[Home] | [Total List]

[175433_at]

Description AV181961_rc /REP_DB=TREMBL Accession /GB=AV181961 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk628g2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 55      6grp_high1_10_10 > 54      4grp_highest_8_8 > 05      4grp_high_8_8 > 30      6grp_highest_nonorm > 74      6grp_total > 45      4grp_total > 24      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 445
1 2 3 4 range
A 803.2
(-3)
P 		1139.7
(2.3)
P 		1120.1
(2)
P 		1181.8
(3)
P 		379
B 872.8
(-3)
P 		938.3
(-1.6)
P 		1019.2
(0.1)
P 		1153.4
(3)
P 		281
C 736.6
(-3)
P 		970.3
(0.8)
P 		1079.8
(2.6)
P 		1105.4
(3)
P 		369
avr 804.2
(-3) 		1016.1
(0.7) 		1073
(1.7) 		1146.9
(3) 		343

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 435
1 2 3 4 5 6 range
A 623.3
(-1.2)
P 		668.5
(0)
P 		781.9
(3)
P 		577.5
(-2.4)
P 		553.2
(-3)
P 		674
(0.2)
P 		229
B 746
(0.7)
P 		821.2
(1.8)
P 		910.9
(3)
P 		565.7
(-1.8)
P 		476.2
(-3)
P 		780.4
(1.2)
P 		435
C 627.9
(-0.6)
P 		813.5
(3)
P 		612.6
(-0.9)
P 		503.5
(-3)
P 		502.2
(-3)
P 		714.7
(1.1)
P 		311
avr 665.7
(0.6) 		767.7
(3) 		768.5
(3) 		548.9
(-2.1) 		510.5
(-3) 		723
(1.9) 		258
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 203
1 2 3 4 range
A 292.5
(3)
P 		247.4
(0.7)
P 		292.8
(3)
P 		173
(-3)
P 		120
B 278.3
(3)
P 		231.7
(-3)
P 		236.2
(-2.4)
P 		245.8
(-1.2)
P 		47
C 243.8
(-1.2)
P 		279
(-0.1)
P 		376.3
(3)
P 		186.4
(-3)
P 		190
avr 271.5
(1.2) 		252.7
(0.1) 		301.8
(3) 		201.7
(-3) 		100

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 190
1 2 3 4 5 6 range
A 114.9
(-3)
P 		237.8
(3)
P 		170.3
(-0.3)
P 		146.5
(-1.5)
P 		166.9
(-0.5)
P 		164.1
(-0.6)
P 		123
B 259.6
(1.7)
P 		273.3
(2.2)
P 		221.2
(0)
P 		149.8
(-3)
P 		193.5
(-1.1)
P 		291
(3)
P 		141
C 232.8
(2.4)
P 		248.2
(3)
P 		155.9
(-0.8)
P 		101.3
(-3)
P 		162.5
(-0.5)
P 		239.2
(2.6)
P 		147
avr 202.4
(0.5) 		253.1
(3) 		182.5
(-0.5) 		132.5
(-3) 		174.3
(-0.9) 		231.4
(1.9) 		121
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175433_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20624
Sequence Type Exemplar sequence
Representative Public ID AV181961 NCBI
Target Description AV181961_rc /REP_DB=TREMBL Accession /GB=AV181961 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk628g2 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_064477(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064477 NCBI Caenorhabditis elegans Y54G9A.7 (Y54G9A.7) mRNA, complete cds. 11/11 None
SNAP00000011608 ENSEMBL cdna:SNAP chromosome:CEL140:II:13724961:13725701:-1 11/11 None
GENEFINDER00000011612 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:13724961:13725695:-1 11/11 None
Y54G9A.7 ENSEMBL cdna:known chromosome:CEL140:II:13724961:13725695:-1 gene:Y54G9A.7 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
chrII:13724952-13725237(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y54G9A.7
Entrez Gene 175017 Entrez gene
SwissProt Q9BHB3 EMBL-EBI
WormBase CE26735 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAC35867 Hypothetical protein Y54G9A.7 [Caenorhabditis elegans] ref|NP_496878.1| Y54G9A.7 [Caenorhabditis elegans] gb|AAG50217.1| 2O16 [Caenorhabditis elegans] 1.0E-122
blast CAE73280 Hypothetical protein CBG20698 [Caenorhabditis briggsae] 1.0E-108
Sequence
Target Sequence 
>C. ELEGANS:175433_AT
agctcgaggcgttcaatccggagaaatatgtgaaggatacgattcgaatggcgaataagg
agtggcaggacgagctggcgccgaccggaaggaagctttacccgcattggagccgattta
tgagcttggagcagttgtatgggctcccgaagagcgagtatattgataagagagccggac
ttccaaccccagaagaagccgagcagatcaaggcgttga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCTCGAGGCGTTCAATCCGGAGAA 472 79 39 Antisense
GAGGCGTTCAATCCGGAGAAATATG 358 401 44 Antisense
AGGAGTGGCAGGACGAGCTGGCGCC 292 57 96 Antisense
CTGGCGCCGACCGGAAGGAAGCTTT 505 239 113 Antisense
AAGGAAGCTTTACCCGCATTGGAGC 341 161 127 Antisense
GCATTGGAGCCGATTTATGAGCTTG 562 307 142 Antisense
TGAGCTTGGAGCAGTTGTATGGGCT 194 569 159 Antisense
GCAGTTGTATGGGCTCCCGAAGAGC 59 313 169 Antisense
ATGGGCTCCCGAAGAGCGAGTATAT 360 49 177 Antisense
GATAAGAGAGCCGGACTTCCAACCC 310 423 203 Antisense
GAAGCCGAGCAGATCAAGGCGTTGA 139 345 233 Antisense
Sequence Source Affymetrix Proprietary Database