[Home] | [Total List]

[183857_s_at]

Description Y56A3A.6 /REP_DB=WormBase Gene ID /WP=CE22577 /TR=Q9U225 /GB=CAB60515.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 99      6grp_high1_10_10 > 99      4grp_highest_8_8 > 13      4grp_high_8_8 > 31      6grp_highest_nonorm > 82      6grp_total > 94      4grp_total > 24      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 406
1 2 3 4 range
A 354.3
(-3)
P 		398.7
(0.2)
P 		403.9
(0.5)
P 		438.8
(3)
P 		85
B 390.9
(-3)
P 		443.4
(-1.7)
P 		545.6
(0.8)
P 		635.2
(3)
P 		244
C 229.2
(-3)
P 		363.6
(0.5)
P 		406.8
(1.6)
P 		460.3
(3)
P 		231
avr 324.8
(-3) 		401.9
(-0.5) 		452.1
(1.1) 		511.4
(3) 		187

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 269
1 2 3 4 5 6 range
A 430.6
(-0.3)
P 		424.9
(-0.5)
P 		321
(-3)
P 		334.6
(-2.7)
P 		568.2
(3)
P 		562.8
(2.9)
P 		247
B 381.7
(-0.1)
P 		458.3
(3)
P 		309.5
(-3)
P 		413.9
(1.2)
P 		429.5
(1.8)
P 		439.2
(2.2)
P 		149
C 301.4
(-3)
P 		378.4
(-1.3)
P 		334
(-2.3)
P 		406.7
(-0.7)
P 		570.7
(3)
P 		338
(-2.2)
P 		269
avr 371.2
(-1.5) 		420.5
(-0) 		321.5
(-3) 		385.1
(-1.1) 		522.8
(3) 		446.7
(0.7) 		201
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 78
1 2 3 4 range
A 129
(3)
P 		86.6
(-0.9)
P 		105.6
(0.8)
P 		64.2
(-3)
P 		65
B 124.6
(0.5)
P 		109.5
(-3)
P 		126.4
(0.9)
P 		135.4
(3)
P 		26
C 75.9
(-3)
P 		104.6
(-0.4)
P 		141.8
(3)
P 		77.6
(-2.8)
P 		66
avr 109.8
(0.2) 		100.2
(-1.5) 		124.6
(3) 		92.4
(-3) 		32

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 115
1 2 3 4 5 6 range
A 79.4
(-2.4)
P 		151.1
(1.8)
P 		69.9
(-3)
P 		84.9
(-2.1)
P 		171.5
(3)
P 		137
(1)
P 		102
B 132.8
(0.5)
P 		152.6
(1.7)
P 		75.2
(-3)
P 		109.6
(-0.9)
P 		174.5
(3)
P 		163.8
(2.4)
P 		99
C 111.7
(-1.3)
P 		115.4
(-1)
P 		85
(-2.8)
P 		81.8
(-3)
P 		184.7
(3)
P 		113.1
(-1.2)
P 		103
avr 108
(-1.1) 		139.7
(0.8) 		76.7
(-3) 		92.1
(-2.1) 		176.9
(3) 		138
(0.7) 		100
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 183857_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6592
Sequence Type Exemplar sequence
Representative Public ID Y56A3A.6 NCBI
Target Description Y56A3A.6 /REP_DB=WormBase Gene ID /WP=CE22577 /TR=Q9U225 /GB=CAB60515.1 /SUBMIT=HINXTON /CHR=3 /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_067138(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067138 NCBI Caenorhabditis elegans Y56A3A.6 (Y56A3A.6) mRNA, complete cds. 11/11 None
SNAP00000035190 ENSEMBL cdna:SNAP chromosome:CEL140:III:11871280:11874890:-1 11/11 None
GENEFINDER00000035219 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11871280:11879605:-1 11/11 None
Y56A3A.6.1 ENSEMBL cdna:known chromosome:CEL140:III:11871152:11878696:-1 gene:Y56A3A.6 11/11 None
Y56A3A.6.2 ENSEMBL cdna:known chromosome:CEL140:III:11871193:11878679:-1 gene:Y56A3A.6 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:11871275-11878664(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y56A3A.6
Entrez Gene 176618 Entrez gene
SwissProt Q9U225 EMBL-EBI
WormBase CE22577 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB60515 Hypothetical protein Y56A3A.6 [Caenorhabditis elegans] ref|NP_499539.1| Y56A3A.6 [Caenorhabditis elegans] 0.0
blast CAE67730 Hypothetical protein CBG13305 [Caenorhabditis briggsae] 1.0E-159
blast CAE67730 Hypothetical protein CBG13305 [Caenorhabditis briggsae] 1.0E-157
blast CAE67730 Hypothetical protein CBG13305 [Caenorhabditis briggsae] 1.0E-153
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000035219 1 35-57
Sequence
Target Sequence 
>C. ELEGANS:183857_S_AT
gaacaacactgaggtaccgtctccagtaacctatcggaaaatctcggcacctgtgcaaaa
agtgacgagccccgctcctccagcggcaagatccgtctccaccgatcaaccgcccccggc
gaatcgaagaagccaggtgggcattctgtctgccacgtcatcgaaggctacggtaacagt
aacatctgcaacgtcaccaccgtaccccaaaggatcagtgggacctacagtaatctcgat
taagccggcacccgttcagcaggcaccgatggctcctcgagccgccccgacaaaagtaga
cacctcatttgacatctcggatgtgctgaaaggtccgaagcttcggaaagtcggcatgcc
tgctgaaaaatctggaatctccctaggaaaagttgtcgaatcagtggaagcatccggcaa
tcgtccatcctcaactcctcctccgccacctcctccaccacctctggcagctgctcctcc
acagcccaagaatcccgacctaaggg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACAACACTGAGGTACCGTCTCCA 42 353 1836 Antisense
GTACCGTCTCCAGTAACCTATCGGA 39 459 1849 Antisense
TATCGGAAAATCTCGGCACCTGTGC 132 655 1867 Antisense
GCCCCCGGCGAATCGAAGAAGCCAG 654 281 1947 Antisense
AAGCCAGGTGGGCATTCTGTCTGCC 400 149 1965 Antisense
CTGCCACGTCATCGAAGGCTACGGT 642 235 1985 Antisense
ACCACCGTACCCCAAAGGATCAGTG 205 37 2031 Antisense
AGACACCTCATTTGACATCTCGGAT 492 71 2133 Antisense
GAAGCTTCGGAAAGTCGGCATGCCT 24 341 2172 Antisense
CAGTGGAAGCATCCGGCAATCGTCC 190 207 2237 Antisense
CAGCCCAAGAATCCCGACCTAAGGG 99 201 2317 Antisense
Sequence Source Affymetrix Proprietary Database