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[189756_s_at] poly (A) polymerase

Description F43G6.5 /REP_DB=WormBase Gene ID /WP=CE23726 /TR=Q20370 /GB=CAA90398.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=poly (A) polymerase
Cluster 6grp_total > 67      4grp_total > 02      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8
1 2 3 4 range
A 1.5
(-2.9)
A 		1.3
(-3)
A 		2
(-2.5)
A 		9.3
(3)
A 		8
B 3
(3)
A 		1.6
(-1.7)
A 		1.2
(-3)
A 		2.1
(0)
A 		2
C 1.2
(-3)
A 		2
(-1.8)
A 		2.3
(-1.4)
A 		5.2
(3)
A 		4
avr 1.9
(-2.5) 		1.6
(-3) 		1.8
(-2.7) 		5.5
(3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 47
1 2 3 4 5 6 range
A 1.3
(-3)
A 		1.5
(-2.9)
A 		2.4
(-2.8)
A 		1.9
(-2.9)
A 		1.1
(-3)
A 		47.7
(3)
A 		47
B 2.1
(-2.8)
A 		1.3
(-2.9)
A 		1.2
(-3)
A 		1.8
(-2.9)
A 		0.9
(-3)
A 		47.4
(3)
P 		47
C 1.1
(-3)
A 		2.4
(-2.8)
A 		1.2
(-3)
A 		1.4
(-3)
A 		2
(-2.9)
A 		41.5
(3)
P 		40
avr 1.5
(-3) 		1.7
(-2.9) 		1.6
(-3) 		1.7
(-2.9) 		1.3
(-3) 		45.5
(3) 		44
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1
1 2 3 4 range
A 0.6
(-1.4)
A 		0.3
(-3)
A 		0.5
(-1.9)
A 		1.4
(3)
A 		1
B 1
(3)
A 		0.4
(-2.1)
A 		0.3
(-3)
A 		0.4
(-2.1)
A 		1
C 0.4
(-3)
A 		0.6
(-0.6)
A 		0.8
(1.8)
A 		0.9
(3)
A 		1
avr 0.7
(0.6) 		0.4
(-3) 		0.5
(-1.8) 		0.9
(3) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 0.2
(-3)
A 		0.5
(-2.8)
A 		0.5
(-2.8)
A 		0.5
(-2.8)
A 		0.3
(-2.9)
A 		11.6
(3)
A 		11
B 0.7
(-2.9)
A 		0.4
(-3)
A 		0.3
(-3)
A 		0.5
(-2.9)
A 		0.4
(-3)
A 		17.7
(3)
P 		17
C 0.4
(-3)
A 		0.7
(-2.8)
A 		0.3
(-3)
A 		0.3
(-3)
A 		0.7
(-2.8)
A 		13.9
(3)
P 		14
avr 0.4
(-3) 		0.5
(-3) 		0.4
(-3) 		0.4
(-3) 		0.5
(-3) 		14.4
(3) 		14
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189756_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2930
Sequence Type Exemplar sequence
Representative Public ID F43G6.5 NCBI
Target Description F43G6.5 /REP_DB=WormBase Gene ID /WP=CE23726 /TR=Q20370 /GB=CAA90398.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=poly (A) polymerase
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_064123(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064123 NCBI Caenorhabditis elegans F43G6.5 (F43G6.5) mRNA, complete cds. 11/11 None
SNAP00000023961 ENSEMBL cdna:SNAP chromosome:CEL140:II:11814816:11815766:-1 11/11 None
F43G6.5 ENSEMBL cdna:known chromosome:CEL140:II:11814744:11816480:-1 gene:F43G6.5 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
chrII:11814812-11816477(-) 100.0 100.0
Public Domain and Genome References
Gene Title poly (A) polymerase
Ensembl F43G6.5
Entrez Gene 174816 Entrez gene
SwissProt Q20370 EMBL-EBI
WormBase CE23726 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:253399_AT nucleotidyltransferase family protein at
CANINE:1599353_AT similar to poly(A) polymerase alpha cfa
CANINE_2:CFA.9882.1.S1_AT similar to poly(A) polymerase alpha cfa
CANINE_2:CFAAFFX.27222.1.S1_AT similar to poly(A) polymerase alpha cfa
CANINE_2:CFAAFFX.27225.1.S1_S_AT similar to poly(A) polymerase alpha cfa
DROSOPHILA_2:1639818_S_AT hiiragi dm
DROSGENOME1:147511_AT hiiragi dm
CHICKEN:GGA.4316.1.S1_AT poly(A) polymerase alpha gga
CHICKEN:GGA.4316.2.S1_A_AT poly(A) polymerase alpha gga
CHICKEN:GGAAFFX.13197.1.S1_S_AT poly(A) polymerase alpha gga
HG-U133A:222035_S_AT poly(A) polymerase alpha hs
HG-U133_PLUS_2:222035_S_AT poly(A) polymerase alpha hs
HG-U133A_2:222035_S_AT poly(A) polymerase alpha hs
HG-U133_PLUS_2:209388_AT poly(A) polymerase alpha hs
HG-U133A_2:209388_AT poly(A) polymerase alpha hs
HG-U133A:209388_AT poly(A) polymerase alpha hs
HU35KSUBA:T84004_AT poly(A) polymerase alpha hs
HU35KSUBB:RC_F01634_AT poly(A) polymerase alpha hs
HU35KSUBC:RC_N46321_AT poly(A) polymerase alpha hs
HU35KSUBC:RC_AA256492_AT poly(A) polymerase alpha hs
HU35KSUBC:RC_AA236200_AT poly(A) polymerase alpha hs
HU35KSUBD:RC_AA427418_S_AT poly(A) polymerase alpha hs
HUGENEFL:X76770_AT poly(A) polymerase alpha hs
U133_X3P:G12654216_3P_X_AT poly(A) polymerase alpha hs
U133_X3P:G12654216_3P_AT poly(A) polymerase alpha hs
U133_X3P:HS.5324.2.A2_3P_AT poly(A) polymerase alpha hs
U133_X3P:HS.5324.2.A1_3P_AT poly(A) polymerase alpha hs
U133_X3P:HS.49007.2.S1_3P_AT poly(A) polymerase alpha hs
U133_X3P:HS.49007.1.S1_3P_A_AT poly(A) polymerase alpha hs
HG-U133A_2:212718_AT poly(A) polymerase alpha hs
HG-U133_PLUS_2:212718_AT poly(A) polymerase alpha hs
HG-U133A:212718_AT poly(A) polymerase alpha hs
HG-U133A_2:212720_AT poly(A) polymerase alpha hs
HG-U133_PLUS_2:212720_AT poly(A) polymerase alpha hs
HG-U133A:212720_AT poly(A) polymerase alpha hs
HG-U133_PLUS_2:228569_AT poly(A) polymerase alpha hs
HG-U133B:228569_AT poly(A) polymerase alpha hs
HG-U95AV2:34855_AT poly(A) polymerase alpha hs
HG-U95B:45351_G_AT poly(A) polymerase alpha hs
HG-U95B:49247_AT poly(A) polymerase alpha hs
HG-U95C:51720_R_AT poly(A) polymerase alpha hs
HG-U133_PLUS_2:215374_AT Poly(A) polymerase alpha hs
HG-U133A_2:215374_AT Poly(A) polymerase alpha hs
HG-U133A:215374_AT Poly(A) polymerase alpha hs
HU35KSUBB:RC_T84005_S_AT Poly(A) polymerase alpha hs
U133_X3P:HS.49007.1.S1_3P_X_AT Poly(A) polymerase alpha hs
U133_X3P:HS.287650.0.S1_3P_X_AT Poly(A) polymerase alpha hs
U133_X3P:HS.287650.0.S1_3P_AT Poly(A) polymerase alpha hs
U133_X3P:215374_3P_AT Poly(A) polymerase alpha hs
HG-U95B:44969_AT Poly(A) polymerase alpha hs
HG-U95B:45350_AT Poly(A) polymerase alpha hs
HG-U95D:80766_AT Poly(A) polymerase alpha hs
HU35KSUBB:RC_Z39507_AT Poly(A) polymerase alpha hs
MOUSE430_2:1427544_A_AT poly (A) polymerase alpha mm
MOE430A:1427544_A_AT poly (A) polymerase alpha mm
MOUSE430A_2:1427544_A_AT poly (A) polymerase alpha mm
MU11KSUBA:U52197_S_AT poly (A) polymerase alpha mm
MU11KSUBB:MSA.2716.0_S_AT poly (A) polymerase alpha mm
MG-U74AV2:97996_AT poly (A) polymerase alpha mm
MG-U74BV2:116286_AT poly (A) polymerase alpha mm
MG-U74AV2:160681_AT poly (A) polymerase alpha mm
MG-U74BV2:164696_R_AT poly (A) polymerase alpha mm
MOE430A:1455836_AT poly (A) polymerase alpha mm
MOUSE430A_2:1455836_AT poly (A) polymerase alpha mm
MOUSE430_2:1455836_AT poly (A) polymerase alpha mm
MOE430A:1424217_AT poly (A) polymerase alpha mm
MOUSE430A_2:1424217_AT poly (A) polymerase alpha mm
MOUSE430_2:1424217_AT poly (A) polymerase alpha mm
MOE430A:1424216_A_AT poly (A) polymerase alpha mm
MOUSE430A_2:1424216_A_AT poly (A) polymerase alpha mm
MOUSE430_2:1424216_A_AT poly (A) polymerase alpha mm
MOUSE430_2:1444015_AT Poly (A) polymerase alpha (Papola), mRNA mm
MOE430B:1444015_AT Poly (A) polymerase alpha (Papola), mRNA mm
MG-U74CV2:168881_AT Poly (A) polymerase alpha (Papola), mRNA mm
MG-U74CV2:170513_AT Poly (A) polymerase alpha (Papola), mRNA mm
MU19KSUBB:TC30710_S_AT Poly (A) polymerase alpha (Papola), mRNA mm
MU19KSUBB:TC30711_S_AT Poly (A) polymerase alpha (Papola), mRNA mm
MU19KSUBC:TC37909_AT Poly (A) polymerase alpha (Papola), mRNA mm
RG-U34A:RC_AA800296_AT poly (A) polymerase alpha (predicted) rn
RAE230A:1373080_AT poly (A) polymerase alpha (predicted) rn
RAT230_2:1373080_AT poly (A) polymerase alpha (predicted) rn
RAE230B:1397493_AT poly (A) polymerase alpha (predicted) rn
RAT230_2:1397493_AT poly (A) polymerase alpha (predicted) rn
RAE230B:1384573_AT poly (A) polymerase alpha (predicted) rn
RAT230_2:1384573_AT poly (A) polymerase alpha (predicted) rn
RAE230B:1393546_AT Poly (A) polymerase alpha (predicted) rn
RAT230_2:1393546_AT Poly (A) polymerase alpha (predicted) rn
RG-U34C:RC_AI236209_AT Poly (A) polymerase alpha (predicted) rn
YEAST_2:1775463_AT Poly(A) polymerase, one of three factors required for mRNA 3'-end polyadenylation, forms multiprotein complex with polyadenylation factor I (PF I), also required for mRNA nuclear export; may also polyadenylate rRNAs 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
4652 polynucleotide adenylyltransferase activity inferred from electronic annotation QuickGO AmiGO
16779 nucleotidyltransferase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA90398 Hypothetical protein F43G6.5 [Caenorhabditis elegans] emb|CAB60582.1| Hypothetical protein F43G6.5 [Caenorhabditis elegans] ref|NP_496524.1| F43G6.5 [Caenorhabditis elegans] 0.0
blast CAA87419 Hypothetical protein T15H9.6 [Caenorhabditis elegans] ref|NP_496067.1| T15H9.6 [Caenorhabditis elegans] 0.0
blast CAA16309 Hypothetical protein Y32F6A.3 [Caenorhabditis elegans] ref|NP_505683.1| Poly-A Polymerase family member (pap-1) [Caenorhabditis elegans] 1.0E-176
blast CAA90398 Hypothetical protein F43G6.5 [Caenorhabditis elegans] emb|CAB60582.1| Hypothetical protein F43G6.5 [Caenorhabditis elegans] ref|NP_496524.1| F43G6.5 [Caenorhabditis elegans] 1.0E-159
blast CAA87419 Hypothetical protein T15H9.6 [Caenorhabditis elegans] ref|NP_496067.1| T15H9.6 [Caenorhabditis elegans] 1.0E-112
blast CAA16309 Hypothetical protein Y32F6A.3 [Caenorhabditis elegans] ref|NP_505683.1| Poly-A Polymerase family member (pap-1) [Caenorhabditis elegans] 8.0E-87
Protein Domains
Database ID Description E-Value
Pfam IPR007012 EMBL-EBI Poly(A) polymerase, central region 1.4E-106
Pfam IPR007010 EMBL-EBI Poly(A) polymerase, predicted RNA-binding domain 4.3E-72
Pfam IPR002934 EMBL-EBI DNA polymerase, beta-like region 2.1E-9
Pfam IPR007012 EMBL-EBI Poly(A) polymerase, central region 2.4E-71
Pfam IPR007010 EMBL-EBI Poly(A) polymerase, predicted RNA-binding domain 4.3E-72
Sequence
Target Sequence 
>C. ELEGANS:189756_S_AT
gaaatcaacttcttcagtcggtacaagcacttcatttccttgtcaatgacagctgaaact
gaaaaggatgagttggcgtttggaggattcttcgagtcaaggatcagacaacttgtgctc
attttggagaagaatcagggaatcaagcttgctcatatcaatccaaagaagttcaaagct
gctaaggatccaaagaaatcagtttggttcattggtttgcaatttgatgagaatgtgaag
aatctggatttgacaaaggacattcagcagttcaagagaaacatcgattatcaagcaaag
tctgtgaaagatattgaagcgaattgtgcagtggaaaccgatttttcctatgtgaagaga
tcagatttggctcagacgatttctgtgaaagatctgaaacaaggaaaaatgtacaagaag
cccgagagcaaggatccagtcagcaagaagcggaaagtatcagaaaatgctccaagtgtt
ccaaaaaagcagaaattggatgtttccgagaagtcttcagtggaatcgttactcaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAATCAACTTCTTCAGTCGGTACA 384 361 1111 Antisense
GTCGGTACAAGCACTTCATTTCCTT 60 471 1127 Antisense
AAGGATGAGTTGGCGTTTGGAGGAT 143 161 1174 Antisense
GGATCAGACAACTTGTGCTCATTTT 459 511 1211 Antisense
ATCAAGCTTGCTCATATCAATCCAA 318 27 1252 Antisense
GACAAAGGACATTCAGCAGTTCAAG 419 365 1362 Antisense
GATCAGATTTGGCTCAGACGATTTC 4 421 1469 Antisense
GAAGCCCGAGAGCAAGGATCCAGTC 373 343 1527 Antisense
GAAAATGCTCCAAGTGTTCCAAAAA 669 353 1573 Antisense
GGATGTTTCCGAGAAGTCTTCAGTG 221 515 1608 Antisense
GTCTTCAGTGGAATCGTTACTCAAA 158 469 1623 Antisense
Sequence Source Affymetrix Proprietary Database