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[191089_at] Putative membrane protein

Description R13.3 /REP_DB=WormBase Gene ID /WP=CE06320 /TR=SW:Q21973 /GB=CAA97442.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Putative membrane protein
Cluster 6grp_total > 20      4grp_total > 52      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 119
1 2 3 4 range
A 116.3
(3)
P 		92.8
(-1.7)
A 		86.5
(-3)
A 		103.5
(0.4)
A 		30
B 112.2
(3)
P 		76.8
(0.2)
P 		105.9
(2.5)
P 		36.5
(-3)
A 		76
C 76.4
(-3)
P 		155
(3)
P 		92.9
(-1.7)
P 		82.3
(-2.5)
A 		79
avr 101.6
(1.8) 		108.2
(3) 		95.1
(0.7) 		74.1
(-3) 		34

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 139
1 2 3 4 5 6 range
A 29.2
(-3)
A 		90.5
(0.5)
P 		93.1
(0.6)
A 		135.8
(3)
A 		56.5
(-1.5)
A 		51.3
(-1.8)
A 		107
B 100.9
(3)
P 		73.6
(-0.4)
P 		61.3
(-1.9)
A 		53.2
(-2.9)
A 		89
(1.5)
A 		52.6
(-3)
A 		48
C 76.6
(-1.7)
P 		168.6
(3)
P 		152.3
(2.2)
P 		60.5
(-2.6)
A 		52
(-3)
A 		68.1
(-2.2)
A 		117
avr 68.9
(-1.7) 		110.9
(3) 		102.2
(2) 		83.2
(-0.1) 		65.8
(-2) 		57.3
(-3) 		54
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 37
1 2 3 4 range
A 42.4
(3)
P 		20.1
(-1.9)
A 		22.6
(-1.4)
A 		15.1
(-3)
A 		27
B 35.8
(3)
P 		19
(-0.6)
P 		24.5
(0.6)
P 		7.8
(-3)
A 		28
C 25.3
(-0.8)
P 		44.6
(3)
P 		32.4
(0.6)
P 		13.9
(-3)
A 		31
avr 34.5
(3) 		27.9
(1.2) 		26.5
(0.8) 		12.3
(-3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 46
1 2 3 4 5 6 range
A 5.4
(-3)
A 		32.2
(2.5)
P 		20.3
(0.1)
A 		34.4
(3)
A 		17
(-0.6)
A 		12.5
(-1.5)
A 		29
B 35.1
(2.7)
P 		24.5
(-0.2)
P 		14.9
(-2.8)
A 		14.1
(-3)
A 		36.1
(3)
A 		19.6
(-1.5)
A 		22
C 28.4
(-0.5)
P 		51.4
(3)
P 		38.8
(1.1)
P 		12.2
(-3)
A 		16.8
(-2.3)
A 		22.8
(-1.4)
A 		39
avr 23
(-1.4) 		36
(3) 		24.7
(-0.8) 		20.2
(-2.4) 		23.3
(-1.3) 		18.3
(-3) 		18
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191089_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8494
Sequence Type Exemplar sequence
Representative Public ID R13.3 NCBI
Target Description R13.3 /REP_DB=WormBase Gene ID /WP=CE06320 /TR=SW:Q21973 /GB=CAA97442.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Putative 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_069606(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069606 NCBI Caenorhabditis elegans R13.3 (R13.3) mRNA, complete cds. 11/11 None
SNAP00000041974 ENSEMBL cdna:SNAP chromosome:CEL140:IV:10829752:10832216:-1 11/11 None
GENEFINDER00000041976 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:10829752:10832216:-1 11/11 None
R13.3 ENSEMBL cdna:known chromosome:CEL140:IV:10829538:10832220:-1 gene:R13.3 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
chrIV:10829757-10832222(-) 100.0 100.0
Public Domain and Genome References
Gene Title Putative membrane protein
Ensembl R13.3
Entrez Gene 177975 Entrez gene
SwissProt Q21973 EMBL-EBI
WormBase CE32919 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA97442 Hypothetical protein R13.3 [Caenorhabditis elegans] ref|NP_502007.2| R13.3 [Caenorhabditis elegans] gb|AAR99658.1| bestrophin 1 [Caenorhabditis elegans] sp|Q21973|BES1_CAEEL Bestrophin-1 0.0
blast CAE70840 Hypothetical protein CBG17620 [Caenorhabditis briggsae] 0.0
blast AAK72064 Hypothetical protein T21D12.9b [Caenorhabditis elegans] ref|NP_499895.2| T21D12.9b [Caenorhabditis elegans] 1.0E-148
Protein Domains
Database ID Description E-Value
Pfam IPR000615 EMBL-EBI Bestrophin 1.0E-126
Pfam IPR000615 EMBL-EBI Bestrophin 1.7E-61
Pfam IPR000615 EMBL-EBI Bestrophin 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502007.2 4 36-55,75-92,230-252,272-294
R13.3 4 36-55,75-92,230-252,272-294
SNAP00000041974 4 36-55,75-92,230-252,272-294
GENEFINDER00000041976 4 36-55,75-92,247-269,289-311
Sequence
Target Sequence 
>C. ELEGANS:191089_AT
ttataatcgaaccccatcagtggagaaagacgcattttggtgtgctgatgtggagcctct
ctattctgtagaaactgcaatgattccgaaaaatccacaaattggatccgctgctaatta
tgatgtaaaagttgacgaggaagaagtgatgatgatgccacatatggatgacgtcgatct
atttgatttcgagtcgaccaacaatttgattccacgaaaaacattctcggtcatctcgat
ccaacgaccatttggtagccgcgccagtctagcatctcgcaaaagaagcatgatgtttga
tcaattgagaggaagaattgcaaagaaacaacatcgcagtaacatgttccaaaactctgt
ttcacaggcttctcttcattattttgaatcccaggctccgagcgagataaacctctcaac
tctggaaatgacagcaccaaaacgaaagtcatcaactggaaaacttggatcaatgaacgt
ggcagaagagcagcacaaactatccgccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTATAATCGAACCCCATCAGTGGAG 138 679 969 Antisense
TGATGTGGAGCCTCTCTATTCTGTA 502 567 1014 Antisense
GATCTATTTGATTTCGAGTCGACCA 556 419 1144 Antisense
GAGTCGACCAACAATTTGATTCCAC 19 397 1159 Antisense
AAAACATTCTCGGTCATCTCGATCC 347 131 1186 Antisense
TCCAACGACCATTTGGTAGCCGCGC 380 585 1208 Antisense
GCCAGTCTAGCATCTCGCAAAAGAA 687 279 1231 Antisense
TTCACAGGCTTCTCTTCATTATTTT 572 685 1329 Antisense
ATTATTTTGAATCCCAGGCTCCGAG 363 13 1346 Antisense
GGCTCCGAGCGAGATAAACCTCTCA 240 539 1362 Antisense
GAAGAGCAGCACAAACTATCCGCCG 558 337 1453 Antisense
Sequence Source Affymetrix Proprietary Database