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[180165_at]

Description F39G3.5 /REP_DB=WormBase Gene ID /WP=CE10120 /TR=O16271 /GB=AAB65330.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 20      6grp_high1_10_10 > 07      4grp_highest_8_8 > 33      4grp_high_8_8 > 51      6grp_highest_nonorm > 21      6grp_total > 05      4grp_total > 61      6grp_highest_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1129
1 2 3 4 range
A 1541.6
(3)
P 		1076.2
(0.3)
P 		1415.8
(2.3)
P 		493
(-3)
P 		1049
B 1323.8
(3)
P 		1296.1
(2.8)
P 		1250.8
(2.5)
P 		414.1
(-3)
P 		910
C 1425
(3)
P 		1370
(2.7)
P 		1310.8
(2.3)
P 		413
(-3)
P 		1012
avr 1430.1
(3) 		1247.4
(1.9) 		1325.8
(2.4) 		440
(-3) 		990

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1165
1 2 3 4 5 6 range
A 1843.4
(3)
P 		1167.7
(-0.5)
P 		1189.3
(-0.4)
P 		1031.2
(-1.2)
P 		1098.4
(-0.8)
P 		678.6
(-3)
P 		1165
B 1662.7
(3)
P 		1434.6
(1.4)
P 		1260.2
(0.2)
P 		1158.2
(-0.5)
P 		1260.1
(0.2)
P 		800
(-3)
P 		863
C 1733.3
(3)
P 		1330.7
(0.5)
P 		851.7
(-2.4)
P 		1220.9
(-0.1)
P 		890.9
(-2.1)
P 		747.7
(-3)
P 		986
avr 1746.5
(3) 		1311
(0.4) 		1100.4
(-0.9) 		1136.8
(-0.6) 		1083.1
(-1) 		742.1
(-3) 		1004
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 492
1 2 3 4 range
A 561.3
(3)
P 		233.6
(-1)
P 		370.1
(0.7)
P 		72.2
(-3)
P 		489
B 422.2
(3)
P 		320.1
(1.2)
P 		289.8
(0.6)
P 		88.2
(-3)
P 		334
C 471.7
(3)
P 		393.9
(1.8)
P 		456.9
(2.8)
P 		69.6
(-3)
P 		402
avr 485.1
(3) 		315.9
(0.5) 		372.3
(1.3) 		76.7
(-3) 		408

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 477
1 2 3 4 5 6 range
A 339.8
(1.2)
P 		415.3
(3)
P 		259
(-0.7)
P 		261.5
(-0.7)
P 		331.4
(1)
P 		165.2
(-3)
P 		250
B 578.5
(3)
P 		477.5
(0.8)
P 		306
(-2.8)
P 		306.8
(-2.8)
P 		512
(1.6)
P 		298.3
(-3)
P 		280
C 642.5
(3)
P 		406
(-0.3)
P 		216.8
(-3)
P 		245.5
(-2.6)
P 		288.3
(-2)
P 		250.3
(-2.5)
P 		426
avr 520.3
(3) 		432.9
(1.1) 		260.6
(-2.5) 		271.3
(-2.3) 		377.2
(-0) 		237.9
(-3) 		282
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180165_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15480
Sequence Type Exemplar sequence
Representative Public ID F39G3.5 NCBI
Target Description F39G3.5 /REP_DB=WormBase Gene ID /WP=CE10120 /TR=O16271 /GB=AAB65330.1 /SUBMIT=ST.LOUIS /CHR=5 /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_001028729(11), NM_001028730(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028729 NCBI Caenorhabditis elegans F39G3.5a (F39G3.5) mRNA, complete cds. 11/11 None
NM_001028730 NCBI Caenorhabditis elegans F39G3.5b (F39G3.5) mRNA, complete cds. 11/11 None
SNAP00000029879 ENSEMBL cdna:SNAP chromosome:CEL140:V:4722434:4724234:1 11/11 None
GENEFINDER00000029889 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:4722434:4724234:1 11/11 None
F39G3.5a ENSEMBL cdna:known chromosome:CEL140:V:4722434:4724327:1 gene:F39G3.5 11/11 None
F39G3.5b ENSEMBL cdna:known chromosome:CEL140:V:4722434:4724379:1 gene:F39G3.5 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000003365 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:4722433-4724234(+) 100.0 100.0
Public Domain and Genome References
Ensembl F39G3.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB65330 Hypothetical protein F39G3.5a [Caenorhabditis elegans] ref|NP_001023900.1| F39G3.5a [Caenorhabditis elegans] 1.0E-145
blast CAE64178 Hypothetical protein CBG08803 [Caenorhabditis briggsae] 1.0E-113
blast AAT68893 Hypothetical protein F39G3.5b [Caenorhabditis elegans] ref|NP_001023901.1| F39G3.5b [Caenorhabditis elegans] 2.0E-83
Protein Domains
Database ID Description E-Value
Pfam IPR004877 EMBL-EBI Cytochrome b561 4.1E-119
Pfam IPR004877 EMBL-EBI Cytochrome b561 2.8E-67
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001023900.1 6 16-38,67-86,99-121,136-158,178-197,217-239
NP_001023901.1 4 16-38,67-86,99-121,131-148
F39G3.5a 6 16-38,67-86,99-121,136-158,178-197,217-239
F39G3.5b 4 16-38,67-86,99-121,131-148
SNAP00000029879 6 16-38,67-86,99-121,136-158,178-197,217-239
GENEFINDER00000029889 6 16-38,67-86,99-121,136-158,178-197,217-239
Sequence
Target Sequence 
>C. ELEGANS:180165_AT
cgatcaactgcacgcgtttctgatgattttagcatttatttattttcaaggagaagcttt
gttggcatatcgattgtaccggtatgacgcgaagattatttcaaaactacttcacacagc
tctacatattattgcaattgggctaggaattactgcattgactgtgattataatgagtac
taataacgcaggttggaataattttacaagtgttcacagttggattggaatttgtctgct
ttcggtttatctggttcagttctcctttggatttctgacatatctgtgcccatgctcgcc
tggaaaataccgagctcgcctgatgccaattcatcgagcagttggtgttggctgttttat
tgttgcatgtgtacaatgctgtcttggatatggaaatattcttttggaagatcagccagg
ctgcttctcggatctttcttgtaaaaatcgaatcgaatatgttggagcgttcagtgtcat
gttcattattctctacactctacttgtgttagcgttgatcattccagtgccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGATCAACTGCACGCGTTTCTGATG 401 249 201 Antisense
AAAACTACTTCACACAGCTCTACAT 294 131 303 Antisense
GAATTTGTCTGCTTTCGGTTTATCT 532 325 428 Antisense
TATCTGGTTCAGTTCTCCTTTGGAT 434 659 448 Antisense
GGATTTCTGACATATCTGTGCCCAT 232 509 469 Antisense
TCGCCTGGAAAATACCGAGCTCGCC 158 599 496 Antisense
GCTCGCCTGATGCCAATTCATCGAG 401 299 514 Antisense
AGATCAGCCAGGCTGCTTCTCGGAT 433 65 609 Antisense
GGAGCGTTCAGTGTCATGTTCATTA 657 521 664 Antisense
TGTTCATTATTCTCTACACTCTACT 252 561 680 Antisense
GTTAGCGTTGATCATTCCAGTGCCG 621 445 708 Antisense
Sequence Source Affymetrix Proprietary Database