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[175579_at]

Description CE8441 /REP_DB=TREMBL Accession /GB=T01844 /CHR=4 /FEA=Genomic Cluster /DEF=wEST02565 Early embryo, Stratagene (cat. no. 937007) Caenorhabditis elegans cDNA clone CEESW39, mRNA sequence.
Cluster 6grp_highest_10_10 > 98      6grp_high1_10_10 > 89      4grp_highest_8_8 > 02      4grp_high_8_8 > 54      6grp_highest_nonorm > 84      6grp_total > 98      4grp_total > 50      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Increase      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 351
1 2 3 4 range
A 581.4
(-3)
P 		796
(3)
P 		699.2
(0.3)
P 		602.1
(-2.4)
P 		215
B 493.6
(-1.9)
P 		682.9
(2.3)
P 		714.1
(3)
P 		445.1
(-3)
P 		269
C 599.1
(-1.2)
P 		668.5
(1.4)
P 		709.9
(3)
P 		551.4
(-3)
P 		159
avr 558
(-2.2) 		715.8
(3) 		707.7
(2.7) 		532.9
(-3) 		183

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 447
1 2 3 4 5 6 range
A 623.9
(0.4)
P 		491.8
(-1.8)
P 		417.7
(-3)
P 		460.4
(-2.3)
P 		741.3
(2.4)
P 		776.6
(3)
P 		359
B 577.8
(-0.3)
P 		373.1
(-3)
P 		433.5
(-2.2)
P 		567.3
(-0.4)
P 		761.7
(2.2)
P 		820.3
(3)
P 		447
C 468.8
(-2.1)
P 		486.5
(-1.8)
P 		504.3
(-1.5)
P 		410.3
(-3)
P 		681.9
(1.4)
P 		784.1
(3)
P 		374
avr 556.8
(-1.1) 		450.5
(-3) 		451.8
(-3) 		479.3
(-2.5) 		728.3
(1.9) 		793.7
(3) 		343
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 159
1 2 3 4 range
A 211.7
(3)
P 		172.8
(1.1)
P 		182.8
(1.6)
P 		88.1
(-3)
P 		124
B 157.4
(2.1)
P 		168.7
(3)
P 		165.5
(2.7)
P 		94.9
(-3)
P 		74
C 198.3
(1.1)
P 		192.2
(0.9)
P 		247.4
(3)
P 		93
(-3)
P 		154
avr 189.1
(2.5) 		177.9
(1.8) 		198.6
(3) 		92
(-3) 		107

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 227
1 2 3 4 5 6 range
A 115
(-1.9)
P 		174.9
(0.8)
P 		91
(-3)
P 		116.8
(-1.8)
P 		223.7
(3)
P 		189.1
(1.4)
P 		133
B 201
(-0.2)
P 		124.2
(-2.4)
P 		105.3
(-3)
P 		150.3
(-1.7)
P 		309.5
(3)
P 		305.9
(2.9)
P 		204
C 173.8
(0)
P 		148.4
(-0.8)
P 		128.4
(-1.5)
P 		82.5
(-3)
P 		220.7
(1.6)
P 		262.5
(3)
P 		180
avr 163.3
(-0.7) 		149.2
(-1.3) 		108.2
(-3) 		116.5
(-2.7) 		251.3
(3) 		252.5
(3) 		144
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175579_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21613
Sequence Type Exemplar sequence
Representative Public ID CE8441 NCBI
Target Description CE8441 /REP_DB=TREMBL Accession /GB=T01844 /CHR=4 /FEA=Genomic Cluster /DEF=wEST02565 Early embryo, Stratagene (cat. no. 937007) Caenorhabditis elegans cDNA clone CEESW39, mRNA sequence.
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_068577(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068577 NCBI Caenorhabditis elegans Y73B6BL.3 (Y73B6BL.3) mRNA, complete cds. 11/11 None
SNAP00000032055 ENSEMBL cdna:SNAP chromosome:CEL140:IV:6415487:6417327:1 11/11 None
GENEFINDER00000032083 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:6415487:6417327:1 11/11 None
Y73B6BL.3 ENSEMBL cdna:known chromosome:CEL140:IV:6415474:6417441:1 gene:Y73B6BL.3 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:6416847-6417368(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y73B6BL.3
Entrez Gene 177403 Entrez gene
SwissProt Q95XD0 EMBL-EBI
WormBase CE27533 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264357_AT exonuclease family protein at
CANINE_2:CFAAFFX.30518.1.S1_AT similar to Exosome complex exonuclease RRP4 (Ribosomal RNA processing protein 4) (Exosome component 2) cfa
DROSOPHILA_2:1641430_AT dm
DROSGENOME1:153140_AT dm
CHICKEN:GGA.12684.1.S1_S_AT exosome component 2 gga
CHICKEN:GGA.12684.2.S1_S_AT exosome component 2 gga
HG-U95AV2:32974_AT exosome component 2 hs
HG-U133A_2:209527_AT exosome component 2 hs
HG-U133A:209527_AT exosome component 2 hs
HG-U133_PLUS_2:209527_AT exosome component 2 hs
HU35KSUBA:U07563_CDS1_AT exosome component 2 hs
HUGENEFL:U07563_CDS1_AT exosome component 2 hs
HU35KSUBD:RC_T90367_AT exosome component 2 hs
HG-U133_PLUS_2:214507_S_AT exosome component 2 hs
HG-U133A_2:214507_S_AT exosome component 2 hs
HG-FOCUS:214507_S_AT exosome component 2 hs
HG-U133A:214507_S_AT exosome component 2 hs
U133_X3P:G12653908_3P_AT exosome component 2 hs
U133_X3P:HS.306768.0.A1_3P_AT exosome component 2 hs
U133_X3P:HS.211973.1.A1_3P_A_AT exosome component 2 hs
HG-U133A_2:216117_AT exosome component 2 hs
HG-U133_PLUS_2:216117_AT exosome component 2 hs
HG-U133A:216117_AT exosome component 2 hs
HG-U95AV2:32975_G_AT exosome component 2 hs
HG-U95E:88242_AT exosome component 2 hs
HG-U95E:90936_AT exosome component 2 hs
U133_X3P:HS.306768.0.S1_3P_X_AT Exosome component 2 hs
U133_X3P:216172_3P_AT Exosome component 2 hs
HG-U133A_2:216172_AT Exosome component 2 hs
HG-U133_PLUS_2:216172_AT Exosome component 2 hs
HG-U133A:216172_AT Exosome component 2 hs
MG-U74BV2:111781_AT exosome component 2 mm
MOE430A:1426630_AT exosome component 2 mm
MOUSE430A_2:1426630_AT exosome component 2 mm
MOUSE430_2:1426630_AT exosome component 2 mm
MOE430B:1446994_AT Exosome component 2 (Exosc2), mRNA mm
MOUSE430_2:1446994_AT Exosome component 2 (Exosc2), mRNA mm
MU19KSUBB:TC30405_AT Exosome component 2 (Exosc2), mRNA mm
RAE230B:1379348_AT exosome component 2 (predicted) rn
RAT230_2:1379348_AT exosome component 2 (predicted) rn
YEAST_2:1775722_AT Protein involved in rRNA processing; component of the exosome 3->5 exonuclease complex with Rrp41p, Rrp42p, Rrp43p and Dis3p Sc
Protein Similarities
Method ID Description E-Value
blast AAK68595 Hypothetical protein Y73B6BL.3 [Caenorhabditis elegans] ref|NP_500978.1| Y73B6BL.3 [Caenorhabditis elegans] 1.0E-163
blast CAE61543 Hypothetical protein CBG05449 [Caenorhabditis briggsae] 1.0E-154
blast EAA05284 ENSANGP00000011203 [Anopheles gambiae str. PEST] ref|XP_309432.2| ENSANGP00000011203 [Anopheles gambiae str. PEST] 3.0E-54
Sequence
Target Sequence 
>C. ELEGANS:175579_AT
atggatcacatgttcacgagtttcagattgtacctcccgacgtacgcgtaactatggtca
gaatcgctgcctgtgttcgtcttcttcgtgattattccatctcgatctacctcaattcac
tgacaacatgctatgaaatgagtcagccttatgaaatcaaagagctcgccgagcaagaca
cgtcttctcgactcgcctacctgattgctgcacggcttctacaggaacttcaacag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGATCACATGTTCACGAGTTTCA 587 51 13 Antisense
ACGAGTTTCAGATTGTACCTCCCGA 643 93 28 Antisense
CTCCCGACGTACGCGTAACTATGGT 106 227 46 Antisense
CTATGGTCAGAATCGCTGCCTGTGT 651 221 64 Antisense
TCGTGATTATTCCATCTCGATCTAC 16 607 98 Antisense
TCTCGATCTACCTCAATTCACTGAC 28 609 112 Antisense
ACCTCAATTCACTGACAACATGCTA 423 87 121 Antisense
TTATGAAATCAAAGAGCTCGCCGAG 169 679 161 Antisense
GCCGAGCAAGACACGTCTTCTCGAC 237 285 180 Antisense
TTGCTGCACGGCTTCTACAGGAACT 184 697 217 Antisense
ACGGCTTCTACAGGAACTTCAACAG 84 97 224 Antisense
Sequence Source Affymetrix Proprietary Database