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[177250_at]

Description M162.5 /REP_DB=WormBase Gene ID /WP=CE23879 /TR=Q9U3A4 /GB=CAB05257.2 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 03      6grp_high1_10_10 > 22      4grp_highest_8_8 > 15      4grp_high_8_8 > 13      6grp_highest_nonorm > 71      6grp_total > 32      4grp_total > 10      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 616
1 2 3 4 range
A 162.5
(-2.3)
P 		134.2
(-2.5)
P 		88.7
(-3)
P 		684.2
(3)
P 		596
B 107.5
(-3)
P 		127.4
(-2.8)
P 		121
(-2.9)
P 		648.2
(3)
P 		541
C 114.7
(-2.5)
P 		241
(-1.2)
P 		68.1
(-3)
P 		640.1
(3)
P 		572
avr 128.2
(-2.6) 		167.5
(-2.2) 		92.6
(-3) 		657.5
(3) 		565

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 353
1 2 3 4 5 6 range
A 374.1
(2.9)
P 		360.1
(2.5)
P 		365.4
(2.6)
P 		379.9
(3)
P 		331.1
(1.8)
P 		134.3
(-3)
P 		246
B 380.3
(1.3)
P 		390.3
(1.5)
P 		478.9
(3)
P 		328.8
(0.4)
P 		310.6
(0.1)
P 		126.1
(-3)
P 		353
C 330.8
(1.8)
P 		371.7
(3)
P 		331.2
(1.8)
P 		317.7
(1.4)
P 		322.5
(1.6)
P 		166.4
(-3)
P 		205
avr 361.7
(2.3) 		374
(2.6) 		391.8
(3) 		342.1
(1.8) 		321.4
(1.3) 		142.3
(-3) 		250
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 115
1 2 3 4 range
A 59.2
(-0.2)
P 		29.1
(-2.5)
P 		23.2
(-3)
P 		100.2
(3)
P 		77
B 34.3
(-2.7)
P 		31.5
(-2.8)
P 		28
(-3)
P 		138.1
(3)
P 		110
C 38
(-2)
P 		69.3
(0.2)
P 		23.8
(-3)
P 		107.9
(3)
P 		84
avr 43.8
(-1.8) 		43.3
(-1.8) 		25
(-3) 		115.4
(3) 		90

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 100
1 2 3 4 5 6 range
A 69
(-0.7)
P 		128.1
(3)
P 		79.6
(-0.1)
P 		96.3
(1)
P 		99.9
(1.2)
P 		32.7
(-3)
P 		95
B 132.3
(3)
P 		129.9
(2.8)
P 		116.3
(1.9)
P 		87.1
(-0.2)
P 		126.2
(2.6)
P 		47
(-3)
P 		85
C 122.6
(3)
P 		113.4
(2.2)
P 		84.3
(-0.4)
P 		63.9
(-2.3)
P 		104.4
(1.4)
P 		55.7
(-3)
P 		67
avr 108
(1.8) 		123.8
(3) 		93.4
(0.7) 		82.4
(-0.2) 		110.2
(2) 		45.1
(-3) 		79
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177250_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14533
Sequence Type Exemplar sequence
Representative Public ID M162.5 NCBI
Target Description M162.5 /REP_DB=WormBase Gene ID /WP=CE23879 /TR=Q9U3A4 /GB=CAB05257.2 /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_075430(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075430 NCBI Caenorhabditis elegans M162.5 (M162.5) mRNA, complete cds. 11/11 A 
SNAP00000032745 ENSEMBL cdna:SNAP chromosome:CEL140:V:19759057:19764757:1 11/11 None
GENEFINDER00000032755 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:19759057:19768816:1 11/11 None
M162.5.1 ENSEMBL cdna:known chromosome:CEL140:V:19759047:19764757:1 gene:M162.5 11/11 None
M162.5.2 ENSEMBL cdna:known chromosome:CEL140:V:19759049:19764757:1 gene:M162.5 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:19759056-19764757(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl M162.5
Entrez Gene 180300 Entrez gene
SwissProt Q9U3A4 EMBL-EBI
WormBase CE23879 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05257 Hypothetical protein M162.5 [Caenorhabditis elegans] ref|NP_507831.1| M162.5 [Caenorhabditis elegans] 0.0
blast CAE61620 Hypothetical protein CBG05546 [Caenorhabditis briggsae] 0.0
blast CAB03882 Hypothetical protein C14A6.2 [Caenorhabditis elegans] ref|NP_507545.2| C14A6.2 [Caenorhabditis elegans] 0.0
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_507831.1 12 40-62,90-112,119-138,153-172,179-201,211-230,274-296,311-333,345-366,371-393,406-428,438-460
M162.5.1 12 40-62,90-112,119-138,153-172,179-201,211-230,274-296,311-333,345-366,371-393,406-428,438-460
M162.5.2 12 40-62,90-112,119-138,153-172,179-201,211-230,274-296,311-333,345-366,371-393,406-428,438-460
SNAP00000032745 12 40-62,90-112,119-138,153-172,179-201,211-230,274-296,311-333,345-366,371-393,406-428,438-460
GENEFINDER00000032755 12 40-62,90-112,119-138,153-172,179-201,211-230,274-296,311-333,345-366,371-393,406-428,438-457
Sequence
Target Sequence 
>C. ELEGANS:177250_AT
ctactcacctgtctacttacatgatattggaggttattcagtggagaagaccggctttgc
agccgccgtaccggtgttgtttcagttttttatgaagctttttgcaggccactccagtga
ccgaatctctggaatatctgagacaacaaagctccggatctacaatactattgctctggg
cgccagtgccgtatttctagctgctctgggttttgtaaaagaaggccaggggctgaccgg
cttgacactcatgactgtagccaccgcaatgtttggattcaacggtggaggttttataaa
gtgcgccgcccttgtctcccgacagcacaatcattttgtcatggcaaacgtccagttcct
gctgtgcctctcgatgcttctctgtccaatacttgtatcatttttgcttcgacacggaac
tataactgaatgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTACTCACCTGTCTACTTACATGAT 48 227 894 Antisense
GTCTACTTACATGATATTGGAGGTT 477 467 904 Antisense
GAATATCTGAGACAACAAAGCTCCG 515 325 1025 Antisense
CTAGCTGCTCTGGGTTTTGTAAAAG 401 225 1090 Antisense
AAAGAAGGCCAGGGGCTGACCGGCT 617 121 1111 Antisense
CCGGCTTGACACTCATGACTGTAGC 700 265 1130 Antisense
CTTGACACTCATGACTGTAGCCACC 270 217 1134 Antisense
GACTGTAGCCACCGCAATGTTTGGA 645 375 1146 Antisense
GCCACCGCAATGTTTGGATTCAACG 231 279 1153 Antisense
ATGTTTGGATTCAACGGTGGAGGTT 191 47 1162 Antisense
CGACACGGAACTATAACTGAATGGA 558 221 1303 Antisense
Sequence Source Affymetrix Proprietary Database