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[185606_at]

Description F56A4.11 /REP_DB=WormBase Gene ID /WP=CE23773 /TR=Q9N5Q9 /GB=AAF39849.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 57      4grp_total > 16      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 61
1 2 3 4 range
A 21.8
(-2.5)
A 		17.8
(-3)
A 		39
(-0.5)
A 		69.4
(3)
A 		52
B 27.2
(-1)
A 		21.5
(-3)
A 		36
(2.2)
A 		38.3
(3)
A 		17
C 8.8
(-3)
A 		26.7
(0)
A 		28.9
(0.4)
A 		44.4
(3)
P 		36
avr 19.3
(-3) 		22
(-2.5) 		34.6
(-0.1) 		50.7
(3) 		31

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 47
1 2 3 4 5 6 range
A 20.3
(-0.6)
A 		33.7
(1.2)
M 		1.6
(-3)
A 		9.3
(-2)
A 		16.8
(-1)
A 		47.6
(3)
A 		46
B 20.9
(0.2)
A 		30.9
(3)
A 		20.8
(0.1)
A 		23.5
(0.9)
A 		9.8
(-3)
A 		29.4
(2.6)
A 		21
C 18.3
(-2.8)
A 		18.3
(-2.8)
A 		19.3
(-2.6)
A 		48.1
(3)
A 		17.4
(-3)
A 		21.6
(-2.2)
A 		31
avr 19.8
(-1.1) 		27.6
(1.3) 		13.9
(-3) 		27
(1.1) 		14.7
(-2.7) 		32.9
(3) 		19
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 7
1 2 3 4 range
A 7.9
(0.8)
A 		3.9
(-3)
A 		10.2
(3)
A 		10.2
(3)
A 		6
B 8.7
(3)
A 		5.3
(-3)
A 		8.3
(2.3)
A 		8.2
(2.1)
A 		3
C 2.9
(-3)
A 		7.7
(1)
A 		10.1
(3)
A 		7.5
(0.8)
P 		7
avr 6.5
(-1.6) 		5.6
(-3) 		9.5
(3) 		8.6
(1.6) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12
1 2 3 4 5 6 range
A 3.7
(-1.3)
A 		12
(3)
M 		0.3
(-3)
A 		2.3
(-2)
A 		5.1
(-0.5)
A 		11.6
(2.8)
A 		12
B 7.3
(-0.2)
A 		10.3
(2.4)
A 		5.1
(-2.1)
A 		6.2
(-1.1)
A 		4
(-3)
A 		11
(3)
A 		7
C 6.8
(-0.6)
A 		5.6
(-2.1)
A 		4.9
(-3)
A 		9.7
(3)
A 		5.6
(-2.1)
A 		7.2
(-0.1)
A 		5
avr 5.9
(-0.7) 		9.3
(2.4) 		3.4
(-3) 		6.1
(-0.5) 		4.9
(-1.6) 		9.9
(3) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185606_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15601
Sequence Type Exemplar sequence
Representative Public ID F56A4.11 NCBI
Target Description F56A4.11 /REP_DB=WormBase Gene ID /WP=CE23773 /TR=Q9N5Q9 /GB=AAF39849.1 /SUBMIT=ST.LOUIS /CHR=5 /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_071278(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071278 NCBI Caenorhabditis elegans F56A4.11 (F56A4.11) mRNA, complete cds. 11/11 A 
SNAP00000029968 ENSEMBL cdna:SNAP chromosome:CEL140:V:2361555:2372351:-1 11/11 None
GENEFINDER00000029984 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2360773:2362395:-1 11/11 None
SNAP00000032949 ENSEMBL cdna:SNAP chromosome:CEL140:V:2469516:2480312:-1 11/11 None
GENEFINDER00000032957 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2468734:2470356:-1 11/11 None
F56A4.11 ENSEMBL cdna:known chromosome:CEL140:V:2469516:2475412:-1 gene:F56A4.11 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:2361554-2367451(-) 96.16 100.0
chrV:2469515-2475412(-) 96.92 100.0
Public Domain and Genome References
Gene Title
Ensembl F56A4.11
Entrez Gene 186354 Entrez gene
SwissProt Q9N5Q9 EMBL-EBI
WormBase CE23773 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF39849 Hypothetical protein F56A4.11 [Caenorhabditis elegans] ref|NP_503679.1| F56A4.11 [Caenorhabditis elegans] 0.0
blast NP_503653 Y19D10A.10 [Caenorhabditis elegans] gb|AAK68410.2| Hypothetical protein Y19D10A.10 [Caenorhabditis elegans] 0.0
blast NP_503654 Y19D10A.11 [Caenorhabditis elegans] gb|AAK68411.2| Hypothetical protein Y19D10A.11 [Caenorhabditis elegans] 0.0
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503679.1 18 31-53,126-148,155-174,184-206,213-235,245-264,323-345,377-399,406-428,433-455,462-484,494-513,545-567,582-600,613-635,639-661,674-696,706-728
F56A4.11 18 31-53,126-148,155-174,184-206,213-235,245-264,323-345,377-399,406-428,433-455,462-484,494-513,545-567,582-600,613-635,639-661,674-696,706-728
SNAP00000029968 26 68-89,99-121,128-147,157-179,186-208,250-272,285-304,319-341,348-365,370-392,413-435,445-464,471-493,503-525,532-554,631-653,660-682,687-709,716-738,748-767,799-821,836-854,867-889,893-915,928-950,960-982
GENEFINDER00000029984 6 27-49,64-82,95-117,121-143,156-178,188-210
SNAP00000032949 26 68-89,99-121,128-147,157-179,186-208,250-272,285-304,319-341,348-365,370-392,413-435,445-464,471-493,503-525,532-554,631-653,660-682,687-709,716-738,748-767,799-821,836-854,867-889,893-915,928-950,960-982
GENEFINDER00000032957 6 27-49,64-82,95-117,121-143,156-178,188-210
Sequence
Target Sequence 
>C. ELEGANS:185606_AT
aagttgtgcaattgcgttgcctccaacacgttcattttgcaattgccgtaatctcgttta
caacttacttggttcaatttttggctccagtaatagtggggattatttgcccggataaca
ctccagcgcagtggacaacgcttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGTTGTGCAATTGCGTTGCCTCCA 81 157 1997 Antisense
TTGCCTCCAACACGTTCATTTTGCA 71 703 2013 Antisense
AACACGTTCATTTTGCAATTGCCGT 64 137 2021 Antisense
TTTGCAATTGCCGTAATCTCGTTTA 550 665 2032 Antisense
ATTGCCGTAATCTCGTTTACAACTT 66 3 2038 Antisense
TCTCGTTTACAACTTACTTGGTTCA 232 605 2048 Antisense
ACTTGGTTCAATTTTTGGCTCCAGT 293 101 2063 Antisense
TTGGCTCCAGTAATAGTGGGGATTA 103 699 2077 Antisense
GTGGGGATTATTTGCCCGGATAACA 629 487 2092 Antisense
CGGATAACACTCCAGCGCAGTGGAC 165 243 2108 Antisense
ACTCCAGCGCAGTGGACAACGCTTT 672 97 2116 Antisense
Sequence Source Affymetrix Proprietary Database