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[172271_x_at]

Description F56H9.2 /REP_DB=WormBase Gene ID /WP=CE05972 /TR=Q20909 /GB=CAA98950.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 18      6grp_high1_10_10 > 80      4grp_highest_8_8 > 15      4grp_high_8_8 > 06      6grp_highest_nonorm > 27      6grp_total > 82      4grp_total > 02      6grp_highest_sub > 04_05      6grp_high1_sub > 02_03_04_05      6grp_rule_based > S5      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20558
1 2 3 4 range
A 3434.1
(-3)
P 		4990.9
(-2.5)
P 		4461.9
(-2.7)
P 		21494.4
(3)
P 		18060
B 3862.7
(-3)
P 		4289.3
(-2.8)
P 		4186.2
(-2.9)
P 		19777.3
(3)
P 		15915
C 3326.5
(-3)
P 		3936.1
(-2.8)
P 		3897.5
(-2.8)
P 		23884.5
(3)
P 		20558
avr 3541.1
(-3) 		4405.4
(-2.7) 		4181.9
(-2.8) 		21718.7
(3) 		18178

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3625
1 2 3 4 5 6 range
A 6349.3
(-2.8)
P 		7028.1
(-1.5)
P 		9171.3
(2.5)
P 		8878.2
(1.9)
P 		9466.7
(3)
P 		6230.3
(-3)
P 		3236
B 6033.6
(-3)
P 		8157.2
(1.1)
P 		7288.8
(-0.6)
P 		9122.7
(3)
P 		9016.6
(2.8)
P 		6720.2
(-1.7)
P 		3089
C 5841.8
(-3)
P 		7982.6
(2.6)
P 		7634.4
(1.7)
P 		8125.4
(3)
P 		7980.8
(2.6)
P 		5931.7
(-2.8)
P 		2284
avr 6074.9
(-3) 		7722.6
(0.6) 		8031.5
(1.3) 		8708.8
(2.8) 		8821.4
(3) 		6294.1
(-2.5) 		2747
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3245
1 2 3 4 range
A 1250.3
(-2.5)
P 		1083.4
(-3)
P 		1166.4
(-2.8)
P 		3146.4
(3)
P 		2063
B 1231.8
(-2.5)
P 		1059.4
(-2.8)
P 		970
(-3)
P 		4214.5
(3)
P 		3245
C 1101.2
(-3)
P 		1131.6
(-2.9)
P 		1358.4
(-2.5)
P 		4027.3
(3)
P 		2926
avr 1194.4
(-2.8) 		1091.5
(-3) 		1164.9
(-2.8) 		3796.1
(3) 		2705

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2493
1 2 3 4 5 6 range
A 1170.4
(-3)
P 		2499.5
(1.7)
P 		1997.3
(-0.1)
P 		2251.7
(0.8)
P 		2856.6
(3)
P 		1516.9
(-1.8)
P 		1686
B 2099.4
(-2)
P 		2715.2
(-0)
P 		1769.9
(-3)
P 		2416.3
(-1)
P 		3663.3
(3)
P 		2505.9
(-0.7)
P 		1893
C 2165.3
(0.4)
P 		2435.7
(2.1)
P 		1943.1
(-1)
P 		1634
(-3)
P 		2582.5
(3)
P 		1985.7
(-0.8)
P 		949
avr 1811.7
(-3) 		2550.1
(0.6) 		1903.4
(-2.5) 		2100.7
(-1.6) 		3034.1
(3) 		2002.8
(-2.1) 		1222
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172271_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13507
Sequence Type Exemplar sequence
Representative Public ID F56H9.2 NCBI
Target Description F56H9.2 /REP_DB=WormBase Gene ID /WP=CE05972 /TR=Q20909 /GB=CAA98950.1 /SUBMIT=HINXTON /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_073758(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073758 NCBI Caenorhabditis elegans F56H9.2 (F56H9.2) mRNA, complete cds. 11/11 None
SNAP00000036164 ENSEMBL cdna:SNAP chromosome:CEL140:V:12640275:12640692:1 11/11 None
GENEFINDER00000036173 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12640252:12640692:1 11/11 None
F56H9.2.1 ENSEMBL cdna:known chromosome:CEL140:V:12640250:12640827:1 gene:F56H9.2 11/11 None
F56H9.2.2 ENSEMBL cdna:known chromosome:CEL140:V:12640252:12640827:1 gene:F56H9.2 11/11 None
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
chrV:12640274-12640692(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F56H9.2
Entrez Gene 179730 Entrez gene
SwissProt Q20909 EMBL-EBI
WormBase CE05972 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA98950 Hypothetical protein F56H9.2 [Caenorhabditis elegans] ref|NP_506159.1| F56H9.2 [Caenorhabditis elegans] 6.0E-25
blast CAE63957 Hypothetical protein CBG08543 [Caenorhabditis briggsae] 7.0E-23
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506159.1 1 5-23
F56H9.2.1 1 5-23
F56H9.2.2 1 5-23
SNAP00000036164 1 5-23
GENEFINDER00000036173 1 13-31
Sequence
Target Sequence 
>C. ELEGANS:172271_X_AT
atgctggagcgtgtgttgagtgttttcattttcgtcctttaccttttcgacaccgtcttc
gccacgactgaagagcacaacaaaggaaaagatgacatgtataagagaaaaatcagtgca
gttggaatcaaagatcgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCTGGAGCGTGTGTTGAGTGTTT 229 43 13 Antisense
GCTGGAGCGTGTGTTGAGTGTTTTC 51 295 15 Antisense
GGAGCGTGTGTTGAGTGTTTTCATT 43 523 18 Antisense
GTGTTGAGTGTTTTCATTTTCGTCC 496 485 25 Antisense
GTTGAGTGTTTTCATTTTCGTCCTT 32 439 27 Antisense
TGAGTGTTTTCATTTTCGTCCTTTA 604 567 29 Antisense
CCGTCTTCGCCACGACTGAAGAGCA 425 265 65 Antisense
GTCTTCGCCACGACTGAAGAGCACA 84 469 67 Antisense
TCGCCACGACTGAAGAGCACAACAA 676 597 71 Antisense
GAGAAAAATCAGTGCAGTTGGAATC 196 389 117 Antisense
CAGTGCAGTTGGAATCAAAGATCGT 325 207 126 Antisense
Sequence Source Affymetrix Proprietary Database