[Home] | [Total List]

[185873_at]

Description F56A11.6 /REP_DB=WormBase Gene ID /WP=CE17121 /TR=O44519 /GB=AAB92077.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 85      4grp_total > 10      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 30
1 2 3 4 range
A 6.7
(-2.1)
A 		2.5
(-3)
A 		3.3
(-2.8)
A 		29.7
(3)
A 		27
B 2.4
(-3)
A 		3.1
(-2.7)
A 		4.7
(-2)
A 		15.7
(3)
A 		13
C 6.5
(-2.2)
A 		21.2
(0.7)
A 		2.3
(-3)
A 		32.6
(3)
P 		30
avr 5.2
(-2.5) 		8.9
(-1.5) 		3.4
(-3) 		26
(3) 		23

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 65
1 2 3 4 5 6 range
A 21.1
(-0.8)
A 		2.5
(-3)
A 		4.7
(-2.7)
A 		28
(-0)
A 		2.5
(-3)
A 		54.1
(3)
P 		52
B 1.1
(-3)
A 		4.8
(-2.6)
A 		2.1
(-2.9)
A 		25.2
(-0.3)
A 		48.9
(2.3)
A 		55.2
(3)
P 		54
C 3.9
(-3)
A 		21.6
(-1.3)
A 		3.7
(-3)
A 		66.3
(3)
A 		47.4
(1.2)
A 		44.1
(0.9)
A 		63
avr 8.7
(-2.3) 		9.6
(-2.2) 		3.5
(-3) 		39.8
(1.6) 		32.9
(0.7) 		51.1
(3) 		48
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6
1 2 3 4 range
A 2.4
(0)
A 		0.5
(-3)
A 		0.9
(-2.4)
A 		4.3
(3)
A 		4
B 0.8
(-3)
A 		0.8
(-3)
A 		1.1
(-2.3)
A 		3.3
(3)
A 		3
C 2.2
(-1.4)
A 		6.1
(3)
A 		0.8
(-3)
A 		5.5
(2.3)
P 		5
avr 1.8
(-1.5) 		2.5
(-0.3) 		0.9
(-3) 		4.4
(3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 3.9
(-1.5)
A 		0.9
(-3)
A 		1
(-2.9)
A 		7.1
(0)
A 		0.8
(-3)
A 		13.2
(3)
P 		12
B 0.4
(-3)
A 		1.6
(-2.6)
A 		0.5
(-3)
A 		6.7
(-1.1)
A 		19.9
(2.8)
A 		20.6
(3)
P 		20
C 1.5
(-2.8)
A 		6.6
(-0.6)
A 		0.9
(-3)
A 		13.3
(2.2)
A 		15.3
(3)
A 		14.8
(2.8)
A 		14
avr 1.9
(-2.6) 		3
(-2.1) 		0.8
(-3) 		9
(0.2) 		12
(1.4) 		16.2
(3) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185873_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10780
Sequence Type Exemplar sequence
Representative Public ID F56A11.6 NCBI
Target Description F56A11.6 /REP_DB=WormBase Gene ID /WP=CE17121 /TR=O44519 /GB=AAB92077.1 /SUBMIT=ST.LOUIS /CHR=4 /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_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 
SNAP00000042859 ENSEMBL cdna:SNAP chromosome:CEL140:IV:580452:587176:-1 11/11 None
GENEFINDER00000042873 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:580551:582161:-1 11/11 None
F56A11.6 ENSEMBL cdna:known chromosome:CEL140:IV:580319:582230:-1 gene:F56A11.6 11/11 A 
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:580341-582167(-) 97.3 100.0
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 AAY86220 Hypothetical protein C18H7.10 [Caenorhabditis elegans] 1.0E-123
blast AAB92077 Hypothetical protein F56A11.6 [Caenorhabditis elegans] ref|NP_499950.2| F56A11.6 [Caenorhabditis elegans] 1.0E-116
blast AAB92077 Hypothetical protein F56A11.6 [Caenorhabditis elegans] ref|NP_499950.2| F56A11.6 [Caenorhabditis elegans] 2.0E-76
blast CAE58465 Hypothetical protein CBG01605 [Caenorhabditis briggsae] 2.0E-73
blast AAB92077 Hypothetical protein F56A11.6 [Caenorhabditis elegans] ref|NP_499950.2| F56A11.6 [Caenorhabditis elegans] 4.0E-61
blast CAE58473 Hypothetical protein CBG01613 [Caenorhabditis briggsae] 2.0E-26
blast CAE58473 Hypothetical protein CBG01613 [Caenorhabditis briggsae] 3.0E-25
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
SNAP00000042859 10 32-54,83-105,126-148,163-182,212-229,244-266,412-429,439-461,474-496,544-566
GENEFINDER00000042873 4 12-34,44-66,79-101,149-171
Sequence
Target Sequence 
>C. ELEGANS:185873_AT
gatccaaagatcgcagcttgaaacgtagagaggagagaagcagaagccgtcaggatcggg
agcgtgacagatctcgtggcggtgagaagagcagaagcccgcgcaagagccatcagaaga
gtgtggatcgagacaaaactcgctccgacaaggatcgttcgagaagccgcaaggatcgtg
aggatcgtgatcgtgaacgaagccgtaaggatcgtgaggatcgtgatcgagagagaagta
gaaaagagcgagaggacagaagtcgcaaggatcgtgaagatcgtgaacgtgagcgtagtc
gca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATCCAAAGATCGCAGCTTGAAACG 656 413 779 Antisense
GAGAGAAGCAGAAGCCGTCAGGATC 354 395 811 Antisense
GAAGCCGTCAGGATCGGGAGCGTGA 668 343 821 Antisense
TCGGGAGCGTGACAGATCTCGTGGC 639 605 834 Antisense
GTGAGAAGAGCAGAAGCCCGCGCAA 231 481 860 Antisense
CCCGCGCAAGAGCCATCAGAAGAGT 311 261 876 Antisense
GGATCGAGACAAAACTCGCTCCGAC 550 511 903 Antisense
AACTCGCTCCGACAAGGATCGTTCG 452 141 915 Antisense
GGATCGTTCGAGAAGCCGCAAGGAT 362 513 930 Antisense
AGGACAGAAGTCGCAAGGATCGTGA 475 55 1031 Antisense
GATCGTGAACGTGAGCGTAGTCGCA 92 419 1057 Antisense
Sequence Source Affymetrix Proprietary Database