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[192578_at] stearoyl-CoA desaturase

Description F10D2.9 /REP_DB=WormBase Gene ID /WP=CE09320 /GEN=fat-7 /TR=O16918 /GB=AAC48239.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=stearoyl-CoA desaturase
Cluster 6grp_highest_10_10 > 90      6grp_high1_10_10 > 09      4grp_highest_8_8 > 24      4grp_high_8_8 > 51      6grp_highest_nonorm > 90      6grp_total > 02      4grp_total > 60      6grp_cgc > 52      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 383
1 2 3 4 range
A 419.3
(2.6)
P 		400.5
(2.2)
P 		439
(3)
P 		166.9
(-3)
P 		272
B 398.4
(1.8)
P 		394.9
(1.7)
P 		463.4
(3)
P 		136.4
(-3)
P 		327
C 457.6
(1.8)
P 		519.3
(3)
P 		412.8
(1)
P 		201.9
(-3)
P 		317
avr 425.1
(2.7) 		438.2
(3) 		438.4
(3) 		168.4
(-3) 		270

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 96
1 2 3 4 5 6 range
A 207
(2.9)
P 		163.8
(-0)
P 		173.9
(0.7)
P 		127.2
(-2.4)
P 		209
(3)
P 		118.8
(-3)
P 		90
B 173
(-0.8)
P 		195.2
(1.6)
P 		207.3
(2.8)
P 		200.3
(2.1)
P 		208.8
(3)
P 		152.1
(-3)
P 		57
C 149.3
(-1.6)
P 		214.8
(3)
P 		129.3
(-3)
P 		136.6
(-2.5)
P 		161.2
(-0.8)
P 		150.2
(-1.5)
P 		86
avr 176.4
(1.1) 		191.3
(2.8) 		170.2
(0.4) 		154.7
(-1.4) 		193
(3) 		140.4
(-3) 		53
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 128
1 2 3 4 range
A 152.7
(3)
P 		86.9
(-0.1)
P 		114.8
(1.2)
P 		24.4
(-3)
P 		128
B 127
(3)
P 		97.5
(1.2)
P 		107.4
(1.8)
P 		29.1
(-3)
P 		98
C 151.5
(3)
P 		149.3
(2.9)
P 		143.9
(2.6)
P 		34
(-3)
P 		118
avr 143.7
(3) 		111.2
(1.3) 		122
(1.9) 		29.2
(-3) 		115

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 57
1 2 3 4 5 6 range
A 38.2
(-1.4)
P 		58.3
(2.2)
P 		37.9
(-1.4)
P 		32.3
(-2.4)
P 		63.1
(3)
P 		28.9
(-3)
P 		34
B 60.2
(-1.3)
P 		65
(-0.4)
P 		50.3
(-3)
P 		53.1
(-2.5)
P 		84.8
(3)
P 		56.7
(-1.9)
P 		35
C 55.3
(1.4)
P 		65.5
(3)
P 		32.9
(-2.1)
P 		27.5
(-3)
P 		52.2
(0.9)
P 		50.3
(0.6)
P 		38
avr 51.2
(-0.2) 		62.9
(2.2) 		40.4
(-2.4) 		37.6
(-3) 		66.7
(3) 		45.3
(-1.4) 		29
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192578_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12045
Sequence Type Exemplar sequence
Representative Public ID F10D2.9 NCBI
Target Description F10D2.9 /REP_DB=WormBase Gene ID /WP=CE09320 /GEN=fat-7 /TR=O16918 /GB=AAC48239.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=stearoyl-CoA 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_072413(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072413 NCBI Caenorhabditis elegans FATty acid desaturase family member (fat-7) (fat-7) mRNA, complete cds. 11/11 None
SNAP00000033810 ENSEMBL cdna:SNAP chromosome:CEL140:V:7154039:7155723:-1 11/11 None
GENEFINDER00000033817 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:7154039:7155723:-1 11/11 None
F10D2.9 ENSEMBL cdna:known chromosome:CEL140:V:7154039:7155738:-1 gene:F10D2.9 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
chrV:7154039-7155724(-) 100.0 100.0
Public Domain and Genome References
Gene Title stearoyl-CoA desaturase
Gene Symbol fat-7
Ensembl F10D2.9
Entrez Gene 179100 Entrez gene
SwissProt O16918 EMBL-EBI
WormBase CE09320 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1628213_S_AT dm
DROSGENOME1:152911_AT dm
MOE430A:1415822_AT stearoyl-Coenzyme A desaturase 2 mm
MOUSE430_2:1415822_AT stearoyl-Coenzyme A desaturase 2 mm
MOUSE430A_2:1415822_AT stearoyl-Coenzyme A desaturase 2 mm
MOE430A:1415823_AT stearoyl-Coenzyme A desaturase 2 mm
MOUSE430A_2:1415823_AT stearoyl-Coenzyme A desaturase 2 mm
MOUSE430_2:1415823_AT stearoyl-Coenzyme A desaturase 2 mm
MOE430A:1415824_AT stearoyl-Coenzyme A desaturase 2 mm
MOUSE430A_2:1415824_AT stearoyl-Coenzyme A desaturase 2 mm
MOUSE430_2:1415824_AT stearoyl-Coenzyme A desaturase 2 mm
MU11KSUBA:M26270_S_AT stearoyl-Coenzyme A desaturase 2 mm
MG-U74AV2:95758_AT stearoyl-Coenzyme A desaturase 2 mm
MG-U74AV2:162077_F_AT stearoyl-Coenzyme A desaturase 2 mm
MU19KSUBA:TC24648_AT Stearoyl-Coenzyme A desaturase 2 (Scd2), mRNA mm
MU19KSUBB:TC33071_S_AT Stearoyl-Coenzyme A desaturase 2 (Scd2), mRNA mm
RT-U34:M15114_G_AT stearoyl-Coenzyme A desaturase 2 rn
RG-U34A:M15114_G_AT stearoyl-Coenzyme A desaturase 2 rn
RG-U34A:AF036761_G_AT stearoyl-Coenzyme A desaturase 2 rn
RG-U34A:U67995_S_AT stearoyl-Coenzyme A desaturase 2 rn
RG-U34A:AF036761_AT stearoyl-Coenzyme A desaturase 2 rn
RG-U34A:RC_AA875269_AT stearoyl-Coenzyme A desaturase 2 rn
RG-U34A:S75730_AT stearoyl-Coenzyme A desaturase 2 rn
RG-U34B:RC_AI011483_AT stearoyl-Coenzyme A desaturase 2 rn
RG-U34C:RC_AI228830_S_AT stearoyl-Coenzyme A desaturase 2 rn
RAE230A:1367668_A_AT stearoyl-Coenzyme A desaturase 2 rn
RAT230_2:1367668_A_AT stearoyl-Coenzyme A desaturase 2 rn
RAE230A:1386889_AT stearoyl-Coenzyme A desaturase 2 rn
RAT230_2:1386889_AT stearoyl-Coenzyme A desaturase 2 rn
RAE230B:1398016_AT stearoyl-Coenzyme A desaturase 2 rn
RAT230_2:1398016_AT stearoyl-Coenzyme A desaturase 2 rn
RT-U34:M15114_AT Stearoyl-Coenzyme A desaturase 2 rn
RG-U34A:M15114_AT Stearoyl-Coenzyme A desaturase 2 rn
RAE230A:1388253_AT Stearoyl-Coenzyme A desaturase 2 rn
RAT230_2:1388253_AT Stearoyl-Coenzyme A desaturase 2 rn
YEAST_2:1771509_AT Fatty acid desaturase, required for monounsaturated fatty acid synthesis and for normal distribution of mitochondria Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6633 fatty acid biosynthesis inferred from electronic annotation QuickGO AmiGO
6633 fatty acid biosynthesis inferred from direct assay 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
4768 stearoyl-CoA 9-desaturase activity inferred from direct assay QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_504814 FATty acid desaturase family member (fat-7) [Caenorhabditis elegans] gb|AAC48239.1| Fatty acid desaturase protein 7 [Caenorhabditis elegans] gb|AAF97549.1| stearoyl-CoA desaturase FAT-7 [Caenorhabditis elegans] 0.0
blast CAB08356 Hypothetical protein VZK822L.1 [Caenorhabditis elegans] ref|NP_502255.1| FATty acid desaturase family member (fat-6) [Caenorhabditis elegans] gb|AAF97550.1| stearoyl-CoA desaturase FAT-6 [Caenorhabditis elegans] 1.0E-171
blast CAE62144 Hypothetical protein CBG06190 [Caenorhabditis briggsae] 1.0E-167
Protein Domains
Database ID Description E-Value
Pfam IPR005804 EMBL-EBI Fatty acid desaturase 8.4E-78
Pfam IPR005804 EMBL-EBI Fatty acid desaturase 1.3E-62
Pfam IPR005804 EMBL-EBI Fatty acid desaturase 2.4E-8
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504814.1 4 46-68,78-100,195-214,218-240
F10D2.9 4 46-68,78-100,195-214,218-240
SNAP00000033810 4 46-68,78-100,195-214,218-240
GENEFINDER00000033817 4 46-68,78-100,195-214,219-241
Sequence
Target Sequence 
>C. ELEGANS:192578_AT
attcttcttcactcacatgggatggcttcttgtgcgtaagcatccacaagttaaggagca
tggaggcaaactcgacctatctgatctatttagcgatccagttcttgtattccagagaaa
gcactatttcccactggtcattttgttttgtttcattcttccaacaattatccccgttta
tttctggaaggagacagcattcattgcgttttacgtagctggaacattccgttattgttt
cacacttcacgccacttggtgcatcaacagcgctgctcactattttggttggaagccata
cgatacttctgtttccgccgttgagaacgtctttaccacagttgtagccgttggtgaagg
aggtcacaatttccaccacacattcccacaagactacagagcatctgaatattcattgat
atacaattggacccgtgttcttattgatactgcagctgttcttggtcttgtctacgatag
aaaaacaattgccgatgagtttatcagccggcaggttgcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCTTCTTCACTCACATGGGATGG 560 9 468 Antisense
GCAAACTCGACCTATCTGATCTATT 142 319 533 Antisense
TAGCGATCCAGTTCTTGTATTCCAG 379 651 558 Antisense
AAGCACTATTTCCCACTGGTCATTT 429 151 586 Antisense
CGTTATTGTTTCACACTTCACGCCA 379 247 697 Antisense
TTCACGCCACTTGGTGCATCAACAG 562 687 713 Antisense
AGCCATACGATACTTCTGTTTCCGC 375 83 761 Antisense
GAACGTCTTTACCACAGTTGTAGCC 610 347 792 Antisense
GGACCCGTGTTCTTATTGATACTGC 635 523 896 Antisense
TGATACTGCAGCTGTTCTTGGTCTT 87 565 912 Antisense
TGAGTTTATCAGCCGGCAGGTTGCC 564 567 963 Antisense
Sequence Source Affymetrix Proprietary Database