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[171870_x_at]

Description CEK013GXR_rc /REP_DB=TREMBL Accession /GB=D27557 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk13g10 : 3prime end, single read.
Cluster 6grp_total > 46      4grp_total > 41      6grp_cgc > 36      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 161
1 2 3 4 range
A 153.7
(-3)
P 		285.3
(2.6)
A 		295.7
(3)
A 		295.9
(3)
A 		142
B 134.8
(-3)
A 		274
(3)
A 		254.1
(2.1)
A 		173
(-1.4)
P 		139
C 201.7
(2.8)
P 		204.2
(3)
A 		144.2
(-3)
A 		192.3
(1.8)
A 		60
avr 163.4
(-3) 		254.5
(3) 		231.3
(1.5) 		220.4
(0.8) 		91

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 118
1 2 3 4 5 6 range
A 212.7
(3)
A 		161.3
(-0.6)
P 		125.9
(-3)
A 		163.5
(-0.4)
A 		152.2
(-1.2)
A 		188.8
(1.3)
M 		87
B 132.2
(-1.5)
P 		201.4
(3)
A 		191.3
(2.3)
A 		192.3
(2.4)
A 		108.3
(-3)
A 		197.2
(2.7)
M 		93
C 166.2
(0.8)
A 		150.4
(0)
A 		206.3
(3)
A 		94.5
(-3)
A 		102.4
(-2.6)
A 		182.6
(1.7)
M 		112
avr 170.4
(1.3) 		171
(1.4) 		174.5
(1.7) 		150.1
(-0.5) 		121
(-3) 		189.5
(3) 		69
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 45
1 2 3 4 range
A 56
(-0.8)
P 		61.9
(0.3)
A 		77.3
(3)
A 		43.3
(-3)
A 		34
B 43
(-1.8)
A 		67.7
(3)
A 		58.9
(1.3)
A 		36.9
(-3)
P 		31
C 66.8
(3)
P 		58.7
(1.6)
A 		50.3
(0.1)
A 		32.4
(-3)
A 		34
avr 55.3
(1.2) 		62.8
(3) 		62.2
(2.9) 		37.5
(-3) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 55
1 2 3 4 5 6 range
A 39.2
(-0.6)
A 		57.4
(3)
P 		27.4
(-3)
A 		41.5
(-0.2)
A 		45.9
(0.7)
A 		46
(0.7)
M 		30
B 46
(-2.6)
P 		67
(1.7)
A 		46.5
(-2.5)
A 		50.9
(-1.6)
A 		44
(-3)
A 		73.5
(3)
M 		30
C 61.6
(3)
A 		45.9
(0.8)
A 		52.5
(1.7)
A 		19
(-3)
A 		33.1
(-1)
A 		61.1
(2.9)
M 		43
avr 48.9
(0.1) 		56.8
(2.1) 		42.1
(-1.7) 		37.1
(-3) 		41
(-2) 		60.2
(3) 		23
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171870_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27821
Sequence Type Exemplar sequence
Representative Public ID CEK013GXR NCBI
Target Description CEK013GXR_rc /REP_DB=TREMBL Accession /GB=D27557 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk13g10 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_063882, NM_182164
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
C14A4.4b ENSEMBL cdna:known chromosome:CEL140:II:10587953:10592556:1 gene:C14A4.4 A 
NM_182164 NCBI Caenorhabditis elegans Cell-death-Related Nuclease family member (crn-3) (crn-3) mRNA, complete cds. A 
SNAP00000002485 ENSEMBL cdna:SNAP chromosome:CEL140:II:10584255:10592469:1 None
C14A4.4a ENSEMBL cdna:known chromosome:CEL140:II:10587954:10592517:1 gene:C14A4.4 A 
NM_063882 NCBI Caenorhabditis elegans Cell-death-Related Nuclease family member (crn-3) (crn-3) mRNA, complete cds. A 
GENEFINDER00000002499 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10587954:10592469:1 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
chrII:10591452-10592491(+) 54.65 54.65
Public Domain and Genome References
Ensembl C14A4.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAD59140 Hypothetical protein C14A4.4b [Caenorhabditis elegans] ref|NP_871964.1| Cell-death-Related Nuclease family member (crn-3) [Caenorhabditis elegans] 0.0
blast CAA90108 Hypothetical protein C14A4.4a [Caenorhabditis elegans] ref|NP_496283.1| Cell-death-Related Nuclease family member (crn-3) [Caenorhabditis elegans] gb|AAP57299.1| cell death-related nuclease 3 [Caenorhabditis elegans] 0.0
blast CAE59646 Hypothetical protein CBG03060 [Caenorhabditis briggsae] 0.0
blast CAA90107 Hypothetical protein C14A4.3 [Caenorhabditis elegans] ref|NP_496282.2| C14A4.3 [Caenorhabditis elegans] sp|P54002|YTH3_CAEEL Putative glycosyl transferase C14A4.3 in chromosome II 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002121 EMBL-EBI HRDC domain 1.5E-27
Pfam IPR005599 EMBL-EBI Plasmid Maintenance Protein 1.0E-126
Pfam IPR002562 EMBL-EBI 3-5 exonuclease 2.0E-75
Pfam IPR002121 EMBL-EBI HRDC domain 1.5E-27
Pfam IPR002562 EMBL-EBI 3-5 exonuclease 2.0E-75
Pfam IPR002562 EMBL-EBI 3-5 exonuclease 1.9E-42
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000002485 9 109-126,131-153,165-187,207-229,242-264,305-327,339-361,371-390,403-422
Sequence
Target Sequence 
>C. ELEGANS:171870_X_AT
gaaagagagattcttctcggcgaaatatagatgtttctgttgtgctcggcgagtcgtcga
gtagttcagatcccanaaagnnnnnntcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn
nnnnnnnnnnnnnnnnnnnnncatttgnnnnncctgttcgagacaacaacgccgattncg
ancaatgcagtccaaaatagcgattgaaggacaaatccaagaagaatntggctatgaaag
aatcatcgactccacaaggtcccatcaatctacnatatntgattaaattgttacatccca
taccatttgatat

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAAGAGAGATTCTTCTCGGCGAAA 287 359 25 Antisense
GATTCTTCTCGGCGAAATATAGATG 319 431 33 Antisense
TATAGATGTTTCTGTTGTGCTCGGC 525 659 50 Antisense
TCTGTTGTGCTCGGCGAGTCGTCGA 235 609 60 Antisense
GAGTCGTCGAGTAGTTCAGATCCCA 18 397 75 Antisense
CCTGTTCGAGACAACAACGCCGATT 267 265 177 Antisense
AATGCAGTCCAAAATAGCGATTGAA 529 165 208 Antisense
GAAAGAATCATCGACTCCACAAGGT 533 359 260 Antisense
AAGAATCATCGACTCCACAAGGTCC 56 151 262 Antisense
GATTAAATTGTTACATCCCATACCA 9 431 305 Antisense
TGTTACATCCCATACCATTTGATAT 517 561 313 Antisense
Sequence Source Affymetrix Proprietary Database