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[175161_at] polynucleotide kinase 3' phosphatase

Description AU114778_rc /REP_DB=TREMBL Accession /GB=AU114778 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk728c3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 55      6grp_high1_10_10 > 55      4grp_highest_8_8 > 47      4grp_high_8_8 > 11      6grp_highest_nonorm > 74      6grp_total > 65      4grp_total > 13      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1016
1 2 3 4 range
A 888.3
(0.2)
P 		522.6
(-2)
P 		357.8
(-3)
P 		1359.5
(3)
P 		1002
B 944.6
(2.1)
P 		581
(-1)
P 		343.6
(-3)
P 		1052.4
(3)
P 		709
C 797.3
(1.2)
P 		492.9
(-3)
P 		497.7
(-2.9)
P 		930.1
(3)
P 		437
avr 876.7
(1) 		532.2
(-1.9) 		399.7
(-3) 		1114
(3) 		714

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 363
1 2 3 4 5 6 range
A 568.3
(-2.5)
P 		645.1
(-0.9)
P 		825.3
(3)
P 		688.6
(0.1)
P 		544.7
(-3)
P 		585.2
(-2.1)
P 		281
B 746.1
(0.4)
P 		680.5
(-1.4)
P 		621.2
(-3)
P 		676.8
(-1.5)
P 		774.5
(1.1)
P 		844.3
(3)
P 		223
C 575.7
(-0.9)
P 		728.6
(2.6)
P 		511.3
(-2.3)
P 		746.1
(3)
P 		481.1
(-3)
P 		737.1
(2.8)
P 		265
avr 630
(-1.5) 		684.7
(1.2) 		652.6
(-0.4) 		703.8
(2.1) 		600.1
(-3) 		722.2
(3) 		122
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 244
1 2 3 4 range
A 323.4
(3)
P 		113.5
(-2.5)
P 		93.5
(-3)
P 		199
(-0.2)
P 		230
B 301.2
(3)
P 		143.5
(-1.3)
P 		79.6
(-3)
P 		224.3
(0.9)
P 		222
C 263.9
(3)
P 		141.7
(-3)
P 		173.5
(-1.4)
P 		156.8
(-2.3)
P 		122
avr 296.2
(3) 		132.9
(-2.4) 		115.5
(-3) 		193.4
(-0.4) 		181

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 210
1 2 3 4 5 6 range
A 104.8
(-3)
P 		229.4
(3)
P 		179.7
(0.6)
P 		174.6
(0.4)
P 		164.4
(-0.1)
P 		142.5
(-1.2)
P 		125
B 259.6
(1)
P 		226.5
(-0.2)
P 		150.8
(-3)
P 		179.3
(-2)
P 		314.7
(3)
P 		314.8
(3)
P 		164
C 213.4
(1.3)
P 		222.3
(1.7)
P 		130.1
(-3)
P 		150
(-2)
P 		155.7
(-1.7)
P 		246.8
(3)
P 		117
avr 192.6
(-0.1) 		226.1
(2.4) 		153.5
(-3) 		168
(-1.9) 		211.6
(1.3) 		234.7
(3) 		81
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175161_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21503
Sequence Type Exemplar sequence
Representative Public ID AU114778 NCBI
Target Description AU114778_rc /REP_DB=TREMBL Accession /GB=AU114778 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk728c3 : 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_069102(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069102 NCBI Caenorhabditis elegans F21D5.5 (F21D5.5) mRNA, complete cds. 11/11 A 
SNAP00000028040 ENSEMBL cdna:SNAP chromosome:CEL140:IV:8735782:8739356:-1 11/11 None
GENEFINDER00000028045 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:8735782:8736963:-1 11/11 None
F21D5.5 ENSEMBL cdna:known chromosome:CEL140:IV:8735676:8739376:-1 gene:F21D5.5 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
chrIV:8735751-8736050(-) 100.0 100.0
Public Domain and Genome References
Gene Title polynucleotide kinase 3' phosphatase
Ensembl F21D5.5
Entrez Gene 177681 Entrez gene
SwissProt Q19683 EMBL-EBI
WormBase CE27135 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.6174.1.S1_S_AT similar to polynucleotide kinase 3-phosphatase cfa
DROSOPHILA_2:1624935_AT dm
DROSGENOME1:149492_AT dm
HU35KSUBC:RC_AA425886_AT polynucleotide kinase 3'-phosphatase hs
HU35KSUBD:RC_AA620497_S_AT polynucleotide kinase 3'-phosphatase hs
HG-U133A:218961_S_AT polynucleotide kinase 3'-phosphatase hs
HG-U133_PLUS_2:218961_S_AT polynucleotide kinase 3'-phosphatase hs
HG-FOCUS:218961_S_AT polynucleotide kinase 3'-phosphatase hs
HG-U133A_2:218961_S_AT polynucleotide kinase 3'-phosphatase hs
U133_X3P:G6005835_3P_A_AT polynucleotide kinase 3'-phosphatase hs
HG-U95B:47058_AT polynucleotide kinase 3'-phosphatase hs
MU11KSUBA:AA682096_RC_AT polynucleotide kinase 3'- phosphatase mm
MU11KSUBA:AA682096_RC_G_AT polynucleotide kinase 3'- phosphatase mm
MG-U74AV2:97332_AT polynucleotide kinase 3'- phosphatase mm
MG-U74CV2:168475_I_AT polynucleotide kinase 3'- phosphatase mm
MOE430A:1416378_AT polynucleotide kinase 3'- phosphatase mm
MOUSE430A_2:1416378_AT polynucleotide kinase 3'- phosphatase mm
MOUSE430_2:1416378_AT polynucleotide kinase 3'- phosphatase mm
RAE230B:1393367_AT polynucleotide kinase 3 ' -phosphatase rn
RAT230_2:1393367_AT polynucleotide kinase 3 ' -phosphatase rn
Protein Similarities
Method ID Description E-Value
blast CAA91035 Hypothetical protein F21D5.5 [Caenorhabditis elegans] ref|NP_501503.1| F21D5.5 [Caenorhabditis elegans] gb|AAG41142.1| polynucleotide kinase 3' phosphatase [Caenorhabditis elegans] sp|Q19683|YZR5_CAEEL Hypothetical protein F21D5.5 in chromosome IV 0.0
blast CAE70018 Hypothetical protein CBG16432 [Caenorhabditis briggsae] 0.0
blast CAE70018 Hypothetical protein CBG16432 [Caenorhabditis briggsae] 1.0E-179
blast T21197 hypothetical protein F21D5.5 - Caenorhabditis elegans 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:175161_AT
gcaaaagagctcggagtgcccattcgatgtttcgagatgaattgtagtatggaacacgca
cagcacaatattcgattccgagtgttaacagatgataatgcagctgaaatctcgtcaatg
gtattaagaattcataaaggaaaatatgttgaaccaacactgtccgagggattttcacag
attgtgaaagttaatttccgcccgaaattcgaagtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAAAAGAGCTCGGAGTGCCCATTC 343 319 18 Antisense
TCGGAGTGCCCATTCGATGTTTCGA 109 607 28 Antisense
GTGCCCATTCGATGTTTCGAGATGA 234 479 33 Antisense
GTAGTATGGAACACGCACAGCACAA 693 455 61 Antisense
CGCACAGCACAATATTCGATTCCGA 126 255 74 Antisense
ATTCGATTCCGAGTGTTAACAGATG 599 7 87 Antisense
ATGCAGCTGAAATCTCGTCAATGGT 659 41 115 Antisense
TGTTGAACCAACACTGTCCGAGGGA 477 555 164 Antisense
GTCCGAGGGATTTTCACAGATTGTG 76 475 179 Antisense
GATTGTGAAAGTTAATTTCCGCCCG 194 425 197 Antisense
TAATTTCCGCCCGAAATTCGAAGTG 613 633 209 Antisense
Sequence Source Affymetrix Proprietary Database