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[192186_at] Fatty acid desaturase

Description W02A2.1 /REP_DB=WormBase Gene ID /WP=CE21231 /GEN=fat-2 /TR=Q9XUB8 /GB=CAB05304.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Fatty acid desaturase
Cluster 6grp_highest_10_10 > 27      6grp_high1_10_10 > 71      4grp_highest_8_8 > 41      4grp_high_8_8 > 49      6grp_highest_nonorm > 28      6grp_total > 71      4grp_total > 62      6grp_highest_sub > 03_04      6grp_cgc > 85      6grp_high1_sub > 04      6grp_cgc_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5902
1 2 3 4 range
A 10513.1
(3)
P 		7275.7
(-0.3)
P 		8189.6
(0.6)
P 		4616.4
(-3)
P 		5897
B 9884.3
(3)
P 		7416.3
(0.2)
P 		7937.6
(0.8)
P 		4611.6
(-3)
P 		5273
C 9163.4
(3)
P 		7610.5
(0.8)
P 		7849.1
(1.2)
P 		4837.5
(-3)
P 		4326
avr 9853.6
(3) 		7434.2
(0.2) 		7992.1
(0.8) 		4688.5
(-3) 		5165

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9897
1 2 3 4 5 6 range
A 8641.6
(-3)
P 		10215.2
(-1.6)
P 		13598.1
(1.3)
P 		15591.3
(3)
P 		11837.7
(-0.2)
P 		9199.1
(-2.5)
P 		6950
B 8918.8
(-2.2)
P 		9485.1
(-1.6)
P 		14070.4
(3)
P 		12572.9
(1.5)
P 		11606.7
(0.5)
P 		8123.4
(-3)
P 		5947
C 9295.4
(-2.7)
P 		10627.3
(-1.9)
P 		13145.6
(-0.2)
P 		18020.2
(3)
P 		11299
(-1.4)
P 		8874.7
(-3)
P 		9146
avr 8951.9
(-2.8) 		10109.2
(-1.8) 		13604.7
(1.4) 		15394.8
(3) 		11581.1
(-0.4) 		8732.4
(-3) 		6662
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3152
1 2 3 4 range
A 3827.8
(3)
P 		1579.4
(-1.3)
P 		2140.9
(-0.2)
P 		675.8
(-3)
P 		3152
B 3152
(3)
P 		1831.7
(-0.7)
P 		1839.3
(-0.6)
P 		982.7
(-3)
P 		2169
C 3033.4
(3)
P 		2188.1
(0.7)
P 		2735.7
(2.2)
P 		815.7
(-3)
P 		2218
avr 3337.7
(3) 		1866.4
(-0.5) 		2238.6
(0.4) 		824.7
(-3) 		2513

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3123
1 2 3 4 5 6 range
A 1593
(-3)
P 		3633
(2.2)
P 		2961.4
(0.5)
P 		3954.3
(3)
P 		3572.1
(2)
P 		2239.7
(-1.4)
P 		2361
B 3103.3
(-2.7)
P 		3157.2
(-2.5)
P 		3416.7
(-1.6)
P 		3330.1
(-1.9)
P 		4715.7
(3)
P 		3029.2
(-3)
P 		1687
C 3445.4
(1.2)
P 		3242.7
(-0.6)
P 		3345.8
(0.3)
P 		3623.9
(2.7)
P 		3656.2
(3)
P 		2970.9
(-3)
P 		685
avr 2713.9
(-3) 		3344.3
(-0) 		3241.3
(-0.5) 		3636.1
(1.4) 		3981.3
(3) 		2746.6
(-2.8) 		1267
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192186_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9660
Sequence Type Exemplar sequence
Representative Public ID W02A2.1 NCBI
Target Description W02A2.1 /REP_DB=WormBase Gene ID /WP=CE21231 /GEN=fat-2 /TR=Q9XUB8 /GB=CAB05304.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Fatty acid desaturase
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_070159(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070159 NCBI Caenorhabditis elegans FATty acid desaturase family member (fat-2) (fat-2) mRNA, complete cds. 11/11 None
SNAP00000017632 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13323849:13326247:1 11/11 None
GENEFINDER00000017647 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13323849:13326247:1 11/11 None
W02A2.1.2 ENSEMBL cdna:known chromosome:CEL140:IV:13323820:13326684:1 gene:W02A2.1 11/11 None
W02A2.1.1 ENSEMBL cdna:known chromosome:CEL140:IV:13323827:13326684:1 gene:W02A2.1 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
chrIV:13323854-13326253(+) 100.0 100.0
Public Domain and Genome References
Gene Title Fatty acid desaturase
Gene Symbol fat-2
Ensembl W02A2.1
Entrez Gene 178293 Entrez gene
SwissProt Q9XUB8 EMBL-EBI
WormBase CE21231 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:16647_S_AT omega-3 fatty acid desaturase, endoplasmic reticulum (FAD3) at
ATH1-121501:266865_AT omega-3 fatty acid desaturase, endoplasmic reticulum (FAD3) at
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
16491 oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB05304 Hypothetical protein W02A2.1 [Caenorhabditis elegans] ref|NP_502560.1| FATty acid desaturase family member (fat-2) [Caenorhabditis elegans] gb|AAF63745.1| delta 12 fatty acid desaturase FAT-2 [Caenorhabditis elegans] 0.0
blast CAE58622 Hypothetical protein CBG01790 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005804 EMBL-EBI Fatty acid desaturase 1.3E-70
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502560.1 4 43-65,69-91,206-228,233-251
W02A2.1.2 4 43-65,69-91,206-228,233-251
W02A2.1.1 4 43-65,69-91,206-228,233-251
SNAP00000017632 4 43-65,69-91,206-228,233-251
GENEFINDER00000017647 4 43-65,69-91,206-228,233-251
Sequence
Target Sequence 
>C. ELEGANS:192186_AT
tggaatccaatctacaccatcgtcggtcttccagatggatctcatttctggccatggtcc
cggctcttcgagactactgaggatcgtgtcaagtgtgcagtttctggagttgcatgcgct
atctgtgcttacattgcctttgtcctctgcgactattctgtctacacatttgtcaagtac
tactacattccacttctcttccaaggacttattctcgtcattatcacatatcttcaacat
cagaatgaggatattgaggtctacgaagctgatgagtggggatttgtacgcggacaaacc
caaactatcgacagacactggggattcggactcgacaacatcatgcacaacattaccaac
ggtcacgtcgcccatcacttcttcttcaccaaaatcccacattatcatctgttggaggca
actccagcaatcaagaaagctcttgaaccactgaaagacactcaatacggatacaaacga
gaagtcaactataactggttcttcaagtatcttcactacaacgttaccctcgactatttg
actcataa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGAATCCAATCTACACCATCGTCG 341 547 532 Antisense
GATGGATCTCATTTCTGGCCATGGT 427 407 565 Antisense
GGATCGTGTCAAGTGTGCAGTTTCT 375 511 612 Antisense
CAGTTTCTGGAGTTGCATGCGCTAT 295 205 629 Antisense
CATGCGCTATCTGTGCTTACATTGC 343 211 644 Antisense
CCTCTGCGACTATTCTGTCTACACA 584 267 675 Antisense
GACTTATTCTCGTCATTATCACATA 36 373 737 Antisense
ACAGACACTGGGGATTCGGACTCGA 181 107 842 Antisense
CATGCACAACATTACCAACGGTCAC 133 211 873 Antisense
AGTATCTTCACTACAACGTTACCCT 21 63 1037 Antisense
TTACCCTCGACTATTTGACTCATAA 298 683 1055 Antisense
Sequence Source Affymetrix Proprietary Database