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[190226_s_at] cyclin

Description W03D2.4 /REP_DB=WormBase Gene ID /WP=CE14512 /GEN=pcn-1 /TR=SW:O02115 /GB=AAC48257.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=cyclin
Cluster 6grp_highest_10_10 > 97      6grp_high1_10_10 > 78      4grp_highest_8_8 > 09      4grp_high_8_8 > 53      6grp_highest_nonorm > 89      6grp_total > 69      4grp_total > 58      6grp_highest_sub > Cu      6grp_cgc > 39      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1089
1 2 3 4 range
A 1067.3
(0.1)
P 		1584.7
(3)
P 		1556.5
(2.8)
P 		519.9
(-3)
P 		1065
B 894.8
(-1)
P 		1376
(2)
P 		1532.7
(3)
P 		567.9
(-3)
P 		965
C 918
(-0.4)
P 		1458.6
(2.9)
P 		1480.5
(3)
P 		496.2
(-3)
P 		984
avr 960
(-0.4) 		1473.1
(2.7) 		1523.2
(3) 		528
(-3) 		995

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2403
1 2 3 4 5 6 range
A 1457.2
(-0.9)
P 		878.5
(-2.5)
P 		693.2
(-3)
P 		1048.9
(-2)
P 		1825.1
(0.1)
P 		2910.4
(3)
P 		2217
B 1373
(-1.2)
P 		1003.7
(-2.3)
P 		779.9
(-3)
P 		938.4
(-2.5)
P 		2014.3
(0.8)
P 		2716.5
(3)
P 		1937
C 1382.5
(-1.2)
P 		931.8
(-2.4)
P 		672.5
(-3)
P 		975.7
(-2.2)
P 		1775.3
(-0.2)
P 		3075.4
(3)
P 		2403
avr 1404.2
(-1.1) 		938
(-2.4) 		715.2
(-3) 		987.7
(-2.3) 		1871.6
(0.2) 		2900.8
(3) 		2186
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 440
1 2 3 4 range
A 388.6
(2.7)
P 		344
(1.9)
P 		406.9
(3)
P 		76.1
(-3)
P 		331
B 285.4
(1.2)
P 		339.8
(2.6)
P 		355.2
(3)
P 		121
(-3)
P 		234
C 303.9
(0.1)
P 		419.4
(1.7)
P 		516
(3)
P 		83.7
(-3)
P 		432
avr 326
(1.2) 		367.7
(1.9) 		426
(3) 		93.6
(-3) 		332

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 879
1 2 3 4 5 6 range
A 268.6
(-1.7)
P 		312.4
(-1.3)
P 		151
(-3)
P 		266
(-1.8)
P 		550.7
(1.3)
P 		708.6
(3)
P 		558
B 477.8
(-0.9)
P 		334.1
(-1.9)
P 		189.4
(-3)
P 		248.6
(-2.6)
P 		818.4
(1.6)
P 		1013
(3)
P 		824
C 512.4
(-0.6)
P 		284.3
(-2.2)
P 		171.2
(-3)
P 		196.2
(-2.8)
P 		574.5
(-0.2)
P 		1029.5
(3)
P 		858
avr 419.6
(-1) 		310.3
(-1.9) 		170.5
(-3) 		236.9
(-2.5) 		647.9
(0.8) 		917
(3) 		747
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190226_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10940
Sequence Type Exemplar sequence
Representative Public ID W03D2.4 NCBI
Target Description W03D2.4 /REP_DB=WormBase Gene ID /WP=CE14512 /GEN=pcn-1 /TR=SW:O02115 /GB=AAC48257.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=cyclin
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_068065(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068065 NCBI Caenorhabditis elegans W03D2.4 (cyclin) mRNA, complete cds. 11/11 None
SNAP00000027037 ENSEMBL cdna:SNAP chromosome:CEL140:IV:4048116:4051611:-1 11/11 None
W03D2.4.1 ENSEMBL cdna:known chromosome:CEL140:IV:4047941:4049441:-1 gene:W03D2.4 11/11 None
W03D2.4.2 ENSEMBL cdna:known chromosome:CEL140:IV:4047941:4049419:-1 gene:W03D2.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000027051 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:4048121-4049434(-) 100.0 100.0
Public Domain and Genome References
Gene Title cyclin
Gene Symbol pcn-1
Ensembl W03D2.4
Entrez Gene 177161 Entrez gene
SwissProt O02115 EMBL-EBI
WormBase CE37726 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6275 regulation of DNA replication inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
5660 delta-DNA polymerase cofactor complex inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
30337 DNA polymerase processivity factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAE67843 Hypothetical protein CBG13430 [Caenorhabditis briggsae] 1.0E-143
blast AAC48257 Pcna (proliferating cell nuclear antigen) homolog protein 1 [Caenorhabditis elegans] ref|NP_500466.2| W03D2.4 [Caenorhabditis elegans] sp|O02115|PCNA_CAEEL Proliferating cell nuclear antigen (PCNA) 1.0E-128
blast CAE67843 Hypothetical protein CBG13430 [Caenorhabditis briggsae] 1.0E-124
blast AAC48258 Warthog (hedgehog-like family) protein 5 [Caenorhabditis elegans] ref|NP_500467.1| WaRThog (hedgehog-like family) family member (wrt-5) [Caenorhabditis elegans] 1.0E-102
blast AAY82461 proliferating cell nuclear antigen [Aedes aegypti] 6.0E-65
Protein Domains
Database ID Description E-Value
Pfam IPR000730 EMBL-EBI Proliferating cell nuclear antigen, PCNA 8.7E-61
Pfam IPR000730 EMBL-EBI Proliferating cell nuclear antigen, PCNA 4.2E-40
Pfam IPR000730 EMBL-EBI Proliferating cell nuclear antigen, PCNA 8.7E-61
Pfam IPR000730 EMBL-EBI Proliferating cell nuclear antigen, PCNA 7.2E-63
Sequence
Target Sequence 
>C. ELEGANS:190226_S_AT
ccatcaacctcggactttcgttggctaatatgtcgaaggcgctcaagtgcgccaacaacg
acgatacctgcatgctgaagtatgaggaaaacgaaggcgactcgatcatcttcacattcg
ccgatccaaagcgtgacaagacccaagacgtgacagtcaaaatgatggacattgacagcg
aacatctcgggatcccggatcaagactacgccgtcgtttgtgagatgcctgccggcgagt
tccagaagacttgcaaggatctgtcgacgttctccgactcgttgaacatcaccgccacca
aggctggcatcgtgttcaccggaaagggagacatcggatcttctgtcgtcacctactccc
catcttccaacactgacgatgagactgaggctgtaacactggaggtcaaggatccggtta
atgtgaacttctcgatcaagtacatgaatcagttcaccaaggcgacggcactttccgaca
gagttcgtctctctctgtgcaacgatgttccggtcgttgtcgagtatccgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCATCAACCTCGGACTTTCGTTGGC 450 271 206 Antisense
AACAACGACGATACCTGCATGCTGA 192 135 259 Antisense
TTGACAGCGAACATCTCGGGATCCC 660 703 377 Antisense
GATCCCGGATCAAGACTACGCCGTC 699 415 396 Antisense
CTACGCCGTCGTTTGTGAGATGCCT 79 227 411 Antisense
CTTGCAAGGATCTGTCGACGTTCTC 658 217 455 Antisense
GTTCTCCGACTCGTTGAACATCACC 341 443 474 Antisense
GAATCAGTTCACCAAGGCGACGGCA 308 327 651 Antisense
GGCACTTTCCGACAGAGTTCGTCTC 213 535 672 Antisense
TCGTCTCTCTCTGTGCAACGATGTT 223 605 690 Antisense
TTCCGGTCGTTGTCGAGTATCCGAT 196 697 713 Antisense
Sequence Source Affymetrix Proprietary Database