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[192357_at] Fatty acid desaturase

Description W06D12.3 /REP_DB=WormBase Gene ID /WP=CE16551 /GEN=fat-5 /TR=O45892 /GB=CAB04924.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Fatty acid desaturase
Cluster 6grp_highest_10_10 > 68      6grp_high1_10_10 > 96      4grp_highest_8_8 > 53      4grp_high_8_8 > 17      6grp_highest_nonorm > 59      6grp_total > 86      4grp_total > 31      6grp_highest_sub > In      6grp_cgc > 67      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1650
1 2 3 4 range
A 1828.3
(3)
P 		245.7
(-2.8)
P 		197.6
(-3)
P 		1048.7
(0.1)
P 		1631
B 1830.5
(3)
P 		320.8
(-2.5)
P 		193
(-3)
P 		1073.7
(0.2)
P 		1638
C 1737
(3)
P 		257.1
(-2.7)
P 		181
(-3)
P 		1151.3
(0.7)
P 		1556
avr 1798.6
(3) 		274.5
(-2.7) 		190.5
(-3) 		1091.2
(0.4) 		1608

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8226
1 2 3 4 5 6 range
A 1162.3
(-2.9)
P 		1007.6
(-3)
P 		2535.9
(-1.9)
P 		3725.9
(-1)
P 		3430
(-1.2)
P 		9233.5
(3)
P 		8226
B 1318.4
(-2.7)
P 		1061.8
(-3)
P 		2997.1
(-0.9)
P 		3412.1
(-0.5)
P 		3951.2
(0.1)
P 		6699.5
(3)
P 		5638
C 1205.8
(-2.9)
P 		1105.1
(-3)
P 		2961.4
(-0.9)
P 		3962.2
(0.2)
P 		3585.7
(-0.2)
P 		6503.9
(3)
P 		5399
avr 1228.8
(-2.8) 		1058.2
(-3) 		2831.5
(-1.3) 		3700.1
(-0.5) 		3655.6
(-0.6) 		7479
(3) 		6421
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 621
1 2 3 4 range
A 665.7
(3)
P 		53.3
(-3)
P 		51.6
(-3)
P 		153.5
(-2)
P 		614
B 583.7
(3)
P 		79.2
(-2.6)
P 		44.7
(-3)
P 		228.8
(-1)
P 		539
C 575
(3)
P 		73.9
(-2.9)
P 		63.1
(-3)
P 		194.1
(-1.5)
P 		512
avr 608.1
(3) 		68.8
(-2.8) 		53.1
(-3) 		192.1
(-1.5) 		555

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2284
1 2 3 4 5 6 range
A 214.3
(-3)
P 		358.3
(-2.6)
P 		552.3
(-2)
P 		945
(-0.8)
P 		1035
(-0.6)
P 		2248.1
(3)
P 		2034
B 458.7
(-2.7)
P 		353.4
(-3)
P 		727.8
(-2)
P 		903.7
(-1.5)
P 		1605.3
(0.5)
P 		2498.2
(3)
P 		2145
C 446.9
(-2.6)
P 		337.2
(-3)
P 		753.7
(-1.6)
P 		796.8
(-1.5)
P 		1160.3
(-0.3)
P 		2177.2
(3)
P 		1840
avr 373.3
(-2.9) 		349.6
(-3) 		677.9
(-2) 		881.8
(-1.4) 		1266.9
(-0.2) 		2307.8
(3) 		1958
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192357_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13728
Sequence Type Exemplar sequence
Representative Public ID W06D12.3 NCBI
Target Description W06D12.3 /REP_DB=WormBase Gene ID /WP=CE16551 /GEN=fat-5 /TR=O45892 /GB=CAB04924.1 /SUBMIT=HINXTON /CHR=5 /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_075081(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075081 NCBI Caenorhabditis elegans FATty acid desaturase family member (fat-5) (fat-5) mRNA, complete cds. 11/11 None
SNAP00000010709 ENSEMBL cdna:SNAP chromosome:CEL140:V:17725967:17735228:1 11/11 None
GENEFINDER00000010717 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:17727581:17729293:1 11/11 None
W06D12.3 ENSEMBL cdna:known chromosome:CEL140:V:17727581:17729342:1 gene:W06D12.3 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
chrV:17727580-17729293(+) 100.0 100.0
Public Domain and Genome References
Gene Title Fatty acid desaturase
Gene Symbol fat-5
Ensembl W06D12.3
Entrez Gene 180162 Entrez gene
SwissProt O45892 EMBL-EBI
WormBase CE16551 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1603657_AT similar to Acyl-CoA desaturase (Stearoyl-CoA desaturase) (Fatty acid desaturase) (Delta(9)-desaturase) cfa
CANINE:1586057_S_AT similar to Acyl-CoA desaturase (Stearoyl-CoA desaturase) (Fatty acid desaturase) (Delta(9)-desaturase) cfa
CANINE_2:CFA.21151.1.S1_AT similar to Acyl-CoA desaturase (Stearoyl-CoA desaturase) (Fatty acid desaturase) (Delta(9)-desaturase) cfa
CANINE_2:CFA.263.1.S1_AT similar to Acyl-CoA desaturase (Stearoyl-CoA desaturase) (Fatty acid desaturase) (Delta(9)-desaturase) cfa
CANINE_2:CFAAFFX.15184.1.S1_S_AT similar to Acyl-CoA desaturase (Stearoyl-CoA desaturase) (Fatty acid desaturase) (Delta(9)-desaturase) cfa
CHICKEN:GGA.17055.1.S1_AT stearoyl-CoA desaturase (delta-9-desaturase) gga
HG-U133_PLUS_2:211708_S_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-U133A:211708_S_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-U133A_2:211708_S_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-U133_PLUS_2:200832_S_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-U133A:200832_S_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-U133A_2:200832_S_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-FOCUS:200832_S_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-U133_PLUS_2:211162_X_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-U133A:211162_X_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-U133A_2:211162_X_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-U133_PLUS_2:200831_S_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-U133A_2:200831_S_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-U133A:200831_S_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HU35KSUBD:RC_T03441_F_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HU35KSUBD:RC_AA609164_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
U133_X3P:G7959734_RC_3P_S_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
U133_X3P:G7415720_3P_A_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
U133_X3P:G11993936_3P_S_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
U133_X3P:HS.119597.0.A2_3P_A_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-U95AV2:37513_AT stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-U133_PLUS_2:223839_S_AT Stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-U133B:223839_S_AT Stearoyl-CoA desaturase (delta-9-desaturase) hs
U133_X3P:G11493551_3P_AT Stearoyl-CoA desaturase (delta-9-desaturase) hs
HG-U95C:54032_AT Stearoyl-CoA desaturase (delta-9-desaturase) hs
MOE430A:1415964_AT stearoyl-Coenzyme A desaturase 1 mm
MOUSE430A_2:1415964_AT stearoyl-Coenzyme A desaturase 1 mm
MOUSE430_2:1415964_AT stearoyl-Coenzyme A desaturase 1 mm
MOE430A:1415965_AT stearoyl-Coenzyme A desaturase 1 mm
MOUSE430_2:1415965_AT stearoyl-Coenzyme A desaturase 1 mm
MOUSE430A_2:1415965_AT stearoyl-Coenzyme A desaturase 1 mm
MU11KSUBA:AA137436_S_AT stearoyl-Coenzyme A desaturase 1 mm
MU11KSUBB:MSA.1167.0_S_AT stearoyl-Coenzyme A desaturase 1 mm
MG-U74AV2:94057_G_AT stearoyl-Coenzyme A desaturase 1 mm
MG-U74AV2:94056_AT stearoyl-Coenzyme A desaturase 1 mm
MG-U74AV2:94058_R_AT stearoyl-Coenzyme A desaturase 1 mm
MU19KSUBB:TC32760_F_AT Strain BALB/c stearoyl-coenzyme A desaturase 1 (Scd1) mm
MU19KSUBB:TC32760_I_AT Strain BALB/c stearoyl-coenzyme A desaturase 1 (Scd1) mm
MU19KSUBC:TC35102_AT Strain BALB/c stearoyl-coenzyme A desaturase 1 (Scd1) mm
MU19KSUBC:TC42159_AT Strain BALB/c stearoyl-coenzyme A desaturase 1 (Scd1) mm
RT-U34:J02585_AT stearoyl-Coenzyme A desaturase 1 rn
RG-U34A:J02585_AT stearoyl-Coenzyme A desaturase 1 rn
RG-U34A:AF036761_G_AT stearoyl-Coenzyme A desaturase 1 rn
RG-U34A:RC_AI175764_S_AT stearoyl-Coenzyme A desaturase 1 rn
RAE230A:1370355_AT stearoyl-Coenzyme A desaturase 1 rn
RAT230_2:1370355_AT stearoyl-Coenzyme A desaturase 1 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6633 fatty acid biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5783 endoplasmic reticulum inferred from electronic annotation QuickGO AmiGO
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4768 stearoyl-CoA 9-desaturase activity inferred from electronic annotation QuickGO AmiGO
5506 iron ion binding inferred from electronic annotation QuickGO AmiGO
16491 oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB04924 Hypothetical protein W06D12.3 [Caenorhabditis elegans] ref|NP_507482.1| FATty acid desaturase family member (fat-5) [Caenorhabditis elegans] gb|AAF97548.1| palmitoyl-CoA fatty acid desaturase FAT-5 [Caenorhabditis elegans] 0.0
blast CAE56819 Hypothetical protein CBG24633 [Caenorhabditis briggsae] 1.0E-177
blast CAE56819 Hypothetical protein CBG24633 [Caenorhabditis briggsae] 1.0E-166
blast CAE62144 Hypothetical protein CBG06190 [Caenorhabditis briggsae] 1.0E-133
Protein Domains
Database ID Description E-Value
Pfam IPR005804 EMBL-EBI Fatty acid desaturase 1.7E-76
Pfam IPR005804 EMBL-EBI Fatty acid desaturase 1.7E-76
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_507482.1 3 38-60,70-92,189-211
W06D12.3 3 38-60,70-92,189-211
SNAP00000010709 3 114-136,146-168,265-287
GENEFINDER00000010717 3 38-60,70-92,189-211
Sequence
Target Sequence 
>C. ELEGANS:192357_AT
ggacggatactgatgctgacccgcatagcaccaaccgcggaatgttcttcgctcatatgg
gatggttgttggtgaagaagcacgatcagttgaagattcagggaggaaagttggatttaa
gcgatttgtacgaggatccggtgctgatgttccagaggaagaactacctccccttggtcg
gaatcttctgcttcgccctgcccaccttcattccagtcgtcctctggggcgagtcagcct
tcatcgccttctacacggccgccctcttccgttactgcttcaccctccacgctacatggt
gcatcaacagtgtctcccactgggtcggatggcagccatacgatcatcaagcctcatcag
tagacaatctatggacatctattgcggcagtcggagaaggaggtcacaactaccatcaca
ccttcccccaggactatagaacttccgagcacgcggagttcttgaactggacccgagtat
tgattgatttcggggcgtctattgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGACGGATACTGATGCTGACCCGCA 167 523 404 Antisense
CAACCGCGGAATGTTCTTCGCTCAT 342 187 435 Antisense
GTACGAGGATCCGGTGCTGATGTTC 426 459 531 Antisense
CAGAGGAAGAACTACCTCCCCTTGG 243 205 556 Antisense
CATCAACAGTGTCTCCCACTGGGTC 568 211 705 Antisense
CACTGGGTCGGATGGCAGCCATACG 583 197 721 Antisense
GCCATACGATCATCAAGCCTCATCA 399 281 738 Antisense
GGACATCTATTGCGGCAGTCGGAGA 188 551 776 Antisense
GAACTTCCGAGCACGCGGAGTTCTT 301 349 842 Antisense
GAGTTCTTGAACTGGACCCGAGTAT 189 399 859 Antisense
GATTGATTTCGGGGCGTCTATTGGA 236 435 885 Antisense
Sequence Source Affymetrix Proprietary Database