[Home] | [Total List]

[189593_at] ribonuclease D

Description ZK1098.3 /REP_DB=WormBase Gene ID /WP=CE01108 /TR=SW:P34603 /GB=CAA80141.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=ribonuclease D
Cluster 6grp_high1_10_10 > 44      4grp_high_8_8 > 18      6grp_total > 21      4grp_total > 37      6grp_high1_sub > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 98
1 2 3 4 range
A 140.3
(3)
P 		105
(-0.4)
A 		77.3
(-3)
A 		98.6
(-1)
M 		63
B 149
(3)
P 		127.7
(1.5)
P 		65.9
(-3)
P 		113.4
(0.4)
P 		83
C 146.4
(1.6)
P 		102.3
(-1.8)
P 		87.3
(-3)
P 		164.2
(3)
P 		77
avr 145.2
(3) 		111.7
(0.1) 		76.8
(-3) 		125.4
(1.3) 		68

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 153
1 2 3 4 5 6 range
A 211.3
(1.2)
P 		146.8
(-1.5)
P 		255
(3)
P 		149.7
(-1.3)
P 		109.4
(-3)
P 		119
(-2.6)
M 		146
B 162.6
(-1.3)
P 		249.6
(3)
P 		239.2
(2.5)
P 		127.9
(-3)
P 		144.5
(-2.2)
P 		164.5
(-1.2)
P 		122
C 115
(-2.5)
P 		244.4
(3)
P 		139.3
(-1.4)
P 		153.9
(-0.8)
P 		102
(-3)
M 		145.6
(-1.2)
P 		142
avr 163
(-0.2) 		213.6
(3) 		211.2
(2.8) 		143.8
(-1.4) 		118.6
(-3) 		143
(-1.5) 		95
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 37
1 2 3 4 range
A 51.1
(3)
P 		22.8
(-1.6)
A 		20.2
(-2.1)
A 		14.4
(-3)
M 		37
B 47.5
(3)
P 		31.5
(0)
P 		15.3
(-3)
P 		24.2
(-1.3)
P 		32
C 48.4
(3)
P 		29.4
(-2.5)
P 		30.4
(-2.2)
P 		27.7
(-3)
P 		21
avr 49
(3) 		27.9
(-1.7) 		22
(-3) 		22.1
(-3) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 54
1 2 3 4 5 6 range
A 39
(-0.7)
P 		52.2
(2.3)
P 		55.5
(3)
P 		38
(-1)
P 		33
(-2.1)
P 		29
(-3)
M 		27
B 56.6
(-0.2)
P 		83.1
(3)
P 		58.1
(-0)
P 		33.9
(-3)
P 		58.7
(0)
P 		61.3
(0.3)
P 		49
C 42.6
(-1.4)
P 		74.6
(3)
P 		35.4
(-2.4)
P 		31
(-3)
P 		33
(-2.7)
M 		48.8
(-0.6)
P 		44
avr 46.1
(-1) 		70
(3) 		49.7
(-0.4) 		34.3
(-3) 		41.6
(-1.8) 		46.4
(-1) 		36
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189593_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6597
Sequence Type Exemplar sequence
Representative Public ID ZK1098.3 NCBI
Target Description ZK1098.3 /REP_DB=WormBase Gene ID /WP=CE01108 /TR=SW:P34603 /GB=CAA80141.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=ribonuclease D
Cluster Evidence This cluster is supported by a Sanger Annotation.
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_066703(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066703 NCBI Caenorhabditis elegans ZK1098.3 (ZK1098.3) mRNA, complete cds. 11/11 None
GENEFINDER00000005023 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9532289:9538594:-1 11/11 None
ZK1098.3 ENSEMBL cdna:known chromosome:CEL140:III:9532331:9538594:-1 gene:ZK1098.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000005013 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:9532326-9538590(-) 99.02 100.0
Public Domain and Genome References
Gene Title ribonuclease D
Ensembl ZK1098.3
Entrez Gene 176346 Entrez gene
SwissProt P34603 EMBL-EBI
WormBase CE01108 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
8408 3'-5' exonuclease activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA80141 Hypothetical protein ZK1098.3 [Caenorhabditis elegans] ref|NP_499104.1| ZK1098.3 [Caenorhabditis elegans] sp|P34603|YO63_CAEEL Hypothetical protein ZK1098.3 in chromosome III 0.0
blast CAE65187 Hypothetical protein CBG10060 [Caenorhabditis briggsae] 0.0
blast CAE65185 Hypothetical protein CBG10058 [Caenorhabditis briggsae] 1.0E-125
Protein Domains
Database ID Description E-Value
Pfam IPR002562 EMBL-EBI 3-5 exonuclease 1.7E-65
Sequence
Target Sequence 
>C. ELEGANS:189593_AT
ggcagtgtcgtccattgagaagaaatcagataatctacgctgtaatggatgcggtcgctg
tttttgaagtatttcaaaaaatagtggaagtagttagaaaacacgaattggatgcggaaa
agttgttggtcgaatcacatatgattactgtgaagaaagaaaaagttaggagggattgta
aaaatattagtttgattccgtggaatgagttttatcagattatccacacccatcgaaatc
cagaaaaaccgctccaaaagccatctgaactgaaaatagtggtggacacaatggttcttg
gattgggaaaaaatcttcgattactcggatttgatgtctacattccacgtgatgtgacag
agttgaaagagtttttgaggaaaatggataaaatggaagaatccgaacaaagattagtta
tcagtgttccttcgagaagttatgaaatgttgaaatcagataatcctaatgcaaagtttg
tattgattccgaatatttacgaaaaagtacccattgatctcgtttgttcattttttgatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGCAGTGTCGTCCATTGAGAAGAAA 15 535 1775 Antisense
TCTACGCTGTAATGGATGCGGTCGC 642 611 1808 Antisense
GATGCGGTCGCTGTTTTTGAAGTAT 451 407 1822 Antisense
TATCAGATTATCCACACCCATCGAA 439 659 1987 Antisense
ATCGAAATCCAGAAAAACCGCTCCA 304 35 2006 Antisense
AACCGCTCCAAAAGCCATCTGAACT 145 145 2021 Antisense
GTGGTGGACACAATGGTTCTTGGAT 472 489 2053 Antisense
GGATTTGATGTCTACATTCCACGTG 335 509 2101 Antisense
GATTAGTTATCAGTGTTCCTTCGAG 570 429 2186 Antisense
AAGTACCCATTGATCTCGTTTGTTC 536 157 2279 Antisense
GATCTCGTTTGTTCATTTTTTGATT 531 419 2290 Antisense
Sequence Source Affymetrix Proprietary Database