[Home] | [Total List]

[172309_x_at]

Description C08E3.1 /REP_DB=WormBase Gene ID /WP=CE08004 /TR=O18654 /GB=AAB70961.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 24      6grp_high1_10_10 > 41      4grp_highest_8_8 > 16      4grp_high_8_8 > 52      6grp_highest_nonorm > 07      6grp_total > 30      4grp_total > 60      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12276
1 2 3 4 range
A 9985.6
(1.5)
P 		12413.5
(3)
P 		11844.7
(2.6)
P 		2820.8
(-3)
P 		9593
B 10789.4
(1.1)
P 		11928.2
(1.7)
P 		14626.3
(3)
P 		2349.9
(-3)
P 		12276
C 11230.4
(2.6)
P 		11830.8
(3)
P 		10684.9
(2.2)
P 		2819.3
(-3)
P 		9012
avr 10668.5
(1.9) 		12057.5
(2.8) 		12385.3
(3) 		2663.3
(-3) 		9722

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 21235
1 2 3 4 5 6 range
A 13454.3
(-0.5)
P 		17055.3
(0.5)
P 		25753.8
(3)
P 		14301.7
(-0.2)
P 		10072.4
(-1.4)
P 		4519
(-3)
P 		21235
B 13034.2
(-0.2)
P 		17904.7
(1.7)
P 		21491.8
(3)
P 		16411
(1.1)
P 		10672.7
(-1.1)
P 		5502.9
(-3)
P 		15989
C 11588.6
(-0.2)
P 		17851.3
(3)
P 		15138.9
(1.6)
P 		15269.7
(1.7)
P 		10398.2
(-0.8)
P 		5977.1
(-3)
P 		11874
avr 12692.4
(-0.1) 		17603.8
(1.8) 		20794.8
(3) 		15327.5
(0.9) 		10381.1
(-1) 		5333
(-3) 		15462
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3311
1 2 3 4 range
A 3635.8
(3)
P 		2694.6
(1.2)
P 		3096.4
(2)
P 		412.9
(-3)
P 		3223
B 3440.7
(3)
P 		2946
(2)
P 		3389.2
(2.9)
P 		500.8
(-3)
P 		2940
C 3717.6
(3)
P 		3401.4
(2.4)
P 		3724
(3)
P 		475.4
(-3)
P 		3249
avr 3598
(3) 		3014
(1.9) 		3403.2
(2.6) 		463
(-3) 		3135

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4966
1 2 3 4 5 6 range
A 2480.2
(-1.3)
P 		6065.7
(3)
P 		5608.6
(2.4)
P 		3627.3
(0.1)
P 		3039.4
(-0.7)
P 		1100.2
(-3)
P 		4966
B 4535.3
(0.8)
P 		5959.7
(3)
P 		5218.8
(1.9)
P 		4346.7
(0.5)
P 		4336.2
(0.5)
P 		2052
(-3)
P 		3908
C 4295.4
(1)
P 		5447
(3)
P 		3853.1
(0.2)
P 		3070.8
(-1.1)
P 		3364.7
(-0.6)
P 		2000.9
(-3)
P 		3446
avr 3770.3
(-0) 		5824.1
(3) 		4893.5
(1.6) 		3681.6
(-0.1) 		3580.1
(-0.3) 		1717.7
(-3) 		4106
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172309_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4612
Sequence Type Exemplar sequence
Representative Public ID C08E3.1 NCBI
Target Description C08E3.1 /REP_DB=WormBase Gene ID /WP=CE08004 /TR=O18654 /GB=AAB70961.1 /SUBMIT=ST.LOUIS /CHR=2 /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_061618(11), NM_061617(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061618 NCBI Caenorhabditis elegans C08E3.1 (C08E3.1) mRNA, complete cds. 11/11 None
NM_061617 NCBI Caenorhabditis elegans C08E3.13 (C08E3.13) mRNA, complete cds. 9/11 A 
SNAP00000042056 ENSEMBL cdna:SNAP chromosome:CEL140:II:1632031:1632314:-1 9/11 None
SNAP00000042057 ENSEMBL cdna:SNAP chromosome:CEL140:II:1633809:1634092:1 11/11 None
GENEFINDER00000042058 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:1633809:1634092:1 11/11 None
GENEFINDER00000042062 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:1632031:1632314:-1 9/11 None
C08E3.13 ENSEMBL cdna:known chromosome:CEL140:II:1631797:1632319:-1 gene:C08E3.13 9/11 A 
C08E3.1 ENSEMBL cdna:known chromosome:CEL140:II:1633809:1634092:1 gene:C08E3.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_070480 5/11 Cross Hyb Matching Probes A 
NM_070479 5/11 Cross Hyb Matching Probes A 
SNAP00000033709 5/11 Cross Hyb Matching Probes None
SNAP00000033710 5/11 Cross Hyb Matching Probes None
GENEFINDER00000033783 5/11 Cross Hyb Matching Probes None
GENEFINDER00000033790 5/11 Cross Hyb Matching Probes None
Y105C5A.13 5/11 Cross Hyb Matching Probes A 
Y105C5A.12 5/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:1633807-1634091(+) 100.0 100.0
chrIV:15643495-15643777(+) 96.2 96.2
chrII:1632029-1632313(-) 98.73 98.73
chrIV:15641475-15641757(-) 96.2 96.2
Public Domain and Genome References
Gene Title

Ensembl C08E3.13
C08E3.1
Entrez Gene 182395 Entrez gene
182405 Entrez gene
SwissProt O18654 EMBL-EBI
WormBase CE08004 Wormbase
CE08004 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB70971 Hypothetical protein C08E3.13 [Caenorhabditis elegans] gb|AAB70961.1| Hypothetical protein C08E3.1 [Caenorhabditis elegans] ref|NP_494018.1| C08E3.13 [Caenorhabditis elegans] ref|NP_494019.1| C08E3.1 [Caenorhabditis elegans] 4.0E-41
blast CAB54991 Hypothetical protein Y105C5A.12 [Caenorhabditis elegans] ref|NP_502880.1| Y105C5A.12 [Caenorhabditis elegans] 2.0E-38
blast CAB54992 Hypothetical protein Y105C5A.13 [Caenorhabditis elegans] ref|NP_502881.2| Y105C5A.13 [Caenorhabditis elegans] 2.0E-38
Sequence
Target Sequence 
>C. ELEGANS:172309_X_AT
ttcacagccaggaaccgtcggaaaagacatggccggagccctggccggtcggcacaatga
tatgcctccaatctcttcaaattaccagggacgtccgggaaatgcgaatcccaactatgg
atatcaaccaagtgcagacaacgcacggaatgtggccgattggaccaaagcccatatgaa
gaccgccaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCACAGCCAGGAACCGTCGGAAAA 707 683 30 Antisense
AAAAGACATGGCCGGAGCCCTGGCC 633 131 51 Antisense
CCCTGGCCGGTCGGCACAATGATAT 612 257 68 Antisense
CAATGATATGCCTCCAATCTCTTCA 416 183 84 Antisense
ATCTCTTCAAATTACCAGGGACGTC 375 31 100 Antisense
GGACGTCCGGGAAATGCGAATCCCA 66 465 118 Antisense
GCGAATCCCAACTATGGATATCAAC 104 289 133 Antisense
GATATCAACCAAGTGCAGACAACGC 428 425 149 Antisense
GACAACGCACGGAATGTGGCCGATT 388 365 166 Antisense
GTGGCCGATTGGACCAAAGCCCATA 71 493 181 Antisense
CAAAGCCCATATGAAGACCGCCAGA 577 191 195 Antisense
Sequence Source Affymetrix Proprietary Database