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[190813_at] replication factor A

Description F18A1.5 /REP_DB=WormBase Gene ID /WP=CE04405 /TR=SW:Q19537 /GB=AAB63407.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=replication factor A
Cluster 6grp_highest_10_10 > 87      6grp_high1_10_10 > 87      4grp_highest_8_8 > 25      4grp_high_8_8 > 59      6grp_highest_nonorm > 97      6grp_total > 87      4grp_total > 60      6grp_highest_sub > Da      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 380
1 2 3 4 range
A 873.3
(1.2)
P 		952.4
(3)
P 		843.9
(0.6)
P 		683.8
(-3)
P 		269
B 959.9
(3)
P 		753.7
(-3)
P 		848.4
(-0.2)
P 		763.8
(-2.7)
P 		206
C 873.4
(-0.2)
P 		891.9
(0.2)
P 		1063.5
(3)
P 		701.9
(-3)
P 		362
avr 902.2
(2.5) 		866
(1.4) 		918.6
(3) 		716.5
(-3) 		202

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 664
1 2 3 4 5 6 range
A 912.9
(-2.8)
P 		894.8
(-3)
P 		913.4
(-2.8)
P 		1063.3
(-0.8)
P 		988.3
(-1.8)
P 		1345.8
(3)
P 		451
B 840.7
(-2.2)
P 		846.4
(-2.2)
P 		773.9
(-3)
P 		819.4
(-2.5)
P 		1092.2
(0.6)
P 		1306.5
(3)
P 		533
C 1062.7
(-0.7)
P 		835.4
(-3)
P 		899.8
(-2.4)
P 		953.9
(-1.8)
P 		1125.2
(-0.1)
P 		1437.7
(3)
P 		602
avr 938.8
(-2) 		858.9
(-3) 		862.4
(-3) 		945.5
(-2) 		1068.6
(-0.5) 		1363.3
(3) 		504
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 271
1 2 3 4 range
A 318
(3)
P 		206.7
(-0.1)
P 		220.6
(0.3)
P 		100.1
(-3)
P 		218
B 306.1
(3)
P 		186.2
(-2)
P 		196.6
(-1.6)
P 		162.8
(-3)
P 		143
C 289.1
(1.1)
P 		256.4
(0.3)
P 		370.7
(3)
P 		118.4
(-3)
P 		252
avr 304.4
(3) 		216.4
(0) 		262.6
(1.6) 		127.1
(-3) 		177

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 319
1 2 3 4 5 6 range
A 168.3
(-3)
P 		318.2
(2.6)
P 		198.9
(-1.8)
P 		269.7
(0.8)
P 		298.2
(1.9)
P 		327.7
(3)
P 		159
B 292.5
(-0.9)
P 		281.7
(-1.1)
P 		187.9
(-3)
P 		217
(-2.4)
P 		443.7
(2.1)
P 		487.2
(3)
P 		299
C 393.9
(1.2)
P 		254.9
(-1.7)
P 		229
(-2.2)
P 		191.8
(-3)
P 		364.1
(0.6)
P 		481.3
(3)
P 		290
avr 284.9
(-0.9) 		284.9
(-0.9) 		205.3
(-3) 		226.2
(-2.4) 		368.7
(1.3) 		432.1
(3) 		227
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190813_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4899
Sequence Type Exemplar sequence
Representative Public ID F18A1.5 NCBI
Target Description F18A1.5 /REP_DB=WormBase Gene ID /WP=CE04405 /TR=SW:Q19537 /GB=AAB63407.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=replication factor A
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_063205(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063205 NCBI Caenorhabditis elegans F18A1.5 (F18A1.5) mRNA, complete cds. 11/11 None
SNAP00000013712 ENSEMBL cdna:SNAP chromosome:CEL140:II:7664510:7666851:1 11/11 None
GENEFINDER00000013722 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7664510:7666851:1 11/11 None
F18A1.5.3 ENSEMBL cdna:known chromosome:CEL140:II:7664493:7667018:1 gene:F18A1.5 11/11 None
F18A1.5.2 ENSEMBL cdna:known chromosome:CEL140:II:7664494:7667024:1 gene:F18A1.5 11/11 None
F18A1.5.1 ENSEMBL cdna:known chromosome:CEL140:II:7664500:7667024:1 gene:F18A1.5 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
chrII:7664506-7666848(+) 100.0 100.0
Public Domain and Genome References
Gene Title replication factor A
Ensembl F18A1.5
Entrez Gene 174238 Entrez gene
SwissProt Q19537 EMBL-EBI
WormBase CE04405 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:247606_AT replication protein, putative at
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6260 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
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB63407 Hypothetical protein F18A1.5 [Caenorhabditis elegans] ref|NP_495606.1| F18A1.5 [Caenorhabditis elegans] sp|Q19537|RFA1_CAEEL Probable replication factor A 73 kDa subunit (RP-A) (RF-A) (Replication factor-A protein 1) 0.0
blast CAA10466 F18A1.5 protein [Caenorhabditis briggsae] emb|CAA10310.1| F18A1.5 protein [Caenorhabditis briggsae] emb|CAE67510.1| Hypothetical protein CBG13026 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004365 EMBL-EBI OB-fold nucleic acid binding domain 1.0E-10
Sequence
Target Sequence 
>C. ELEGANS:190813_AT
gtctgaactctatgattggtacgcaaacgtgaaaccaaccactgaagttaagatgatgag
ccaagctgctggaggatccaatgaagctccacgtactattgcaggactccaagaaatgca
atttggaaaggattccgacaagggagattacgcaactgtcaaagcaatgattaccagagt
aaatcctacgaatgctctttatagaggatgcgcttcagagggttgccaaaagaaacttgt
gggagaaaatggtgactacagatgcgaaaagtgcaataagaacatgaacaagttcaagtg
gctgtacatgatgcagtttgaactttcggacgaaaccggacaggtctatgtcacagcttt
cggagatagtgctgcgaagattgttggaaaatcagctgcggagcttggagaattgcacga
tgaaagcccagatgagtacaacgctattttcgaacgccttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCTGAACTCTATGATTGGTACGCA 567 471 1356 Antisense
GTACGCAAACGTGAAACCAACCACT 307 295 1374 Antisense
AGATGATGAGCCAAGCTGCTGGAGG 602 65 1406 Antisense
GAGGATCCAATGAAGCTCCACGTAC 569 403 1427 Antisense
GCTCCACGTACTATTGCAGGACTCC 368 297 1441 Antisense
GGGAGATTACGCAACTGTCAAAGCA 640 495 1497 Antisense
GAGTAAATCCTACGAATGCTCTTTA 384 399 1532 Antisense
AGGATGCGCTTCAGAGGGTTGCCAA 267 57 1560 Antisense
GATGCAGTTTGAACTTTCGGACGAA 219 411 1665 Antisense
ACCGGACAGGTCTATGTCACAGCTT 15 89 1690 Antisense
TACAACGCTATTTTCGAACGCCTTC 424 641 1792 Antisense
Sequence Source Affymetrix Proprietary Database