[Home] | [Total List]

[175326_s_at]

Description AU114512_rc /REP_DB=TREMBL Accession /GB=AU114512 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk720b3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 88      6grp_high1_10_10 > 88      4grp_highest_8_8 > 22      4grp_high_8_8 > 07      6grp_highest_nonorm > 96      6grp_total > 88      4grp_total > 0      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 446
1 2 3 4 range
A 706.7
(-1.1)
P 		576.3
(-3)
P 		705.1
(-1.2)
P 		994.7
(3)
P 		418
B 558.8
(-2.8)
P 		548.7
(-3)
P 		618.6
(-1.7)
P 		864.1
(3)
P 		315
C 577
(-3)
P 		581.1
(-2.9)
P 		652.7
(-1.7)
P 		932.7
(3)
P 		356
avr 614.2
(-2.2) 		568.7
(-3) 		658.8
(-1.5) 		930.5
(3) 		362

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 769
1 2 3 4 5 6 range
A 777.8
(-0.7)
P 		611.2
(-3)
P 		641.2
(-2.6)
P 		732.7
(-1.3)
P 		945.1
(1.5)
P 		1052.9
(3)
P 		442
B 637.2
(-2.6)
P 		597.3
(-3)
P 		648.4
(-2.5)
P 		691.9
(-2.1)
P 		1222.1
(3)
P 		1166.3
(2.5)
P 		625
C 583.8
(-3)
P 		643.8
(-2.5)
P 		763.9
(-1.6)
P 		616.6
(-2.7)
P 		868.4
(-0.8)
P 		1352.7
(3)
P 		769
avr 666.3
(-2.5) 		617.4
(-3) 		684.5
(-2.3) 		680.4
(-2.3) 		1011.9
(1.1) 		1190.6
(3) 		573
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 132
1 2 3 4 range
A 257.3
(3)
P 		125.1
(-3)
P 		184.3
(-0.3)
P 		145.6
(-2.1)
P 		132
B 178.2
(2.3)
P 		135.5
(-3)
P 		143.3
(-2)
P 		184.1
(3)
P 		49
C 191
(-0.1)
P 		167.1
(-2.2)
P 		227.5
(3)
P 		157.3
(-3)
P 		70
avr 208.8
(3) 		142.6
(-3) 		185
(0.8) 		162.3
(-1.2) 		66

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 373
1 2 3 4 5 6 range
A 143.4
(-2.8)
P 		217.4
(0.2)
P 		139.6
(-3)
P 		185.8
(-1.1)
P 		285.2
(3)
P 		256.3
(1.8)
P 		146
B 221.7
(-1.9)
P 		198.8
(-2.3)
P 		157.5
(-3)
P 		183.3
(-2.5)
P 		496.5
(3)
P 		434.9
(1.9)
P 		339
C 216.4
(-1.3)
P 		196.4
(-1.7)
P 		194.4
(-1.7)
P 		124
(-3)
P 		281
(-0.1)
P 		452.8
(3)
P 		329
avr 193.8
(-2.2) 		204.2
(-1.9) 		163.8
(-3) 		164.4
(-3) 		354.2
(2.3) 		381.3
(3) 		218
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175326_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20925
Sequence Type Exemplar sequence
Representative Public ID AU114512 NCBI
Target Description AU114512_rc /REP_DB=TREMBL Accession /GB=AU114512 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk720b3 : 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_181949(11), NM_065216(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_181949 NCBI Caenorhabditis elegans Y71H2AM.20b (Y71H2AM.20) mRNA, complete cds. 11/11 None
NM_065216 NCBI Caenorhabditis elegans Y71H2AM.20a (Y71H2AM.20) mRNA, complete cds. 11/11 None
SNAP00000014447 ENSEMBL cdna:SNAP chromosome:CEL140:III:2770841:2785934:-1 11/11 None
GENEFINDER00000014473 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:2782816:2785934:-1 11/11 None
Y71H2AM.20a.1 ENSEMBL cdna:known chromosome:CEL140:III:2781186:2785940:-1 gene:Y71H2AM.20 11/11 None
Y71H2AM.20a.2 ENSEMBL cdna:known chromosome:CEL140:III:2781186:2785938:-1 gene:Y71H2AM.20 11/11 None
Y71H2AM.20b ENSEMBL cdna:known chromosome:CEL140:III:2782299:2784095:-1 gene:Y71H2AM.20 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:2782748-2784080(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y71H2AM.20
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK29984 Hypothetical protein Y71H2AM.20a [Caenorhabditis elegans] ref|NP_497617.1| Y71H2AM.20a [Caenorhabditis elegans] 0.0
blast AAY43989 Hypothetical protein Y71H2AM.19 [Caenorhabditis elegans] ref|NP_497615.2| Y71H2AM.19 [Caenorhabditis elegans] 0.0
blast CAE64981 Hypothetical protein CBG09816 [Caenorhabditis briggsae] 0.0
blast CAE64983 Hypothetical protein CBG09818 [Caenorhabditis briggsae] 1.0E-179
Protein Domains
Database ID Description E-Value
Pfam IPR004327 EMBL-EBI Phosphotyrosyl phosphatase activator, PTPA 1.0E-126
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.1E-36
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 9.3E-81
Pfam IPR004327 EMBL-EBI Phosphotyrosyl phosphatase activator, PTPA 8.3E-10
Sequence
Target Sequence 
>C. ELEGANS:175326_S_AT
gaagtttccagttgttcagcacatgatgttcggctctttattctcatttgatcgatcgga
gcatccaagagaatctatggaagatgctccgtcacaggatccgatgcctccaagagctcc
ggctcagcatggaatgttcgcttttaagatcccatccgccgccaacacttcaaccgtcca
ttcgtcatctgtcgtcgaatctggagacttgcgacgtcttcaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGTTTCCAGTTGTTCAGCACATG 320 337 21 Antisense
GTTCAGCACATGATGTTCGGCTCTT 115 445 34 Antisense
TTCGGCTCTTTATTCTCATTTGATC 402 695 49 Antisense
TCATTTGATCGATCGGAGCATCCAA 5 619 64 Antisense
ATCGGAGCATCCAAGAGAATCTATG 313 29 75 Antisense
TGGAAGATGCTCCGTCACAGGATCC 246 547 98 Antisense
TCCAAGAGCTCCGGCTCAGCATGGA 594 587 129 Antisense
GGCTCAGCATGGAATGTTCGCTTTT 317 539 141 Antisense
GTCCATTCGTCATCTGTCGTCGAAT 378 473 196 Antisense
GTCATCTGTCGTCGAATCTGGAGAC 534 467 204 Antisense
TCTGGAGACTTGCGACGTCTTCACA 635 607 220 Antisense
Sequence Source Affymetrix Proprietary Database