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[172772_x_at] cyclin A-associated protein

Description C52D10.8 /REP_DB=WormBase Gene ID /WP=CE17592 /GEN=skr-13 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=cyclin A-associated protein
Cluster 6grp_high1_10_10 > 77      6grp_total > 67      4grp_total > 03      6grp_cgc > 48      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 144
1 2 3 4 range
A 61.4
(-1.4)
A 		29.1
(-3)
A 		45.2
(-2.2)
A 		149.2
(3)
P 		120
B 71.4
(-1.3)
A 		52.5
(-2.6)
P 		46.5
(-3)
A 		135.7
(3)
P 		89
C 47.6
(-3)
A 		56.3
(-2.6)
A 		58.6
(-2.5)
A 		173.4
(3)
P 		126
avr 60.1
(-2.2) 		46
(-3) 		50.1
(-2.8) 		152.8
(3) 		107

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1091
1 2 3 4 5 6 range
A 92.1
(-2.5)
P 		27.3
(-3)
A 		67.8
(-2.7)
P 		38.3
(-2.9)
A 		114.3
(-2.3)
P 		807.4
(3)
P 		780
B 90
(-2.7)
P 		37.2
(-3)
P 		64.8
(-2.8)
A 		43.4
(-3)
A 		160.8
(-2.2)
P 		953.6
(3)
P 		916
C 100.5
(-2.8)
P 		101.1
(-2.8)
P 		57.3
(-3)
M 		82.5
(-2.9)
P 		153
(-2.5)
P 		1118.2
(3)
P 		1061
avr 94.2
(-2.7) 		55.2
(-3) 		63.3
(-2.9) 		54.7
(-3) 		142.7
(-2.4) 		959.7
(3) 		905
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 23
1 2 3 4 range
A 22.4
(3)
A 		6.3
(-3)
A 		11.8
(-1)
A 		21.8
(2.8)
P 		16
B 22.8
(1)
A 		13
(-2.3)
P 		10.8
(-3)
A 		28.9
(3)
P 		18
C 15.8
(-3)
A 		16.2
(-2.8)
A 		20.4
(-0.9)
A 		29.2
(3)
P 		13
avr 20.3
(0.4) 		11.8
(-3) 		14.3
(-2) 		26.6
(3) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 365
1 2 3 4 5 6 range
A 17
(-2.8)
P 		9.7
(-3)
A 		14.8
(-2.8)
P 		9.7
(-3)
A 		34.5
(-2.2)
P 		196.6
(3)
P 		187
B 31.3
(-2.7)
P 		12.4
(-3)
P 		15.7
(-2.9)
A 		11.5
(-3)
A 		65.3
(-2.1)
P 		355.6
(3)
P 		344
C 37.3
(-2.6)
P 		30.8
(-2.7)
P 		14.6
(-3)
M 		16.6
(-3)
P 		49.5
(-2.4)
P 		374.3
(3)
P 		360
avr 28.5
(-2.7) 		17.6
(-2.9) 		15
(-3) 		12.6
(-3) 		49.8
(-2.2) 		308.8
(3) 		296
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172772_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9401
Sequence Type Exemplar sequence
Representative Public ID C52D10.8 NCBI
Target Description C52D10.8 /REP_DB=WormBase Gene ID /WP=CE17592 /GEN=skr-13 /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)
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 
SNAP00000030637 ENSEMBL cdna:SNAP chromosome:CEL140:IV:17162053:17163313:-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 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_071819 1/11 Cross Hyb Matching Probes None
NM_070644 6/11 Cross Hyb Matching Probes A 
SNAP00000030641 6/11 Cross Hyb Matching Probes None
GENEFINDER00000030657 6/11 Cross Hyb Matching Probes None
SNAP00000043262 1/11 Cross Hyb Matching Probes None
C52D10.6 6/11 Cross Hyb Matching Probes None
C52D10.10 3/11 Cross Hyb Matching Probes None
Y47D7A.8 1/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:17167235-17167754(+) 97.88 97.88
chrIV:17162058-17162577(-) 100.0 100.0
Public Domain and Genome References
Gene Title cyclin A-associated protein
Gene Symbol skr-13
Ensembl C52D10.8
Entrez Gene 178493 Entrez gene
SwissProt Q966P0 EMBL-EBI
WormBase CE17592 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
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 AAF60635 Skp1 related (ubiquitin ligase complex component) protein 14 [Caenorhabditis elegans] ref|NP_504220.3| SKp1 Related (ubiquitin ligase complex component) family member (skr-14) [Caenorhabditis elegans] 4.0E-79
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] 4.0E-79
blast AAF60635 Skp1 related (ubiquitin ligase complex component) protein 14 [Caenorhabditis elegans] ref|NP_504220.3| SKp1 Related (ubiquitin ligase complex component) family member (skr-14) [Caenorhabditis elegans] 3.0E-77
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 8.9E-43
Pfam IPR001232 EMBL-EBI SKP1 component 6.2E-29
Sequence
Target Sequence 
>C. ELEGANS:172772_X_AT
gccgatgctccagctgctgaaatcgtttacaagatcatttcgagcgatggagttgtatcc
aaaatgagtgaaaaagccgttcaacaatcgaaaactctgagcaatctgattgagaatctc
ggctacaccatcgaaaacatcgagacccgtgatccaattccagttacaaatgtgaatgga
aagactatggcgaaggttgctgaattgtgtgagaagcacaaagccgatgcaattccagag
gacaatatgaatgttctcaagactcttaccattccagaatgggatcaaaagtttttgaaa
attgaggatgaagctctgtttgatttgattctggcttcaaacttccttgacatcaagggt
ctcatgtactatggatgtaagactgtttccaacatggcaaagggc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCGATGCTCCAGCTGCTGAAATCG 286 285 28 Antisense
GAATCTCGGCTACACCATCGAAAAC 110 329 141 Antisense
GAAAACATCGAGACCCGTGATCCAA 415 355 160 Antisense
CCCGTGATCCAATTCCAGTTACAAA 134 261 173 Antisense
GGCGAAGGTTGCTGAATTGTGTGAG 703 541 216 Antisense
AAGCCGATGCAATTCCAGAGGACAA 457 149 248 Antisense
GTTCTCAAGACTCTTACCATTCCAG 205 443 280 Antisense
GCTCTGTTTGATTTGATTCTGGCTT 359 299 340 Antisense
TCTGGCTTCAAACTTCCTTGACATC 157 607 357 Antisense
AAGGGTCTCATGTACTATGGATGTA 638 159 382 Antisense
GACTGTTTCCAACATGGCAAAGGGC 662 369 408 Antisense
Sequence Source Affymetrix Proprietary Database