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[183131_s_at]

Description F43E2.2 /REP_DB=WormBase Gene ID /WP=CE28327 /TR=O02092 /GB=AAC71124.2 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 01      4grp_total > 27      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 57
1 2 3 4 range
A 11.8
(-2.8)
A 		59.7
(3)
A 		10.3
(-3)
A 		50.6
(1.9)
A 		49
B 34.1
(0.5)
A 		35.9
(0.7)
A 		2.6
(-3)
A 		55.9
(3)
A 		53
C 29.5
(-3)
A 		51.5
(1.5)
A 		35.1
(-1.8)
A 		58.6
(3)
A 		29
avr 25.1
(-1.6) 		49
(2.1) 		16
(-3) 		55
(3) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 38
1 2 3 4 5 6 range
A 44.4
(0.4)
A 		49.3
(2)
A 		36.1
(-2.3)
A 		33.9
(-3)
A 		52.2
(3)
A 		42.1
(-0.3)
A 		18
B 43.7
(0.7)
A 		48.6
(1.7)
A 		35.4
(-1)
A 		25.1
(-3)
A 		55.3
(3)
A 		48.5
(1.6)
A 		30
C 25.2
(-2.1)
A 		57.9
(3)
A 		30.8
(-1.3)
A 		19.8
(-3)
A 		40.4
(0.2)
A 		23.5
(-2.4)
A 		38
avr 37.8
(-0.3) 		51.9
(3) 		34.1
(-1.2) 		26.3
(-3) 		49.3
(2.4) 		38
(-0.3) 		26
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14
1 2 3 4 range
A 4.3
(-2.1)
A 		13
(3)
A 		2.7
(-3)
A 		7.4
(-0.3)
A 		10
B 10.9
(2.5)
A 		8.9
(1.4)
A 		0.6
(-3)
A 		11.9
(3)
A 		11
C 9.8
(-3)
A 		14.8
(3)
A 		12.2
(-0.1)
A 		9.9
(-2.9)
A 		5
avr 8.3
(-0.3) 		12.2
(3) 		5.2
(-3) 		9.7
(0.9) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 19
1 2 3 4 5 6 range
A 8.2
(-2.8)
A 		17.5
(3)
A 		7.9
(-3)
A 		8.6
(-2.6)
A 		15.8
(1.9)
A 		10.2
(-1.6)
A 		10
B 15.2
(0.2)
A 		16.2
(0.6)
A 		8.6
(-2.2)
A 		6.6
(-3)
A 		22.5
(3)
A 		18.1
(1.3)
A 		16
C 9.3
(-0.7)
A 		17.7
(3)
A 		7.8
(-1.3)
A 		4
(-3)
A 		13.1
(1)
A 		7.9
(-1.3)
A 		14
avr 10.9
(-0.5) 		17.1
(3) 		8.1
(-2) 		6.4
(-3) 		17.1
(3) 		12.1
(0.2) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 183131_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5176
Sequence Type Exemplar sequence
Representative Public ID F43E2.2 NCBI
Target Description F43E2.2 /REP_DB=WormBase Gene ID /WP=CE28327 /TR=O02092 /GB=AAC71124.2 /SUBMIT=ST.LOUIS /CHR=2 /FEA=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_063143(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063143 NCBI Caenorhabditis elegans F43E2.2 (F43E2.2) mRNA, complete cds. 11/11 A 
GENEFINDER00000044502 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7372175:7372521:1 11/11 None
GENEFINDER00000044503 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7366426:7370224:-1 11/11 None
F43E2.6a ENSEMBL cdna:known chromosome:CEL140:II:7366446:7368774:-1 gene:F43E2.6 11/11 None
F43E2.6b.2 ENSEMBL cdna:known chromosome:CEL140:II:7366447:7368775:-1 gene:F43E2.6 11/11 None
F43E2.6b.1 ENSEMBL cdna:known chromosome:CEL140:II:7366447:7368239:-1 gene:F43E2.6 11/11 None
F43E2.2 ENSEMBL cdna:known chromosome:CEL140:II:7371745:7375114:1 gene:F43E2.2 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000044493 8/11 Cross Hyb Matching Probes None
SNAP00000044496 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:7372064-7372518(+) 80.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F43E2.6
F43E2.2
Entrez Gene 174208 Entrez gene
SwissProt O02092 EMBL-EBI
WormBase CE28327 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:250510_AT RNA polymerase II 15.9 kDa subunit (RPB15.9) at
CANINE_2:CFA.18522.1.S1_AT similar to polymerase (RNA) II (DNA directed) polypeptide D isoform 1 cfa
CANINE_2:CFA.19099.1.S1_AT similar to polymerase (RNA) II (DNA directed) polypeptide D isoform 1 cfa
CANINE_2:CFA.19099.1.S1_X_AT similar to polymerase (RNA) II (DNA directed) polypeptide D isoform 1 cfa
CANINE_2:CFAAFFX.7382.1.S1_S_AT similar to polymerase (RNA) II (DNA directed) polypeptide D isoform 1 cfa
CHICKEN:GGA.4766.2.S1_A_AT polymerase (RNA) II (DNA directed) polypeptide D gga
HG-U133_PLUS_2:203664_S_AT polymerase (RNA) II (DNA directed) polypeptide D hs
HG-U133A:203664_S_AT polymerase (RNA) II (DNA directed) polypeptide D hs
HG-FOCUS:203664_S_AT polymerase (RNA) II (DNA directed) polypeptide D hs
HG-U133A_2:203664_S_AT polymerase (RNA) II (DNA directed) polypeptide D hs
HU35KSUBA:U85510_AT polymerase (RNA) II (DNA directed) polypeptide D hs
U133_X3P:G4758573_3P_S_AT polymerase (RNA) II (DNA directed) polypeptide D hs
HG-U95AV2:33726_AT polymerase (RNA) II (DNA directed) polypeptide D hs
HG-U133_PLUS_2:214144_AT Polymerase (RNA) II (DNA directed) polypeptide D hs
HG-U133A_2:214144_AT Polymerase (RNA) II (DNA directed) polypeptide D hs
HG-U133A:214144_AT Polymerase (RNA) II (DNA directed) polypeptide D hs
HU35KSUBC:RC_AA478541_AT Polymerase (RNA) II (DNA directed) polypeptide D hs
HU35KSUBD:RC_H70627_S_AT Polymerase (RNA) II (DNA directed) polypeptide D hs
U133_X3P:HS.194638.1.A1_3P_AT Polymerase (RNA) II (DNA directed) polypeptide D hs
U133_X3P:HS.108336.0.A1_3P_AT Polymerase (RNA) II (DNA directed) polypeptide D hs
HG-U133_PLUS_2:228650_AT Polymerase (RNA) II (DNA directed) polypeptide D hs
HG-U133B:228650_AT Polymerase (RNA) II (DNA directed) polypeptide D hs
HG-U95B:56881_AT Polymerase (RNA) II (DNA directed) polypeptide D hs
HG-U95C:63651_AT Polymerase (RNA) II (DNA directed) polypeptide D hs
HG-U133_PLUS_2:243789_AT Polymerase (RNA) II (DNA directed) polypeptide D hs
HG-U133B:243789_AT Polymerase (RNA) II (DNA directed) polypeptide D hs
U133_X3P:HS.257464.0.A1_3P_AT Polymerase (RNA) II (DNA directed) polypeptide D hs
MU11KSUBB:MSA.14654.0_S_AT polymerase (RNA) II (DNA directed) polypeptide D mm
MG-U74AV2:97315_AT polymerase (RNA) II (DNA directed) polypeptide D mm
MOE430A:1424258_AT polymerase (RNA) II (DNA directed) polypeptide D mm
MOUSE430A_2:1424258_AT polymerase (RNA) II (DNA directed) polypeptide D mm
MOUSE430_2:1424258_AT polymerase (RNA) II (DNA directed) polypeptide D mm
MU19KSUBC:TC36857_AT Polymerase (RNA) II (DNA directed) polypeptide D (Polr2d), transcript variant 1, mRNA mm
RAE230B:1379832_AT polymerase (RNA) II (DNA directed) polypeptide D (predicted) rn
RAT230_2:1379832_AT polymerase (RNA) II (DNA directed) polypeptide D (predicted) rn
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 AAC71124 Hypothetical protein F43E2.2 [Caenorhabditis elegans] ref|NP_495544.1| F43E2.2 [Caenorhabditis elegans] 1.0E-108
blast T34042 hypothetical protein F43E2.10 - Caenorhabditis elegans 4.0E-76
blast T34043 hypothetical protein F43E2.6 - Caenorhabditis elegans 7.0E-72
blast CAE67606 Hypothetical protein CBG13151 [Caenorhabditis briggsae] 2.0E-62
blast T34046 hypothetical protein F43E2.1 - Caenorhabditis elegans 9.0E-62
blast AAN84799 Hypothetical protein F43E2.6a [Caenorhabditis elegans] ref|NP_495541.2| F43E2.6a [Caenorhabditis elegans] 2.0E-54
blast AAN84799 Hypothetical protein F43E2.6a [Caenorhabditis elegans] ref|NP_495541.2| F43E2.6a [Caenorhabditis elegans] 8.0E-53
Protein Domains
Database ID Description E-Value
Pfam IPR005574 EMBL-EBI RNA polymerase Rpb4 3.7E-55
Sequence
Target Sequence 
>C. ELEGANS:183131_S_AT
aatgccgatatgagatttccaacgaacactcgttcgaagttcatagtcaaggtgaaatgg
gtccagaaatagaacggaagtcgcatttagcgtatcaagtcgctcgtttcgaagcagttg
ctatgggcttcccggtgcaatatagacaagttgttgtcgaattctactatcatggccgat
tggatggatcatcgggtaccctggcgactgcggttgggttgttggctctcttcacaggag
ttgagatatcaccccgttttgccatcacgggttctct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATGCCGATATGAGATTTCCAACGA 316 165 26 Antisense
GAGATTTCCAACGAACACTCGTTCG 170 397 37 Antisense
CACTCGTTCGAAGTTCATAGTCAAG 170 199 52 Antisense
GAACGGAAGTCGCATTTAGCGTATC 36 343 97 Antisense
GTATCAAGTCGCTCGTTTCGAAGCA 530 453 117 Antisense
GAAGCAGTTGCTATGGGCTTCCCGG 591 339 136 Antisense
TGGGCTTCCCGGTGCAATATAGACA 4 553 149 Antisense
TTGTCGAATTCTACTATCATGGCCG 168 707 179 Antisense
ATCATGGCCGATTGGATGGATCATC 608 29 194 Antisense
TTGGATGGATCATCGGGTACCCTGG 355 699 205 Antisense
CCCGTTTTGCCATCACGGGTTCTCT 483 259 278 Antisense
Sequence Source Affymetrix Proprietary Database