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[173081_s_at] DNA primase 58 KD subunit

Description AV200946 /REP_DB=TREMBL Accession /FEA=EST Transcript /GB=AV200946 /DEF=Caenorhabditis elegans cDNA clone:yk583f11 : 3prime end, single read.
Cluster 6grp_total > 98      4grp_total > 57      6grp_cgc > 69      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 108
1 2 3 4 range
A 40.9
(-1.4)
A 		97.8
(3)
A 		88.3
(2.3)
A 		20.8
(-3)
A 		77
B 15.9
(-3)
A 		48
(-0.1)
A 		83.4
(3)
A 		49
(-0.1)
A 		68
C 49.3
(-0.8)
A 		100.1
(2.1)
A 		116.9
(3)
A 		8.8
(-3)
A 		108
avr 35.4
(-2.2) 		82
(1.8) 		96.2
(3) 		26.2
(-3) 		70

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 238
1 2 3 4 5 6 range
A 17.9
(-3)
A 		57.7
(-1.7)
A 		46.6
(-2.1)
A 		81
(-1)
A 		157.1
(1.4)
A 		206.7
(3)
A 		189
B 86.3
(-1.3)
A 		47.6
(-2.2)
A 		17.2
(-3)
A 		75.6
(-1.5)
A 		158
(0.5)
P 		255.6
(3)
P 		238
C 92.1
(-0.8)
A 		70.1
(-1.5)
A 		23.6
(-3)
A 		82.1
(-1.2)
A 		214.2
(3)
P 		206.2
(2.7)
P 		191
avr 65.4
(-1.9) 		58.5
(-2.1) 		29.1
(-3) 		79.6
(-1.4) 		176.4
(1.6) 		222.8
(3) 		194
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 14.9
(0.6)
A 		21.2
(2.4)
A 		23.1
(3)
A 		3
(-3)
A 		20
B 5.1
(-3)
A 		11.9
(-0.1)
A 		19.3
(3)
A 		10.4
(-0.8)
A 		14
C 16.3
(-0.7)
A 		28.8
(1.2)
A 		40.8
(3)
A 		1.5
(-3)
A 		39
avr 12.1
(-1.1) 		20.6
(1.1) 		27.7
(3) 		5
(-3) 		23

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 92
1 2 3 4 5 6 range
A 3.3
(-3)
A 		20.5
(-0.8)
A 		10.1
(-2.1)
A 		20.5
(-0.8)
A 		47.4
(2.6)
A 		50.3
(3)
A 		47
B 30
(-1.3)
A 		15.9
(-2.2)
A 		4.2
(-3)
A 		20
(-2)
A 		64.2
(1)
P 		95.3
(3)
P 		91
C 34.1
(-0.3)
A 		21.4
(-1.5)
A 		6
(-3)
A 		16.5
(-2)
A 		69.3
(3)
P 		69
(3)
P 		63
avr 22.5
(-1.5) 		19.3
(-1.8) 		6.8
(-3) 		19
(-1.9) 		60.3
(2) 		71.5
(3) 		65
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173081_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28271
Sequence Type Exemplar sequence
Representative Public ID AV200946 NCBI
Target Description AV200946 /REP_DB=TREMBL Accession /FEA=EST Transcript /GB=AV200946 /DEF=Caenorhabditis elegans cDNA clone:yk583f11 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_060775(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060775 NCBI Caenorhabditis elegans DNA PRImase homolog family member (pri-2) (pri-2) mRNA, complete cds. 11/11 A 
SNAP00000003929 ENSEMBL cdna:SNAP chromosome:CEL140:I:12536511:12542321:-1 9/11 None
GENEFINDER00000003951 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12536511:12540248:-1 11/11 None
W02D9.1 ENSEMBL cdna:known chromosome:CEL140:I:12536438:12540303:-1 gene:W02D9.1 11/11 A 
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
chrI:12539376-12540146(-) 98.67 98.67
Public Domain and Genome References
Gene Title DNA primase 58 KD subunit
Gene Symbol pri-2
Ensembl W02D9.1
Entrez Gene 173122 Entrez gene
SwissProt O02334 EMBL-EBI
WormBase CE24028 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264969_AT DNA primase, large subunit family at
ATGENOME1:19571_AT DNA primase, large subunit family at
CANINE:1597644_AT similar to DNA primase large subunit (DNA primase 58 kDa subunit) (p58) cfa
CANINE_2:CFA.9056.1.A1_AT similar to DNA primase large subunit (DNA primase 58 kDa subunit) (p58) cfa
CANINE_2:CFAAFFX.4568.1.S1_AT similar to DNA primase large subunit (DNA primase 58 kDa subunit) (p58) cfa
DROSOPHILA_2:1624473_AT Saccharomyces cerevisiae UAS construct a of Chen dm
DROSGENOME1:153305_AT Saccharomyces cerevisiae UAS construct a of Chen dm
CHICKEN:GGA.2485.1.S1_S_AT primase, polypeptide 2A, 58kDa gga
CHICKEN:GGAAFFX.11681.1.S1_AT primase, polypeptide 2A, 58kDa gga
HG-U95AV2:122_AT primase, polypeptide 2A, 58kDa hs
HC-G110:122_AT primase, polypeptide 2A, 58kDa hs
HG-U95B:42358_AT primase, polypeptide 2A, 58kDa hs
HG-U133_PLUS_2:215708_S_AT primase, polypeptide 2A, 58kDa hs
HG-U133A_2:215708_S_AT primase, polypeptide 2A, 58kDa hs
HG-U133A:215708_S_AT primase, polypeptide 2A, 58kDa hs
HG-FOCUS:205628_AT primase, polypeptide 2A, 58kDa hs
HG-U133A_2:205628_AT primase, polypeptide 2A, 58kDa hs
HG-U133A:205628_AT primase, polypeptide 2A, 58kDa hs
HG-U133_PLUS_2:205628_AT primase, polypeptide 2A, 58kDa hs
HU35KSUBD:RC_AA255550_AT primase, polypeptide 2A, 58kDa hs
HU35KSUBD:RC_F10523_S_AT primase, polypeptide 2A, 58kDa hs
HUGENEFL:X74331_AT primase, polypeptide 2A, 58kDa hs
U133_X3P:G4506052_3P_AT primase, polypeptide 2A, 58kDa hs
U133_X3P:HS2.74519.2.S1_3P_AT primase, polypeptide 2A, 58kDa hs
U133_X3P:HS.74519.1.S1_3P_AT primase, polypeptide 2A, 58kDa hs
HG-U133_PLUS_2:1554884_AT primase, polypeptide 2A, 58kDa hs
HG-U133_PLUS_2:1554885_A_AT primase, polypeptide 2A, 58kDa hs
HG-U133A_2:215709_AT primase, polypeptide 2A, 58kDa hs
HG-U133_PLUS_2:215709_AT primase, polypeptide 2A, 58kDa hs
HG-U133A:215709_AT primase, polypeptide 2A, 58kDa hs
HG-U95AV2:36898_R_AT primase, polypeptide 2A, 58kDa hs
HG-U95D:70696_AT Primase, polypeptide 2A, 58kDa hs
MU11KSUBA:D17385_S_AT DNA primase, p58 subunit mm
MG-U74AV2:95549_AT DNA primase, p58 subunit mm
MOE430A:1418036_AT DNA primase, p58 subunit mm
MOUSE430A_2:1418036_AT DNA primase, p58 subunit mm
MOUSE430_2:1418036_AT DNA primase, p58 subunit mm
MOE430A:1418035_A_AT DNA primase, p58 subunit mm
MOUSE430A_2:1418035_A_AT DNA primase, p58 subunit mm
MOUSE430_2:1418035_A_AT DNA primase, p58 subunit mm
MOE430B:1445474_AT DNA primase, p58 subunit mm
MOUSE430_2:1445474_AT DNA primase, p58 subunit mm
MU11KSUBB:MSA.32561.0_S_AT DNA primase, p58 subunit, mRNA (cDNA clone MGC:18491 IMAGE:3602929) mm
MU19KSUBA:TC16964_AT DNA primase, p58 subunit, mRNA (cDNA clone MGC:18491 IMAGE:3602929) mm
MU19KSUBA:TC16964_G_AT DNA primase, p58 subunit, mRNA (cDNA clone MGC:18491 IMAGE:3602929) mm
MU19KSUBA:TC18082_S_AT DNA primase, p58 subunit, mRNA (cDNA clone MGC:18491 IMAGE:3602929) mm
RG-U34A:AJ011607_G_AT DNA primase, p58 subunit rn
RG-U34A:AJ011607_AT DNA primase, p58 subunit rn
RG-U34C:RC_AI177134_AT DNA primase, p58 subunit rn
RAE230A:1388911_AT DNA primase, p58 subunit rn
RAT230_2:1388911_AT DNA primase, p58 subunit rn
YEAST_2:1770765_AT Subunit of DNA primase, which is required for DNA synthesis and double-strand break repair Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6269 DNA replication, synthesis of RNA primer inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5658 alpha DNA polymerase:primase complex inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3896 DNA primase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03469 Hypothetical protein W02D9.1 [Caenorhabditis elegans] ref|NP_493176.1| DNA PRImase homolog family member (pri-2) [Caenorhabditis elegans] sp|O02334|PRI2_CAEEL DNA primase large subunit 0.0
blast G87948 protein W02D9.1 [imported] - Caenorhabditis elegans 0.0
blast CAE64111 Hypothetical protein CBG08720 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR007238 EMBL-EBI Eukaryotic-type DNA primase, large subunit 1.0E-126
Pfam IPR007238 EMBL-EBI Eukaryotic-type DNA primase, large subunit 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:173081_S_AT
tctcctcgaatcggcaaagtataaagacagctcccacgaaagcagcggaaattccagaat
accttcaattgtatcagacgccaccaggagatgatatttcgctcacagagttcgacgata
tcgccatggaacggctgaaattgctgaaaagctttgaaaatctcaaggatagtgtttcgt
tgtataacgatgagttcaaggataaatttcggaaattatgcgatggaactaagctcattg
tttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTCCTCGAATCGGCAAAGTATAAA 29 611 38 Antisense
GGCAAAGTATAAAGACAGCTCCCAC 5 535 50 Antisense
GCGGAAATTCCAGAATACCTTCAAT 235 287 82 Antisense
ACCTTCAATTGTATCAGACGCCACC 675 85 98 Antisense
ATTGTATCAGACGCCACCAGGAGAT 577 3 105 Antisense
ACGCCACCAGGAGATGATATTTCGC 398 91 115 Antisense
GATATTTCGCTCACAGAGTTCGACG 201 427 130 Antisense
CAGAGTTCGACGATATCGCCATGGA 154 207 143 Antisense
GATATCGCCATGGAACGGCTGAAAT 709 425 154 Antisense
ATCTCAAGGATAGTGTTTCGTTGTA 104 31 197 Antisense
GCGATGGAACTAAGCTCATTGTTTT 242 291 257 Antisense
Sequence Source Affymetrix Proprietary Database