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[189189_s_at] cyclin A-associated protein /// cyclin A-associated protein

Description C52D10.6 /REP_DB=WormBase Gene ID /WP=CE17590 /GEN=skr-12 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=cyclin A-associated protein
Cluster 6grp_total > 77      4grp_total > 11      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 68
1 2 3 4 range
A 15.6
(-0.1)
A 		10
(-1.4)
A 		2.6
(-3)
A 		29.8
(3)
A 		27
B 6.1
(-2.5)
A 		1.9
(-3)
A 		5.6
(-2.5)
A 		48.5
(3)
P 		47
C 7.6
(-2.7)
A 		32.8
(-0.4)
A 		3.8
(-3)
A 		69.8
(3)
P 		66
avr 9.8
(-2.2) 		14.9
(-1.6) 		4
(-3) 		49.4
(3) 		45

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 304
1 2 3 4 5 6 range
A 37.2
(-2.2)
M 		24.6
(-2.7)
A 		24.3
(-2.7)
A 		17.9
(-3)
A 		39
(-2.1)
P 		156.3
(3)
P 		138
B 22.2
(-2.7)
A 		8.2
(-3)
A 		13.7
(-2.9)
A 		10.1
(-3)
A 		64.3
(-1.7)
P 		261.8
(3)
P 		254
C 3.7
(-3)
A 		7.2
(-2.9)
A 		1.9
(-3)
A 		41.4
(-2.2)
P 		29.1
(-2.5)
P 		305.4
(3)
P 		304
avr 21
(-2.8) 		13.3
(-3) 		13.3
(-3) 		23.1
(-2.7) 		44.1
(-2.2) 		241.2
(3) 		228
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 5.7
(3)
A 		2.2
(-1.2)
A 		0.7
(-3)
A 		4.4
(1.4)
A 		5
B 2
(-2.1)
A 		0.5
(-3)
A 		1.3
(-2.5)
A 		10.3
(3)
P 		10
C 2.5
(-2.3)
A 		9.4
(1.6)
A 		1.3
(-3)
A 		11.8
(3)
P 		11
avr 3.4
(-1.2) 		4
(-0.7) 		1.1
(-3) 		8.8
(3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 102
1 2 3 4 5 6 range
A 6.9
(-2.6)
M 		8.8
(-2.2)
A 		5.3
(-2.9)
A 		4.5
(-3)
A 		11.8
(-1.7)
P 		38.1
(3)
P 		34
B 7.7
(-2.7)
A 		2.7
(-3)
A 		3.3
(-3)
A 		2.7
(-3)
A 		26.1
(-1.5)
P 		97.6
(3)
P 		95
C 1.4
(-2.9)
A 		2.2
(-2.9)
A 		0.5
(-3)
A 		8.3
(-2.5)
P 		9.4
(-2.5)
P 		102.2
(3)
P 		102
avr 5.3
(-2.8) 		4.6
(-2.9) 		3
(-3) 		5.2
(-2.8) 		15.8
(-2) 		79.3
(3) 		76
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189189_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8375
Sequence Type Exemplar sequence
Representative Public ID C52D10.6 NCBI
Target Description C52D10.6 /REP_DB=WormBase Gene ID /WP=CE17590 /GEN=skr-12 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=cyclin A-associated protein
Cluster Evidence This cluster is supported by a 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_070641(11), NM_070644(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070641 NCBI Caenorhabditis elegans SKp1 Related (ubiquitin ligase complex component) family member (skr-13) (skr-13) mRNA, complete cds. 11/11 A 
NM_070644 NCBI Caenorhabditis elegans SKp1 Related (ubiquitin ligase complex component) family member (skr-12) (skr-12) mRNA, complete cds. 11/11 None
SNAP00000030637 ENSEMBL cdna:SNAP chromosome:CEL140:IV:17162053:17163313:-1 11/11 None
SNAP00000030641 ENSEMBL cdna:SNAP chromosome:CEL140:IV:17167230:17167748:1 11/11 None
GENEFINDER00000030657 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:17167230:17167748:1 11/11 None
GENEFINDER00000030660 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:17162053:17162571:-1 11/11 None
C52D10.8 ENSEMBL cdna:known chromosome:CEL140:IV:17162053:17162571:-1 gene:C52D10.8 11/11 A 
C52D10.6 ENSEMBL cdna:known chromosome:CEL140:IV:17167230:17167748:1 gene:C52D10.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000030642 1/11 Cross Hyb Matching Probes None
GENEFINDER00000030656 1/11 Cross Hyb Matching Probes None
C52D10.10 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:17167235-17167754(+) 100.0 100.0
chrIV:17162058-17162577(-) 97.88 97.88
Public Domain and Genome References
Gene Title cyclin A-associated protein
cyclin A-associated protein
Gene Symbol skr-12
skr-13
Ensembl C52D10.8
C52D10.6
Entrez Gene 178493 Entrez gene
178496 Entrez gene
SwissProt Q22871 EMBL-EBI
Q966P0 EMBL-EBI
WormBase CE17590 Wormbase
CE17592 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_503045 SKp1 Related (ubiquitin ligase complex component) family member (skr-12) [Caenorhabditis elegans] gb|AAK77208.1| Skp1 related (ubiquitin ligase complex component) protein 12 [Caenorhabditis elegans] gb|AAL34101.1| SKR-12 [Caenorhabditis elegans] gb|AAB17536.1| homolog to Skp1p, an evolutionarily conserved kinetochore protein in budding yeast [Caenorhabditis elegans] 8.0E-82
blast NP_503042 SKp1 Related (ubiquitin ligase complex component) family member (skr-13) [Caenorhabditis elegans] gb|AAK77210.1| Skp1 related (ubiquitin ligase complex component) protein 13 [Caenorhabditis elegans] gb|AAL34102.1| SKR-13 [Caenorhabditis elegans] 4.0E-81
blast NP_503042 SKp1 Related (ubiquitin ligase complex component) family member (skr-13) [Caenorhabditis elegans] gb|AAK77210.1| Skp1 related (ubiquitin ligase complex component) protein 13 [Caenorhabditis elegans] gb|AAL34102.1| SKR-13 [Caenorhabditis elegans] 7.0E-81
blast NP_503045 SKp1 Related (ubiquitin ligase complex component) family member (skr-12) [Caenorhabditis elegans] gb|AAK77208.1| Skp1 related (ubiquitin ligase complex component) protein 12 [Caenorhabditis elegans] gb|AAL34101.1| SKR-12 [Caenorhabditis elegans] gb|AAB17536.1| homolog to Skp1p, an evolutionarily conserved kinetochore protein in budding yeast [Caenorhabditis elegans] 2.0E-79
blast NP_503042 SKp1 Related (ubiquitin ligase complex component) family member (skr-13) [Caenorhabditis elegans] gb|AAK77210.1| Skp1 related (ubiquitin ligase complex component) protein 13 [Caenorhabditis elegans] gb|AAL34102.1| SKR-13 [Caenorhabditis elegans] 2.0E-79
Protein Domains
Database ID Description E-Value
Pfam IPR001232 EMBL-EBI SKP1 component 8.9E-43
Pfam IPR001232 EMBL-EBI SKP1 component 6.2E-29
Pfam IPR001232 EMBL-EBI SKP1 component 3.4E-42
Pfam IPR001232 EMBL-EBI SKP1 component 1.5E-31
Pfam IPR001232 EMBL-EBI SKP1 component 8.9E-43
Pfam IPR001232 EMBL-EBI SKP1 component 6.2E-29
Sequence
Target Sequence 
>C. ELEGANS:189189_S_AT
ccagctgctgaaatcgtttacaagatcatttcgagcgatggagttgtatccaaaatgagt
gaaaaagccgttcaacaatcgaaaactctgagcaatctgattgaaaatctcggctacacc
atcgaaaacatcgagacccgtgatccaattccagttacaaatgtgaatggaaagactatg
gcgaaggttgctgaatggtgtgagaagcacaaagccgatgcaattccagaggacaatatg
aatgttctcaagactcttaccattccagaatgggatcagaagttcttgaaaattgaggat
gaagctttgtttgatttgattctggcttcaaacttccttgacatcaagggtctcatgtac
tttgggtgtaagactgtttccaacatggcaaagggcaaaacaactgctgaactcagagag
atctttggaatca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCAGCTGCTGAAATCGTTTACAAGA 12 273 37 Antisense
CATTTCGAGCGATGGAGTTGTATCC 358 215 63 Antisense
AAGCCGTTCAACAATCGAAAACTCT 629 147 101 Antisense
CGAAAACTCTGAGCAATCTGATTGA 483 251 116 Antisense
AATCTCGGCTACACCATCGAAAACA 209 167 142 Antisense
ACCATCGAAAACATCGAGACCCGTG 410 83 154 Antisense
AAGACTATGGCGAAGGTTGCTGAAT 446 153 208 Antisense
GTTCTCAAGACTCTTACCATTCCAG 204 443 280 Antisense
TGTTTGATTTGATTCTGGCTTCAAA 386 561 344 Antisense
AGGGCAAAACAACTGCTGAACTCAG 343 59 428 Antisense
GAACTCAGAGAGATCTTTGGAATCA 690 349 445 Antisense
Sequence Source Affymetrix Proprietary Database