[Home] | [Total List]

[175496_s_at]

Description AV200325_rc /REP_DB=TREMBL Accession /GB=AV200325 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk560f12 : 3prime end, single read.
Cluster 6grp_total > 97      4grp_total > 34      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 40
1 2 3 4 range
A 29.5
(-3)
A 		32.4
(-1.6)
A 		41.8
(3)
A 		39.6
(1.9)
A 		12
B 3.7
(-2.6)
A 		30.9
(2.3)
A 		1.6
(-3)
A 		34.8
(3)
A 		33
C 13.6
(-3)
A 		34.2
(3)
A 		15.7
(-2.4)
A 		28.6
(1.4)
A 		21
avr 15.6
(-3) 		32.5
(2.4) 		19.7
(-1.7) 		34.3
(3) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 219
1 2 3 4 5 6 range
A 16.4
(-3)
A 		29.5
(-2.6)
A 		18.1
(-2.9)
A 		38.6
(-2.3)
A 		114.2
(0.2)
P 		198.1
(3)
P 		182
B 17
(-2.6)
A 		23.5
(-2.4)
A 		3.4
(-3)
A 		63.9
(-1.3)
M 		126
(0.4)
P 		221.8
(3)
P 		218
C 2.6
(-3)
A 		5.9
(-2.9)
A 		35.8
(-2)
A 		56.8
(-1.4)
A 		115.5
(0.4)
P 		201.7
(3)
P 		199
avr 12
(-3) 		19.6
(-2.8) 		19.1
(-2.8) 		53.1
(-1.7) 		118.6
(0.3) 		207.2
(3) 		195
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 10.7
(2.8)
A 		7
(-1.6)
A 		10.9
(3)
A 		5.8
(-3)
A 		5
B 1.2
(-2.3)
A 		7.6
(3)
A 		0.4
(-3)
A 		7.4
(2.8)
A 		7
C 4.5
(-3)
A 		9.8
(3)
A 		5.5
(-1.9)
A 		4.8
(-2.7)
A 		5
avr 5.5
(-3) 		8.1
(3) 		5.6
(-2.8) 		6
(-1.8) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 82
1 2 3 4 5 6 range
A 3
(-3)
A 		10.5
(-2)
A 		3.9
(-2.9)
A 		9.8
(-2.1)
A 		34.5
(1.2)
P 		48.2
(3)
P 		45
B 5.9
(-2.6)
A 		7.8
(-2.5)
A 		0.8
(-3)
A 		16.9
(-1.8)
M 		51.2
(0.7)
P 		82.7
(3)
P 		82
C 1
(-3)
A 		1.8
(-2.9)
A 		9.1
(-2.3)
A 		11.4
(-2.1)
A 		37.4
(0.3)
P 		67.5
(3)
P 		67
avr 3.3
(-3) 		6.7
(-2.7) 		4.6
(-2.9) 		12.7
(-2.1) 		41
(0.6) 		66.1
(3) 		63
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175496_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20245
Sequence Type Exemplar sequence
Representative Public ID AV200325 NCBI
Target Description AV200325_rc /REP_DB=TREMBL Accession /GB=AV200325 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk560f12 : 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_060242(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060242 NCBI Caenorhabditis elegans T23D8.7 (T23D8.7) mRNA, complete cds. 11/11 A 
SNAP00000036753 ENSEMBL cdna:SNAP chromosome:CEL140:I:9997925:10001712:1 11/11 None
GENEFINDER00000036761 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9997925:10001821:1 10/11 None
T23D8.7 ENSEMBL cdna:known chromosome:CEL140:I:9997923:10002081:1 gene:T23D8.7 11/11 A 
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
chrI:9999457-9999873(+) 92.84 100.0
Public Domain and Genome References
Gene Title
Ensembl T23D8.7
Entrez Gene 172861 Entrez gene
SwissProt Q9XVI3 EMBL-EBI
WormBase CE14058 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03400 Hypothetical protein T23D8.7 [Caenorhabditis elegans] ref|NP_492643.1| T23D8.7 [Caenorhabditis elegans] 0.0
blast CAE60213 Hypothetical protein CBG03777 [Caenorhabditis briggsae] 0.0
blast CAE56575 Hypothetical protein CBG24316 [Caenorhabditis briggsae] 1.0E-162
Protein Domains
Database ID Description E-Value
Pfam IPR003100 EMBL-EBI Argonaute and Dicer protein, PAZ 1.9E-55
Pfam IPR003165 EMBL-EBI Stem cell self-renewal protein Piwi 9.2E-88
Pfam IPR003165 EMBL-EBI Stem cell self-renewal protein Piwi 9.2E-88
Sequence
Target Sequence 
>C. ELEGANS:175496_S_AT
gaatttttacagcggaatccagattcgagaatgggcaattgtttgtttcgcaagcccaga
gattatcggagaagccagcatgcgttcatttgtcagaaatctcgtcaatgttgcctctga
aattggaatgccttttctcgaagaacaccgattctgcag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATTTTTACAGCGGAATCCAGATT 614 323 56 Antisense
GAATCCAGATTCGAGAATGGGCAAT 561 329 70 Antisense
GGCAATTGTTTGTTTCGCAAGCCCA 642 533 89 Antisense
GTTTCGCAAGCCCAGAGATTATCGG 188 451 100 Antisense
GATTATCGGAGAAGCCAGCATGCGT 429 429 116 Antisense
GAAGCCAGCATGCGTTCATTTGTCA 133 345 126 Antisense
GCGTTCATTTGTCAGAAATCTCGTC 493 291 137 Antisense
AAATCTCGTCAATGTTGCCTCTGAA 629 117 152 Antisense
GTTGCCTCTGAAATTGGAATGCCTT 441 439 165 Antisense
GGAATGCCTTTTCTCGAAGAACACC 54 533 180 Antisense
TTCTCGAAGAACACCGATTCTGCAG 553 691 190 Antisense
Sequence Source Affymetrix Proprietary Database