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[192130_at] DNA directed RNA polymerase III

Description ZK856.10 /REP_DB=WormBase Gene ID /WP=CE06667 /TR=Q23645 /GB=CAA94858.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=DNA directed RNA polymerase III
Cluster 6grp_highest_10_10 > 68      6grp_high1_10_10 > 95      4grp_highest_8_8 > 46      4grp_high_8_8 > 02      6grp_highest_nonorm > 91      6grp_total > 76      4grp_total > 14      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 118
1 2 3 4 range
A 244.2
(3)
P 		152.5
(-2.7)
P 		146.9
(-3)
P 		231.3
(2.2)
P 		97
B 203.9
(0)
P 		154.2
(-2.5)
P 		145
(-3)
P 		262.6
(3)
P 		118
C 216.9
(0.4)
P 		193.1
(-3)
P 		235
(3)
P 		234.3
(2.9)
P 		42
avr 221.7
(1.3) 		166.6
(-3) 		175.6
(-2.3) 		242.7
(3) 		76

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 264
1 2 3 4 5 6 range
A 173.7
(-3)
P 		203.1
(-1.9)
P 		257.5
(0.2)
P 		332.2
(3)
P 		217.5
(-1.3)
P 		289.3
(1.4)
P 		159
B 219.2
(-1.7)
P 		184.8
(-3)
P 		205.9
(-2.2)
P 		207.2
(-2.1)
P 		302.8
(1.5)
P 		342.7
(3)
P 		158
C 231.3
(-2.2)
P 		236
(-2.1)
P 		200.9
(-3)
P 		283.9
(-0.9)
P 		242.6
(-1.9)
P 		437.3
(3)
P 		236
avr 208.1
(-3) 		208
(-3) 		221.4
(-2.5) 		274.4
(-0.3) 		254.3
(-1.1) 		356.4
(3) 		148
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 56
1 2 3 4 range
A 88.9
(3)
P 		33.1
(-3)
P 		38.4
(-2.4)
P 		33.9
(-2.9)
P 		56
B 65
(3)
P 		38.1
(-2.1)
P 		33.6
(-3)
P 		56
(1.3)
P 		31
C 71.8
(1.6)
P 		55.5
(-0.7)
P 		81.9
(3)
P 		39.5
(-3)
P 		42
avr 75.2
(3) 		42.2
(-3) 		51.3
(-1.3) 		43.1
(-2.8) 		33

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 114
1 2 3 4 5 6 range
A 32
(-3)
P 		72.2
(1.6)
P 		56.1
(-0.2)
P 		84.3
(3)
P 		65.6
(0.9)
P 		70.4
(1.4)
P 		52
B 76.3
(-1)
P 		61.5
(-2.1)
P 		50
(-3)
P 		54.9
(-2.6)
P 		123
(2.6)
P 		127.8
(3)
P 		78
C 85.7
(-0.8)
P 		72
(-1.7)
P 		51.1
(-3)
P 		57.1
(-2.6)
P 		78.5
(-1.3)
P 		146.4
(3)
P 		95
avr 64.7
(-1.8) 		68.6
(-1.4) 		52.4
(-3) 		65.4
(-1.8) 		89
(0.5) 		114.9
(3) 		63
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192130_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11814
Sequence Type Exemplar sequence
Representative Public ID ZK856.10 NCBI
Target Description ZK856.10 /REP_DB=WormBase Gene ID /WP=CE06667 /TR=Q23645 /GB=CAA94858.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=DNA directed RNA polymerase III
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_073224(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073224 NCBI Caenorhabditis elegans ZK856.10 (ZK856.10) mRNA, complete cds. 11/11 None
SNAP00000036952 ENSEMBL cdna:SNAP chromosome:CEL140:V:10208364:10209217:-1 11/11 None
GENEFINDER00000036969 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:10208364:10209181:-1 11/11 None
ZK856.10 ENSEMBL cdna:known chromosome:CEL140:V:10208263:10209181:-1 gene:ZK856.10 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:10208363-10209181(-) 100.0 100.0
Public Domain and Genome References
Gene Title DNA directed RNA polymerase III
Ensembl ZK856.10
Entrez Gene 179418 Entrez gene
SwissProt Q23645 EMBL-EBI
WormBase CE06667 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:260822_AT RNA polymerase Rpb7 N-terminal domain-containing protein at
CANINE:1585213_AT similar to polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) isoform b cfa
CANINE_2:CFA.11883.1.A1_AT similar to polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) isoform b cfa
CANINE_2:CFA.11883.1.A1_S_AT similar to polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) isoform b cfa
CANINE_2:CFAAFFX.2469.1.S1_AT similar to polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) isoform b cfa
DROSOPHILA_2:1638203_AT dm
DROSGENOME1:148591_AT dm
HG-U133_PLUS_2:232857_AT polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) hs
HG-U133B:232857_AT polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) hs
HG-U133_PLUS_2:225682_S_AT polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) hs
HG-U133B:225682_S_AT polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) hs
HU35KSUBA:H46787_AT polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) hs
HU35KSUBA:RC_AA379126_S_AT polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) hs
U133_X3P:HS.300463.2.A1_3P_A_AT polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) hs
U133_X3P:HS.300463.1.A2_3P_X_AT polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) hs
U133_X3P:HS.300463.1.A2_3P_AT polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) hs
U133_X3P:HS.300463.1.A1_3P_A_AT polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) hs
HG-U133_PLUS_2:225678_AT polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) hs
HG-U133B:225678_AT polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) hs
HG-U95B:44578_AT polymerase (RNA) III (DNA directed) polypeptide H (22.9kD) hs
MU11KSUBB:MSA.24390.0_AT polymerase (RNA) III (DNA directed) polypeptide H mm
MU11KSUBB:MSA.24390.0_G_AT polymerase (RNA) III (DNA directed) polypeptide H mm
MG-U74BV2:115214_AT polymerase (RNA) III (DNA directed) polypeptide H mm
MOE430A:1424227_AT polymerase (RNA) III (DNA directed) polypeptide H mm
MOUSE430A_2:1424227_AT polymerase (RNA) III (DNA directed) polypeptide H mm
MOUSE430_2:1424227_AT polymerase (RNA) III (DNA directed) polypeptide H mm
MOE430A:1424228_AT polymerase (RNA) III (DNA directed) polypeptide H mm
MOUSE430A_2:1424228_AT polymerase (RNA) III (DNA directed) polypeptide H mm
MOUSE430_2:1424228_AT polymerase (RNA) III (DNA directed) polypeptide H mm
MG-U74CV2:137672_AT Polymerase (RNA) III (DNA directed) polypeptide H (Polr3h), mRNA mm
MOE430B:1442102_AT Polymerase (RNA) III (DNA directed) polypeptide H (Polr3h), mRNA mm
MOUSE430_2:1442102_AT Polymerase (RNA) III (DNA directed) polypeptide H (Polr3h), mRNA mm
RG-U34B:RC_AA998556_AT polymerase (RNA) III (DNA directed) polypeptide H (predicted) rn
RAE230A:1399035_AT polymerase (RNA) III (DNA directed) polypeptide H (predicted) rn
RAT230_2:1399035_AT polymerase (RNA) III (DNA directed) polypeptide H (predicted) rn
YEAST_2:1776621_AT RNA polymerase III subunit C25 Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6350 transcription inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3899 DNA-directed RNA polymerase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA94858 Hypothetical protein ZK856.10 [Caenorhabditis elegans] ref|NP_505625.1| ZK856.10 [Caenorhabditis elegans] 1.0E-123
blast BAE31279.1 unnamed protein product [Mus musculus] 3.0E-39
blast NP_084505 polymerase (RNA) III (DNA directed) polypeptide H [Mus musculus] gb|AAH10793.1| Polymerase (RNA) III (DNA directed) polypeptide H [Mus musculus] dbj|BAB31893.2| unnamed protein product [Mus musculus] ref|XP_216998.1| PREDICTED: similar to Polymerase (RNA) III (DNA directed) polypeptide H [Rattus norvegicus] sp|Q9D2C6|RPC8_MOUSE DNA-directed RNA polymerase III subunit 22.9 kDa polypeptide (RPC8) 5.0E-39
Protein Domains
Database ID Description E-Value
Pfam IPR005576 EMBL-EBI RNA polymerase Rpb7, N-terminal 5.1E-39
Pfam IPR005576 EMBL-EBI RNA polymerase Rpb7, N-terminal 5.1E-39
Sequence
Target Sequence 
>C. ELEGANS:192130_AT
atgaacgtctcgccaacaaaattattccggatcttggtctctgtatttgtgtctatgata
taaatgaaattggtgattcgtacattttacccggcgaaggagattgtagagcgagagtta
agttccgtatgatcgtttttcggccatttgtcgatgaagttattgaggccaaagtgattg
gttcatcacgacaaggtctttgtctaacaattcaattcttcgaagacatttttgtaccgg
cggaaaagcttccagaacctcatgttttcgaagaagaagggcaagtttggtattgggaat
atgcacaggaagatggagaaccaccagcaaaactgtatatggatccagggaagattgtga
gattccgagtgacggaaatcattttcaaagatctcaaaccagagttaacacacgaagaga
gaaaaacagagaaatctatggaaatcaaaggtacgatggctagtactggattgggat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGAACGTCTCGCCAACAAAATTAT 393 43 104 Antisense
AATTATTCCGGATCTTGGTCTCTGT 577 173 123 Antisense
CTTGGTCTCTGTATTTGTGTCTATG 164 219 136 Antisense
GTGATTCGTACATTTTACCCGGCGA 522 483 176 Antisense
GAGCGAGAGTTAAGTTCCGTATGAT 147 387 212 Antisense
TGATCGTTTTTCGGCCATTTGTCGA 46 567 233 Antisense
TGGTTCATCACGACAAGGTCTTTGT 267 551 282 Antisense
TCGAAGACATTTTTGTACCGGCGGA 234 601 323 Antisense
AGCTTCCAGAACCTCATGTTTTCGA 97 77 350 Antisense
AAGATTGTGAGATTCCGAGTGACGG 563 155 454 Antisense
ACGATGGCTAGTACTGGATTGGGAT 702 93 556 Antisense
Sequence Source Affymetrix Proprietary Database