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[185162_at]

Description Y105C5B.9 /REP_DB=WormBase Gene ID /WP=CE24085 /TR=Q9NAM7 /GB=CAB54355.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 58      6grp_high1_10_10 > 84      4grp_highest_8_8 > 33      4grp_high_8_8 > 50      6grp_highest_nonorm > 96      6grp_total > 75      4grp_total > 61      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 418
1 2 3 4 range
A 661.8
(3)
P 		532.4
(0.5)
P 		571.8
(1.3)
P 		350.4
(-3)
P 		311
B 698.6
(3)
P 		630.5
(2)
P 		563.4
(1.1)
P 		280.9
(-3)
P 		418
C 649.2
(3)
P 		530.8
(1)
P 		587.7
(2)
P 		296
(-3)
P 		353
avr 669.9
(3) 		564.6
(1.2) 		574.3
(1.4) 		309.1
(-3) 		361

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 781
1 2 3 4 5 6 range
A 568.8
(-2.3)
P 		500.1
(-3)
P 		884.1
(1.2)
P 		987.7
(2.3)
P 		860.3
(0.9)
P 		1051.3
(3)
P 		551
B 605
(-2.6)
P 		557.8
(-3)
P 		863
(-0.2)
P 		876.5
(-0.1)
P 		939.4
(0.5)
P 		1211.6
(3)
P 		654
C 492.9
(-3)
P 		560.5
(-2.5)
P 		811.3
(-0.6)
P 		960.6
(0.6)
P 		724
(-1.2)
P 		1274.3
(3)
P 		781
avr 555.6
(-2.8) 		539.5
(-3) 		852.8
(-0.1) 		941.6
(0.8) 		841.2
(-0.2) 		1179.1
(3) 		640
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 191
1 2 3 4 range
A 241
(3)
P 		115.6
(-1)
P 		149.5
(0.1)
P 		51.3
(-3)
P 		190
B 222.8
(3)
P 		155.7
(0.5)
P 		130.5
(-0.4)
P 		59.9
(-3)
P 		163
C 214.9
(3)
P 		152.6
(0.7)
P 		204.8
(2.6)
P 		49.9
(-3)
P 		165
avr 226.2
(3) 		141.3
(0) 		161.6
(0.8) 		53.7
(-3) 		173

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 347
1 2 3 4 5 6 range
A 104.9
(-3)
P 		177.9
(-0.2)
P 		192.5
(0.4)
P 		250.5
(2.6)
P 		259.6
(3)
P 		256
(2.9)
P 		155
B 210.5
(-2.4)
P 		185.7
(-3)
P 		209.6
(-2.5)
P 		232.2
(-2)
P 		381.7
(1.4)
P 		451.8
(3)
P 		266
C 182.7
(-2.7)
P 		171
(-3)
P 		206.5
(-2.2)
P 		193.2
(-2.5)
P 		234.3
(-1.5)
P 		426.6
(3)
P 		256
avr 166
(-3) 		178.2
(-2.7) 		202.9
(-2) 		225.3
(-1.3) 		291.9
(0.6) 		378.1
(3) 		212
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185162_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9021
Sequence Type Exemplar sequence
Representative Public ID Y105C5B.9 NCBI
Target Description Y105C5B.9 /REP_DB=WormBase Gene ID /WP=CE24085 /TR=Q9NAM7 /GB=CAB54355.1 /SUBMIT=HINXTON /CHR=4 /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_070497(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070497 NCBI Caenorhabditis elegans Y105C5B.9 (Y105C5B.9) mRNA, complete cds. 11/11 None
SNAP00000018392 ENSEMBL cdna:SNAP chromosome:CEL140:IV:15930545:15931736:1 11/11 None
GENEFINDER00000018443 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:15930545:15931790:1 11/11 None
Y105C5B.9 ENSEMBL cdna:known chromosome:CEL140:IV:15930545:15931736:1 gene:Y105C5B.9 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
chrIV:15930550-15931742(+) 99.42 100.0
Public Domain and Genome References
Gene Title
Ensembl Y105C5B.9
Entrez Gene 178445 Entrez gene
SwissProt Q9NAM7 EMBL-EBI
WormBase CE24085 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:19988_AT phytanoyl-CoA dioxygenase (PhyH) family protein at
ATH1-121501:266351_AT phytanoyl-CoA dioxygenase (PhyH) family protein at
CANINE:1586952_AT similar to phytanoyl-CoA dioxygenase domain containing 1 (predicted) cfa
CANINE_2:CFA.546.1.A1_AT similar to phytanoyl-CoA dioxygenase domain containing 1 (predicted) cfa
CANINE_2:CFA.546.2.S1_AT similar to phytanoyl-CoA dioxygenase domain containing 1 (predicted) cfa
CANINE_2:CFAAFFX.30650.1.S1_S_AT similar to phytanoyl-CoA dioxygenase domain containing 1 (predicted) cfa
CANINE_2:CFAAFFX.30652.1.S1_AT similar to phytanoyl-CoA dioxygenase domain containing 1 (predicted) cfa
CANINE_2:CFAAFFX.30652.1.S1_X_AT similar to phytanoyl-CoA dioxygenase domain containing 1 (predicted) cfa
DROSOPHILA_2:1635321_AT dm
DROSGENOME1:149633_AT dm
CHICKEN:GGAAFFX.2826.1.S1_AT similar to PHYHD1 protein gga
CHICKEN:GGAAFFX.2826.1.S1_S_AT similar to PHYHD1 protein gga
RG-U34B:RC_AI070315_AT phytanoyl-CoA dioxygenase domain containing 1 (predicted) rn
RAE230A:1371974_AT phytanoyl-CoA dioxygenase domain containing 1 (predicted) rn
RAT230_2:1371974_AT phytanoyl-CoA dioxygenase domain containing 1 (predicted) rn
RAE230B:1398042_AT Phytanoyl-CoA dioxygenase domain containing 1 (predicted) rn
RAT230_2:1398042_AT Phytanoyl-CoA dioxygenase domain containing 1 (predicted) rn
Protein Similarities
Method ID Description E-Value
blast CAB54355 Hypothetical protein Y105C5B.9 [Caenorhabditis elegans] ref|NP_502898.1| Y105C5B.9 [Caenorhabditis elegans] 1.0E-168
blast CAB54355 Hypothetical protein Y105C5B.9 [Caenorhabditis elegans] ref|NP_502898.1| Y105C5B.9 [Caenorhabditis elegans] 1.0E-162
blast CAE57379 Hypothetical protein CBG00325 [Caenorhabditis briggsae] 1.0E-150
blast CAE57379 Hypothetical protein CBG00325 [Caenorhabditis briggsae] 1.0E-144
blast XP_415483 PREDICTED: similar to PHYHD1 protein [Gallus gallus] 3.0E-74
Protein Domains
Database ID Description E-Value
Pfam IPR008775 EMBL-EBI Phytanoyl-CoA dioxygenase 1.7E-82
Pfam IPR008775 EMBL-EBI Phytanoyl-CoA dioxygenase 7.8E-77
Sequence
Target Sequence 
>C. ELEGANS:185162_AT
ggtgcccaaggacaaggctctcaacaaaatcggtcacggcctgcactttctggatccaac
ttttgagaagatgacgttcaactcgaaaattcaaaatatcttcaaggaaattggatatca
ggagcccggcgtcgtgcagagcatgtacattttcaagcagccaaaaatcggcggagcagt
gacggaccacgtggactctacgttccttcgagtggaccctattgatcatcttacaggagt
ttggatagcaattgatgaagccagcgtggagaatggatgtctttcctttatcccgggaag
tcacaaagacacttcctccgcgaactatcgattcgtgcgaacccatgacacgtcgggagg
tgctcttcttaaattcattggcactcgtccaacatacgatcaatccaaattccagcatgt
ccccatttccaaaggatccttgattcttatccacggcctagtggtccataaaagtgaagc
gaacacatcggaaaagtcacgtcacgcgtacacgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTGCCCAAGGACAAGGCTCTCAAC 471 501 270 Antisense
GCTCTCAACAAAATCGGTCACGGCC 531 297 286 Antisense
GAGTGGACCCTATTGATCATCTTAC 624 401 479 Antisense
GAATGGATGTCTTTCCTTTATCCCG 2 333 540 Antisense
TCCTCCGCGAACTATCGATTCGTGC 645 591 583 Antisense
GCGAACCCATGACACGTCGGGAGGT 166 283 606 Antisense
GGGAGGTGCTCTTCTTAAATTCATT 356 495 624 Antisense
TCAATCCAAATTCCAGCATGTCCCC 311 633 669 Antisense
GCATGTCCCCATTTCCAAAGGATCC 205 309 684 Antisense
GGATCCTTGATTCTTATCCACGGCC 673 511 703 Antisense
AAAAGTCACGTCACGCGTACACGAT 163 133 761 Antisense
Sequence Source Affymetrix Proprietary Database