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[189954_at] phosphodiesterase

Description Y95B8A.10 /REP_DB=WormBase Gene ID /WP=CE23151 /TR=Q9N2V9 /GB=AAF60898.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=phosphodiesterase
Cluster 6grp_total > 07      4grp_total > 46      6grp_cgc > 15      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 281
1 2 3 4 range
A 304.4
(3)
P 		104.2
(-1.3)
A 		23.4
(-3)
A 		82.9
(-1.7)
A 		281
B 268.6
(3)
P 		81.4
(-2.3)
A 		59.3
(-2.9)
A 		57.2
(-3)
A 		211
C 274.9
(3)
A 		108.8
(-1.8)
A 		67.1
(-3)
A 		65.6
(-3)
A 		209
avr 282.6
(3) 		98.1
(-1.8) 		49.9
(-3) 		68.6
(-2.5) 		233

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 143
1 2 3 4 5 6 range
A 103.7
(2.7)
P 		109.1
(3)
A 		49.6
(-0.5)
A 		31.1
(-1.6)
A 		6.5
(-3)
A 		99.1
(2.4)
A 		103
B 121.7
(3)
A 		66.1
(-0.1)
A 		48.8
(-1)
A 		80.6
(0.7)
A 		12.7
(-3)
A 		50.8
(-0.9)
A 		109
C 149.8
(3)
A 		46.3
(-2.8)
A 		88.3
(-0.5)
A 		71.9
(-1.4)
A 		43.1
(-3)
A 		47.8
(-2.7)
A 		107
avr 125.1
(3) 		73.8
(0) 		62.2
(-0.6) 		61.2
(-0.7) 		20.8
(-3) 		65.9
(-0.4) 		104
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 105
1 2 3 4 range
A 110.8
(3)
P 		22.6
(-2.1)
A 		6.1
(-3)
A 		12.1
(-2.7)
A 		105
B 85.6
(3)
P 		20.1
(-2.4)
A 		13.7
(-2.9)
A 		12.2
(-3)
A 		73
C 91
(3)
A 		31.3
(-1.5)
A 		23.4
(-2.1)
A 		11.1
(-3)
A 		80
avr 95.8
(3) 		24.7
(-2.1) 		14.4
(-2.8) 		11.8
(-3) 		84

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 54
1 2 3 4 5 6 range
A 19.1
(-0.2)
P 		38.8
(3)
A 		10.8
(-1.6)
A 		7.9
(-2)
A 		2
(-3)
A 		24.1
(0.6)
A 		37
B 42.4
(3)
A 		22
(-0.3)
A 		11.8
(-1.9)
A 		21.4
(-0.4)
A 		5.1
(-3)
A 		19
(-0.8)
A 		37
C 55.5
(3)
A 		14.1
(-3)
A 		22.5
(-1.8)
A 		14.5
(-2.9)
A 		13.9
(-3)
A 		16
(-2.7)
A 		42
avr 39
(3) 		25
(0.4) 		15
(-1.5) 		14.6
(-1.6) 		7
(-3) 		19.7
(-0.6) 		32
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189954_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.33
Sequence Type Exemplar sequence
Representative Public ID Y95B8A.10 NCBI
Target Description Y95B8A.10 /REP_DB=WormBase Gene ID /WP=CE23151 /TR=Q9N2V9 /GB=AAF60898.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=phosphodiesterase
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_058386(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058386 NCBI Caenorhabditis elegans Y95B8A.10 (phosphodiesterase) mRNA, complete cds. 11/11 None
SNAP00000034253 ENSEMBL cdna:SNAP chromosome:CEL140:I:854149:879691:-1 11/11 None
Y95B8A.10 ENSEMBL cdna:known chromosome:CEL140:I:872770:882715:-1 gene:Y95B8A.10 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000034294 2/11 Cross Hyb Matching Probes None
GENEFINDER00000034282 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:873482-882715(-) 100.0 100.0
Public Domain and Genome References
Gene Title phosphodiesterase
Gene Symbol pde-6
Ensembl Y95B8A.10
Entrez Gene 190808 Entrez gene
SwissProt Q9N2V9 EMBL-EBI
WormBase CE23151 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.20176.1.S1_S_AT similar to High-affinity cAMP-specific and IBMX-insensitive 3,5-cyclic phosphodiesterase 8A cfa
CHICKEN:GGA.11274.1.S1_S_AT phosphodiesterase 8A gga
CHICKEN:GGAAFFX.26688.2.S1_S_AT phosphodiesterase 8A gga
HU35KSUBC:RC_N59855_AT phosphodiesterase 8A hs
HU35KSUBC:RC_AA262475_AT phosphodiesterase 8A hs
U133_X3P:HS2.78746.1.S1_3P_S_AT phosphodiesterase 8A hs
U133_X3P:HS.78746.0.S2_3P_AT phosphodiesterase 8A hs
U133_X3P:HS.78746.0.S1_3P_A_AT phosphodiesterase 8A hs
HG-U133_PLUS_2:1552931_A_AT phosphodiesterase 8A hs
HG-U133A_2:212521_S_AT phosphodiesterase 8A hs
HG-U133_PLUS_2:212521_S_AT phosphodiesterase 8A hs
HG-U133A:212521_S_AT phosphodiesterase 8A hs
HG-U133A_2:212522_AT phosphodiesterase 8A hs
HG-U133_PLUS_2:212522_AT phosphodiesterase 8A hs
HG-U133A:212522_AT phosphodiesterase 8A hs
HG-U95AV2:37676_AT phosphodiesterase 8A hs
HG-U133_PLUS_2:215635_AT Phosphodiesterase 8A hs
HG-U133A_2:215635_AT Phosphodiesterase 8A hs
HG-U133A:215635_AT Phosphodiesterase 8A hs
HG-U133_PLUS_2:244573_AT Phosphodiesterase 8A hs
HG-U133B:244573_AT Phosphodiesterase 8A hs
HG-U133_PLUS_2:216046_AT Phosphodiesterase 8A hs
HG-U133A_2:216046_AT Phosphodiesterase 8A hs
HG-U133A:216046_AT Phosphodiesterase 8A hs
HG-U95AV2:34142_AT Phosphodiesterase 8A hs
HU35KSUBB:RC_W93119_AT Phosphodiesterase 8A hs
HU35KSUBB:RC_R97428_AT Phosphodiesterase 8A hs
U133_X3P:HS.306330.0.S1_3P_AT Phosphodiesterase 8A hs
U133_X3P:HS.193000.0.A1_3P_AT Phosphodiesterase 8A hs
U133_X3P:HS.187513.0.S1_3P_AT Phosphodiesterase 8A hs
HG-U95AV2:32348_AT Phosphodiesterase 8A hs
HG-U95C:63146_AT Phosphodiesterase 8A hs
HG-U133_PLUS_2:239874_AT Phosphodiesterase 8A hs
HG-U133B:239874_AT Phosphodiesterase 8A hs
HG-U95B:48886_I_AT Phosphodiesterase 8A hs
HG-U95B:48887_F_AT Phosphodiesterase 8A hs
HG-U95E:84641_AT Phosphodiesterase 8A hs
HG-U95E:84644_R_AT Phosphodiesterase 8A hs
HG-U95E:88408_AT Phosphodiesterase 8A hs
HU35KSUBB:RC_T51910_AT Phosphodiesterase 8A hs
U133_X3P:HS.172070.0.A1_3P_AT Phosphodiesterase 8A hs
MG-U74AV2:160941_AT phosphodiesterase 8A mm
MOE430A:1418407_AT phosphodiesterase 8A mm
MOUSE430A_2:1418407_AT phosphodiesterase 8A mm
MOUSE430_2:1418407_AT phosphodiesterase 8A mm
MOE430A:1418406_AT phosphodiesterase 8A mm
MOUSE430A_2:1418406_AT phosphodiesterase 8A mm
MOUSE430_2:1418406_AT phosphodiesterase 8A mm
MOE430B:1457940_AT Phosphodiesterase 8A (Pde8a), mRNA mm
MOUSE430_2:1457940_AT Phosphodiesterase 8A (Pde8a), mRNA mm
MG-U74CV2:169037_AT Phosphodiesterase 8A (Pde8a), mRNA mm
MU19KSUBA:TC17335_AT Phosphodiesterase 8A (Pde8a), mRNA mm
RAE230B:1382518_AT phosphodiesterase 8A rn
RAT230_2:1382518_AT phosphodiesterase 8A rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7165 signal transduction inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3824 catalytic activity inferred from electronic annotation QuickGO AmiGO
4114 3',5'-cyclic-nucleotide phosphodiesterase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF60898 Phosphodiesterase protein 6 [Caenorhabditis elegans] ref|NP_490787.1| Y95B8A.10 [Caenorhabditis elegans] sp|Q9N2V9|PDE6_CAEEL Probable 3',5'-cyclic phosphodiesterase pde-6 0.0
blast CAE71587 Hypothetical protein CBG18544 [Caenorhabditis briggsae] 0.0
blast NP_758467 phosphodiesterase 8B [Mus musculus] gb|AAH32286.1| Phosphodiesterase 8B [Mus musculus] 1.0E-79
blast NP_758467 phosphodiesterase 8B [Mus musculus] gb|AAH32286.1| Phosphodiesterase 8B [Mus musculus] 3.0E-79
Protein Domains
Database ID Description E-Value
Pfam IPR002073 EMBL-EBI 35-cyclic nucleotide phosphodiesterase 1.2E-76
Pfam IPR002073 EMBL-EBI 35-cyclic nucleotide phosphodiesterase 1.2E-76
Sequence
Target Sequence 
>C. ELEGANS:189954_AT
gcgacagtcgcttgcaatactttacaatgataactcgatcctggagaatcatcacatcgc
actagcctttcagctaacccttcagcacaacgccaacgtgaacatcttctcgagtctgtc
gcgcgaggagttcatccaaatgcgacatgcgatggtggagatggtgttggctacggacat
cagtcgacactttgagtacctcgccaagttcaacaagatgcatgtgacagatgtgccgga
ggagcaacgtgacacgaattcacttacgatatgtgatatgcttgtcaagtgcgccgacat
ctccaatccggcgagagagtggggattgtgtcagcgatgggcgcatcggattgttgagga
gtactttgaacagactcgagaagaaaaagagaaagggctgcctgtgacgatggaggtatt
cgatcggaacacgtgtaacgttccgatcacacaatgcggttttattgacatgttcgcccg
cgaagcattcgccacattcaccgagttcgccaagctcggcgagctctccgatcagctcga
gtcgaacta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGACAGTCGCTTGCAATACTTTAC 449 289 1683 Antisense
TGGAGAATCATCACATCGCACTAGC 200 549 1724 Antisense
TTTCAGCTAACCCTTCAGCACAACG 82 671 1750 Antisense
CAACGCCAACGTGAACATCTTCTCG 597 187 1770 Antisense
TCTTCTCGAGTCTGTCGCGCGAGGA 428 617 1787 Antisense
GTTGGCTACGGACATCAGTCGACAC 690 435 1848 Antisense
AGTACCTCGCCAAGTTCAACAAGAT 474 59 1877 Antisense
TGGGGATTGTGTCAGCGATGGGCGC 646 553 2002 Antisense
GACATGTTCGCCCGCGAAGCATTCG 146 369 2149 Antisense
TCACCGAGTTCGCCAAGCTCGGCGA 192 627 2180 Antisense
TCTCCGATCAGCTCGAGTCGAACTA 268 611 2207 Antisense
Sequence Source Affymetrix Proprietary Database