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[177076_at] membrane protein

Description F28A10.8 /REP_DB=WormBase Gene ID /WP=CE19413 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=membrane protein
Cluster 6grp_total > 70      4grp_total > 42      6grp_total_sub > Hat      6grp_rule_based > S4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 40
1 2 3 4 range
A 5.9
(-3)
A 		6.6
(-2.6)
A 		16.2
(3)
A 		13.7
(1.5)
A 		10
B 8.1
(-2)
A 		16.3
(0.1)
A 		27.2
(3)
A 		4.5
(-3)
A 		23
C 5.7
(-3)
A 		44.5
(3)
A 		6.7
(-2.8)
A 		9.8
(-2.4)
A 		39
avr 6.6
(-3) 		22.5
(3) 		16.7
(0.8) 		9.3
(-2) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 37
1 2 3 4 5 6 range
A 10.5
(-1.1)
A 		4.3
(-3)
A 		23.6
(3)
A 		20
(1.9)
A 		9.5
(-1.4)
A 		9.8
(-1.3)
A 		19
B 8.8
(-1.9)
A 		23.5
(1.4)
A 		10.1
(-1.6)
A 		30.6
(3)
A 		4.1
(-3)
A 		7.4
(-2.3)
A 		27
C 9.6
(-1.9)
A 		10.5
(-1.8)
A 		9.4
(-2)
A 		39.8
(3)
A 		3.1
(-3)
A 		4.1
(-2.8)
A 		37
avr 9.6
(-2) 		12.8
(-1.2) 		14.4
(-0.8) 		30.1
(3) 		5.6
(-3) 		7.1
(-2.6) 		25
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 2.1
(-1.5)
A 		1.4
(-3)
A 		4.2
(3)
A 		2
(-1.7)
A 		3
B 2.6
(-1.2)
A 		4
(0.4)
A 		6.3
(3)
A 		1
(-3)
A 		5
C 1.9
(-2.9)
A 		12.8
(3)
A 		2.3
(-2.7)
A 		1.7
(-3)
A 		11
avr 2.2
(-2.2) 		6.1
(3) 		4.3
(0.6) 		1.6
(-3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7
1 2 3 4 5 6 range
A 1.9
(-2.3)
A 		1.5
(-3)
A 		5.1
(3)
A 		5.1
(3)
A 		2.9
(-0.7)
A 		2.4
(-1.5)
A 		4
B 3.1
(-1.7)
A 		7.8
(2.7)
A 		2.5
(-2.3)
A 		8.1
(3)
A 		1.7
(-3)
A 		2.7
(-2.1)
A 		6
C 3.5
(-0.9)
A 		3.2
(-1.1)
A 		2.4
(-1.8)
A 		8
(3)
A 		1
(-3)
A 		1.4
(-2.7)
A 		7
avr 2.8
(-2) 		4.2
(-0.3) 		3.3
(-1.4) 		7.1
(3) 		1.9
(-3) 		2.2
(-2.7) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177076_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5141
Sequence Type Exemplar sequence
Representative Public ID F28A10.8 NCBI
Target Description F28A10.8 /REP_DB=WormBase Gene ID /WP=CE19413 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=membrane protein
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_061427(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061427 NCBI Caenorhabditis elegans F28A10.8 (F28A10.8) mRNA, complete cds. 11/11 None
SNAP00000009511 ENSEMBL cdna:SNAP chromosome:CEL140:II:837815:838476:-1 11/11 None
F28A10.8 ENSEMBL cdna:known chromosome:CEL140:II:837815:838476:-1 gene:F28A10.8 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000009523 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:837814-838476(-) 100.0 100.0
Public Domain and Genome References
Gene Title membrane protein
Ensembl F28A10.8
Entrez Gene 185033 Entrez gene
SwissProt Q95YB6 EMBL-EBI
WormBase CE19413 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK85474 Hypothetical protein F28A10.8 [Caenorhabditis elegans] ref|NP_493828.1| F28A10.8 [Caenorhabditis elegans] 1.0E-113
blast AAF39967 Hypothetical protein T02H6.9 [Caenorhabditis elegans] ref|NP_493787.1| T02H6.9 [Caenorhabditis elegans] 6.0E-44
blast CAA21683 Hypothetical protein Y54E2A.9 [Caenorhabditis elegans] ref|NP_497065.1| Y54E2A.9 [Caenorhabditis elegans] 7.0E-37
Protein Domains
Database ID Description E-Value
Pfam IPR005515 EMBL-EBI Vitelline membrane outer layer protein I (VOMI) 1.4E-62
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493828.1 1 2-24
F28A10.8 1 2-24
SNAP00000009511 1 2-24
Sequence
Target Sequence 
>C. ELEGANS:177076_AT
ttggcttctctcctgttatggatcactgctctttctccacccaccgtcatcaaatcccca
agtctcagcaattggggtttctggagtaaagtggaaagttgtccgtcggtatcatttgtt
catggaatgaggatcaagtatgatgcagcaatttctcatgataacactgctctcaatgcg
attcaatttgtctgcaagcatcacaatcaacatttcgataatataactcatataatagga
gctgatggaccatttggagtttggcaaattagttttcattactgctcagatggagactac
gtgattggatttgctcttcaatcagatacttcaagttccggtgatggtactggtgccaac
aactttgccgcttattgtggaaaaccagatggatcaagaaacaatttgaaattgattaaa
gatgatatcccacgcgaaaacggaaaatggaacgacgatcaattctgtccgcttgggcaa
gttgtctgtggaatcagagtccaaattgaaccgaatcaaggattagccgatgacactggt
ctcaacaacgtcgattt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGGCTTCTCTCCTGTTATGGATCA 288 705 34 Antisense
TGTTATGGATCACTGCTCTTTCTCC 433 561 47 Antisense
GTTGTCCGTCGGTATCATTTGTTCA 35 437 131 Antisense
AACACTGCTCTCAATGCGATTCAAT 705 133 196 Antisense
GTCTGCAAGCATCACAATCAACATT 282 471 223 Antisense
AAGTTCCGGTGATGGTACTGGTGCC 50 151 366 Antisense
GCCAACAACTTTGCCGCTTATTGTG 496 277 388 Antisense
GAACGACGATCAATTCTGTCCGCTT 194 347 483 Antisense
CTGTCCGCTTGGGCAAGTTGTCTGT 4 241 498 Antisense
AGGATTAGCCGATGACACTGGTCTC 575 55 552 Antisense
ACACTGGTCTCAACAACGTCGATTT 692 109 566 Antisense
Sequence Source Affymetrix Proprietary Database