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[190937_s_at] Putative membrane protein

Description C49A1.3 /REP_DB=WormBase Gene ID /WP=CE08829 /TR=O17671 /GB=CAB05708.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Putative membrane protein
Cluster 6grp_total > 87      4grp_total > 27      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 47
1 2 3 4 range
A 4.6
(-3)
A 		20.7
(3)
A 		6.9
(-2.1)
A 		13.8
(0.4)
A 		16
B 41.5
(1.6)
A 		37.8
(1.1)
A 		8
(-3)
A 		51.7
(3)
A 		44
C 12.8
(-2)
A 		34.8
(0.8)
A 		5.1
(-3)
A 		52
(3)
A 		47
avr 19.6
(-0.6) 		31.1
(1.5) 		6.7
(-3) 		39.2
(3) 		33

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 77
1 2 3 4 5 6 range
A 6.1
(-2.8)
A 		3.4
(-3)
A 		31.5
(-0.6)
A 		7.3
(-2.7)
A 		45
(0.6)
A 		73.6
(3)
A 		70
B 7.8
(-3)
A 		22.4
(-1.7)
A 		12.8
(-2.5)
A 		46.2
(0.6)
A 		49.9
(0.9)
A 		72.7
(3)
A 		65
C 4.5
(-2.8)
A 		7.4
(-2.6)
A 		2
(-3)
A 		8.9
(-2.5)
A 		8.8
(-2.5)
A 		78.5
(3)
A 		77
avr 6.1
(-3) 		11.1
(-2.6) 		15.4
(-2.2) 		20.8
(-1.7) 		34.6
(-0.5) 		74.9
(3) 		69
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 1.7
(-3)
A 		4.5
(3)
A 		1.8
(-2.8)
A 		2
(-2.4)
A 		3
B 13.2
(3)
A 		9.3
(0.9)
A 		1.9
(-3)
A 		11
(1.8)
A 		11
C 4.2
(-1.2)
A 		10
(3)
A 		1.8
(-3)
A 		8.8
(2.1)
A 		8
avr 6.4
(1.5) 		7.9
(3) 		1.8
(-3) 		7.3
(2.4) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 1.1
(-3)
A 		1.2
(-3)
A 		6.9
(-0.9)
A 		1.8
(-2.8)
A 		13.6
(1.5)
A 		17.9
(3)
A 		17
B 2.7
(-3)
A 		7.5
(-1.8)
A 		3.1
(-2.9)
A 		12.2
(-0.7)
A 		20.3
(1.3)
A 		27.1
(3)
A 		24
C 1.7
(-2.7)
A 		2.2
(-2.6)
A 		0.5
(-3)
A 		1.8
(-2.7)
A 		2.9
(-2.4)
A 		26.3
(3)
A 		26
avr 1.8
(-3) 		3.6
(-2.5) 		3.5
(-2.5) 		5.3
(-2) 		12.3
(-0.1) 		23.8
(3) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190937_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2236
Sequence Type Exemplar sequence
Representative Public ID C49A1.3 NCBI
Target Description C49A1.3 /REP_DB=WormBase Gene ID /WP=CE08829 /TR=O17671 /GB=CAB05708.1 /SUBMIT=HINXTON /CHR=1 /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_061081(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061081 NCBI Caenorhabditis elegans C49A1.3 (C49A1.3) mRNA, complete cds. 11/11 None
GENEFINDER00000008663 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:14224874:14229063:-1 11/11 None
C49A1.3 ENSEMBL cdna:known chromosome:CEL140:I:14224874:14228296:-1 gene:C49A1.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000008655 7/11 Cross Hyb Matching Probes None
SNAP00000008656 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:14224804-14228227(-) 100.0 100.0
Public Domain and Genome References
Gene Title Putative membrane protein
Ensembl C49A1.3
Entrez Gene 173292 Entrez gene
SwissProt O17671 EMBL-EBI
WormBase CE08829 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05708 Hypothetical protein C49A1.3 [Caenorhabditis elegans] ref|NP_493482.1| C49A1.3 [Caenorhabditis elegans] 0.0
blast CAB05483 Hypothetical protein F14H3.2 [Caenorhabditis elegans] ref|NP_507036.1| F14H3.2 [Caenorhabditis elegans] sp|O45363|YSWJ_CAEEL Hypothetical protein F14H3.2 in chromosome V 9.0E-85
blast CAB05483 Hypothetical protein F14H3.2 [Caenorhabditis elegans] ref|NP_507036.1| F14H3.2 [Caenorhabditis elegans] sp|O45363|YSWJ_CAEEL Hypothetical protein F14H3.2 in chromosome V 1.0E-84
blast CAB07337 Hypothetical protein C37A5.1 [Caenorhabditis elegans] ref|NP_493472.1| C37A5.1 [Caenorhabditis elegans] 9.0E-69
blast CAB07337 Hypothetical protein C37A5.1 [Caenorhabditis elegans] ref|NP_493472.1| C37A5.1 [Caenorhabditis elegans] 1.0E-68
Protein Domains
Database ID Description E-Value
Pfam IPR000615 EMBL-EBI Bestrophin 1.0E-126
Pfam IPR000615 EMBL-EBI Bestrophin 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493482.1 6 12-34,38-55,75-92,102-124,244-266,276-298
C49A1.3 6 12-34,38-55,75-92,102-124,244-266,276-298
GENEFINDER00000008663 7 40-62,126-148,152-169,189-206,216-238,358-380,390-412
Sequence
Target Sequence 
>C. ELEGANS:190937_S_AT
ccctggcatactcgcagattgtcatcttttcggtcagattgtacttctttatttgtctgt
tcacaagacaacatttggatatggatgacacttatctggaactggttttctccctgttcc
cactcctcaccatcatgcagttcattttcatggtgggatgtatgaaggtttcgtcggtct
tgatcaacccaatgggagaggacgatgacaattacgagtgcaattatgtttttgatagaa
atttatttgttggaatggaaattgtgggatgggttaaagagaatccggcaaaaacacacc
cggatctggatggcaggaacattattgatatagataaccgaccgtattatccgaaatatg
gagacaaatttgatggaaagaataaggcgtatgtggggtcttataaacatgtcccattcc
cacataaagcaatgagcaagcttccgctagatgcacaacaggtccaaggaaaaaagaagc
gcgtcggcacatgtttgagttgcaacttgaccttgaaagagcctaacacgtcagcagagg
agccagaagcagcaattgtagcatcaccgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCCTGGCATACTCGCAGATTGTCAT 431 259 746 Antisense
GATTGTCATCTTTTCGGTCAGATTG 97 435 762 Antisense
TATCTGGAACTGGTTTTCTCCCTGT 659 657 838 Antisense
TCCTCACCATCATGCAGTTCATTTT 193 593 869 Antisense
GAAGGTTTCGTCGGTCTTGATCAAC 666 333 909 Antisense
AAAACACACCCGGATCTGGATGGCA 709 129 1036 Antisense
AGCAATGAGCAAGCTTCCGCTAGAT 120 77 1173 Antisense
TCCGCTAGATGCACAACAGGTCCAA 498 595 1188 Antisense
AAAAGAAGCGCGTCGGCACATGTTT 320 131 1217 Antisense
GAAAGAGCCTAACACGTCAGCAGAG 211 361 1260 Antisense
GAAGCAGCAATTGTAGCATCACCGG 317 341 1291 Antisense
Sequence Source Affymetrix Proprietary Database