[Home] | [Total List]

[175356_s_at]

Description AV198947_rc /REP_DB=TREMBL Accession /GB=AV198947 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk388h8 : 3prime end, single read.
Cluster 6grp_total > 88      4grp_total > 19      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 72
1 2 3 4 range
A 10.1
(-2.7)
A 		25.6
(-1.4)
A 		6.7
(-3)
A 		77.7
(3)
A 		71
B 8.7
(-3)
A 		12.8
(1.6)
A 		10.7
(-0.8)
A 		14.1
(3)
A 		5
C 14.3
(3)
A 		9.1
(-0.7)
A 		5.8
(-3)
A 		11.2
(0.8)
A 		9
avr 11
(-2.3) 		15.8
(-1.2) 		7.7
(-3) 		34.3
(3) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 152
1 2 3 4 5 6 range
A 9.1
(-2.8)
A 		8.3
(-2.9)
A 		5.2
(-3)
A 		7.4
(-2.9)
A 		40.6
(-1.6)
A 		156.7
(3)
A 		152
B 8.4
(-2.9)
A 		5.5
(-3)
A 		10.6
(-2.8)
A 		38.4
(-1.6)
A 		111.4
(1.5)
A 		148.1
(3)
A 		143
C 10.1
(-2.8)
A 		6.9
(-2.9)
A 		12.5
(-2.7)
A 		5.5
(-3)
A 		86.7
(0.6)
A 		142.3
(3)
A 		137
avr 9.2
(-2.9) 		6.9
(-3) 		9.4
(-2.9) 		17.1
(-2.6) 		79.6
(0.1) 		149
(3) 		142
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 3.7
(-1.8)
A 		5.5
(-0.7)
A 		1.8
(-3)
A 		11.4
(3)
A 		10
B 2.8
(-0.4)
A 		3.2
(3)
A 		2.5
(-3)
A 		3
(1.3)
A 		1
C 4.7
(3)
A 		2.6
(-1.5)
A 		2
(-2.8)
A 		1.9
(-3)
A 		3
avr 3.7
(-0.1) 		3.8
(0.1) 		2.1
(-3) 		5.4
(3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 54
1 2 3 4 5 6 range
A 1.7
(-2.9)
A 		3
(-2.7)
A 		1.1
(-3)
A 		1.9
(-2.9)
A 		12.2
(-1.2)
A 		38.2
(3)
A 		37
B 2.9
(-2.9)
A 		1.8
(-3)
A 		2.6
(-2.9)
A 		10.2
(-2.1)
A 		45.3
(1.9)
A 		55.2
(3)
A 		53
C 3.7
(-2.7)
A 		2.1
(-2.9)
A 		3.2
(-2.7)
A 		1.1
(-3)
A 		28
(0.5)
A 		47.6
(3)
A 		47
avr 2.8
(-2.9) 		2.3
(-3) 		2.3
(-3) 		4.4
(-2.7) 		28.5
(0.5) 		47
(3) 		45
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175356_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21603
Sequence Type Exemplar sequence
Representative Public ID AV198947 NCBI
Target Description AV198947_rc /REP_DB=TREMBL Accession /GB=AV198947 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk388h8 : 3prime end, single read.
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_067549(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067549 NCBI Caenorhabditis elegans F56A11.6 (F56A11.6) mRNA, complete cds. 11/11 A 
F56A11.6 ENSEMBL cdna:known chromosome:CEL140:IV:580319:582230:-1 gene:F56A11.6 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000042859 8/11 Cross Hyb Matching Probes None
GENEFINDER00000042873 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:580328-580614(-) 87.41 100.0
Public Domain and Genome References
Gene Title
Ensembl F56A11.6
Entrez Gene 176884 Entrez gene
SwissProt O44519 EMBL-EBI
WormBase CE36868 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB92077 Hypothetical protein F56A11.6 [Caenorhabditis elegans] ref|NP_499950.2| F56A11.6 [Caenorhabditis elegans] 1.0E-116
blast CAE58473 Hypothetical protein CBG01613 [Caenorhabditis briggsae] 2.0E-26
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499950.2 4 12-34,44-66,79-101,149-171
F56A11.6 4 12-34,44-66,79-101,149-171
Sequence
Target Sequence 
>C. ELEGANS:175356_S_AT
cgcaaggagcgggaggacagaagccgcaaagatcgtgagagaagccgacaggaccgtgag
gatcgtgaccgtgaccgtgaccgtgatcgtgaccgtagccgcaaggatcgtgatgataaa
tcgtgtagccgtcgaagccgtgatgatcgtagcgaagaacgtaaggatcgtaagagtcgt
gacgatcgggagcgcccaagaagcagacaagacaaatcgaaaactcgcagcgtcgaggat
cgtccgagaagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGCAAGGAGCGGGAGGACAGAAGCC 221 253 16 Antisense
GACAGAAGCCGCAAAGATCGTGAGA 707 367 31 Antisense
GTGAGAGAAGCCGACAGGACCGTGA 490 483 50 Antisense
CAGGACCGTGAGGATCGTGACCGTG 421 209 64 Antisense
GATCGTGACCGTAGCCGCAAGGATC 214 417 100 Antisense
GACCGTAGCCGCAAGGATCGTGATG 297 381 106 Antisense
TAAATCGTGTAGCCGTCGAAGCCGT 429 639 132 Antisense
GTCGAAGCCGTGATGATCGTAGCGA 383 473 146 Antisense
GACGATCGGGAGCGCCCAAGAAGCA 662 375 196 Antisense
GACAAATCGAAAACTCGCAGCGTCG 350 365 226 Antisense
CAGCGTCGAGGATCGTCCGAGAAGC 65 203 243 Antisense
Sequence Source Affymetrix Proprietary Database