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[182009_s_at]

Description D1054.9A /REP_DB=WormBase Gene ID /WP=CE05527 /TR=Q18951 /GB=CAA98444.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 10      4grp_total > 49      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 408
1 2 3 4 range
A 9.1
(-3)
A 		364
(2.8)
A 		374.1
(3)
M 		76
(-1.9)
A 		365
B 9.8
(-3)
A 		416.9
(3)
A 		394.6
(2.7)
P 		56.5
(-2.3)
A 		407
C 8.5
(-3)
A 		384.4
(3)
A 		273.2
(1.2)
A 		138.6
(-0.9)
A 		376
avr 9.1
(-3) 		388.4
(3) 		347.3
(2.3) 		90.4
(-1.7) 		379

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 280
1 2 3 4 5 6 range
A 144.5
(-2.7)
A 		338.1
(3)
P 		193.6
(-1.2)
A 		215.5
(-0.6)
A 		276.1
(1.2)
P 		133.6
(-3)
A 		205
B 85.7
(-3)
A 		269.7
(3)
P 		177
(-0)
M 		239.5
(2)
P 		148.3
(-1)
M 		98.3
(-2.6)
A 		184
C 83
(-3)
A 		362.5
(3)
P 		169.1
(-1.2)
A 		192
(-0.7)
A 		211.1
(-0.3)
A 		108.3
(-2.5)
A 		280
avr 104.4
(-3) 		323.4
(3) 		179.9
(-0.9) 		215.7
(0) 		211.8
(-0.1) 		113.4
(-2.8) 		219
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 108
1 2 3 4 range
A 3.3
(-3)
A 		79
(1.8)
A 		97.8
(3)
M 		11.1
(-2.5)
A 		95
B 3.1
(-3)
A 		103
(3)
A 		91.4
(2.3)
P 		12
(-2.5)
A 		100
C 2.8
(-3)
A 		110.5
(3)
A 		95.2
(2.1)
A 		23.4
(-1.9)
A 		108
avr 3.1
(-3) 		97.5
(3) 		94.8
(2.8) 		15.5
(-2.2) 		94

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 94
1 2 3 4 5 6 range
A 26.6
(-3)
A 		120.2
(3)
P 		42.2
(-2)
A 		54.6
(-1.2)
A 		83.3
(0.6)
P 		32.5
(-2.6)
A 		94
B 29.8
(-3)
A 		89.8
(3)
P 		43
(-1.7)
M 		63.4
(0.4)
P 		60.3
(0)
M 		36.7
(-2.3)
A 		60
C 30.8
(-3)
A 		110.6
(3)
P 		43
(-2.1)
A 		38.6
(-2.4)
A 		68.3
(-0.2)
A 		36.2
(-2.6)
A 		80
avr 29.1
(-3) 		106.9
(3) 		42.7
(-2) 		52.2
(-1.2) 		70.6
(0.2) 		35.1
(-2.5) 		78
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 182009_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12606
Sequence Type Exemplar sequence
Representative Public ID D1054.9A NCBI
Target Description D1054.9A /REP_DB=WormBase Gene ID /WP=CE05527 /TR=Q18951 /GB=CAA98444.1 /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_001028574(9), NM_073356(11), NM_073355(11), NM_001028575(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028574 NCBI Caenorhabditis elegans D1054.9d (D1054.9) mRNA, complete cds. 9/11 None
NM_073356 NCBI Caenorhabditis elegans D1054.9b (D1054.9) mRNA, complete cds. 11/11 A 
NM_073355 NCBI Caenorhabditis elegans D1054.9a (D1054.9) mRNA, complete cds. 11/11 None
NM_001028575 NCBI Caenorhabditis elegans D1054.9e (D1054.9) mRNA, complete cds. 9/11 None
SNAP00000017222 ENSEMBL cdna:SNAP chromosome:CEL140:V:10788538:10793091:-1 9/11 None
GENEFINDER00000017240 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:10788538:10795396:-1 11/11 None
D1054.9a ENSEMBL cdna:known chromosome:CEL140:V:10788408:10792427:-1 gene:D1054.9 11/11 None
D1054.9b ENSEMBL cdna:known chromosome:CEL140:V:10788447:10793637:-1 gene:D1054.9 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_182396 4/11 Cross Hyb Matching Probes None
D1054.9c 4/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
179495 5 4 NM_001028574 182009_s_at (9)
NM_001028575 182009_s_at (9)
NM_073355 182009_s_at (11)
NM_073356 180481_s_at (11), 182009_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:10788537-10792427(-) 95.61 100.0
Public Domain and Genome References
Ensembl D1054.9
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAE64892 Hypothetical protein CBG09705 [Caenorhabditis briggsae] 0.0
blast CAE64892 Hypothetical protein CBG09705 [Caenorhabditis briggsae] 1.0E-179
blast CAA98447 Hypothetical protein D1054.9b [Caenorhabditis elegans] ref|NP_505757.2| D1054.9b [Caenorhabditis elegans] 1.0E-177
blast CAA98444 Hypothetical protein D1054.9a [Caenorhabditis elegans] ref|NP_505756.2| D1054.9a [Caenorhabditis elegans] 1.0E-166
blast CAA98447 Hypothetical protein D1054.9b [Caenorhabditis elegans] ref|NP_505757.2| D1054.9b [Caenorhabditis elegans] 1.0E-159
blast CAA98444 Hypothetical protein D1054.9a [Caenorhabditis elegans] ref|NP_505756.2| D1054.9a [Caenorhabditis elegans] 1.0E-158
blast CAI79164 Hypothetical protein D1054.9d [Caenorhabditis elegans] ref|NP_001023745.1| D1054.9d [Caenorhabditis elegans] 1.0E-156
blast CAI79164 Hypothetical protein D1054.9d [Caenorhabditis elegans] ref|NP_001023745.1| D1054.9d [Caenorhabditis elegans] 1.0E-155
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000017240 2 5-22,430-452
Sequence
Target Sequence 
>C. ELEGANS:182009_S_AT
tccccactaaggtatatttgtcggcataaagccggctcgaacgagcacgatccgttcagc
gaacgaagagcatctacgattggaccatttagaccgataactgttggacacaagtggaag
ccgctccggttcaagaaaccagaaccagtcgacgaagtcgccacagttccagccaccacg
tccaacaaaacatcaatcagcaccagaccgaaggggctccgacttctcgagtatcttttg
aagcaaactgacaagtttgccaagggattacagaaggcaattaacggtgtaagtgcatcc
ggagtgtcatcatccaatttactaacaaatgaaccaaacactgagcttctggctgctatc
aaggatgtcgtcgccaaattcaaggtagcgagcttggacgaggccggaatcgatcaggac
gtcagacttatgggcaatca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCCCCACTAAGGTATATTTGTCGGC 351 589 1288 Antisense
GCCGGCTCGAACGAGCACGATCCGT 488 283 1318 Antisense
TGGAAGCCGCTCCGGTTCAAGAAAC 479 547 1402 Antisense
AGTCGACGAAGTCGCCACAGTTCCA 273 61 1434 Antisense
AAACATCAATCAGCACCAGACCGAA 369 127 1475 Antisense
CTCCGACTTCTCGAGTATCTTTTGA 127 235 1504 Antisense
GTGCATCCGGAGTGTCATCATCCAA 190 481 1580 Antisense
AAACACTGAGCTTCTGGCTGCTATC 471 127 1623 Antisense
CTGCTATCAAGGATGTCGTCGCCAA 500 237 1640 Antisense
GAGGCCGGAATCGATCAGGACGTCA 169 405 1687 Antisense
AGGACGTCAGACTTATGGGCAATCA 497 53 1703 Antisense
Sequence Source Affymetrix Proprietary Database