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[178885_at]

Description F53A2.2 /REP_DB=WormBase Gene ID /WP=CE16094 /TR=O45547 /GB=CAB04450.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 54      4grp_total > 26      6grp_cgc > 92      6grp_cgc_sub > 03      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 1.6
(-3)
A 		7
(0.9)
A 		2.4
(-2.4)
A 		10
(3)
A 		8
B 9.7
(2.4)
A 		10.2
(3)
A 		7.1
(-0.6)
A 		5.1
(-3)
A 		5
C 2.3
(-3)
A 		6.6
(-0.2)
A 		6.8
(-0.1)
A 		11.5
(3)
A 		9
avr 4.5
(-3) 		7.9
(1.6) 		5.4
(-1.8) 		8.9
(3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14
1 2 3 4 5 6 range
A 5.3
(-0.8)
A 		1.5
(-3)
A 		9
(1.4)
A 		7.1
(0.3)
A 		3
(-2.1)
A 		11.8
(3)
A 		10
B 3.3
(2.6)
A 		2
(-1.9)
A 		3.4
(3)
A 		2.4
(-0.5)
A 		2.1
(-1.6)
A 		1.7
(-3)
A 		2
C 2.4
(-2.7)
A 		6.3
(-1)
A 		15.4
(3)
A 		5.1
(-1.5)
A 		1.8
(-3)
A 		1.8
(-3)
A 		14
avr 3.7
(-1.8) 		3.3
(-2.1) 		9.3
(3) 		4.9
(-0.8) 		2.3
(-3) 		5.1
(-0.6) 		7
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3
1 2 3 4 range
A 0.6
(-3)
A 		1.5
(3)
A 		0.6
(-3)
A 		1.5
(3)
A 		1
B 3.1
(3)
A 		2.5
(1.2)
A 		1.6
(-1.5)
A 		1.1
(-3)
A 		2
C 0.8
(-3)
A 		1.9
(1.1)
A 		2.4
(3)
A 		1.9
(1.1)
A 		2
avr 1.5
(-3) 		2
(3) 		1.5
(-3) 		1.5
(-3) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3
1 2 3 4 5 6 range
A 1
(-1.8)
A 		0.5
(-3)
A 		2
(0.8)
A 		1.8
(0.3)
A 		0.9
(-2)
A 		2.9
(3)
A 		2
B 1.2
(3)
A 		0.7
(-2)
A 		0.8
(-1)
A 		0.6
(-3)
A 		0.9
(0)
A 		0.6
(-3)
A 		1
C 0.9
(-2.5)
A 		1.9
(-0.6)
A 		3.9
(3)
A 		1
(-2.3)
A 		0.6
(-3)
A 		0.6
(-3)
A 		3
avr 1
(-2.1) 		1
(-2.1) 		2.2
(3) 		1.1
(-1.7) 		0.8
(-3) 		1.4
(-0.4) 		1
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178885_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6897
Sequence Type Exemplar sequence
Representative Public ID F53A2.2 NCBI
Target Description F53A2.2 /REP_DB=WormBase Gene ID /WP=CE16094 /TR=O45547 /GB=CAB04450.1 /SUBMIT=HINXTON /CHR=3 /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_067346(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067346 NCBI Caenorhabditis elegans F53A2.2 (F53A2.2) mRNA, complete cds. 11/11 None
GENEFINDER00000020125 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13334116:13335938:1 11/11 None
SNAP00000020107 ENSEMBL cdna:SNAP chromosome:CEL140:III:13334200:13335938:1 11/11 None
F53A2.2 ENSEMBL cdna:known chromosome:CEL140:III:13334116:13335938:1 gene:F53A2.2 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
chrIII:13334111-13335934(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol sdz-20
Ensembl F53A2.2
Entrez Gene 186138 Entrez gene
SwissProt O45547 EMBL-EBI
WormBase CE16094 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB04450 Hypothetical protein F53A2.2 [Caenorhabditis elegans] ref|NP_499747.1| F53A2.2 [Caenorhabditis elegans] 1.0E-146
blast CAB04450 Hypothetical protein F53A2.2 [Caenorhabditis elegans] ref|NP_499747.1| F53A2.2 [Caenorhabditis elegans] 1.0E-129
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499747.1 1 111-133
F53A2.2 1 111-133
GENEFINDER00000020125 1 111-133
SNAP00000020107 1 83-105
Sequence
Target Sequence 
>C. ELEGANS:178885_AT
gatttcatcgtttgcatttgcctgcacagacgcattcaactcctacaatcgctattttgg
aatcggattgatcgttttgtgtattacatcaatcttgcttctccttgcctatttagaaat
tcgccattattttcgatccagaactgtgagaacacctacacttaccaaattcaccaccct
aacctcccttcactcggacctccaaggaaaatcagtatttgcctccccaccgtcatcaat
tctcatcggatgctcttccattaatgaaacccaggtacttcgtgacatcatcgactgtag
aactccatctccaatcccagacatgctactcccaactagatctcttcattcatcccaacc
tcacttcttcactaactttgagttcaccgcagaatccctgatgaaatgctcaacctttgt
tggaaaaatcaattatggattcaatggctccaaagattccctgctcccacaaaatgagga
gattcttcaggaccgggagcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATTTCATCGTTTGCATTTGCCTGC 81 429 291 Antisense
TTGCCTGCACAGACGCATTCAACTC 428 699 308 Antisense
CATTCAACTCCTACAATCGCTATTT 569 215 323 Antisense
GTATTACATCAATCTTGCTTCTCCT 389 453 371 Antisense
CCCACCGTCATCAATTCTCATCGGA 324 259 516 Antisense
TTCTCATCGGATGCTCTTCCATTAA 650 691 530 Antisense
ACCCAGGTACTTCGTGACATCATCG 79 91 559 Antisense
TCATCGACTGTAGAACTCCATCTCC 526 621 578 Antisense
TACTCCCAACTAGATCTCTTCATTC 114 647 617 Antisense
AGTTCACCGCAGAATCCCTGATGAA 460 63 671 Antisense
AGGAGATTCTTCAGGACCGGGAGCC 432 55 767 Antisense
Sequence Source Affymetrix Proprietary Database