[Home] | [Total List]

[177199_s_at]

Description M28.9 /REP_DB=WormBase Gene ID /WP=CE02287 /TR=Q21571 /GB=CAA90129.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 67      4grp_total > 11      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 41
1 2 3 4 range
A 6.4
(3)
A 		5.4
(1.5)
A 		4.7
(0.4)
A 		2.5
(-3)
A 		4
B 3.6
(-3)
A 		5.9
(2.1)
A 		6.3
(3)
A 		5.9
(2.1)
A 		3
C 7.6
(-2.1)
A 		8.2
(-2)
A 		1.5
(-3)
A 		42.9
(3)
A 		41
avr 5.9
(-2.2) 		6.5
(-1.9) 		4.2
(-3) 		17.1
(3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 64
1 2 3 4 5 6 range
A 2.4
(-3)
A 		3.1
(-2.9)
A 		11.6
(-1.1)
A 		4.8
(-2.5)
A 		19.5
(0.5)
A 		31.4
(3)
A 		29
B 3.3
(-3)
A 		6.3
(-2.7)
A 		7.9
(-2.6)
A 		4.8
(-2.9)
A 		10.9
(-2.3)
A 		65.6
(3)
A 		62
C 3.5
(-2.8)
A 		37.9
(0.5)
A 		1.5
(-3)
A 		3.9
(-2.8)
A 		5.8
(-2.6)
A 		63.5
(3)
A 		62
avr 3.1
(-3) 		15.8
(-1.5) 		7
(-2.5) 		4.5
(-2.8) 		12.1
(-1.9) 		53.5
(3) 		50
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 7
1 2 3 4 range
A 2.3
(3)
A 		1.2
(-0.5)
A 		1.2
(-0.5)
A 		0.4
(-3)
A 		2
B 1.1
(-3)
A 		1.5
(3)
A 		1.5
(3)
A 		1.3
(0)
A 		0
C 2.5
(-1.2)
A 		2.4
(-1.3)
A 		0.5
(-3)
A 		7.2
(3)
A 		7
avr 2
(-0.2) 		1.7
(-1.1) 		1.1
(-3) 		3
(3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 24
1 2 3 4 5 6 range
A 0.4
(-3)
A 		1.1
(-2.4)
A 		2.5
(-1.3)
A 		1.2
(-2.3)
A 		5.9
(1.6)
A 		7.6
(3)
A 		7
B 1.1
(-3)
A 		2.1
(-2.7)
A 		1.9
(-2.8)
A 		1.3
(-2.9)
A 		4.4
(-2.2)
A 		24.5
(3)
A 		23
C 1.3
(-2.7)
A 		11.6
(0.2)
A 		0.4
(-3)
A 		0.8
(-2.9)
A 		1.9
(-2.6)
A 		21.3
(3)
A 		21
avr 0.9
(-3) 		4.9
(-1.6) 		1.6
(-2.8) 		1.1
(-2.9) 		4.1
(-1.9) 		17.8
(3) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 177199_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3508
Sequence Type Exemplar sequence
Representative Public ID M28.9 NCBI
Target Description M28.9 /REP_DB=WormBase Gene ID /WP=CE02287 /TR=Q21571 /GB=CAA90129.1 /SUBMIT=HINXTON /CHR=2 /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_063895(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063895 NCBI Caenorhabditis elegans M28.9 (M28.9) mRNA, complete cds. 11/11 None
GENEFINDER00000007410 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10640461:10646857:1 11/11 None
M28.9.1 ENSEMBL cdna:known chromosome:CEL140:II:10639368:10643447:1 gene:M28.9 11/11 None
M28.9.2 ENSEMBL cdna:known chromosome:CEL140:II:10639386:10643447:1 gene:M28.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000007402 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:10639690-10643444(+) 97.6 100.0
Public Domain and Genome References
Gene Title
Ensembl M28.9
Entrez Gene 174642 Entrez gene
SwissProt Q21571 EMBL-EBI
WormBase CE02287 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA90129 Hypothetical protein M28.9 [Caenorhabditis elegans] ref|NP_496296.1| M28.9 [Caenorhabditis elegans] 0.0
blast CAA90126 Hypothetical protein M28.4 [Caenorhabditis elegans] ref|NP_872072.1| M28.4 [Caenorhabditis elegans] 0.0
blast CAA90130 Hypothetical protein M28.2 [Caenorhabditis elegans] ref|NP_496295.1| M28.2 [Caenorhabditis elegans] 1.0E-168
blast CAE59633 Hypothetical protein CBG03046 [Caenorhabditis briggsae] 1.0E-155
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_496296.1 5 103-125,146-168,390-412,425-447,676-698
M28.9.1 5 103-125,146-168,390-412,425-447,676-698
M28.9.2 5 103-125,146-168,390-412,425-447,676-698
GENEFINDER00000007410 9 201-223,236-258,487-509,639-661,690-712,800-822,837-859,1083-1105,1334-1356
Sequence
Target Sequence 
>C. ELEGANS:177199_S_AT
aatgcaggtgtgctggtttgtgagcaagttggattgccaattcatggattgtgggcttca
attggtttgggtggagtcgcaatgttcttccagattattgtattgcttctcactttccgt
tggttgagtactcatagcaagaagagtgctgggaaaagtgataagatgttaaagtcaaag
gagtcgaaagaaaaagaagagaagagcgagaacaaggacaagaaaaagaaaaagaagaag
tcgaagaaggacaaggaagaagaaggctctgccgaaaaagctgatggagatgctaacaag
aatcctcaagatcctgctgcaccaggtgaaattggaagaaatggatcagctgaagcaggg
tctcaaccgacatcagtagagggtaaatctgatgcagctgaaggtgcttctccaatggcc
ccaggaaacggaaagaaaagcgccgtgaacacgcttgacgttgagccaaaatcgcacata
agctttttcaatagatgctcttgctacagctatatattttcctttctacaagcaatctat
accgtactagacggaggaactcccgcagtcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATGCAGGTGTGCTGGTTTGTGAGC 32 167 1990 Antisense
GTGGGCTTCAATTGGTTTGGGTGGA 602 477 2040 Antisense
GAGTCGCAATGTTCTTCCAGATTAT 709 397 2063 Antisense
ATTATTGTATTGCTTCTCACTTTCC 550 13 2083 Antisense
CACTTTCCGTTGGTTGAGTACTCAT 164 195 2100 Antisense
GAAGGCTCTGCCGAAAAAGCTGATG 566 333 2251 Antisense
GCTTGACGTTGAGCCAAAATCGCAC 294 305 2442 Antisense
AATAGATGCTCTTGCTACAGCTATA 152 171 2479 Antisense
TACAGCTATATATTTTCCTTTCTAC 708 643 2494 Antisense
CCTTTCTACAAGCAATCTATACCGT 234 269 2510 Antisense
CTAGACGGAGGAACTCCCGCAGTCG 97 225 2536 Antisense
Sequence Source Affymetrix Proprietary Database