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[188407_at]

Description C27H5.1 /REP_DB=WormBase Gene ID /WP=CE01175 /GEN=pdl-1 /TR=SW:Q18268 /GB=AAC46655.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 17      4grp_highest_8_8 > 47      4grp_high_8_8 > 11      6grp_highest_nonorm > 50      6grp_total > 06      4grp_total > 13      6grp_highest_sub > De      6grp_cgc > 12      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 769
1 2 3 4 range
A 760.4
(0.6)
P 		742.9
(0.4)
P 		449.3
(-3)
P 		967.2
(3)
P 		518
B 762
(-0.7)
P 		563.1
(-2.4)
P 		495.5
(-3)
P 		1183.1
(3)
P 		688
C 849.6
(0.9)
P 		554.1
(-1.7)
P 		413.7
(-3)
P 		1076.2
(3)
P 		663
avr 790.7
(0.3) 		620
(-1.4) 		452.8
(-3) 		1075.5
(3) 		623

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 443
1 2 3 4 5 6 range
A 749.7
(3)
P 		602.6
(0.5)
P 		488.6
(-1.4)
P 		511.7
(-1)
P 		516.2
(-0.9)
P 		393.4
(-3)
P 		356
B 813.2
(3)
P 		543.8
(-1.4)
P 		587.1
(-0.7)
P 		446.7
(-3)
P 		469.8
(-2.6)
P 		460.5
(-2.8)
P 		367
C 738.3
(3)
P 		545.9
(-0.1)
P 		395.3
(-2.6)
P 		369.8
(-3)
P 		480.3
(-1.2)
P 		509.1
(-0.7)
P 		369
avr 767.1
(3) 		564.1
(-0.8) 		490.3
(-2.1) 		442.7
(-3) 		488.8
(-2.1) 		454.3
(-2.8) 		324
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 167
1 2 3 4 range
A 276.9
(3)
P 		161.3
(-1.3)
P 		117.4
(-3)
P 		141.6
(-2.1)
P 		160
B 243
(2.6)
P 		139.1
(-1.9)
P 		114.8
(-3)
P 		252.1
(3)
P 		137
C 281.3
(3)
P 		159.3
(-2.3)
P 		144.2
(-3)
P 		181.5
(-1.4)
P 		137
avr 267.1
(3) 		153.2
(-1.8) 		125.5
(-3) 		191.7
(-0.2) 		142

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 209
1 2 3 4 5 6 range
A 138.2
(-0.9)
P 		214.3
(3)
P 		106.4
(-2.5)
P 		129.8
(-1.3)
P 		155.8
(0)
P 		95.8
(-3)
P 		119
B 282.9
(3)
P 		181
(-0.7)
P 		142.6
(-2.1)
P 		118.3
(-3)
P 		190.9
(-0.4)
P 		171.7
(-1.1)
P 		165
C 273.7
(3)
P 		166.6
(-0.2)
P 		100.6
(-2.2)
P 		74.4
(-3)
P 		155.4
(-0.6)
P 		170.4
(-0.1)
P 		199
avr 231.6
(3) 		187.3
(0.9) 		116.5
(-2.6) 		107.5
(-3) 		167.4
(-0.1) 		146
(-1.1) 		124
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188407_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4871
Sequence Type Exemplar sequence
Representative Public ID C27H5.1 NCBI
Target Description C27H5.1 /REP_DB=WormBase Gene ID /WP=CE01175 /GEN=pdl-1 /TR=SW:Q18268 /GB=AAC46655.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=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_063089(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063089 NCBI Caenorhabditis elegans Phosphodiesterase DeLta-like family member (pdl-1) (pdl-1) mRNA, complete cds. 11/11 None
SNAP00000006118 ENSEMBL cdna:SNAP chromosome:CEL140:II:7183756:7185090:1 11/11 None
GENEFINDER00000006123 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7183756:7185090:1 11/11 None
C27H5.1 ENSEMBL cdna:known chromosome:CEL140:II:7183756:7185090:1 gene:C27H5.1 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:7183751-7185086(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol pdl-1
Ensembl C27H5.1
Entrez Gene 191741 Entrez gene
SwissProt Q18268 EMBL-EBI
WormBase CE01175 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1582370_AT phosphodiesterase 6D, cGMP-specific, rod, delta cfa
CANINE_2:CFA.13057.1.A1_S_AT phosphodiesterase 6D, cGMP-specific, rod, delta cfa
CANINE_2:CFA.723.1.A1_S_AT phosphodiesterase 6D, cGMP-specific, rod, delta cfa
DROSOPHILA_2:1630530_AT dm
DROSGENOME1:146044_AT dm
CHICKEN:GGA.5300.1.S1_AT similar to rod phosphodiesterase delta subunit gga
HG-U133_PLUS_2:216883_X_AT phosphodiesterase 6D, cGMP-specific, rod, delta hs
HG-U133A_2:216883_X_AT phosphodiesterase 6D, cGMP-specific, rod, delta hs
HG-U133A:216883_X_AT phosphodiesterase 6D, cGMP-specific, rod, delta hs
HG-U133_PLUS_2:204091_AT phosphodiesterase 6D, cGMP-specific, rod, delta hs
HG-U133A:204091_AT phosphodiesterase 6D, cGMP-specific, rod, delta hs
HG-FOCUS:204091_AT phosphodiesterase 6D, cGMP-specific, rod, delta hs
HG-U133A_2:204091_AT phosphodiesterase 6D, cGMP-specific, rod, delta hs
HU35KSUBC:RC_N62658_AT phosphodiesterase 6D, cGMP-specific, rod, delta hs
HU35KSUBC:RC_AA406356_AT phosphodiesterase 6D, cGMP-specific, rod, delta hs
U133_X3P:HS.48291.1.A1_3P_A_AT phosphodiesterase 6D, cGMP-specific, rod, delta hs
HG-U95AV2:36044_AT phosphodiesterase 6D, cGMP-specific, rod, delta hs
HG-U95C:51647_AT Phosphodiesterase 6D, cGMP-specific, rod, delta hs
HU35KSUBD:RC_AA451927_AT Phosphodiesterase 6D, cGMP-specific, rod, delta hs
MG-U74AV2:160602_AT phosphodiesterase 6D, cGMP-specific, rod, delta mm
MOE430A:1416843_AT phosphodiesterase 6D, cGMP-specific, rod, delta mm
MOUSE430A_2:1416843_AT phosphodiesterase 6D, cGMP-specific, rod, delta mm
MOUSE430_2:1416843_AT phosphodiesterase 6D, cGMP-specific, rod, delta mm
MU19KSUBB:TC27032_AT Phosphodiesterase 6D, cGMP-specific, rod, delta, mRNA (cDNA clone MGC:11435 IMAGE:3964336) mm
MU19KSUBB:TC27032_G_AT Phosphodiesterase 6D, cGMP-specific, rod, delta, mRNA (cDNA clone MGC:11435 IMAGE:3964336) mm
RG-U34A:RC_AA875045_AT phosphodiesterase 6D, cGMP-specific, rod, delta (predicted) rn
RAE230A:1388512_AT phosphodiesterase 6D, cGMP-specific, rod, delta (predicted) rn
RAT230_2:1388512_AT phosphodiesterase 6D, cGMP-specific, rod, delta (predicted) rn
RAE230B:1394426_AT Phosphodiesterase 6D, cGMP-specific, rod, delta (predicted) rn
RAT230_2:1394426_AT Phosphodiesterase 6D, cGMP-specific, rod, delta (predicted) rn
Protein Similarities
Method ID Description E-Value
blast AAC46655 Phosphodiesterase delta-like protein 1 [Caenorhabditis elegans] ref|NP_495490.1| Phosphodiesterase DeLta-like family member (pdl-1) [Caenorhabditis elegans] sp|Q18268|PDL1_CAEEL Phosphodiesterase delta-like protein 8.0E-88
blast CAE67559 Hypothetical protein CBG13085 [Caenorhabditis briggsae] 2.0E-84
blast AAC25953 phosphodiesterase delta subunit; PDED [Homo sapiens] ref|NP_002592.1| phosphodiesterase 6D, cGMP-specific, rod, delta [Homo sapiens] gb|AAH07831.1| Phosphodiesterase 6D, cGMP-specific, rod, delta [Homo sapiens] emb|CAG33261.1| PDE6D [Homo sapiens] gb|AAP35942.1| phosphodiesterase 6D, cGMP-specific, rod, delta [Homo sapiens] gb|AAB87872.1| cGMP phosphodiesterase delta subunit [Homo sapiens] gb|AAY24151.1| unknown [Homo sapiens] gb|AAX32731.1| phosphodiesterase 6D [synthetic construct] gb|AAX32730.1| phosphodiesterase 6D [synthetic construct] sp|O43924|PDE6D_HUMAN Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase delta-subunit (GMP-PDE delta) (p17 protein) gb|AAC39720.1| rod cGMP phosphodiesterase delta subunit [Homo sapiens] 5.0E-58
Protein Domains
Database ID Description E-Value
Pfam IPR008015 EMBL-EBI GMP-PDE, delta subunit 1.7E-98
Sequence
Target Sequence 
>C. ELEGANS:188407_AT
taccgctactcgtcatcaagattctaaattgagcgaaaaggcagagagcattctggctgg
cttcaagctcaactggatgaacttgcgtgatgcagaaactggaaaagttctctggcagag
cacagaagacatggctgacccaaaaagggaacacaaagcacacgtgccaaagaatcttct
aaaatgtcgtacggtgtctcgtgagatcaacttcacttcatcagtcaaaatcgaaaaatt
tcgactcgagcaacgcgtttatttgaagggaaccatcattgaagagtggtatttcgattt
tggatttgtcattcctgattcaacaaacacgtggcaaaatatgattgaggcagctccaga
atcacaaatgttcccaccatctgtactcagcggaaacgtcgtcgtcgagactttattcta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TACCGCTACTCGTCATCAAGATTCT 519 649 21 Antisense
GAGCATTCTGGCTGGCTTCAAGCTC 697 387 66 Antisense
AGCACACGTGCCAAAGAATCTTCTA 188 77 177 Antisense
ATGTCGTACGGTGTCTCGTGAGATC 445 47 204 Antisense
GAGATCAACTTCACTTCATCAGTCA 322 397 223 Antisense
ATTTCGACTCGAGCAACGCGTTTAT 465 17 258 Antisense
ATTCCTGATTCAACAAACACGTGGC 561 7 331 Antisense
GATTGAGGCAGCTCCAGAATCACAA 319 435 363 Antisense
AGAATCACAAATGTTCCCACCATCT 135 75 378 Antisense
TGTACTCAGCGGAAACGTCGTCGTC 330 559 402 Antisense
ACGTCGTCGTCGAGACTTTATTCTA 572 89 416 Antisense
Sequence Source Affymetrix Proprietary Database