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[182840_at]

Description F53B3.5 /REP_DB=WormBase Gene ID /WP=CE04653 /TR=Q20714 /GB=AAA81409.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 60      6grp_high1_10_10 > 07      4grp_highest_8_8 > 0      4grp_high_8_8 > 44      6grp_highest_nonorm > 50      6grp_total > 07      4grp_total > 52      6grp_highest_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 517
1 2 3 4 range
A 432.6
(3)
P 		433.4
(3)
P 		401
(2.1)
P 		221.8
(-3)
P 		212
B 455.6
(0.2)
P 		660.2
(3)
P 		368.9
(-1)
P 		219.9
(-3)
P 		440
C 482.1
(0)
P 		736.9
(3)
P 		470.8
(-0.1)
P 		221.2
(-3)
P 		516
avr 456.8
(0.6) 		610.2
(3) 		413.6
(-0) 		221
(-3) 		389

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 752
1 2 3 4 5 6 range
A 705.3
(3)
P 		579
(1.1)
P 		511.6
(0.1)
P 		530
(0.3)
P 		309.5
(-3)
P 		411.5
(-1.5)
P 		396
B 925.1
(3)
P 		518.9
(-1.1)
P 		541.1
(-0.9)
P 		484.3
(-1.5)
P 		334.1
(-3)
P 		347.5
(-2.9)
P 		591
C 1061.6
(3)
P 		565.1
(-1)
P 		501.3
(-1.5)
P 		500.8
(-1.5)
P 		310.5
(-3)
P 		362.3
(-2.6)
P 		751
avr 897.3
(3) 		554.3
(-0.6) 		518
(-0.9) 		505
(-1.1) 		318
(-3) 		373.8
(-2.4) 		579
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 179
1 2 3 4 range
A 157.5
(3)
P 		94.1
(-0)
P 		104.8
(0.5)
P 		32.5
(-3)
P 		125
B 145.3
(2.1)
P 		163.1
(3)
P 		85.5
(-1)
P 		46.9
(-3)
P 		116
C 159.6
(1.2)
P 		211.9
(3)
P 		164.1
(1.4)
P 		37.3
(-3)
P 		175
avr 154.1
(2.9) 		156.4
(3) 		118.1
(1) 		38.9
(-3) 		118

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 300
1 2 3 4 5 6 range
A 130
(-1)
P 		205.9
(3)
P 		111.4
(-2)
P 		134.4
(-0.8)
P 		93.4
(-3)
P 		100.2
(-2.6)
P 		113
B 321.9
(3)
P 		172.7
(-1.6)
P 		131.4
(-2.9)
P 		128.3
(-3)
P 		135.7
(-2.8)
P 		129.6
(-3)
P 		194
C 393.5
(3)
P 		172.4
(-1.5)
P 		127.6
(-2.4)
P 		100.7
(-3)
P 		100.5
(-3)
P 		121.3
(-2.6)
P 		293
avr 281.8
(3) 		183.7
(-0.4) 		123.5
(-2.5) 		121.1
(-2.6) 		109.9
(-3) 		117
(-2.8) 		172
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 182840_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18334
Sequence Type Exemplar sequence
Representative Public ID F53B3.5 NCBI
Target Description F53B3.5 /REP_DB=WormBase Gene ID /WP=CE04653 /TR=Q20714 /GB=AAA81409.1 /SUBMIT=ST.LOUIS /CHR=X /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_076098(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076098 NCBI Caenorhabditis elegans F53B3.5 (F53B3.5) mRNA, complete cds. 10/11 A 
SNAP00000011073 ENSEMBL cdna:SNAP chromosome:CEL140:X:2873370:2877504:-1 9/11 None
GENEFINDER00000011077 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:2873886:2879572:-1 10/11 None
F53B3.5 ENSEMBL cdna:known chromosome:CEL140:X:2872801:2879612:-1 gene:F53B3.5 10/11 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
chrX:2874870-2877504(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F53B3.5
Entrez Gene 180578 Entrez gene
SwissProt Q20713 EMBL-EBI
WormBase CE30142 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1634191_AT dm
DROSGENOME1:154753_AT dm
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5923 tight junction inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5198 structural molecule activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA81408 Hypothetical protein F53B3.5 [Caenorhabditis elegans] ref|NP_508499.2| F53B3.5 [Caenorhabditis elegans] 1.0E-179
blast CAE58820 Hypothetical protein CBG02030 [Caenorhabditis briggsae] 1.0E-137
blast AAA81408 Hypothetical protein F53B3.5 [Caenorhabditis elegans] ref|NP_508499.2| F53B3.5 [Caenorhabditis elegans] 1.0E-134
blast CAE58820 Hypothetical protein CBG02030 [Caenorhabditis briggsae] 1.0E-119
blast AAA81408 Hypothetical protein F53B3.5 [Caenorhabditis elegans] ref|NP_508499.2| F53B3.5 [Caenorhabditis elegans] 1.0E-101
blast CAE58820 Hypothetical protein CBG02030 [Caenorhabditis briggsae] 1.0E-88
blast T16454 hypothetical protein F53B3.5 - Caenorhabditis elegans 2.0E-81
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508499.2 5 20-42,142-164,174-196,228-250,297-319
F53B3.5 5 20-42,142-164,174-196,228-250,297-319
SNAP00000011073 3 36-58,86-108,139-161
GENEFINDER00000011077 5 15-37,119-138,158-177,184-206,242-264
Sequence
Target Sequence 
>C. ELEGANS:182840_AT
gctctccgtgcatctggagcaacgagttcatggttccagagtctaaaaaggagcacttct
caaacaatgaactttaccgtcattatgctgcaaaagcaactatcattgcttatgttgttg
gtattgttttcgtcgtgttgagctttattgtcggactcatcggatgctggaatagatcga
aaaaattcattatgagcaccggaattcttctgatccttgctggactttcaatgtctgtgg
ctatgcttctctggcactacgttgcttacagtgagagatacacattagatgtagagccat
actacaaatcttgggagccgattctcaaattgacgtcccgtcataactacggatggtctt
acattgtctcttggatcggaatcggatttattgtcatcggaagtgctttcatgttcttcg
cctacgctgctgtaaaggt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTCTCCGTGCATCTGGAGCAACGA 381 297 17 Antisense
GAACTTTACCGTCATTATGCTGCAA 177 351 85 Antisense
GTTGTTGGTATTGTTTTCGTCGTGT 31 439 130 Antisense
TATTGTCGGACTCATCGGATGCTGG 619 665 162 Antisense
AATTCTTCTGATCCTTGCTGGACTT 313 177 219 Antisense
CAATGTCTGTGGCTATGCTTCTCTG 483 183 245 Antisense
TTCTCTGGCACTACGTTGCTTACAG 52 693 263 Antisense
GCCGATTCTCAAATTGACGTCCCGT 218 285 333 Antisense
GTCTTACATTGTCTCTTGGATCGGA 500 467 372 Antisense
CGGAAGTGCTTTCATGTTCTTCGCC 708 241 414 Antisense
TCTTCGCCTACGCTGCTGTAAAGGT 155 617 431 Antisense
Sequence Source Affymetrix Proprietary Database