[Home] | [Total List]

[171930_x_at]

Description AV183129_rc /REP_DB=TREMBL Accession /GB=AV183129 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk646h4 : 3prime end, single read.
Cluster 4grp_high_8_8 > 08      6grp_total > 58      4grp_total > 15      6grp_cgc > 07      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 82
1 2 3 4 range
A 145.4
(3)
P 		122.1
(-0.6)
A 		123.6
(-0.3)
M 		106.1
(-3)
P 		39
B 115.9
(1.8)
M 		77.9
(-3)
P 		90.6
(-1.4)
P 		125.8
(3)
P 		48
C 116.2
(-0.5)
P 		85.4
(-3)
P 		98.9
(-1.9)
A 		159.4
(3)
M 		74
avr 125.8
(2.2) 		95.1
(-3) 		104.4
(-1.4) 		130.4
(3) 		35

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 149
1 2 3 4 5 6 range
A 172.1
(2.2)
A 		128.9
(-0.2)
P 		78.6
(-3)
P 		90.8
(-2.3)
A 		136.9
(0.2)
P 		187.3
(3)
P 		109
B 140.6
(-0.9)
P 		117.1
(-2)
A 		227.6
(3)
P 		94.5
(-3)
M 		165.7
(0.2)
P 		186.9
(1.2)
P 		133
C 208.5
(2.8)
P 		100
(-2.3)
P 		124
(-1.1)
P 		84
(-3)
A 		135.6
(-0.6)
P 		213.7
(3)
P 		130
avr 173.7
(1.7) 		115.3
(-1.6) 		143.4
(0) 		89.8
(-3) 		146.1
(0.2) 		196
(3) 		106
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 37
1 2 3 4 range
A 52.9
(3)
P 		26.5
(-1.2)
A 		32.3
(-0.3)
M 		15.5
(-3)
P 		37
B 37
(3)
M 		19.2
(-3)
P 		21
(-2.4)
P 		26.8
(-0.4)
P 		18
C 38.5
(3)
P 		24.5
(-3)
P 		34.5
(1.3)
A 		26.9
(-2)
M 		14
avr 42.8
(3) 		23.4
(-2.9) 		29.3
(-1.1) 		23.1
(-3) 		20

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 60
1 2 3 4 5 6 range
A 31.7
(0)
A 		45.9
(3)
P 		17.1
(-3)
P 		23
(-1.8)
A 		41.3
(2)
P 		45.6
(2.9)
P 		29
B 48.9
(0.2)
P 		39
(-1.1)
A 		55.3
(1.1)
P 		25
(-3)
M 		67.3
(2.7)
P 		69.7
(3)
P 		45
C 77.3
(3)
P 		30.5
(-1.6)
P 		31.5
(-1.5)
P 		16.9
(-3)
A 		43.9
(-0.3)
P 		71.5
(2.4)
P 		60
avr 52.6
(1.6) 		38.5
(-0.5) 		34.6
(-1.1) 		21.6
(-3) 		50.8
(1.3) 		62.3
(3) 		41
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171930_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27610
Sequence Type Exemplar sequence
Representative Public ID AV183129 NCBI
Target Description AV183129_rc /REP_DB=TREMBL Accession /GB=AV183129 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk646h4 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_070209
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070209 NCBI Caenorhabditis elegans RNAi Spreading Defective (see also sid) family member (rsd-2) (rsd-2) mRNA, complete cds. A 
SNAP00000029679 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13516541:13526239:-1 None
F52G2.2 ENSEMBL cdna:known chromosome:CEL140:IV:13521938:13539584:-1 gene:F52G2.2 A 
GENEFINDER00000029686 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13522193:13532770:-1 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
chrIV:13522009-13523049(-) 97.67 97.67
Public Domain and Genome References
Gene Title
Gene Symbol rsd-2
Ensembl F52G2.2
Entrez Gene 178322 Entrez gene
SwissProt Q9XUE3 EMBL-EBI
WormBase CE17848 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05207 Hypothetical protein F52G2.2 [Caenorhabditis elegans] ref|NP_502610.1| RNAi Spreading Defective (see also sid) family member (rsd-2) [Caenorhabditis elegans] 0.0
blast AAZ73241 RNA-decapping protein [Caenorhabditis elegans] 0.0
blast CAE58589 Hypothetical protein CBG01756 [Caenorhabditis briggsae] 1.0E-178
blast CAE58588 Hypothetical protein CBG01755 [Caenorhabditis briggsae] 2.0E-30
blast CAE58588 Hypothetical protein CBG01755 [Caenorhabditis briggsae] 3.0E-30
blast CAB05205 Hypothetical protein F52G2.3 [Caenorhabditis elegans] ref|NP_502611.2| F52G2.3 [Caenorhabditis elegans] 1.0E-28
Protein Domains
Database ID Description E-Value
Pfam IPR007722 EMBL-EBI Dcp2, box A 2.3E-65
Pfam IPR000086 EMBL-EBI NUDIX hydrolase 2.7E-19
Sequence
Target Sequence 
>C. ELEGANS:171930_X_AT
caaagctcgttcaacggagcgccggcgccaccgcattattcggaaatgtcgaacgattat
aatagaatggttcgaaaactggctgaactcactgacactgcagctcaaatgattattaac
aacgatattagacagcaaatttagaatatttcgccggatttgttgggcgatctggagaga
aatattgacgcttgccagagggagaagcgtcattattacgaaaagtacgggaattaaagg
atccttgactaaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAAGCTCGTTCAACGGAGCGCCGG 3 193 14 Antisense
GCGCCACCGCATTATTCGGAAATGT 147 287 38 Antisense
GAAAACTGGCTGAACTCACTGACAC 298 355 87 Antisense
GAACTCACTGACACTGCAGCTCAAA 430 349 98 Antisense
GACACTGCAGCTCAAATGATTATTA 107 367 107 Antisense
AGAATATTTCGCCGGATTTGTTGGG 316 75 156 Antisense
GGATTTGTTGGGCGATCTGGAGAGA 252 507 169 Antisense
GGAGAGAAATATTGACGCTTGCCAG 208 519 187 Antisense
ATATTGACGCTTGCCAGAGGGAGAA 30 19 195 Antisense
GCCAGAGGGAGAAGCGTCATTATTA 171 281 207 Antisense
GGAATTAAAGGATCCTTGACTAACA 163 1 243 Antisense
Sequence Source Affymetrix Proprietary Database