenorhabditis elegans] 0.0
blast CAE56315 Hypothetical protein CBG23978 [Caenorhabditis briggsae] 1.0E-136
blast CAB63347 Hypothetical protein Y37H2C.2 [Caenorhabditis elegans] ref|NP_507574.1| SKp1 Related (ubiquitin ligase complex component) family member (skr-6) [Caenorhabditis elegans] 1.0E-111
blast CAE69718 Hypothetical protein CBG15989 [Caenorhabditis briggsae] 1.0E-106
blast CAB05516 Hypothetical protein F44G3.6 [Caenorhabditis elegans] ref|NP_507059.1| SKp1 Related (ubiquitin ligase complex component) family member (skr-3) [Caenorhabditis elegans] gb|AAL34095.1| SKR-3 [Caenorhabditis elegans] 7.0E-26
blast CAB07209 Hypothetical protein F47H4.10 [Caenorhabditis elegans] ref|NP_507393.1| SKp1 Related (ubiquitin ligase complex component) family member (skr-5) [Caenorhabditis elegans] 3.0E-24
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 8.5
Pfam IPR001232 EMBL-EBI SKP1 component 8.0E-26
Pfam IPR001232 EMBL-EBI SKP1 component 1.6E-6
Pfam IPR001232 EMBL-EBI SKP1 component 3.7E-24
Pfam IPR001232 EMBL-EBI SKP1 component 1.6E-6
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000027740 9 7-29,231-253,309-331,364-386,407-424,463-485,528-550,554-573,580-602
Sequence
Target Sequence 
>C. ELEGANS:187967_AT
aatttatgccagtttgcgcacgcaaatttgataaaactcttaggaagaagaggcaaacag
ttaggtgatattgttacaaaaaccctgaaactcattcactccgtcattttgcttcaaaat
cgaattaacaatgagcaattaggagcacgctctcaaaatttcaacttgcgatggaataga
gtctctccaagagtagctaatgaatcaaaagtcctaacagactttcttcaaacgtatcag
ccggaaatggatgcaattccattaacaaaagtcgacgcgaagattttcgaaaaaataatc
gaatactgtgagcaccaaggtaccccaagacccctactcaatggagagattggtgaatgg
gattccgagtttcttaaacttgaccagaatacattattcgatttggtgttggctgcaaat
tatttgaatatcgaaaatctttttgatgtcacaacacaatttattgctaatatgatgaag
aataatactccaagtcaaattcgtgctaggtttggcgtttcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATTTATGCCAGTTTGCGCACGCAA 119 175 46 Antisense
AAAACCCTGAAACTCATTCACTCCG 647 131 124 Antisense
TAGGAGCACGCTCTCAAAATTTCAA 568 653 185 Antisense
GAATAGAGTCTCTCCAAGAGTAGCT 228 323 219 Antisense
GTCCTAACAGACTTTCTTCAAACGT 250 471 256 Antisense
GACTTTCTTCAAACGTATCAGCCGG 119 373 265 Antisense
TACTGTGAGCACCAAGGTACCCCAA 621 647 349 Antisense
CCCAAGACCCCTACTCAATGGAGAG 140 257 369 Antisense
AAATCTTTTTGATGTCACAACACAA 360 117 480 Antisense
AATACTCCAAGTCAAATTCGTGCTA 190 171 529 Antisense
ATTCGTGCTAGGTTTGGCGTTTCAA 532 7 544 Antisense
Sequence Source Affymetrix Proprietary Database