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[179595_at]

Description F31D4.1 /REP_DB=WormBase Gene ID /WP=CE15927 /TR=O45424 /GB=CAB07377.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 98      6grp_high1_10_10 > 87      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 82      6grp_total > 86      4grp_total > 02      6grp_highest_sub > Cu      6grp_high1_sub > In      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1359
1 2 3 4 range
A 330.8
(-2.8)
P 		293.9
(-3)
P 		391.1
(-2.4)
P 		1268.4
(3)
P 		975
B 359.7
(-2.9)
P 		352.8
(-2.9)
P 		329.4
(-3)
P 		1652.5
(3)
P 		1323
C 400.9
(-2.9)
P 		412.5
(-2.8)
P 		377.4
(-3)
P 		1419.3
(3)
P 		1042
avr 363.8
(-2.9) 		353.1
(-3) 		366
(-2.9) 		1446.7
(3) 		1094

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 192
1 2 3 4 5 6 range
A 290.5
(-1.1)
P 		276.8
(-2)
P 		262.2
(-3)
P 		336.7
(2.1)
P 		305.3
(-0.1)
P 		350.4
(3)
P 		88
B 318.3
(-1.8)
P 		339.5
(-1)
P 		290.4
(-3)
P 		366.2
(0.1)
P 		370.7
(0.3)
P 		435.3
(3)
P 		145
C 363.1
(-0.2)
P 		335.4
(-1.2)
P 		284.4
(-3)
P 		424.8
(2)
P 		340.1
(-1)
P 		453.9
(3)
P 		170
avr 324
(-1) 		317.2
(-1.3) 		279
(-3) 		375.9
(1.3) 		338.7
(-0.3) 		413.2
(3) 		134
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 288
1 2 3 4 range
A 120.4
(-0.2)
P 		63.8
(-3)
P 		102.2
(-1.1)
P 		185.7
(3)
P 		122
B 114.7
(-2.2)
P 		87.1
(-2.8)
P 		76.3
(-3)
P 		352.2
(3)
P 		276
C 132.7
(-2.3)
P 		118.6
(-3)
P 		131.5
(-2.4)
P 		239.3
(3)
P 		121
avr 122.6
(-1.8) 		89.8
(-3) 		103.3
(-2.5) 		259.1
(3) 		169

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 109
1 2 3 4 5 6 range
A 53.5
(-3)
P 		98.4
(3)
P 		57.1
(-2.5)
P 		85.4
(1.3)
P 		92.1
(2.2)
P 		85.3
(1.2)
P 		45
B 110.7
(-0.4)
P 		113
(-0.2)
P 		70.5
(-3)
P 		97
(-1.3)
P 		150.6
(2.2)
P 		162.3
(3)
P 		92
C 134.6
(1.7)
P 		102.3
(-0.7)
P 		72.4
(-3)
P 		85.4
(-2)
P 		110.1
(-0.2)
P 		151.9
(3)
P 		80
avr 99.6
(-0) 		104.6
(0.4) 		66.7
(-3) 		89.3
(-1) 		117.6
(1.6) 		133.2
(3) 		67
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179595_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13757
Sequence Type Exemplar sequence
Representative Public ID F31D4.1 NCBI
Target Description F31D4.1 /REP_DB=WormBase Gene ID /WP=CE15927 /TR=O45424 /GB=CAB07377.1 /SUBMIT=HINXTON /CHR=5 /FEA=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_075623(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075623 NCBI Caenorhabditis elegans F31D4.1 (F31D4.1) mRNA, complete cds. 10/11 None
SNAP00000041980 ENSEMBL cdna:SNAP chromosome:CEL140:V:20838290:20839529:1 10/11 None
GENEFINDER00000041988 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20838151:20839529:1 10/11 None
F31D4.1.2 ENSEMBL cdna:known chromosome:CEL140:V:20836914:20839601:1 gene:F31D4.1 11/11 None
F31D4.1.1 ENSEMBL cdna:known chromosome:CEL140:V:20836916:20839601:1 gene:F31D4.1 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
chrV:20836919-20839529(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F31D4.1
Entrez Gene 180369 Entrez gene
SwissProt O45424 EMBL-EBI
WormBase CE31921 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:259227_AT 3' exoribonuclease family domain 1-containing protein at
CANINE:1598449_AT similar to Exosome complex exonuclease RRP42 (Ribosomal RNA processing protein 42) (Exosome component 7) (p8) cfa
CANINE_2:CFA.2745.1.A1_S_AT similar to Exosome complex exonuclease RRP42 (Ribosomal RNA processing protein 42) (Exosome component 7) (p8) cfa
CANINE_2:CFAAFFX.21699.1.S1_AT similar to Exosome complex exonuclease RRP42 (Ribosomal RNA processing protein 42) (Exosome component 7) (p8) cfa
DROSOPHILA_2:1628311_AT dm
DROSGENOME1:147273_AT dm
CHICKEN:GGA.12438.1.S1_AT exosome component 7 gga
HU35KSUBD:RC_H50222_S_AT exosome component 7 hs
HUGENEFL:D29958_AT exosome component 7 hs
HG-U133_PLUS_2:213648_AT exosome component 7 hs
HG-U133A_2:213648_AT exosome component 7 hs
HG-U133A:213648_AT exosome component 7 hs
U133_X3P:HS.182877.1.S1_3P_AT exosome component 7 hs
U133_X3P:HS.182877.0.S1_3P_A_AT exosome component 7 hs
HG-U133A_2:212627_S_AT exosome component 7 hs
HG-U133_PLUS_2:212627_S_AT exosome component 7 hs
HG-U133A:212627_S_AT exosome component 7 hs
HG-U95AV2:33294_AT exosome component 7 hs
HG-U95E:91066_AT exosome component 7 hs
HG-U95C:66229_AT Exosome component 7 hs
MG-U74AV2:99151_AT exosome component 7 mm
MOE430A:1448365_AT exosome component 7 mm
MOUSE430A_2:1448365_AT exosome component 7 mm
MOUSE430_2:1448365_AT exosome component 7 mm
MU19KSUBA:TC24121_AT Exosome component 7, mRNA (cDNA clone MGC:107517 IMAGE:30008071) mm
RG-U34B:RC_AA998331_AT exosome component 7 (predicted) rn
RAE230A:1372688_AT exosome component 7 (predicted) rn
RAT230_2:1372688_AT exosome component 7 (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6396 RNA processing inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
175 3'-5'-exoribonuclease activity inferred from electronic annotation QuickGO AmiGO
3723 RNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB07412 Hypothetical protein F31D4.1 [Caenorhabditis elegans] emb|CAB07377.2| Hypothetical protein F31D4.1 [Caenorhabditis elegans] ref|NP_508024.2| F31D4.1 [Caenorhabditis elegans] 1.0E-175
blast CAB07412 Hypothetical protein F31D4.1 [Caenorhabditis elegans] emb|CAB07377.2| Hypothetical protein F31D4.1 [Caenorhabditis elegans] ref|NP_508024.2| F31D4.1 [Caenorhabditis elegans] 1.0E-141
blast CAB07412 Hypothetical protein F31D4.1 [Caenorhabditis elegans] emb|CAB07377.2| Hypothetical protein F31D4.1 [Caenorhabditis elegans] ref|NP_508024.2| F31D4.1 [Caenorhabditis elegans] 1.0E-140
blast CAE61640 Hypothetical protein CBG05573 [Caenorhabditis briggsae] 1.0E-129
blast CAE61640 Hypothetical protein CBG05573 [Caenorhabditis briggsae] 5.0E-99
blast CAE61640 Hypothetical protein CBG05573 [Caenorhabditis briggsae] 1.0E-98
Protein Domains
Database ID Description E-Value
Pfam IPR001247 EMBL-EBI 3 exoribonuclease 1.2E-7
Pfam IPR001247 EMBL-EBI 3 exoribonuclease 2.8E-5
Pfam IPR001247 EMBL-EBI 3 exoribonuclease 2.8E-5
Pfam IPR001247 EMBL-EBI 3 exoribonuclease 2.8E-5
Sequence
Target Sequence 
>C. ELEGANS:179595_AT
aactatcggcagcatttcaagcggcttattcaaaagcactcgatattatgccgaatctcg
cgaaaactcagctggccgacggatatcgctggaaaattaatgtggacatttcggttcttc
agtgggacggaagtgtttccgatgcgatttctattgcaatcatcggagcattgagtgatt
tagagtttccagaaggtgacgttgcaccagatgatggaggaaaagtgagaattgtgttga
aacggccgaaagttgctggaaatgttcgagatgagaatgtgcaagttgcaatatgtccac
tgctgctgacaatctcaaaaattggcactgctaatcttgtcgactgcacacccgaagaag
aatgctgcattcgatctcaattgctcgttggattggcggcgattgcagactct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACTATCGGCAGCATTTCAAGCGGC 82 141 329 Antisense
GCACTCGATATTATGCCGAATCTCG 396 315 364 Antisense
GAATCTCGCGAAAACTCAGCTGGCC 339 329 381 Antisense
AGCTGGCCGACGGATATCGCTGGAA 168 81 398 Antisense
TGGACATTTCGGTTCTTCAGTGGGA 694 547 431 Antisense
GAGTTTCCAGAAGGTGACGTTGCAC 345 399 511 Antisense
GTTGCAATATGTCCACTGCTGCTGA 322 439 613 Antisense
GGCACTGCTAATCTTGTCGACTGCA 616 535 652 Antisense
TTGTCGACTGCACACCCGAAGAAGA 322 709 665 Antisense
GCATTCGATCTCAATTGCTCGTTGG 676 307 695 Antisense
TGGATTGGCGGCGATTGCAGACTCT 429 549 717 Antisense
Sequence Source Affymetrix Proprietary Database