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[172963_x_at] RNA polymerases I, II and III shared polypeptide (approx 7kd)

Description F23B2.13 /REP_DB=WormBase Gene ID /WP=CE20710 /TR=Q9U3I0 /GB=CAB51465.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=RNA polymerases I, II and III shared polypeptide (approx 7kd)
Cluster 6grp_highest_10_10 > 73      6grp_high1_10_10 > 37      4grp_highest_8_8 > 02      4grp_high_8_8 > 46      6grp_highest_nonorm > 77      6grp_total > 45      4grp_total > 49      6grp_highest_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1737
1 2 3 4 range
A 1478.9
(-3)
P 		3216.1
(3)
P 		2592.7
(0.8)
P 		1746.8
(-2.1)
P 		1737
B 1646.8
(-2.7)
P 		2088.9
(-0.3)
P 		2728.7
(3)
P 		1581.7
(-3)
P 		1147
C 1675.7
(-3)
P 		2194.1
(3)
P 		2005.2
(0.8)
P 		1801.1
(-1.5)
P 		518
avr 1600.5
(-3) 		2499.7
(3) 		2442.2
(2.6) 		1709.9
(-2.3) 		899

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 774
1 2 3 4 5 6 range
A 1533.5
(3)
P 		1343.8
(-0)
P 		1386.7
(0.6)
P 		1254.5
(-1.5)
P 		1158.7
(-3)
P 		1259.4
(-1.4)
P 		375
B 1465.1
(2.4)
P 		1362.1
(1.3)
P 		1480.6
(2.6)
P 		968
(-3)
P 		1517
(3)
P 		1396.9
(1.7)
P 		549
C 1442.3
(-0.5)
P 		1250
(-2.7)
P 		1460.7
(-0.3)
P 		1227.6
(-3)
P 		1286.4
(-2.3)
P 		1742.3
(3)
P 		515
avr 1480.3
(3) 		1318.6
(0.1) 		1442.7
(2.3) 		1150
(-3) 		1320.7
(0.1) 		1466.2
(2.7) 		330
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 443
1 2 3 4 range
A 538.5
(0.8)
P 		698.1
(3)
P 		677.8
(2.7)
P 		255.7
(-3)
P 		442
B 525.2
(0.8)
P 		515.9
(0.6)
P 		632.3
(3)
P 		337.1
(-3)
P 		295
C 554.7
(0.8)
P 		630.8
(2)
P 		698.9
(3)
P 		303.7
(-3)
P 		395
avr 539.5
(0.9) 		614.9
(2.1) 		669.7
(3) 		298.8
(-3) 		371

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 369
1 2 3 4 5 6 range
A 282.7
(-3)
P 		477.9
(3)
P 		302
(-2.4)
P 		318.2
(-1.9)
P 		349.6
(-0.9)
P 		306.6
(-2.3)
P 		195
B 509.8
(1.2)
P 		453.4
(0.3)
P 		359.5
(-1.3)
P 		256.4
(-3)
P 		616.3
(3)
P 		520.9
(1.4)
P 		360
C 534.6
(2.1)
P 		381.4
(-0.6)
P 		371.8
(-0.8)
P 		246.9
(-3)
P 		416.3
(0)
P 		583.2
(3)
P 		336
avr 442.4
(2.2) 		437.6
(2) 		344.4
(-0.8) 		273.8
(-3) 		460.7
(2.7) 		470.2
(3) 		196
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172963_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10281
Sequence Type Exemplar sequence
Representative Public ID F23B2.13 NCBI
Target Description F23B2.13 /REP_DB=WormBase Gene ID /WP=CE20710 /TR=Q9U3I0 /GB=CAB51465.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=RNA polymerases I, II and III shared polypeptide (approx 7kd)
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_069192(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069192 NCBI Caenorhabditis elegans F23B2.13 (F23B2.13) mRNA, complete cds. 11/11 None
SNAP00000024644 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9146455:9146849:-1 11/11 None
GENEFINDER00000024658 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9146455:9146849:-1 11/11 None
F23B2.13 ENSEMBL cdna:known chromosome:CEL140:IV:9146455:9146849:-1 gene:F23B2.13 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:9146460-9146855(-) 100.0 100.0
Public Domain and Genome References
Gene Title RNA polymerases I, II and III shared polypeptide (approx 7kd)
Ensembl F23B2.13
Entrez Gene 184886 Entrez gene
SwissProt Q9U3I0 EMBL-EBI
WormBase CE20710 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
6350 transcription 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
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3899 DNA-directed RNA polymerase activity inferred from electronic annotation QuickGO AmiGO
5489 electron transporter activity inferred from electronic annotation QuickGO AmiGO
20037 heme binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB51465 Hypothetical protein F23B2.13 [Caenorhabditis elegans] ref|NP_501593.1| F23B2.13 [Caenorhabditis elegans] 1.0E-31
blast CAE74118 Hypothetical protein CBG21781 [Caenorhabditis briggsae] 1.0E-30
blast AAH28543 Polymerase (RNA) II (DNA directed) polypeptide K [Mus musculus] dbj|BAB22516.1| unnamed protein product [Mus musculus] sp|Q63871|RPC10_MOUSE DNA-directed RNA polymerases I, II, and III 7.0 kDa polypeptide (ABC10-alpha) (RPB7.0) (Metallothionein-I gene transcription activator) 1.0E-15
Protein Domains
Database ID Description E-Value
Pfam IPR003221 EMBL-EBI DNA directed RNA polymerase, 7 kDa subunit 1.4E-21
Sequence
Target Sequence 
>C. ELEGANS:172963_X_AT
caggtcaagctcatctcaagtcaaacagtatgatctacatttgtggagaatgccacgccg
aaaatgaaatcaaaccgaaagacgccattcgctgcagagaatgcggatatcgtattctat
acaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAGGTCAAGCTCATCTCAAGTCAAA 79 209 38 Antisense
CAAGCTCATCTCAAGTCAAACAGTA 472 185 43 Antisense
AAGTCAAACAGTATGATCTACATTT 327 157 55 Antisense
ACATTTGTGGAGAATGCCACGCCGA 601 105 74 Antisense
TGGAGAATGCCACGCCGAAAATGAA 253 547 81 Antisense
AATGCCACGCCGAAAATGAAATCAA 558 165 86 Antisense
CAAACCGAAAGACGCCATTCGCTGC 532 191 108 Antisense
CCGAAAGACGCCATTCGCTGCAGAG 594 263 112 Antisense
GACGCCATTCGCTGCAGAGAATGCG 139 381 118 Antisense
ATTCGCTGCAGAGAATGCGGATATC 186 7 124 Antisense
AATGCGGATATCGTATTCTATACAA 49 167 137 Antisense
Sequence Source Affymetrix Proprietary Database