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[185975_s_at]

Description Y40C5A.4 /REP_DB=WormBase Gene ID /WP=CE24258 /TR=Q9N3Y7 /GB=AAF60539.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 66      6grp_high1_10_10 > 66      4grp_highest_8_8 > 23      4grp_high_8_8 > 05      6grp_highest_nonorm > 82      6grp_total > 66      4grp_total > 03      6grp_highest_sub > Da      6grp_high1_sub > Da      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2009
1 2 3 4 range
A 364.4
(-2)
P 		167
(-2.8)
P 		118.5
(-3)
P 		1618.4
(3)
P 		1500
B 337
(-2.3)
P 		142.7
(-3)
P 		141.1
(-3)
P 		1924.8
(3)
P 		1784
C 349.3
(-2.3)
P 		146.7
(-2.9)
P 		123.5
(-3)
P 		2127
(3)
P 		2004
avr 350.2
(-2.2) 		152.1
(-2.9) 		127.7
(-3) 		1890.1
(3) 		1762

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 367
1 2 3 4 5 6 range
A 383.6
(-0.9)
P 		305
(-2.5)
P 		303.6
(-2.5)
P 		384.4
(-0.9)
P 		276.8
(-3)
P 		589.1
(3)
P 		312
B 305.3
(-2)
P 		352.5
(-1)
P 		383.2
(-0.3)
P 		286.6
(-2.4)
P 		258.8
(-3)
P 		534.7
(3)
P 		276
C 295.2
(-2.2)
P 		321
(-1.7)
P 		314.4
(-1.8)
P 		360.9
(-1.1)
P 		244
(-3)
P 		610.8
(3)
P 		367
avr 328
(-1.7) 		326.2
(-1.8) 		333.7
(-1.6) 		344
(-1.4) 		259.9
(-3) 		578.2
(3) 		318
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 379
1 2 3 4 range
A 132.7
(-0)
P 		36.3
(-2.8)
P 		31
(-3)
P 		236.9
(3)
P 		206
B 107.5
(-1.8)
P 		35.2
(-3)
P 		32.7
(-3)
P 		410.2
(3)
P 		378
C 115.6
(-1.6)
P 		42.2
(-3)
P 		43
(-3)
P 		358.6
(3)
P 		316
avr 118.6
(-1.3) 		37.9
(-3) 		35.6
(-3) 		335.2
(3) 		300

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 138
1 2 3 4 5 6 range
A 70.7
(-2.6)
P 		108.5
(0.3)
P 		66.1
(-3)
P 		97.5
(-0.6)
P 		83.5
(-1.6)
P 		143.4
(3)
P 		77
B 106.2
(-1.5)
P 		117.3
(-1)
P 		93.1
(-2.2)
P 		75.9
(-3)
P 		105.2
(-1.6)
P 		199.4
(3)
P 		124
C 109.4
(-1.3)
P 		97.9
(-1.8)
P 		80
(-2.7)
P 		72.6
(-3)
P 		78.9
(-2.7)
P 		204.5
(3)
P 		132
avr 95.4
(-2.1) 		107.9
(-1.4) 		79.7
(-3) 		82
(-2.9) 		89.2
(-2.4) 		182.4
(3) 		103
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 185975_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8502
Sequence Type Exemplar sequence
Representative Public ID Y40C5A.4 NCBI
Target Description Y40C5A.4 /REP_DB=WormBase Gene ID /WP=CE24258 /TR=Q9N3Y7 /GB=AAF60539.1 /SUBMIT=ST.LOUIS /CHR=4 /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_171378(11), NM_171377(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171378 NCBI Caenorhabditis elegans Y40C5A.4a (Y40C5A.4) mRNA, complete cds. 11/11 None
NM_171377 NCBI Caenorhabditis elegans Y40C5A.4b (Y40C5A.4) mRNA, complete cds. 9/11 None
SNAP00000028104 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7349359:7352438:-1 10/11 None
GENEFINDER00000028109 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7349359:7352438:-1 10/11 None
Y40C5A.4a ENSEMBL cdna:known chromosome:CEL140:IV:7349325:7364201:-1 gene:Y40C5A.4 11/11 None
Y40C5A.4b ENSEMBL cdna:known chromosome:CEL140:IV:7349336:7352438:-1 gene:Y40C5A.4 9/11 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
chrIV:7349751-7352444(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y40C5A.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF60539 Hypothetical protein Y40C5A.4a [Caenorhabditis elegans] ref|NP_741441.1| Y40C5A.4a [Caenorhabditis elegans] 0.0
blast AAL32240 Hypothetical protein Y40C5A.4b [Caenorhabditis elegans] ref|NP_741440.2| Y40C5A.4b [Caenorhabditis elegans] 0.0
blast CAE61868 Hypothetical protein CBG05848 [Caenorhabditis briggsae] 0.0
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_741441.1 7 32-54,73-95,110-132,153-175,211-233,273-295,310-332
NP_741440.2 7 32-54,73-95,110-132,153-175,229-251,289-311,326-348
Y40C5A.4a 7 32-54,73-95,110-132,153-175,211-233,273-295,310-332
Y40C5A.4b 7 32-54,73-95,110-132,153-175,229-251,289-311,326-348
SNAP00000028104 7 32-54,73-95,110-132,153-175,211-233,273-295,310-332
GENEFINDER00000028109 7 32-54,73-95,110-132,153-175,211-233,273-295,310-332
Sequence
Target Sequence 
>C. ELEGANS:185975_S_AT
ttaccgttttcttgccatttgcagttttggcatacttcaatgcagcaattgtaatgaatg
tgcgaaggactgatcgggatcaaacagtcaaagcattggttttatttattactgttggaa
caagaggagaagttacacgattgagatcacggctgagagctgttacaagaatgcttgtta
tggttgttactggatatctacttgcgaatattttagatattattattgcgttttgggaga
caatcaatattcaaagtcttcaagaacttccttcattatatacagtactttcggacattt
catcatttttaccaattgctgcatgtgctcttcgtctccctatctacacaattaatgatc
gtcaaattagagtcgaggttcgaagaaagttttgttatctcataacgagatgttgcacat
gttgtccaggagttctttgcgatactcatcaaagaaagaaacttcatgataatcagttgg
aatcggaaagactttggcccaagaatgagccaactccaaaacttgagcatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTACCGTTTTCTTGCCATTTGCAGT 12 683 662 Antisense
GAGATCACGGCTGAGAGCTGTTACA 339 397 804 Antisense
GGTTGTTACTGGATATCTACTTGCG 365 507 843 Antisense
AGTCTTCAAGAACTTCCTTCATTAT 543 61 916 Antisense
ATACAGTACTTTCGGACATTTCATC 595 23 941 Antisense
ACCAATTGCTGCATGTGCTCTTCGT 298 85 972 Antisense
CGTCTCCCTATCTACACAATTAATG 17 247 994 Antisense
GATGTTGCACATGTTGTCCAGGAGT 159 411 1070 Antisense
GTTGTCCAGGAGTTCTTTGCGATAC 518 437 1082 Antisense
GGAATCGGAAAGACTTTGGCCCAAG 606 531 1140 Antisense
GAGCCAACTCCAAAACTTGAGCATG 441 383 1168 Antisense
Sequence Source Affymetrix Proprietary Database