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[190614_at]

Description B0564.1 /REP_DB=WormBase Gene ID /WP=CE20469 /TR=SW:Q17533 /GB=CAA97771.3 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=ribonuclease PH like
Cluster 6grp_highest_10_10 > 83      6grp_high1_10_10 > 48      4grp_highest_8_8 > 25      4grp_high_8_8 > 60      6grp_highest_nonorm > 84      6grp_total > 37      4grp_total > 59      6grp_highest_sub > Cu      6grp_cgc > 17      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 861
1 2 3 4 range
A 960.8
(0.9)
P 		1045.5
(1.6)
P 		1212.3
(3)
P 		506.6
(-3)
P 		706
B 948.4
(2.4)
P 		1001.5
(3)
P 		961.9
(2.5)
P 		478.6
(-3)
P 		523
C 900.3
(0.9)
P 		918.5
(1.1)
P 		1188
(3)
P 		351.1
(-3)
P 		837
avr 936.5
(1.4) 		988.5
(1.8) 		1120.7
(3) 		445.4
(-3) 		675

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 502
1 2 3 4 5 6 range
A 640.7
(2.6)
P 		469.5
(-0.3)
P 		538.6
(0.8)
P 		310.9
(-3)
P 		667.3
(3)
P 		551.1
(1)
P 		356
B 812.4
(3)
P 		714.9
(0.9)
P 		609.4
(-1.3)
P 		531.7
(-3)
P 		545.4
(-2.7)
P 		737.1
(1.4)
P 		281
C 625.1
(0.9)
P 		696.1
(2.3)
P 		438.8
(-2.7)
P 		476.8
(-2)
P 		425.4
(-3)
P 		732.8
(3)
P 		307
avr 692.7
(3) 		626.8
(1.4) 		528.9
(-0.9) 		439.8
(-3) 		546
(-0.5) 		673.7
(2.5) 		253
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 355
1 2 3 4 range
A 349.8
(3)
P 		226.9
(0.3)
P 		316.9
(2.3)
P 		74.2
(-3)
P 		276
B 302.4
(3)
P 		247.3
(1.4)
P 		222.9
(0.6)
P 		102
(-3)
P 		200
C 298
(1)
P 		264.1
(0.5)
P 		414.1
(3)
P 		59.2
(-3)
P 		355
avr 316.7
(3) 		246.1
(1.2) 		318
(3) 		78.5
(-3) 		240

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 204
1 2 3 4 5 6 range
A 118.1
(-1.1)
P 		167
(1.3)
P 		117.3
(-1.1)
P 		78.9
(-3)
P 		201.4
(3)
P 		134.2
(-0.3)
P 		123
B 282.7
(3)
P 		238
(1.1)
P 		148
(-2.7)
P 		140.8
(-3)
P 		221.6
(0.4)
P 		274.9
(2.7)
P 		142
C 231.7
(2.5)
P 		212.4
(1.7)
P 		111.7
(-2.4)
P 		95.9
(-3)
P 		137.7
(-1.3)
P 		245.3
(3)
P 		149
avr 210.8
(2.6) 		205.8
(2.3) 		125.7
(-1.9) 		105.2
(-3) 		186.9
(1.3) 		218.1
(3) 		113
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190614_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8512
Sequence Type Exemplar sequence
Representative Public ID B0564.1 NCBI
Target Description B0564.1 /REP_DB=WormBase Gene ID /WP=CE20469 /TR=SW:Q17533 /GB=CAA97771.3 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=ribonuclease PH like
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_001026104(11), NM_001026103(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026104 NCBI Caenorhabditis elegans Transport to INner mitochondrial membrane (yeast TIM) family member (tin-9.2) (tin-9.2) mRNA, complete cds. 11/11 None
NM_001026103 NCBI Caenorhabditis elegans Transport to INner mitochondrial membrane (yeast TIM) family member (tin-9.2) (tin-9.2) mRNA, complete cds. 11/11 None
SNAP00000043350 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13099497:13100489:1 11/11 None
GENEFINDER00000043371 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13098831:13100489:1 11/11 None
B0564.1b ENSEMBL cdna:known chromosome:CEL140:IV:13098975:13100581:1 gene:B0564.1 11/11 None
B0564.1a ENSEMBL cdna:known chromosome:CEL140:IV:13099497:13100578:1 gene:B0564.1 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
chrIV:13099502-13100495(+) 100.0 100.0
Public Domain and Genome References
Ensembl B0564.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA97771 Hypothetical protein B0564.1a [Caenorhabditis elegans] ref|NP_001021274.1| Transport to INner mitochondrial membrane (yeast TIM) family member (tin-9.2) [Caenorhabditis elegans] sp|Q17533|EXOS4_CAEEL Putative exosome complex exonuclease RRP41 (Ribosomal RNA processing protein 41) 1.0E-134
blast CAE58656 Hypothetical protein CBG01825 [Caenorhabditis briggsae] 1.0E-127
blast CAE58656 Hypothetical protein CBG01825 [Caenorhabditis briggsae] 1.0E-126
blast AAH87307 LOC495942 protein [Xenopus laevis] 8.0E-58
Protein Domains
Database ID Description E-Value
Pfam IPR004217 EMBL-EBI Zn-finger, Tim10/DDP type 1.4E-10
Pfam IPR001247 EMBL-EBI 3 exoribonuclease 5.1E-13
Pfam IPR001247 EMBL-EBI 3 exoribonuclease 1.5E-53
Pfam IPR001247 EMBL-EBI 3 exoribonuclease 5.1E-13
Pfam IPR001247 EMBL-EBI 3 exoribonuclease 1.5E-53
Pfam IPR004217 EMBL-EBI Zn-finger, Tim10/DDP type 1.4E-10
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000043371 1 21-43
Sequence
Target Sequence 
>C. ELEGANS:190614_AT
agcatttcctcgatcacaacttgatattttctgtgaagtaatccaaggagacggctccaa
cctggccgcctgtgtcaatgcaacttctttggctcttgctgatgcaggaatcccaatgaa
aggcatcgcatctgcagcgacgtgtggtgttgtcgatggaaaaccaattgttgatcttac
ttctagagaagaaactgatctccttcccagagttactctcgccacaatctgcggtcgtga
cgaagtgattctcgtggaacttcaaaatcgtcttcacattgatcatctttccacagtcat
ggatgcagcgaaagccacgtgtgctgacgtgtacgaatgtctcgcagtagttgctcagca
ac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCATTTCCTCGATCACAACTTGAT 92 79 339 Antisense
TCCAAGGAGACGGCTCCAACCTGGC 600 585 380 Antisense
GTCAATGCAACTTCTTTGGCTCTTG 589 463 412 Antisense
GGCTCTTGCTGATGCAGGAATCCCA 443 535 429 Antisense
GCATCTGCAGCGACGTGTGGTGTTG 430 309 466 Antisense
CCACAATCTGCGGTCGTGACGAAGT 415 275 560 Antisense
GGAACTTCAAAATCGTCTTCACATT 554 527 594 Antisense
CATTGATCATCTTTCCACAGTCATG 573 215 615 Antisense
GGATGCAGCGAAAGCCACGTGTGCT 382 513 639 Antisense
GCTGACGTGTACGAATGTCTCGCAG 565 295 661 Antisense
TGTCTCGCAGTAGTTGCTCAGCAAC 3 559 676 Antisense
Sequence Source Affymetrix Proprietary Database