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[173832_at] ribonuclease D

Description AV197969 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=ZK1098.8 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV197969 /WB_GENE_ID=ZK1098.8 /WP=CE00370 /CHR=3 /FEA=Genomic Cluster /DEF=ribonuclease D; Caenorhabditis elegans cDNA clone:yk673d12 : 5prime end, single read.
Cluster 6grp_total > 88      4grp_total > 45      6grp_cgc > 59      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 86
1 2 3 4 range
A 47.8
(0.5)
A 		29.3
(-1.1)
A 		8.1
(-3)
A 		76.3
(3)
A 		68
B 79.4
(1.8)
A 		93.4
(3)
A 		40.3
(-1.5)
A 		22.4
(-3)
A 		71
C 93.8
(3)
A 		73.2
(1.3)
A 		53.6
(-0.4)
A 		21.8
(-3)
A 		72
avr 73.7
(3) 		65.3
(1.7) 		34
(-3) 		40.2
(-2.1) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 109
1 2 3 4 5 6 range
A 76.7
(-0)
A 		41.8
(-2.2)
A 		28.7
(-3)
A 		46.1
(-1.9)
A 		83.9
(0.4)
A 		125.7
(3)
P 		97
B 21
(-3)
A 		63.1
(-0.3)
A 		33.5
(-2.2)
A 		57
(-0.7)
A 		55
(-0.9)
A 		116.1
(3)
P 		95
C 46.4
(-0.6)
A 		17.1
(-3)
A 		62.2
(0.7)
A 		18
(-2.9)
A 		81.1
(2.2)
A 		90.5
(3)
P 		73
avr 48
(-2.4) 		40.7
(-3) 		41.5
(-2.9) 		40.4
(-3) 		73.3
(-0.2) 		110.8
(3) 		70
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 17.4
(3)
A 		6.4
(-1.3)
A 		2.1
(-3)
A 		11.2
(0.6)
A 		15
B 25.3
(3)
A 		23.1
(2.4)
A 		9.3
(-1.7)
A 		4.8
(-3)
A 		21
C 31.1
(3)
A 		21.1
(0.8)
A 		18.7
(0.3)
A 		3.7
(-3)
A 		27
avr 24.6
(3) 		16.9
(0.4) 		10
(-1.9) 		6.6
(-3) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 40
1 2 3 4 5 6 range
A 14.1
(-1.1)
A 		14.9
(-0.9)
A 		6.3
(-3)
A 		11.7
(-1.7)
A 		25.3
(1.7)
A 		30.6
(3)
P 		24
B 7.3
(-3)
A 		21
(-0.7)
A 		8.1
(-2.9)
A 		15.1
(-1.7)
A 		22.3
(-0.5)
A 		43.3
(3)
P 		36
C 17.2
(0.1)
A 		5.2
(-2.6)
A 		15.8
(-0.3)
A 		3.6
(-3)
A 		26.2
(2.1)
A 		30.3
(3)
P 		27
avr 12.9
(-2.3) 		13.7
(-2.1) 		10.1
(-3) 		10.1
(-3) 		24.6
(0.5) 		34.7
(3) 		25
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173832_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24325
Sequence Type Exemplar sequence
Representative Public ID AV197969 NCBI
Target Description AV197969 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=ZK1098.8 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV197969 /WB_GENE_ID=ZK1098.8 /WP=CE00370 /CHR=3 /FEA=Genomic Cluster /DEF=ribonuclease D; Caenorhabditis elegans cDNA clone:yk673d12 : 5prime 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_066704(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066704 NCBI Caenorhabditis elegans MUTator family member (mut-7) (mut-7) mRNA, complete cds. 11/11 None
ZK1098.8 ENSEMBL cdna:known chromosome:CEL140:III:9538927:9542251:-1 gene:ZK1098.8 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
chrIII:9538932-9542248(-) 100.0 100.0
Public Domain and Genome References
Gene Title ribonuclease D
Gene Symbol mut-7
Ensembl ZK1098.8
Entrez Gene 176347 Entrez gene
SwissProt P34607 EMBL-EBI
WormBase CE00370 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
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
5488 binding inferred from electronic annotation QuickGO AmiGO
8289 lipid 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 CAA80137 Hypothetical protein ZK1098.8 [Caenorhabditis elegans] ref|NP_499105.1| MUTator family member (mut-7) [Caenorhabditis elegans] sp|P34607|MUT7_CAEEL Probable exonuclease mut-7 0.0
blast CAE65185 Hypothetical protein CBG10058 [Caenorhabditis briggsae] 0.0
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 1.0E-131
Protein Domains
Database ID Description E-Value
Pfam IPR002562 EMBL-EBI 3-5 exonuclease 5.3E-63
Sequence
Target Sequence 
>C. ELEGANS:173832_AT
gaatgttgaattcgaaatcccgttccccttctcgttttaaacttgtaccatttttcttat
tttttcctatccacattttgtgtcctgcatgtaatatcacctcgtcccggtaatagttct
aagtttatctagttttattctccctgttcaacggtttttaatattcaatacttattctgt
taatatttttgcct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATGTTGAATTCGAAATCCCGTTC 518 331 2738 Antisense
TTATTTTTTCCTATCCACATTTTGT 228 679 2794 Antisense
ATCCACATTTTGTGTCCTGCATGTA 469 39 2806 Antisense
GTCCTGCATGTAATATCACCTCGTC 304 477 2819 Antisense
TAATATCACCTCGTCCCGGTAATAG 257 633 2829 Antisense
TCACCTCGTCCCGGTAATAGTTCTA 388 597 2834 Antisense
GGTAATAGTTCTAAGTTTATCTAGT 477 497 2846 Antisense
AGTTTATCTAGTTTTATTCTCCCTG 140 63 2859 Antisense
TGTTCAACGGTTTTTAATATTCAAT 67 561 2882 Antisense
TTTAATATTCAATACTTATTCTGTT 377 663 2894 Antisense
ACTTATTCTGTTAATATTTTTGCCT 367 103 2907 Antisense
Sequence Source Affymetrix Proprietary Database