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[193785_s_at] replication factor C 140 KD subunit like

Description C54G10.2 /REP_DB=WormBase Gene ID /WP=CE20613 /GEN=rfc-1 /TR=Q18841 /GB=CAA99812.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=replication factor C 140 KD subunit like
Cluster 6grp_highest_10_10 > 77      6grp_high1_10_10 > 77      4grp_highest_8_8 > 36      4grp_high_8_8 > 0      6grp_highest_nonorm > 94      6grp_total > 77      4grp_total > 15      6grp_highest_sub > Da      6grp_cgc > 48      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 188
1 2 3 4 range
A 592
(2.6)
P 		448.8
(-3)
P 		602.3
(3)
P 		576.5
(2)
P 		154
B 579.8
(3)
P 		432.2
(-2.4)
P 		415.2
(-3)
P 		518
(0.7)
P 		165
C 598.3
(3)
P 		414.7
(-3)
P 		525.5
(0.6)
P 		472.4
(-1.1)
P 		184
avr 590
(3) 		431.9
(-3) 		514.3
(0.1) 		522.3
(0.4) 		158

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 921
1 2 3 4 5 6 range
A 380
(-2.8)
P 		585
(-1.4)
P 		353.3
(-3)
P 		575.6
(-1.5)
P 		487.3
(-2.1)
P 		1228.7
(3)
P 		875
B 411.1
(-2)
P 		307.9
(-3)
P 		333.1
(-2.8)
P 		464.1
(-1.5)
P 		478.2
(-1.4)
P 		942.4
(3)
P 		635
C 474.8
(-1.6)
P 		320.5
(-3)
P 		539.3
(-1)
P 		439.7
(-1.9)
P 		627.4
(-0.1)
P 		963.8
(3)
P 		643
avr 422
(-2.8) 		404.5
(-3) 		408.6
(-3) 		493.1
(-2.2) 		531
(-1.8) 		1045
(3) 		641
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 136
1 2 3 4 range
A 215.5
(3)
P 		97.4
(-2.4)
P 		157.4
(0.3)
P 		84.4
(-3)
P 		131
B 184.9
(3)
P 		106.7
(-2.3)
P 		96.2
(-3)
P 		110.4
(-2)
P 		89
C 198
(3)
P 		119.2
(-1)
P 		183.2
(2.2)
P 		79.7
(-3)
P 		118
avr 199.5
(3) 		107.8
(-2.1) 		145.6
(0) 		91.5
(-3) 		108

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 281
1 2 3 4 5 6 range
A 70
(-3)
P 		208
(0.6)
P 		76.9
(-2.8)
P 		146
(-1)
P 		147
(-1)
P 		299.2
(3)
P 		229
B 143
(-1.6)
P 		102.5
(-2.5)
P 		80.9
(-3)
P 		122.9
(-2.1)
P 		194.3
(-0.5)
P 		351.4
(3)
P 		271
C 176
(-0.8)
P 		97.8
(-2.8)
P 		137.3
(-1.7)
P 		88.4
(-3)
P 		203
(-0.1)
P 		322.6
(3)
P 		234
avr 129.7
(-2.2) 		136.1
(-2) 		98.4
(-3) 		119.1
(-2.5) 		181.4
(-0.8) 		324.4
(3) 		226
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193785_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13519
Sequence Type Exemplar sequence
Representative Public ID C54G10.2 NCBI
Target Description C54G10.2 /REP_DB=WormBase Gene ID /WP=CE20613 /GEN=rfc-1 /TR=Q18841 /GB=CAA99812.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=replication factor C 140 KD subunit like
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_074218(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074218 NCBI Caenorhabditis elegans RFC (DNA replication factor) family member (rfc-1) (rfc-1) mRNA, complete cds. 11/11 None
SNAP00000017885 ENSEMBL cdna:SNAP chromosome:CEL140:V:14645393:14648334:-1 11/11 None
GENEFINDER00000017891 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:14645393:14649408:-1 11/11 None
C54G10.2 ENSEMBL cdna:known chromosome:CEL140:V:14645329:14648476:-1 gene:C54G10.2 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
chrV:14645392-14648334(-) 100.0 100.0
Public Domain and Genome References
Gene Title replication factor C 140 KD subunit like
Gene Symbol rfc-1
Ensembl C54G10.2
Entrez Gene 179967 Entrez gene
SwissProt Q18841 EMBL-EBI
WormBase CE20613 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1604577_AT similar to replication factor C large subunit cfa
CANINE:1600698_AT similar to replication factor C large subunit cfa
CANINE_2:CFA.19342.1.S1_S_AT similar to replication factor C large subunit cfa
CANINE_2:CFA.19342.2.A1_S_AT similar to replication factor C large subunit cfa
CANINE_2:CFA.2351.1.S1_AT similar to replication factor C large subunit cfa
CANINE_2:CFAAFFX.24662.1.S1_S_AT similar to replication factor C large subunit cfa
CANINE_2:CFAAFFX.24671.1.S1_S_AT similar to replication factor C large subunit cfa
DROSOPHILA_2:1623086_AT Germ line transcription factor 1 dm
DROSGENOME1:152067_AT Germ line transcription factor 1 dm
CHICKEN:GGA.1913.1.S1_S_AT replication factor C (activator 1) 1, 145kDa gga
CHICKEN:GGAAFFX.20533.1.S1_S_AT replication factor C (activator 1) 1, 145kDa gga
HG-U133_PLUS_2:208133_AT replication factor C (activator 1) 1, 145kDa hs
HG-U133A:208133_AT replication factor C (activator 1) 1, 145kDa hs
HG-FOCUS:208133_AT replication factor C (activator 1) 1, 145kDa hs
HG-U133A_2:208133_AT replication factor C (activator 1) 1, 145kDa hs
HG-U95AV2:31348_AT replication factor C (activator 1) 1, 145kDa hs
HG-U133A:209085_X_AT replication factor C (activator 1) 1, 145kDa hs
HG-U133_PLUS_2:209085_X_AT replication factor C (activator 1) 1, 145kDa hs
HG-U133A_2:209085_X_AT replication factor C (activator 1) 1, 145kDa hs
HG-U133_PLUS_2:208021_S_AT replication factor C (activator 1) 1, 145kDa hs
HG-U133A:208021_S_AT replication factor C (activator 1) 1, 145kDa hs
HG-FOCUS:208021_S_AT replication factor C (activator 1) 1, 145kDa hs
HG-U133A_2:208021_S_AT replication factor C (activator 1) 1, 145kDa hs
HU35KSUBA:L14922_AT replication factor C (activator 1) 1, 145kDa hs
HUGENEFL:L14922_AT replication factor C (activator 1) 1, 145kDa hs
HUGENEFL:X75917_AT replication factor C (activator 1) 1, 145kDa hs
HUGENEFL:L24783_AT replication factor C (activator 1) 1, 145kDa hs
U133_X3P:G5174562_3P_AT replication factor C (activator 1) 1, 145kDa hs
U133_X3P:G4506484_3P_S_AT replication factor C (activator 1) 1, 145kDa hs
U133_X3P:G307337_3P_S_AT replication factor C (activator 1) 1, 145kDa hs
U133_X3P:HS.166563.0.S1_3P_S_AT replication factor C (activator 1) 1, 145kDa hs
HG-U95AV2:40449_AT replication factor C (activator 1) 1, 145kDa hs
MOUSE430_2:1451920_A_AT replication factor C 1 mm
MOE430A:1451920_A_AT replication factor C 1 mm
MOUSE430A_2:1451920_A_AT replication factor C 1 mm
MU11KSUBB:X72711_S_AT replication factor C 1 mm
MG-U74AV2:98336_S_AT replication factor C 1 mm
MG-U74AV2:98335_AT replication factor C 1 mm
MOE430A:1418342_AT replication factor C 1 mm
MOUSE430A_2:1418342_AT replication factor C 1 mm
MOUSE430_2:1418342_AT replication factor C 1 mm
MOE430A:1449050_AT replication factor C 1 mm
MOUSE430A_2:1449050_AT replication factor C 1 mm
MOUSE430_2:1449050_AT replication factor C 1 mm
MU19KSUBB:TC30331_S_AT Replication factor C 1 (Recc1), mRNA mm
MU19KSUBB:TC33394_AT Replication factor C 1 (Recc1), mRNA mm
MU19KSUBB:TC33394_G_AT Replication factor C 1 (Recc1), mRNA mm
RG-U34A:AF059678_S_AT replication factor C 1 rn
RG-U34A:AF030050_AT replication factor C 1 rn
RAE230A:1391078_AT replication factor C 1 rn
RAT230_2:1391078_AT replication factor C 1 rn
RAE230A:1370591_AT replication factor C 1 rn
RAT230_2:1370591_AT replication factor C 1 rn
RAE230A:1374919_AT Replication factor C 1 rn
RAT230_2:1374919_AT Replication factor C 1 rn
RT-U34:RC_AA859632_AT Replication factor C 1 rn
RG-U34A:RC_AA859632_AT Replication factor C 1 rn
YEAST_2:1771438_AT Subunit of heteropentameric Replication factor C (RF-C), which is a DNA binding protein and ATPase that acts as a clamp loader of the proliferating cell nuclear antigen (PCNA) processivity factor for DNA polymerases delta and epsilon Sc
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
166 nucleotide binding inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA99812 Hypothetical protein C54G10.2 [Caenorhabditis elegans] ref|NP_506619.1| RFC (DNA replication factor) family member (rfc-1) [Caenorhabditis elegans] 0.0
blast CAE60858 Hypothetical protein CBG04569 [Caenorhabditis briggsae] 0.0
blast XP_689475 PREDICTED: similar to replication factor C large subunit [Danio rerio] 1.0E-107
Protein Domains
Database ID Description E-Value
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 2.1E-21
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 2.1E-21
Sequence
Target Sequence 
>C. ELEGANS:193785_S_AT
caatgattcagttcccatcgtggttgggaaaaaactcgacagctggaaaacggaagagat
tgcttcagcaactggttcaacacacacatctcaaagtttctgctggtactcactcatttg
ccactgattatgctccaatgctccgtcagaaaataacgaaaccacttcttgaacatgaag
ctgatggaattccagatgtgatcagcacaatgacagaatacgatctcatcaaagacgaca
ctgaagcactcacagaaattgttgcttggcctggaaaaattgatccggctagtaaaattt
tgagtaaggtgaaagcatcattgactagaactctaaacaagactggtcgaatgcttccat
actcgatggattctgtgtcaaaaggaaagaaacgaggtgtgaattcaattggaattgaaa
tggacgaagaaggaaatctagtggagaaatttgaagatgaagatggagaatccgataatg
aggataacgaggagaaaactactgatgttgttattaaagttaggactggtggaggtgccg
gagcttcaaaatctgctcgaggtggacgtggtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAATGATTCAGTTCCCATCGTGGTT 151 183 1922 Antisense
GCAACTGGTTCAACACACACATCTC 647 319 1989 Antisense
TCTGCTGGTACTCACTCATTTGCCA 326 609 2020 Antisense
CATTTGCCACTGATTATGCTCCAAT 230 215 2036 Antisense
TGCTCCAATGCTCCGTCAGAAAATA 149 583 2052 Antisense
TAACGAAACCACTTCTTGAACATGA 456 571 2075 Antisense
AAGACGACACTGAAGCACTCACAGA 268 153 2153 Antisense
GAAATTGTTGCTTGGCCTGGAAAAA 553 363 2176 Antisense
AGACTGGTCGAATGCTTCCATACTC 51 71 2261 Antisense
TAGGACTGGTGGAGGTGCCGGAGCT 352 637 2442 Antisense
AAATCTGCTCGAGGTGGACGTGGTG 119 117 2470 Antisense
Sequence Source Affymetrix Proprietary Database