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[194019_at] POLY(A) POLYMERASE (EC 2.7.7.19) (PAP) (POLYNUCLEOTIDE ADENYLYLTRANSFERASE)

Description Y32F6A.3 /REP_DB=WormBase Gene ID /WP=CE20204 /TR=Q9U2P3 /GB=CAA16309.3 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=POLY(A) POLYMERASE (EC 2.7.7.19) (PAP) (POLYNUCLEOTIDE ADENYLYLTRANSFERASE)
Cluster 6grp_highest_10_10 > 73      6grp_high1_10_10 > 37      4grp_highest_8_8 > 62      4grp_high_8_8 > 18      6grp_highest_nonorm > 51      6grp_total > 35      4grp_total > 29      6grp_highest_sub > Cu      6grp_cgc > 35      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 368
1 2 3 4 range
A 568.4
(1.4)
P 		507.2
(-0.1)
P 		384.7
(-3)
P 		634
(3)
P 		249
B 618.2
(2.8)
P 		484.3
(-0.6)
P 		387.4
(-3)
P 		627.9
(3)
P 		241
C 752.3
(3)
P 		590.8
(-0.7)
P 		490.3
(-3)
P 		530.6
(-2.1)
P 		262
avr 646.3
(3) 		527.4
(-0.2) 		420.8
(-3) 		597.5
(1.7) 		226

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 425
1 2 3 4 5 6 range
A 582
(3)
P 		525.1
(0.1)
P 		508.4
(-0.8)
P 		467.9
(-2.8)
P 		464.4
(-3)
P 		567.9
(2.3)
P 		118
B 750.6
(3)
P 		555.6
(0.2)
P 		665.9
(1.8)
P 		484.8
(-0.8)
P 		326.1
(-3)
P 		524.1
(-0.2)
P 		425
C 690.1
(3)
P 		535.5
(-0.2)
P 		539.2
(-0.1)
P 		558.7
(0.3)
P 		400.7
(-3)
P 		529
(-0.3)
P 		289
avr 674.2
(3) 		538.7
(0.1) 		571.2
(0.8) 		503.8
(-0.7) 		397.1
(-3) 		540.3
(0.1) 		277
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 160
1 2 3 4 range
A 207
(3)
P 		110.1
(-2.1)
P 		100.6
(-2.6)
P 		92.8
(-3)
P 		114
B 197.1
(3)
P 		119.6
(-1.3)
P 		89.8
(-3)
P 		133.8
(-0.5)
P 		107
C 249
(3)
P 		169.9
(0)
P 		170.9
(0.1)
P 		89.5
(-3)
P 		160
avr 217.7
(3) 		133.2
(-1.5) 		120.4
(-2.2) 		105.4
(-3) 		112

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 154
1 2 3 4 5 6 range
A 107.3
(-3)
P 		186.8
(3)
P 		110.7
(-2.7)
P 		118.7
(-2.1)
P 		140.1
(-0.5)
P 		138.3
(-0.7)
P 		80
B 261.2
(3)
P 		184.9
(-0.4)
P 		161.7
(-1.5)
P 		128.4
(-3)
P 		132.5
(-2.8)
P 		195.4
(0)
P 		133
C 255.8
(3)
P 		163.4
(-0.9)
P 		137.2
(-2)
P 		112.4
(-3)
P 		129.6
(-2.3)
P 		177.1
(-0.3)
P 		143
avr 208.1
(3) 		178.4
(1) 		136.5
(-1.9) 		119.8
(-3) 		134.1
(-2) 		170.3
(0.4) 		88
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194019_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12277
Sequence Type Exemplar sequence
Representative Public ID Y32F6A.3 NCBI
Target Description Y32F6A.3 /REP_DB=WormBase Gene ID /WP=CE20204 /TR=Q9U2P3 /GB=CAA16309.3 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=POLY(A) POLYMERASE (EC 2.7.7.19) (PAP) (POLYNUCLEOTIDE ADENYLYLTRANSFERASE)
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_073282(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073282 NCBI Caenorhabditis elegans Poly-A Polymerase family member (pap-1) (pap-1) mRNA, complete cds. 11/11 None
SNAP00000010883 ENSEMBL cdna:SNAP chromosome:CEL140:V:10444699:10447645:1 11/11 None
GENEFINDER00000010890 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:10444699:10448240:1 11/11 None
Y32F6A.3 ENSEMBL cdna:known chromosome:CEL140:V:10444563:10449051:1 gene:Y32F6A.3 11/11 A 
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:10444698-10447645(+) 100.0 100.0
Public Domain and Genome References
Gene Title POLY(A) POLYMERASE (EC 2.7.7.19) (PAP) (POLYNUCLEOTIDE ADENYLYLTRANSFERASE)
Gene Symbol pap-1
Ensembl Y32F6A.3
Entrez Gene 179458 Entrez gene
SwissProt Q9U2P3 EMBL-EBI
WormBase CE20204 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:255894_AT nucleotidyltransferase family protein at
CANINE_2:CFAAFFX.5396.1.S1_AT similar to poly(A) polymerase gamma cfa
CANINE_2:CFAAFFX.5396.1.S1_S_AT similar to poly(A) polymerase gamma cfa
CHICKEN:GGAAFFX.4911.1.S1_AT similar to poly(A) polymerase gamma; SRP RNA 3 adenylating enzyme/pap2; nuclear poly(A) polymerase gamma gga
HG-U133_PLUS_2:224427_S_AT poly(A) polymerase gamma hs
HG-U133B:224427_S_AT poly(A) polymerase gamma hs
HG-U133_PLUS_2:219160_S_AT poly(A) polymerase gamma hs
HG-U133A:219160_S_AT poly(A) polymerase gamma hs
HG-U133A_2:219160_S_AT poly(A) polymerase gamma hs
HU35KSUBB:RC_R62137_AT poly(A) polymerase gamma hs
U133_X3P:G13641251_3P_S_AT poly(A) polymerase gamma hs
U133_X3P:G12597628_3P_A_AT poly(A) polymerase gamma hs
U133_X3P:HS.172780.0.A1_3P_X_AT poly(A) polymerase gamma hs
U133_X3P:HS.146123.0.S1_3P_A_AT poly(A) polymerase gamma hs
U133_X3P:222273_3P_AT poly(A) polymerase gamma hs
HG-U133A_2:222273_AT poly(A) polymerase gamma hs
HG-U133_PLUS_2:222273_AT poly(A) polymerase gamma hs
HG-U133A:222273_AT poly(A) polymerase gamma hs
HG-U133_PLUS_2:222839_S_AT poly(A) polymerase gamma hs
HG-U133B:222839_S_AT poly(A) polymerase gamma hs
HG-U95B:59527_AT poly(A) polymerase gamma hs
HG-U95E:69091_AT poly(A) polymerase gamma hs
HG-U95E:75750_AT poly(A) polymerase gamma hs
HG-U95E:90511_AT poly(A) polymerase gamma hs
HU35KSUBD:RC_R73588_AT Poly(A) polymerase gamma hs
U133_X3P:HS2.416807.1.S1_3P_S_AT Poly(A) polymerase gamma hs
U133_X3P:HS2.416807.1.S1_3P_AT Poly(A) polymerase gamma hs
HG-U133_PLUS_2:1556929_AT Poly(A) polymerase gamma hs
HG-U95B:46759_AT Poly(A) polymerase gamma hs
MG-U74CV2:166100_AT poly(A) polymerase gamma mm
MG-U74CV2:169981_I_AT poly(A) polymerase gamma mm
MOE430A:1427241_AT poly(A) polymerase gamma mm
MOUSE430A_2:1427241_AT poly(A) polymerase gamma mm
MOUSE430_2:1427241_AT poly(A) polymerase gamma mm
MOE430B:1446307_AT Poly(A) polymerase gamma, mRNA (cDNA clone IMAGE:5362239) mm
MOUSE430_2:1446307_AT Poly(A) polymerase gamma, mRNA (cDNA clone IMAGE:5362239) mm
RAE230B:1395787_AT poly(A) polymerase gamma (predicted) rn
RAT230_2:1395787_AT poly(A) polymerase gamma (predicted) rn
RAE230B:1397336_AT poly(A) polymerase gamma (predicted) rn
RAT230_2:1397336_AT poly(A) polymerase gamma (predicted) rn
RAE230B:1397475_AT poly(A) polymerase gamma (predicted) rn
RAT230_2:1397475_AT poly(A) polymerase gamma (predicted) rn
RAE230B:1380101_AT poly(A) polymerase gamma (predicted) rn
RAT230_2:1380101_AT poly(A) polymerase gamma (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
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 CAA16309 Hypothetical protein Y32F6A.3 [Caenorhabditis elegans] ref|NP_505683.1| Poly-A Polymerase family member (pap-1) [Caenorhabditis elegans] 0.0
blast CAE64813 Hypothetical protein CBG09607 [Caenorhabditis briggsae] 0.0
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-178
Protein Domains
Database ID Description E-Value
Pfam IPR007012 EMBL-EBI Poly(A) polymerase, central region 1.6E-106
Pfam IPR007010 EMBL-EBI Poly(A) polymerase, predicted RNA-binding domain 5.3E-73
Pfam IPR002934 EMBL-EBI DNA polymerase, beta-like region 1.4E-10
Sequence
Target Sequence 
>C. ELEGANS:194019_AT
gtgattagtgctgctgatcttcgccgtggccgtcgctggaagaaagttgttccaattgct
acgaatacttccgtcagcagttctacaccccgaagtgttgtgcgaactacaagtactagc
tctgtaccaactactccaactggacttgctgctccaaaaacaccactatctgcatcagtt
tctgccacgaatgaacctgattcaacaacaaatggtactccattatcaagaaaacgtagt
atggatgaagaatcatcaactactgtaacttcac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGATTAGTGCTGCTGATCTTCGCC 102 485 1492 Antisense
CCGTGGCCGTCGCTGGAAGAAAGTT 352 263 1515 Antisense
GTTCCAATTGCTACGAATACTTCCG 278 441 1540 Antisense
CGAATACTTCCGTCAGCAGTTCTAC 359 253 1553 Antisense
GTTCTACACCCCGAAGTGTTGTGCG 561 443 1571 Antisense
GTACTAGCTCTGTACCAACTACTCC 442 459 1604 Antisense
AACTACTCCAACTGGACTTGCTGCT 466 137 1620 Antisense
CTTGCTGCTCCAAAAACACCACTAT 119 219 1636 Antisense
ACCACTATCTGCATCAGTTTCTGCC 297 85 1653 Antisense
CAGTTTCTGCCACGAATGAACCTGA 655 205 1667 Antisense
GAATCATCAACTACTGTAACTTCAC 661 327 1741 Antisense
Sequence Source Affymetrix Proprietary Database