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[191662_at] Putative membrane protein

Description T20G5.4 /REP_DB=WormBase Gene ID /WP=CE00481 /TR=SW:P34577 /GB=CAA83005.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Putative membrane protein
Cluster 6grp_highest_10_10 > 21      6grp_high1_10_10 > 06      4grp_high_8_8 > 03      6grp_highest_nonorm > 70      6grp_total > 14      4grp_total > 06      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 369
1 2 3 4 range
A 304.6
(0)
P 		137.5
(-3)
P 		217.3
(-1.6)
P 		470.3
(3)
P 		333
B 393.1
(2.4)
P 		176.5
(-2.8)
M 		169.9
(-3)
P 		416.5
(3)
P 		247
C 317.7
(-0.3)
P 		167.7
(-3)
M 		177.2
(-2.8)
P 		506.9
(3)
P 		339
avr 338.5
(0.5) 		160.6
(-3) 		188.1
(-2.5) 		464.6
(3) 		304

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 178
1 2 3 4 5 6 range
A 352.5
(3)
P 		274.2
(0.4)
P 		272
(0.3)
P 		320.7
(1.9)
P 		174.1
(-3)
P 		191.7
(-2.4)
P 		178
B 346.4
(3)
P 		299.5
(1.1)
P 		221.8
(-2.1)
P 		207.2
(-2.7)
P 		218.7
(-2.2)
P 		199.3
(-3)
P 		147
C 350.5
(3)
P 		307.5
(1.3)
P 		269.7
(-0.2)
P 		251.3
(-0.9)
P 		199.4
(-3)
P 		215.6
(-2.4)
P 		151
avr 349.8
(3) 		293.7
(0.8) 		254.5
(-0.8) 		259.7
(-0.5) 		197.4
(-3) 		202.2
(-2.8) 		152
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 96
1 2 3 4 range
A 110.9
(3)
P 		29.8
(-3)
P 		56.8
(-1)
P 		68.8
(-0.1)
P 		81
B 125.3
(3)
P 		43.6
(-2.7)
M 		39.4
(-3)
P 		88.8
(0.5)
P 		86
C 105.2
(3)
P 		48.2
(-3)
M 		61.8
(-1.6)
P 		85.5
(0.9)
P 		57
avr 113.8
(3) 		40.5
(-3) 		52.7
(-2) 		81
(0.3) 		73

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 83
1 2 3 4 5 6 range
A 65
(-0.8)
P 		97.5
(3)
P 		59.2
(-1.5)
P 		81.3
(1.1)
P 		52.5
(-2.3)
P 		46.7
(-3)
P 		51
B 120.5
(3)
P 		99.7
(1.1)
P 		53.9
(-3)
P 		54.9
(-2.9)
P 		88.9
(0.2)
P 		74.3
(-1.2)
P 		67
C 129.9
(3)
P 		93.8
(0.3)
P 		68.6
(-1.6)
P 		50.5
(-3)
P 		64.5
(-1.9)
P 		72.2
(-1.4)
P 		79
avr 105.1
(3) 		97
(1.9) 		60.6
(-3) 		62.2
(-2.8) 		68.6
(-1.9) 		64.4
(-2.5) 		45
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191662_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6532
Sequence Type Exemplar sequence
Representative Public ID T20G5.4 NCBI
Target Description T20G5.4 /REP_DB=WormBase Gene ID /WP=CE00481 /TR=SW:P34577 /GB=CAA83005.1 /SUBMIT=HINXTON /CHR=3 /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_066862(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066862 NCBI Caenorhabditis elegans T20G5.4 (T20G5.4) mRNA, complete cds. 11/11 A 
SNAP00000033306 ENSEMBL cdna:SNAP chromosome:CEL140:III:10212432:10214635:1 11/11 None
GENEFINDER00000033350 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10212432:10214635:1 11/11 None
T20G5.4 ENSEMBL cdna:known chromosome:CEL140:III:10212406:10214708:1 gene:T20G5.4 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
chrIII:10212427-10214276(+) 97.45 100.0
Public Domain and Genome References
Gene Title Putative membrane protein
Ensembl T20G5.4
Entrez Gene 176436 Entrez gene
SwissProt P34577 EMBL-EBI
WormBase CE28844 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA83005 Hypothetical protein T20G5.4 [Caenorhabditis elegans] ref|NP_499263.1| T20G5.4 [Caenorhabditis elegans] sp|P34577|YNX4_CAEEL Hypothetical protein T20G5.4 in chromosome III 0.0
blast CAE64975 Hypothetical protein CBG09809 [Caenorhabditis briggsae] 0.0
blast CAE66881 Hypothetical protein CBG12260 [Caenorhabditis briggsae] 1.0E-135
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_499263.1 4 32-54,74-96,232-254,267-286
T20G5.4 4 32-54,74-96,232-254,267-286
SNAP00000033306 4 32-54,74-96,232-254,267-286
GENEFINDER00000033350 4 32-54,74-96,232-254,267-289
Sequence
Target Sequence 
>C. ELEGANS:191662_AT
aagttccgtacaggactggcttgggtttgtaactacgattgggtgccactgccgattatc
tacccaactattgtatgtttggccgttcatatgtacttttttgtcggaattctggctcgc
caatatgttaaaggctcagaaattgatcctgatatgatagatcttgtattcccatttatg
acaagtatccaatttgttttctatatgggttggttgaaagtcggagaaggtctactgaat
ccatggggtgaagatcctgatgattttgagacgaatatgctgatcgacagaaacttggcg
atgggtttgaaaatagtcgacgaaggctatgataaaacgccaaggctggaaaaagacgca
ttctgggatgacacgtgggttccactgtattcagaggctagtgcacatgaaaaacgatac
catcagaggcaaggatcattggcacatatcaaaattgggcgatctgtatcacaagtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGTTCCGTACAGGACTGGCTTGGG 96 155 658 Antisense
GACTGGCTTGGGTTTGTAACTACGA 521 375 671 Antisense
GTAACTACGATTGGGTGCCACTGCC 496 461 686 Antisense
TGCCGATTATCTACCCAACTATTGT 500 585 707 Antisense
GTTTGGCCGTTCATATGTACTTTTT 64 451 734 Antisense
GTCGGAATTCTGGCTCGCCAATATG 455 471 760 Antisense
TAGATCTTGTATTCCCATTTATGAC 310 651 815 Antisense
GAAGGTCTACTGAATCCATGGGGTG 226 335 883 Antisense
CTGGGATGACACGTGGGTTCCACTG 525 239 1020 Antisense
GGGTTCCACTGTATTCAGAGGCTAG 349 497 1034 Antisense
AATTGGGCGATCTGTATCACAAGTC 245 175 1110 Antisense
Sequence Source Affymetrix Proprietary Database