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[193615_at] Human activator 1 38 KD subunit like

Description C39E9.13 /REP_DB=WormBase Gene ID /WP=CE05396 /GEN=rfc-3 /TR=Q18547 /GB=CAA94339.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Human activator 1 38 KD subunit like
Cluster 6grp_highest_10_10 > 88      6grp_high1_10_10 > 88      4grp_highest_8_8 > 10      4grp_high_8_8 > 54      6grp_highest_nonorm > 98      6grp_total > 87      4grp_total > 57      6grp_highest_sub > Da      6grp_cgc > 69      6grp_high1_sub > Da      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.
4 356
1 2 3 4 range
A 521.8
(-2.8)
P 		776.1
(3)
P 		694.4
(1.1)
P 		511.8
(-3)
P 		264
B 584.3
(-0.7)
P 		683.9
(1.5)
P 		752.6
(3)
P 		477.3
(-3)
P 		275
C 506.9
(-3)
P 		649.5
(-0.4)
P 		833.5
(3)
P 		579.9
(-1.7)
P 		327
avr 537.7
(-2.6) 		703.2
(1.6) 		760.2
(3) 		523
(-3) 		237

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1572
1 2 3 4 5 6 range
A 505.1
(-2.5)
P 		449.1
(-2.8)
P 		403
(-3)
P 		664.4
(-1.8)
P 		1256.4
(1)
P 		1672.8
(3)
P 		1270
B 517
(-2.3)
P 		365.4
(-3)
P 		423
(-2.7)
P 		613.2
(-1.8)
P 		1176
(1)
P 		1595.8
(3)
P 		1230
C 559.8
(-2.2)
P 		351.6
(-3)
P 		501.7
(-2.4)
P 		619.1
(-2)
P 		1022.2
(-0.4)
P 		1923.9
(3)
P 		1572
avr 527.3
(-2.4) 		388.7
(-3) 		442.6
(-2.8) 		632.2
(-1.9) 		1151.5
(0.4) 		1730.8
(3) 		1342
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 216
1 2 3 4 range
A 190
(3)
P 		168.5
(1.9)
P 		181.5
(2.6)
P 		74.9
(-3)
P 		115
B 186.3
(3)
P 		168.9
(1.8)
P 		174.4
(2.2)
P 		101.7
(-3)
P 		85
C 167.8
(-0.8)
P 		186.7
(-0.2)
P 		290.5
(3)
P 		97.8
(-3)
P 		193
avr 181.4
(1.4) 		174.7
(1) 		215.5
(3) 		91.5
(-3) 		124

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 556
1 2 3 4 5 6 range
A 93.1
(-2.9)
P 		159.7
(-1.6)
P 		87.8
(-3)
P 		168.5
(-1.5)
P 		379.1
(2.5)
P 		407.3
(3)
P 		320
B 179.9
(-2.1)
P 		121.6
(-2.8)
P 		102.7
(-3)
P 		162.4
(-2.3)
P 		477.8
(1.6)
P 		595.1
(3)
P 		492
C 207.5
(-1.9)
P 		107.3
(-3)
P 		127.7
(-2.8)
P 		124.5
(-2.8)
P 		330.8
(-0.5)
P 		644.1
(3)
P 		537
avr 160.2
(-2.3) 		129.5
(-2.7) 		106.1
(-3) 		151.8
(-2.4) 		395.9
(0.9) 		548.8
(3) 		443
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193615_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9729
Sequence Type Exemplar sequence
Representative Public ID C39E9.13 NCBI
Target Description C39E9.13 /REP_DB=WormBase Gene ID /WP=CE05396 /GEN=rfc-3 /TR=Q18547 /GB=CAA94339.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Human activator 1 38 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_070116(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070116 NCBI Caenorhabditis elegans RFC (DNA replication factor) family member (rfc-3) (rfc-3) mRNA, complete cds. 11/11 None
SNAP00000026312 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13095739:13096908:1 11/11 None
GENEFINDER00000026318 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13093981:13096908:1 11/11 None
C39E9.13 ENSEMBL cdna:known chromosome:CEL140:IV:13095732:13096967:1 gene:C39E9.13 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
chrIV:13095744-13096914(+) 100.0 100.0
Public Domain and Genome References
Gene Title Human activator 1 38 KD subunit like
Gene Symbol rfc-3
Ensembl C39E9.13
Entrez Gene 178259 Entrez gene
SwissProt Q18547 EMBL-EBI
WormBase CE05396 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:246738_AT expressed protein at
CANINE:1596438_S_AT similar to Activator 1 38 kDa subunit (Replication factor C 38 kDa subunit) (A1 38 kDa subunit) (RF-C 38 kDa subunit) (RFC38) (Replication factor C subunit 3) cfa
CANINE:1596437_AT similar to Activator 1 38 kDa subunit (Replication factor C 38 kDa subunit) (A1 38 kDa subunit) (RF-C 38 kDa subunit) (RFC38) (Replication factor C subunit 3) cfa
CANINE:1589889_AT similar to Activator 1 38 kDa subunit (Replication factor C 38 kDa subunit) (A1 38 kDa subunit) (RF-C 38 kDa subunit) (RFC38) (Replication factor C subunit 3) cfa
CANINE_2:CFA.14188.1.A1_A_AT similar to Activator 1 38 kDa subunit (Replication factor C 38 kDa subunit) (A1 38 kDa subunit) (RF-C 38 kDa subunit) (RFC38) (Replication factor C subunit 3) cfa
CANINE_2:CFA.14188.2.A1_S_AT similar to Activator 1 38 kDa subunit (Replication factor C 38 kDa subunit) (A1 38 kDa subunit) (RF-C 38 kDa subunit) (RFC38) (Replication factor C subunit 3) cfa
CANINE_2:CFAAFFX.10401.1.S1_AT similar to Activator 1 38 kDa subunit (Replication factor C 38 kDa subunit) (A1 38 kDa subunit) (RF-C 38 kDa subunit) (RFC38) (Replication factor C subunit 3) cfa
DROSOPHILA_2:1634081_AT Replication factor C 38kD subunit dm
DROSGENOME1:153584_AT Replication factor C 38kD subunit dm
CHICKEN:GGAAFFX.12497.1.S1_S_AT replication factor C (activator 1) 3, 38kDa gga
HG-U133_PLUS_2:204127_AT replication factor C (activator 1) 3, 38kDa hs
HG-U133A:204127_AT replication factor C (activator 1) 3, 38kDa hs
HG-FOCUS:204127_AT replication factor C (activator 1) 3, 38kDa hs
HG-U133A_2:204127_AT replication factor C (activator 1) 3, 38kDa hs
HG-U133_PLUS_2:204128_S_AT replication factor C (activator 1) 3, 38kDa hs
HG-U133A:204128_S_AT replication factor C (activator 1) 3, 38kDa hs
HG-U133A_2:204128_S_AT replication factor C (activator 1) 3, 38kDa hs
HU35KSUBC:RC_AA443939_S_AT replication factor C (activator 1) 3, 38kDa hs
HU35KSUBD:RC_AA284970_AT replication factor C (activator 1) 3, 38kDa hs
HUGENEFL:L07541_AT replication factor C (activator 1) 3, 38kDa hs
U133_X3P:G4506488_3P_A_AT replication factor C (activator 1) 3, 38kDa hs
U133_X3P:G12803002_3P_AT replication factor C (activator 1) 3, 38kDa hs
U133_X3P:HS.111458.0.A1_3P_AT replication factor C (activator 1) 3, 38kDa hs
HG-U133_PLUS_2:231119_AT replication factor C (activator 1) 3, 38kDa hs
HG-U133B:231119_AT replication factor C (activator 1) 3, 38kDa hs
HG-U95AV2:39269_AT replication factor C (activator 1) 3, 38kDa hs
HG-U95B:58785_AT replication factor C (activator 1) 3, 38kDa hs
HG-U95E:78367_AT replication factor C (activator 1) 3, 38kDa hs
HG-U133_PLUS_2:243253_AT Replication factor C (activator 1) 3, 38kDa hs
HG-U133B:243253_AT Replication factor C (activator 1) 3, 38kDa hs
HG-U95B:46798_AT Replication factor C (activator 1) 3, 38kDa hs
HG-U95E:79304_AT Replication factor C (activator 1) 3, 38kDa hs
HU35KSUBD:RC_AA287627_AT Replication factor C (activator 1) 3, 38kDa hs
U133_X3P:HS.191907.0.A1_3P_AT Replication factor C (activator 1) 3, 38kDa hs
U133_X3P:HS.191907.0.A1_3P_X_AT Replication factor C (activator 1) 3, 38kDa hs
MG-U74AV2:160072_AT replication factor C (activator 1) 3 mm
MOUSE430A_2:1432538_A_AT replication factor C (activator 1) 3 mm
MOE430A:1432538_A_AT replication factor C (activator 1) 3 mm
MOUSE430_2:1432538_A_AT replication factor C (activator 1) 3 mm
MU11KSUBB:MSA.7761.0_S_AT replication factor C (activator 1) 3 mm
MU11KSUBB:MSA.3756.0_S_AT replication factor C (activator 1) 3 mm
MOE430A:1423700_AT replication factor C (activator 1) 3 mm
MOUSE430A_2:1423700_AT replication factor C (activator 1) 3 mm
MOUSE430_2:1423700_AT replication factor C (activator 1) 3 mm
MU19KSUBC:TC35972_AT Replication factor C (activator 1) 3, mRNA (cDNA clone MGC:25594 IMAGE:4015134) mm
MU19KSUBC:TC35972_G_AT Replication factor C (activator 1) 3, mRNA (cDNA clone MGC:25594 IMAGE:4015134) mm
MU19KSUBC:TC41336_AT Replication factor C (activator 1) 3, mRNA (cDNA clone MGC:25594 IMAGE:4015134) mm
RG-U34C:RC_AI103093_AT replication factor C (activator 1) 3 (predicted) rn
RAE230A:1389326_AT replication factor C (activator 1) 3 (predicted) rn
RAT230_2:1389326_AT replication factor C (activator 1) 3 (predicted) rn
YEAST_2:1778143_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
Protein Similarities
Method ID Description E-Value
blast CAA94339 Hypothetical protein C39E9.13 [Caenorhabditis elegans] ref|NP_502517.1| RFC (DNA replication factor) family member (rfc-3) [Caenorhabditis elegans] 0.0
blast CAA94338 Hypothetical protein C39E9.12 [Caenorhabditis elegans] ref|NP_502516.1| C39E9.12 [Caenorhabditis elegans] 0.0
blast CAE58658 Hypothetical protein CBG01827 [Caenorhabditis briggsae] 1.0E-174
blast XP_690727 PREDICTED: similar to Replication factor C (activator 1) 3 [Danio rerio] 1.0E-101
Protein Domains
Database ID Description E-Value
Pfam IPR003034 EMBL-EBI DNA-binding SAP 2.2E-10
Sequence
Target Sequence 
>C. ELEGANS:193615_AT
gctcaacacggacttcgtcgaactatggagaagtacgcgaataactgtaaaatcgttttg
agctgtgaatccctgtcccgtatcattgagccacttcaatctcgttgcatcatcatcaat
gtgccagctccaaccgatgaagatgtgaccaaagtcttgcggaaagtgattgaacgggag
agctttctacttccggagaacgttttgcaaaagattgtggagaagtctgaaggaaatctg
agaagagctattctgatgactgaggctttaagaatggagaacgagagtggtgtggctgaa
agtgtagtaattccggttccggaatgggagatttatatccaagagactgctcgtctgatc
ctccagaaacagagctccgatatgcttctgaaagttcgcgaacgattgtacgaattgctc
tccagatgtattccaccaactgtcatttttaagaaacttctcgagcatctccttcccaaa
tgtccgccacaaattgcacgtgaagttgtcagtgaagcagcgaaattcgagcatcgcctt
gttctcggacaaaaagcaattttccatcttgaaggattcgtcgccgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTCAACACGGACTTCGTCGAACTA 242 297 448 Antisense
TCGTTTTGAGCTGTGAATCCCTGTC 537 603 500 Antisense
CCACTTCAATCTCGTTGCATCATCA 347 275 538 Antisense
TCATCATCAATGTGCCAGCTCCAAC 333 621 557 Antisense
AGAGCTTTCTACTTCCGGAGAACGT 89 63 626 Antisense
AATTGCTCTCCAGATGTATTCCACC 294 179 860 Antisense
GTATTCCACCAACTGTCATTTTTAA 303 453 875 Antisense
AAGAAACTTCTCGAGCATCTCCTTC 171 153 898 Antisense
AATGTCCGCCACAAATTGCACGTGA 330 163 926 Antisense
GAAATTCGAGCATCGCCTTGTTCTC 532 363 969 Antisense
TCCATCTTGAAGGATTCGTCGCCGC 699 589 1010 Antisense
Sequence Source Affymetrix Proprietary Database