[Home] | [Total List]

[171977_x_at] 17k antigen (O. volvulus)

Description AU114840_rc /REP_DB=TREMBL Accession /GB=AU114840 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk722a7 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 30      6grp_high1_10_10 > 12      4grp_highest_8_8 > 16      4grp_high_8_8 > 60      6grp_highest_nonorm > 07      6grp_total > 33      4grp_total > 59      6grp_highest_sub > De      6grp_cgc > 70      6grp_high1_sub > De      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18198
1 2 3 4 range
A 15171.4
(1.3)
P 		18254.3
(2.4)
P 		20007.1
(3)
P 		2550
(-3)
P 		17457
B 14258.5
(1)
P 		18567.3
(2.4)
P 		20324.2
(3)
P 		2158.5
(-3)
P 		18166
C 14824.4
(1.6)
P 		18836.7
(3)
P 		17629.1
(2.6)
P 		2126.6
(-3)
P 		16710
avr 14751.4
(1.4) 		18552.8
(2.7) 		19320.1
(3) 		2278.4
(-3) 		17042

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9815
1 2 3 4 5 6 range
A 15838.4
(3)
P 		13294.6
(1.4)
P 		13016.5
(1.2)
P 		10728.9
(-0.3)
P 		7828.4
(-2.1)
P 		6444.8
(-3)
P 		9394
B 15544.6
(3)
P 		13889
(2)
P 		14997.5
(2.7)
P 		10396.9
(-0.2)
P 		11114.1
(0.2)
P 		6023.8
(-3)
P 		9521
C 15101
(3)
P 		12650.5
(1.3)
P 		13518.2
(1.9)
P 		8007.2
(-2.1)
P 		11289
(0.3)
P 		6673.7
(-3)
P 		8427
avr 15494.7
(3) 		13278
(1.5) 		13844.1
(1.9) 		9711
(-0.8) 		10077.2
(-0.6) 		6380.8
(-3) 		9114
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5786
1 2 3 4 range
A 5523.9
(3)
P 		3962.5
(1.2)
P 		5230.2
(2.7)
P 		373.3
(-3)
P 		5151
B 4546.9
(2.8)
P 		4585.7
(2.8)
P 		4709.6
(3)
P 		460
(-3)
P 		4250
C 4907.3
(1.7)
P 		5415.7
(2.2)
P 		6144.3
(3)
P 		358.6
(-3)
P 		5786
avr 4992.7
(2.6) 		4654.6
(2.1) 		5361.4
(3) 		397.3
(-3) 		4964

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4028
1 2 3 4 5 6 range
A 2919.7
(-0.4)
P 		4728.2
(3)
P 		2834.7
(-0.6)
P 		2721.1
(-0.8)
P 		2362.3
(-1.5)
P 		1569.1
(-3)
P 		3159
B 5408.8
(3)
P 		4623.1
(1.5)
P 		3641.8
(-0.4)
P 		2753.8
(-2)
P 		4515.5
(1.3)
P 		2246.3
(-3)
P 		3163
C 5597.3
(3)
P 		3860.1
(0.4)
P 		3440.6
(-0.2)
P 		1610.3
(-3)
P 		3652.9
(0.1)
P 		2234.1
(-2.1)
P 		3987
avr 4641.9
(3) 		4403.8
(2.5) 		3305.7
(-0.1) 		2361.7
(-2.2) 		3510.2
(0.4) 		2016.5
(-3) 		2625
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171977_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28071
Sequence Type Exemplar sequence
Representative Public ID AU114840 NCBI
Target Description AU114840_rc /REP_DB=TREMBL Accession /GB=AU114840 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk722a7 : 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_063239
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
SNAP00000042214 ENSEMBL cdna:SNAP chromosome:CEL140:II:7790553:7791167:1 None
C06A8.3 ENSEMBL cdna:known chromosome:CEL140:II:7790508:7791490:1 gene:C06A8.3 A 
GENEFINDER00000042219 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7790553:7791167:1 None
NM_063239 NCBI Caenorhabditis elegans C06A8.3 (C06A8.3) mRNA, complete cds. A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_170948 3/11 Cross Hyb Matching Probes None
GENEFINDER00000013489 3/11 Cross Hyb Matching Probes None
Y105E8A.16.3 3/11 Cross Hyb Matching Probes None
Y105E8A.16.5 3/11 Cross Hyb Matching Probes None
Y105E8A.16.1 3/11 Cross Hyb Matching Probes A 
Y105E8A.16.2 3/11 Cross Hyb Matching Probes A 
Y105E8A.16.4 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:7790846-7791257(+) 46.21 46.21
Public Domain and Genome References
Gene Title 17k antigen (O. volvulus)
Ensembl C06A8.3
Entrez Gene 174259 Entrez gene
SwissProt Q17698 EMBL-EBI
WormBase CE02454 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA81053 Hypothetical protein C06A8.3 [Caenorhabditis elegans] ref|NP_495640.1| C06A8.3 [Caenorhabditis elegans] 9.0E-65
blast CAE67454 Hypothetical protein CBG12955 [Caenorhabditis briggsae] 4.0E-62
blast CAA88891 Hypothetical protein ZK970.7 [Caenorhabditis elegans] ref|NP_496220.1| ZK970.7 [Caenorhabditis elegans] 5.0E-48
Sequence
Target Sequence 
>C. ELEGANS:171977_X_AT
gagcaccttattgtcaagggcccaatccgcatgccgaccaaggtgctccgcatcaccacc
cgcaagaccccatgcggagagggatccaagacctgggatcgcttccagatgcgcatccac
aagcgtctcatcaacctccacgctccagctgaggtcctccgccaaatcacttcgatctcc
atcgagccagnagtcgccgcataataaggtctccaaggtctntgtaagcagcctctggcg
cgagcagaataatgtaggtaagggaagtcggcaaactagatccgtaacttctctccagct
gccaagaaagccgatgctgaccttgccgccatctccaatgacangctccctctctgttca
agccaagggccaaaagatccaagcctacctcaactccctcccangctaacgtcaaggctg
agctcgagaaggcccaaggacaataagtgctgatcaaccaaagaacctctc

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
GAGCACCTTATTGTCAAGGGCCCAA 625 383 14 Antisense
CACCCGCAAGACCCCATGCGGAGAG 95 201 70 Antisense
AAGACCTGGGATCGCTTCCAGATGC 710 153 101 Antisense
GTCGCCGCATAATAAGGTCTCCAAG 63 473 206 Antisense
CAGCCTCTGGCGCGAGCAGAATAAT 490 203 242 Antisense
AAACTAGATCCGTAACTTCTCTCCA 30 127 286 Antisense
TCTCTCCAGCTGCCAAGAAAGCCGA 395 611 303 Antisense
CTCCCTCTCTGTTCAAGCCAAGGGC 410 231 359 Antisense
GGGCCAAAAGATCCAAGCCTACCTC 430 487 380 Antisense
CTGAGCTCGAGAAGGCCCAAGGACA 703 235 431 Antisense
GTGCTGATCAACCAAAGAACCTCTC 26 479 460 Antisense
Sequence Source Affymetrix Proprietary Database