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[174870_at] POLY(A) POLYMERASE (EC 2.7.7.19) (PAP) (POLYNUCLEOTIDE ADENYLYLTRANSFERASE)

Description CEK045GYR_rc /REP_DB=TREMBL Accession /GB=D34422 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk45g11 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 83      6grp_high1_10_10 > 38      4grp_highest_8_8 > 53      4grp_high_8_8 > 09      6grp_highest_nonorm > 86      6grp_total > 37      4grp_total > 23      6grp_highest_sub > Cu      6grp_cgc > 26      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 694
1 2 3 4 range
A 1201.3
(3)
P 		611.7
(-3)
P 		665.6
(-2.5)
P 		860.7
(-0.5)
P 		590
B 964.7
(2.3)
P 		767.8
(0)
P 		507.5
(-3)
P 		1026.2
(3)
P 		519
C 1095.6
(3)
P 		783.2
(-2.9)
P 		776.5
(-3)
P 		1052.1
(2.2)
P 		319
avr 1087.2
(3) 		720.9
(-2) 		649.9
(-3) 		979.7
(1.5) 		437

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 684
1 2 3 4 5 6 range
A 1201.2
(3)
P 		903
(-0.8)
P 		902.4
(-0.9)
P 		735.7
(-3)
P 		1070
(1.3)
P 		1004.9
(0.5)
P 		466
B 1325.2
(3)
P 		1032.5
(0.3)
P 		710.4
(-2.7)
P 		1002.3
(-0)
P 		683.2
(-3)
P 		1067.2
(0.6)
P 		642
C 1082.8
(1.3)
P 		1057
(1.1)
P 		886.6
(-0.6)
P 		1256.6
(3)
P 		641.7
(-3)
P 		1173
(2.2)
P 		615
avr 1203.1
(3) 		997.5
(-0) 		833.1
(-2.5) 		998.2
(-0) 		798.3
(-3) 		1081.7
(1.2) 		405
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 320
1 2 3 4 range
A 437.4
(3)
P 		132.8
(-2.9)
P 		174
(-2.1)
P 		126
(-3)
P 		311
B 307.6
(3)
P 		189.6
(-0.7)
P 		117.6
(-3)
P 		218.7
(0.2)
P 		190
C 362.7
(3)
P 		225.2
(-1.5)
P 		270.6
(0)
P 		177.4
(-3)
P 		185
avr 369.2
(3) 		182.5
(-2.7) 		187.4
(-2.6) 		174
(-3) 		195

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 289
1 2 3 4 5 6 range
A 221.4
(-1.5)
P 		321.2
(2.9)
P 		196.5
(-2.6)
P 		186.6
(-3)
P 		322.9
(3)
P 		244.6
(-0.4)
P 		136
B 461.1
(3)
P 		343.7
(0.6)
P 		172.5
(-3)
P 		265.5
(-1.1)
P 		277.6
(-0.8)
P 		398
(1.7)
P 		289
C 401.3
(3)
P 		322.5
(0.6)
P 		225.7
(-2.4)
P 		252.7
(-1.6)
P 		207.7
(-3)
P 		392.7
(2.7)
P 		194
avr 361.3
(3) 		329.1
(1.8) 		198.2
(-3) 		234.9
(-1.6) 		269.4
(-0.4) 		345.1
(2.4) 		163
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174870_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21739
Sequence Type Exemplar sequence
Representative Public ID CEK045GYR NCBI
Target Description CEK045GYR_rc /REP_DB=TREMBL Accession /GB=D34422 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk45g11 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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
Y32F6A.3 ENSEMBL cdna:known chromosome:CEL140:V:10444563:10449051:1 gene:Y32F6A.3 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000010890 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:10447596-10448631(+) 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:174870_AT
taatgggtgtctactgtcttcaaaccaaaagttttacacactttttcacgcggttctttt
attctctcacatttgtaatatatcattgataatagttatcagatcgcttcactttagaga
atttatcaccatttatttgttcgttttctcttcgtatttgcataagataatcatccaagt
accaatatgcatttcttttggtttttaactttgtcttcctcagtatatgttttctttatt
gaaactatatgatcctccatttcattattttcttgttttttcttcatcaagtatatgcct
tctacttcactttttttgtcttatgtttccttctgtttttttcatgaaaaaatttattta
tatgagccaaattggcagcttcattgttttttctttgacttcacataccatcgctcttct
cggaatcatttaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAATGGGTGTCTACTGTCTTCAAAC 233 637 62 Antisense
GTTCTTTTATTCTCTCACATTTGTA 606 443 114 Antisense
GTTATCAGATCGCTTCACTTTAGAG 198 445 156 Antisense
GTTCGTTTTCTCTTCGTATTTGCAT 603 441 200 Antisense
TGTCTTCCTCAGTATATGTTTTCTT 142 559 273 Antisense
TGATCCTCCATTTCATTATTTTCTT 604 565 311 Antisense
AGTATATGCCTTCTACTTCACTTTT 538 61 351 Antisense
TTTTTTGTCTTATGTTTCCTTCTGT 236 675 373 Antisense
GAGCCAAATTGGCAGCTTCATTGTT 404 385 425 Antisense
TTCTTTGACTTCACATACCATCGCT 302 691 452 Antisense
CATCGCTCTTCTCGGAATCATTTAA 48 213 470 Antisense
Sequence Source Affymetrix Proprietary Database