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[187558_s_at]

Description F38E1.9 /REP_DB=WormBase Gene ID /WP=CE04527 /TR=SW:Q20157 /GB=AAA83473.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 36      6grp_high1_10_10 > 63      4grp_highest_8_8 > 17      4grp_high_8_8 > 61      6grp_highest_nonorm > 57      6grp_total > 51      4grp_total > 59      6grp_highest_sub > 03      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2236
1 2 3 4 range
A 2813.4
(0.2)
P 		2975.3
(0.6)
P 		3856.6
(3)
P 		1625.3
(-3)
P 		2231
B 2522.3
(-1.1)
P 		3861.1
(3)
P 		3809.4
(2.8)
P 		1908.9
(-3)
P 		1952
C 3087.7
(1.4)
P 		3556.2
(3)
P 		3413.4
(2.5)
P 		1819.5
(-3)
P 		1737
avr 2807.8
(0.2) 		3464.2
(2.3) 		3693.1
(3) 		1784.6
(-3) 		1909

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1317
1 2 3 4 5 6 range
A 2441.2
(-1)
P 		2585.1
(0.2)
P 		2927.4
(3)
P 		2652.4
(0.7)
P 		2232.2
(-2.8)
P 		2206.6
(-3)
P 		721
B 2410.2
(-2.8)
P 		2508
(-2.3)
P 		3479.3
(3)
P 		2756.5
(-0.9)
P 		2379.2
(-3)
P 		2471.8
(-2.5)
P 		1100
C 2165.4
(-3)
P 		2481.6
(-0.9)
P 		2465.3
(-1)
P 		3087.4
(3)
P 		2162.4
(-3)
P 		2389.8
(-1.5)
P 		925
avr 2338.9
(-2.3) 		2524.9
(-0.7) 		2957.3
(3) 		2832.1
(1.9) 		2257.9
(-3) 		2356.1
(-2.2) 		699
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 952
1 2 3 4 range
A 1024.3
(3)
P 		645.9
(0.1)
P 		1008.2
(2.9)
P 		237.9
(-3)
P 		786
B 804.4
(1.4)
P 		953.6
(3)
P 		882.7
(2.2)
P 		406.8
(-3)
P 		547
C 1022.1
(1.9)
P 		1022.4
(1.9)
P 		1189.7
(3)
P 		306.8
(-3)
P 		883
avr 950.3
(2.4) 		874
(1.7) 		1026.9
(3) 		317.2
(-3) 		710

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 517
1 2 3 4 5 6 range
A 450
(-3)
P 		919.4
(3)
P 		637.5
(-0.6)
P 		672.7
(-0.2)
P 		673.6
(-0.1)
P 		537.2
(-1.9)
P 		469
B 838.6
(-0.2)
P 		834.8
(-0.3)
P 		844.9
(-0.1)
P 		730.1
(-3)
P 		966.6
(3)
P 		921.7
(1.9)
P 		237
C 802.6
(3)
P 		757.2
(1.5)
P 		627.5
(-2.8)
P 		620.9
(-3)
P 		699.7
(-0.4)
P 		800
(2.9)
P 		182
avr 697.1
(-2.2) 		837.1
(3) 		703.3
(-1.9) 		674.6
(-3) 		780
(0.9) 		753
(-0.1) 		163
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187558_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11420
Sequence Type Exemplar sequence
Representative Public ID F38E1.9 NCBI
Target Description F38E1.9 /REP_DB=WormBase Gene ID /WP=CE04527 /TR=SW:Q20157 /GB=AAA83473.1 /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_072754(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072754 NCBI Caenorhabditis elegans F38E1.9 (F38E1.9) mRNA, complete cds. 11/11 None
SNAP00000006027 ENSEMBL cdna:SNAP chromosome:CEL140:V:8360874:8361752:-1 11/11 None
GENEFINDER00000006034 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8360874:8361752:-1 11/11 None
F38E1.9 ENSEMBL cdna:known chromosome:CEL140:V:8360812:8361753:-1 gene:F38E1.9 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:8360874-8361741(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F38E1.9
Entrez Gene 179218 Entrez gene
SwissProt Q20157 EMBL-EBI
WormBase CE04527 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:255199_AT PQ-loop repeat family protein / transmembrane family protein at
CANINE:1597601_AT similar to Mannose-P-dolichol utilization defect 1 protein (Suppressor of Lec15 and Lec35 glycosylation mutation homolog) (SL15) cfa
CANINE_2:CFA.16191.1.A1_AT similar to Mannose-P-dolichol utilization defect 1 protein (Suppressor of Lec15 and Lec35 glycosylation mutation homolog) (SL15) cfa
CANINE_2:CFA.18046.1.S1_S_AT similar to Mannose-P-dolichol utilization defect 1 protein (Suppressor of Lec15 and Lec35 glycosylation mutation homolog) (SL15) cfa
CANINE_2:CFAAFFX.25474.1.S1_AT similar to Mannose-P-dolichol utilization defect 1 protein (Suppressor of Lec15 and Lec35 glycosylation mutation homolog) (SL15) cfa
DROSOPHILA_2:1632503_AT dm
DROSGENOME1:145801_AT dm
HG-U133A_2:209208_AT mannose-P-dolichol utilization defect 1 hs
HG-U133A:209208_AT mannose-P-dolichol utilization defect 1 hs
HG-U133_PLUS_2:209208_AT mannose-P-dolichol utilization defect 1 hs
HG-FOCUS:209208_AT mannose-P-dolichol utilization defect 1 hs
HU35KSUBA:RC_AA281796_AT mannose-P-dolichol utilization defect 1 hs
HU35KSUBD:RC_AA346854_AT mannose-P-dolichol utilization defect 1 hs
HU35KSUBD:RC_T28489_AT mannose-P-dolichol utilization defect 1 hs
U133_X3P:G12001955_3P_AT mannose-P-dolichol utilization defect 1 hs
U133_X3P:HS2.427456.1.A1_3P_AT mannose-P-dolichol utilization defect 1 hs
HG-U133_PLUS_2:1557569_AT mannose-P-dolichol utilization defect 1 hs
HG-U95AV2:35791_AT mannose-P-dolichol utilization defect 1 hs
MU11KSUBB:W53527_S_AT mannose-P-dolichol utilization defect 1 mm
MG-U74AV2:101901_AT mannose-P-dolichol utilization defect 1 mm
MG-U74AV2:160805_S_AT mannose-P-dolichol utilization defect 1 mm
MOE430A:1416104_AT mannose-P-dolichol utilization defect 1 mm
MOUSE430A_2:1416104_AT mannose-P-dolichol utilization defect 1 mm
MOUSE430_2:1416104_AT mannose-P-dolichol utilization defect 1 mm
RG-U34C:RC_AI169037_AT mannose-P-dolichol utilization defect 1 (predicted) rn
RAE230A:1371655_AT mannose-P-dolichol utilization defect 1 (predicted) rn
RAT230_2:1371655_AT mannose-P-dolichol utilization defect 1 (predicted) rn
Protein Similarities
Method ID Description E-Value
blast AAA83473 Hypothetical protein F38E1.9 [Caenorhabditis elegans] ref|NP_505155.1| F38E1.9 [Caenorhabditis elegans] sp|Q20157|MPU1_CAEEL Mannose-P-dolichol utilization defect 1 protein homolog 1.0E-116
blast CAE66067 Hypothetical protein CBG11281 [Caenorhabditis briggsae] 1.0E-106
blast CAE66067 Hypothetical protein CBG11281 [Caenorhabditis briggsae] 1.0E-104
blast AAH71434 Hypothetical protein LOC415220 [Danio rerio] ref|XP_693711.1| PREDICTED: similar to mannose-P-dolichol utilization defect 1 [Danio rerio] ref|NP_001002130.1| hypothetical protein LOC415220 [Danio rerio] 9.0E-47
Protein Domains
Database ID Description E-Value
Pfam IPR006603 EMBL-EBI Cystinosin/ERS1p repeat 2.0E-20
Pfam IPR006603 EMBL-EBI Cystinosin/ERS1p repeat 2.0E-20
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_505155.1 6 31-53,63-85,98-120,140-162,175-194,204-226
F38E1.9 6 31-53,63-85,98-120,140-162,175-194,204-226
SNAP00000006027 6 35-57,67-89,102-124,144-166,179-198,208-230
GENEFINDER00000006034 6 35-57,67-89,102-124,144-166,179-198,208-230
Sequence
Target Sequence 
>C. ELEGANS:187558_S_AT
gggacttggatttgctatcactctcggatctattctccttttcgttcctcaaattttgaa
aattcaagctgctcgcagtgcacagggaatctctgccgcttcccaacttcttgctctagt
cggtgccatcggaactgcttcctacagttatcggtcaggattcgtgttcagtggatgggg
agattcattcttcgtagctgttcaacttgttatcattattcttcaaatcttcctgttctc
aggacaaacgatgttgtccgttggatttttgggaattgtttccgccgtggcatatggagt
tgttagcaaaagtattccaatgcagactctcaccgcagtgcaaaccgccggaattcctat
tgttgttgtgtcaaaacttcttcaaatctctcaaaactatcgagctcaatccaccggtca
gctttccctgatctccgttttccttcaattcgccggaaccttagcacgagttttcacttc
agttcaagatactggagatatgcttctgattgtctcttactcaacagccgctgttctcaa
tgggctcatctttgcac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGACTTGGATTTGCTATCACTCTC 272 495 117 Antisense
AGCTGCTCGCAGTGCACAGGGAATC 216 81 183 Antisense
ATCGGTCAGGATTCGTGTTCAGTGG 386 35 266 Antisense
GATTCATTCTTCGTAGCTGTTCAAC 605 431 298 Antisense
TATTCTTCAAATCTTCCTGTTCTCA 545 663 333 Antisense
GAATTGTTTCCGCCGTGGCATATGG 609 323 389 Antisense
AAGTATTCCAATGCAGACTCTCACC 241 157 426 Antisense
TCAATTCGCCGGAACCTTAGCACGA 78 629 561 Antisense
TAGCACGAGTTTTCACTTCAGTTCA 144 653 578 Antisense
ATATGCTTCTGATTGTCTCTTACTC 453 21 614 Antisense
GTTCTCAATGGGCTCATCTTTGCAC 486 443 649 Antisense
Sequence Source Affymetrix Proprietary Database