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[178839_s_at]

Description B0240.2 /REP_DB=WormBase Gene ID /WP=CE05173 /TR=Q17461 /GB=CAA98416.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 77      6grp_high1_10_10 > 87      4grp_highest_8_8 > 01      4grp_high_8_8 > 53      6grp_highest_nonorm > 95      6grp_total > 77      4grp_total > 58      6grp_highest_sub > Da      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 445
1 2 3 4 range
A 513.6
(-2.7)
P 		850.9
(3)
P 		778.5
(1.8)
P 		495.2
(-3)
P 		356
B 599.9
(-0.7)
P 		805.8
(2.2)
P 		866.5
(3)
P 		436.6
(-3)
P 		430
C 563.5
(-0.9)
P 		821.1
(3)
P 		684.2
(0.9)
P 		421.6
(-3)
P 		400
avr 559
(-1.3) 		825.9
(3) 		776.4
(2.2) 		451.1
(-3) 		375

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 713
1 2 3 4 5 6 range
A 576.5
(-2.5)
P 		608.4
(-2.2)
P 		527.9
(-3)
P 		687.9
(-1.5)
P 		734.5
(-1.1)
P 		1167
(3)
P 		639
B 550.7
(-1.9)
P 		454
(-3)
P 		595.9
(-1.3)
P 		567
(-1.7)
P 		670.6
(-0.5)
P 		964
(3)
P 		510
C 559.1
(-2.1)
P 		456.3
(-3)
P 		580.9
(-1.9)
P 		649.6
(-1.3)
P 		758.6
(-0.3)
P 		1121.4
(3)
P 		665
avr 562.1
(-2.4) 		506.2
(-3) 		568.2
(-2.4) 		634.8
(-1.7) 		721.2
(-0.8) 		1084.1
(3) 		578
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 167
1 2 3 4 range
A 187
(2.2)
P 		184.7
(2.1)
P 		203.5
(3)
P 		72.5
(-3)
P 		131
B 191.3
(2.5)
P 		199
(2.9)
P 		200.8
(3)
P 		93
(-3)
P 		108
C 186.5
(1.1)
P 		236.1
(2.9)
P 		238.5
(3)
P 		71.1
(-3)
P 		167
avr 188.3
(1.8) 		206.6
(2.7) 		214.3
(3) 		78.9
(-3) 		135

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 269
1 2 3 4 5 6 range
A 106.3
(-3)
P 		216.4
(0.7)
P 		115
(-2.7)
P 		174.5
(-0.7)
P 		221.6
(0.9)
P 		284.1
(3)
P 		178
B 191.6
(-1.7)
P 		151.1
(-2.8)
P 		144.7
(-3)
P 		150.2
(-2.8)
P 		272.5
(0.6)
P 		359.5
(3)
P 		215
C 207.2
(-1.1)
P 		139.2
(-2.8)
P 		147.8
(-2.6)
P 		130.6
(-3)
P 		245.5
(-0.2)
P 		375.4
(3)
P 		245
avr 168.4
(-2) 		168.9
(-2) 		135.8
(-3) 		151.8
(-2.5) 		246.5
(0.3) 		339.7
(3) 		204
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 178839_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14174
Sequence Type Exemplar sequence
Representative Public ID B0240.2 NCBI
Target Description B0240.2 /REP_DB=WormBase Gene ID /WP=CE05173 /TR=Q17461 /GB=CAA98416.1 /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_073561(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073561 NCBI Caenorhabditis elegans B0240.4 (B0240.4) mRNA, complete cds. 11/11 None
SNAP00000008962 ENSEMBL cdna:SNAP chromosome:CEL140:V:11734014:11736059:-1 11/11 None
GENEFINDER00000008968 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:11733905:11736059:-1 11/11 None
B0240.4.1 ENSEMBL cdna:known chromosome:CEL140:V:11733710:11736061:-1 gene:B0240.4 11/11 None
B0240.4.2 ENSEMBL cdna:known chromosome:CEL140:V:11733905:11736061:-1 gene:B0240.4 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:11733904-11739557(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl B0240.4
Entrez Gene 179607 Entrez gene
SwissProt Q8I4N3 EMBL-EBI
WormBase CE31866 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAD54122 Hypothetical protein B0240.4 [Caenorhabditis elegans] ref|NP_505962.2| B0240.4 [Caenorhabditis elegans] 0.0
blast CAE75308 Hypothetical protein CBG23278 [Caenorhabditis briggsae] 0.0
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_505962.2 5 87-109,124-146,159-181,191-209,254-276
B0240.4.1 5 87-109,124-146,159-181,191-209,254-276
B0240.4.2 5 87-109,124-146,159-181,191-209,254-276
SNAP00000008962 5 101-123,138-160,173-195,205-223,268-290
GENEFINDER00000008968 5 87-109,124-146,159-181,191-209,254-276
Sequence
Target Sequence 
>C. ELEGANS:178839_S_AT
tcaaggatgactgtttcggctgctcgtctcgtcggatattcttgggatgatcacgatatt
gaaaatgaagatgtcccacgagatgctctcctgatgccaagaaaaatgcgtgaaatggct
tatcgtggcacaggacaaagccgtcaacagaaaagcatggctcctattcgatctcacaac
acacaaactgttggacttcttagcaaaatctctaacttcctagggtttggagtcactgaa
aaactagtgatttctcgttttgatgctcatatgaacgcctacgccgctgaggctttatac
atgcttgttgttgattctatgggagaagacagattcggagttgttcagaaagacttgaaa
gatctcatcacgctgctctgtaaactcattgcagccattgacacatatgaaagagctaaa
gcgtcagtagctgacaaatcagatgtgacattcctgcgtatcgttgacgcatcgctcaaa
tcaagtcttcagagggttgttaccacattcggaagccat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAAGGATGACTGTTTCGGCTGCTC 233 633 3166 Antisense
TGAAGATGTCCCACGAGATGCTCTC 373 575 3231 Antisense
GATGCTCTCCTGATGCCAAGAAAAA 447 413 3247 Antisense
GAAATGGCTTATCGTGGCACAGGAC 388 361 3277 Antisense
AAAAGCATGGCTCCTATTCGATCTC 564 131 3316 Antisense
TGATGCTCATATGAACGCCTACGCC 373 565 3426 Antisense
GCCGCTGAGGCTTTATACATGCTTG 534 285 3448 Antisense
TCATCACGCTGCTCTGTAAACTCAT 7 621 3530 Antisense
TGTGACATTCCTGCGTATCGTTGAC 144 557 3609 Antisense
CGCATCGCTCAAATCAAGTCTTCAG 278 255 3633 Antisense
GGTTGTTACCACATTCGGAAGCCAT 448 503 3660 Antisense
Sequence Source Affymetrix Proprietary Database