[Home] | [Total List]

[175441_s_at]

Description AU114720_rc /REP_DB=TREMBL Accession /GB=AU114720 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk727f12 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 67      6grp_high1_10_10 > 76      4grp_highest_8_8 > 23      4grp_high_8_8 > 05      6grp_highest_nonorm > 97      6grp_total > 67      4grp_total > 03      6grp_highest_sub > In      6grp_high1_sub > Da      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4309
1 2 3 4 range
A 1416.9
(-2.4)
P 		1014.5
(-3)
P 		1039.7
(-3)
P 		5309.8
(3)
P 		4295
B 1263.1
(-2.6)
P 		1117.2
(-2.9)
P 		1017.1
(-3)
P 		5214.7
(3)
P 		4198
C 1486.5
(-2.3)
P 		1000.9
(-3)
P 		1067.5
(-2.9)
P 		5304.5
(3)
P 		4304
avr 1388.8
(-2.5) 		1044.2
(-3) 		1041.4
(-3) 		5276.3
(3) 		4235

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1022
1 2 3 4 5 6 range
A 786.2
(-3)
P 		830.8
(-2.5)
P 		1104.7
(0.9)
P 		1053.9
(0.3)
P 		896.7
(-1.7)
P 		1279.9
(3)
P 		494
B 1038.8
(-1.6)
P 		932.3
(-2.3)
P 		1336.7
(0.4)
P 		832
(-3)
P 		1063.2
(-1.5)
P 		1728.7
(3)
P 		897
C 864.6
(-2.7)
P 		906.2
(-2.4)
P 		814.5
(-3)
P 		944.9
(-2.2)
P 		920.5
(-2.4)
P 		1808.6
(3)
P 		994
avr 896.5
(-2.9) 		889.8
(-3) 		1085.3
(-1.4) 		943.6
(-2.5) 		960.1
(-2.4) 		1605.7
(3) 		716
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 891
1 2 3 4 range
A 515.9
(0.2)
P 		220.2
(-3)
P 		271.8
(-2.4)
P 		777.3
(3)
P 		557
B 402.8
(-1.9)
P 		275.9
(-2.7)
P 		235.7
(-3)
P 		1111.2
(3)
P 		876
C 492.1
(-1)
P 		287.8
(-3)
P 		372
(-2.2)
P 		894.4
(3)
P 		607
avr 470.3
(-1.1) 		261.3
(-3) 		293.2
(-2.7) 		927.6
(3) 		666

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 500
1 2 3 4 5 6 range
A 144.9
(-3)
P 		295.5
(2.4)
P 		240.6
(0.4)
P 		267.3
(1.4)
P 		270.6
(1.5)
P 		311.6
(3)
P 		167
B 361.4
(-1)
P 		310.3
(-1.7)
P 		324.6
(-1.5)
P 		220.4
(-3)
P 		432
(-0)
P 		644.6
(3)
P 		424
C 320.5
(-1.1)
P 		276.5
(-1.8)
P 		207.3
(-2.8)
P 		190
(-3)
P 		297.9
(-1.4)
P 		605.4
(3)
P 		415
avr 275.6
(-2) 		294.1
(-1.6) 		257.5
(-2.4) 		225.9
(-3) 		333.5
(-0.8) 		520.5
(3) 		295
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175441_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21115
Sequence Type Exemplar sequence
Representative Public ID AU114720 NCBI
Target Description AU114720_rc /REP_DB=TREMBL Accession /GB=AU114720 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk727f12 : 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_065688(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065688 NCBI Caenorhabditis elegans Y54H5A.2 (Y54H5A.2) mRNA, complete cds. 11/11 None
SNAP00000038481 ENSEMBL cdna:SNAP chromosome:CEL140:III:5137409:5138175:-1 11/11 None
Y54H5A.2.2 ENSEMBL cdna:known chromosome:CEL140:III:5137279:5149539:-1 gene:Y54H5A.2 11/11 None
Y54H5A.2.1 ENSEMBL cdna:known chromosome:CEL140:III:5137279:5149535:-1 gene:Y54H5A.2 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:5137287-5137661(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y54H5A.2
Entrez Gene 175699 Entrez gene
SwissProt Q9BL64 EMBL-EBI
WormBase CE32024 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK29945 Hypothetical protein Y54H5A.2 [Caenorhabditis elegans] ref|NP_498089.2| Y54H5A.2 [Caenorhabditis elegans] 0.0
blast CAE73770 Hypothetical protein CBG21314 [Caenorhabditis briggsae] 3.0E-68
blast AAK29945 Hypothetical protein Y54H5A.2 [Caenorhabditis elegans] ref|NP_498089.2| Y54H5A.2 [Caenorhabditis elegans] 1.0E-65
blast CAE73770 Hypothetical protein CBG21314 [Caenorhabditis briggsae] 5.0E-54
blast C88450 protein F21H11.4 [imported] - Caenorhabditis elegans 2.0E-42
blast C88450 protein F21H11.4 [imported] - Caenorhabditis elegans 2.0E-41
Protein Domains
Database ID Description E-Value
Pfam IPR007205 EMBL-EBI Protein of unknown function DUF383 4.5E-113
Pfam IPR007206 EMBL-EBI Protein of unknown function DUF384 6.1E-26
Pfam IPR007205 EMBL-EBI Protein of unknown function DUF383 5.6E-15
Pfam IPR007206 EMBL-EBI Protein of unknown function DUF384 6.1E-26
Sequence
Target Sequence 
>C. ELEGANS:175441_S_AT
aaacatggacgtgaagtgcttcgagccaaaggagtctatcctgcaatgagagaacttgac
aaaggaactgaaactgctgaggataagcacaaaaagacactgttaagctcacaacaagag
cacactcttcatgcattaattggaattcttattcgttatgaatctgaaatggatgtcgat
ccggaactcagctcaattcgcgaacttggaacatctgaagtcaccgagataactaaaacg
tctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAACATGGACGTGAAGTGCTTCGAG 457 127 21 Antisense
GTGCTTCGAGCCAAAGGAGTCTATC 83 481 36 Antisense
GGAGTCTATCCTGCAATGAGAGAAC 453 517 51 Antisense
AAGACACTGTTAAGCTCACAACAAG 390 153 114 Antisense
AGAGCACACTCTTCATGCATTAATT 203 69 137 Antisense
GGAATTCTTATTCGTTATGAATCTG 479 531 162 Antisense
TGGATGTCGATCCGGAACTCAGCTC 233 551 190 Antisense
AACTCAGCTCAATTCGCGAACTTGG 467 137 205 Antisense
GCTCAATTCGCGAACTTGGAACATC 88 303 211 Antisense
CTTGGAACATCTGAAGTCACCGAGA 614 217 225 Antisense
GTCACCGAGATAACTAAAACGTCTT 221 465 240 Antisense
Sequence Source Affymetrix Proprietary Database