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[176618_at]

Description Y47D7A.1 /REP_DB=WormBase Gene ID /WP=CE22054 /GEN=skr-7 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 67      4grp_total > 02      6grp_cgc > 48      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 57
1 2 3 4 range
A 2.2
(-2.3)
A 		1.6
(-3)
A 		2.9
(-1.4)
A 		6.4
(3)
A 		5
B 21.5
(0.7)
A 		11.2
(-1.3)
A 		2.7
(-3)
A 		33
(3)
A 		30
C 2.3
(-3)
A 		2.4
(-3)
A 		15.9
(-1.6)
A 		58.9
(3)
A 		57
avr 8.7
(-2.2) 		5.1
(-3) 		7.2
(-2.5) 		32.8
(3) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 592
1 2 3 4 5 6 range
A 2.7
(-3)
A 		22.8
(-2.7)
A 		14.2
(-2.8)
A 		1.8
(-3)
A 		53.6
(-2.2)
P 		415.7
(3)
P 		414
B 12.8
(-2.9)
A 		1.3
(-3)
A 		10.8
(-2.9)
A 		1.2
(-3)
A 		84.7
(-2.1)
P 		577.1
(3)
P 		576
C 25.3
(-2.8)
A 		11.6
(-2.9)
A 		4.2
(-3)
A 		7.2
(-3)
A 		74.2
(-2.3)
P 		593
(3)
P 		589
avr 13.6
(-2.9) 		11.9
(-2.9) 		9.7
(-2.9) 		3.4
(-3) 		70.8
(-2.2) 		528.6
(3) 		525
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 0.8
(2)
A 		0.3
(-3)
A 		0.7
(1)
A 		0.9
(3)
A 		1
B 6.8
(2.8)
A 		2.8
(-0.9)
A 		0.6
(-3)
A 		7
(3)
A 		6
C 0.8
(-2.9)
A 		0.7
(-3)
A 		5.5
(0.1)
A 		9.9
(3)
A 		9
avr 2.8
(-1) 		1.3
(-3) 		2.3
(-1.7) 		5.9
(3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 215
1 2 3 4 5 6 range
A 0.5
(-3)
A 		8.1
(-2.5)
A 		3.1
(-2.8)
A 		0.5
(-3)
A 		16.2
(-2.1)
P 		101.2
(3)
P 		101
B 4.5
(-2.9)
A 		0.4
(-3)
A 		2.6
(-2.9)
A 		0.3
(-3)
A 		34.4
(-2)
P 		215.2
(3)
P 		215
C 9.4
(-2.7)
A 		3.6
(-2.9)
A 		1.1
(-3)
A 		1.5
(-3)
A 		24
(-2.3)
P 		198.5
(3)
P 		197
avr 4.8
(-2.9) 		4
(-2.9) 		2.3
(-2.9) 		0.8
(-3) 		24.9
(-2.2) 		171.6
(3) 		171
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176618_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15534
Sequence Type Exemplar sequence
Representative Public ID Y47D7A.1 NCBI
Target Description Y47D7A.1 /REP_DB=WormBase Gene ID /WP=CE22054 /GEN=skr-7 /SUBMIT=ST.LOUIS /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_071820(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071820 NCBI Caenorhabditis elegans SKp1 Related (ubiquitin ligase complex component) family member (skr-7) (skr-7) mRNA, complete cds. 11/11 None
SNAP00000043263 ENSEMBL cdna:SNAP chromosome:CEL140:V:4422241:4422825:1 11/11 None
GENEFINDER00000043273 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:4422241:4422825:1 11/11 None
Y47D7A.1.2 ENSEMBL cdna:known chromosome:CEL140:V:4422218:4422825:1 gene:Y47D7A.1 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
chrV:4422240-4422825(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol skr-7
Ensembl Y47D7A.1
Entrez Gene 178840 Entrez gene
SwissProt Q9N3U8 EMBL-EBI
WormBase CE22054 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF60641 Skp1 related (ubiquitin ligase complex component) protein 7 [Caenorhabditis elegans] ref|NP_504221.1| SKp1 Related (ubiquitin ligase complex component) family member (skr-7) [Caenorhabditis elegans] gb|AAL34097.1| SKR-7 [Caenorhabditis elegans] 2.0E-79
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] 5.0E-71
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] 1.0E-69
Protein Domains
Database ID Description E-Value
Pfam IPR001232 EMBL-EBI SKP1 component 2.2E-35
Pfam IPR001232 EMBL-EBI SKP1 component 1.6E-24
Sequence
Target Sequence 
>C. ELEGANS:176618_AT
aattgtcgccccaatcatgtacaaggtcgaatcaagtgatggacaagtctatgaaatcag
tgatgaagcagtaaagcagtcgaacaccctctccaatctgatttctacatgtgttgccaa
tgatgttgcttcaatggatccaattccaattaccaatgtcaccggaaacatcatgaagat
ggtcattgagtggtgtgagaaacacaaaggagaaacacttccagttgaagatgacagtgt
tcccaagaacatcactgttccagaatgggatac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATTGTCGCCCCAATCATGTACAAG 206 179 60 Antisense
GTACAAGGTCGAATCAAGTGATGGA 301 461 78 Antisense
GAATCAAGTGATGGACAAGTCTATG 512 327 88 Antisense
GGACAAGTCTATGAAATCAGTGATG 222 527 100 Antisense
GCAGTAAAGCAGTCGAACACCCTCT 604 311 127 Antisense
ATCTGATTTCTACATGTGTTGCCAA 175 35 155 Antisense
GTGTTGCCAATGATGTTGCTTCAAT 324 485 170 Antisense
ATTCCAATTACCAATGTCACCGGAA 445 7 202 Antisense
TGTCACCGGAAACATCATGAAGATG 620 557 216 Antisense
GACAGTGTTCCCAAGAACATCACTG 143 369 292 Antisense
ACATCACTGTTCCAGAATGGGATAC 433 105 308 Antisense
Sequence Source Affymetrix Proprietary Database