[Home] | [Total List]

[187781_s_at]

Description B0410.2 /REP_DB=WormBase Gene ID /WP=CE06708 /CHR=X /FEA=Sanger Annotation /DEF=(ST.LOUIS) TR:Q17500 protein_id:AAA96091.1
Cluster 6grp_total > 46      4grp_total > 61      6grp_cgc > 27      6grp_cgc_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 109
1 2 3 4 range
A 99.7
(3)
A 		92.6
(2.4)
A 		76.1
(0.9)
A 		33.5
(-3)
A 		66
B 121
(3)
A 		12.1
(-3)
A 		36.6
(-1.7)
A 		19.7
(-2.6)
A 		109
C 86.9
(1.5)
A 		111
(2.9)
A 		112.2
(3)
A 		12.6
(-3)
A 		100
avr 102.5
(3) 		71.9
(0.7) 		75
(1) 		21.9
(-3) 		81

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 160
1 2 3 4 5 6 range
A 147.8
(0.7)
A 		206.4
(2.9)
A 		82
(-1.8)
A 		118.9
(-0.4)
A 		50.1
(-3)
A 		209.9
(3)
A 		160
B 163.7
(1.9)
A 		131.3
(0.3)
A 		177.8
(2.5)
A 		61.6
(-3)
A 		89.7
(-1.7)
A 		187.9
(3)
P 		126
C 162.3
(0.9)
A 		179.7
(1.7)
A 		142.1
(-0.1)
A 		94
(-2.5)
A 		84.2
(-3)
A 		204.9
(3)
A 		121
avr 157.9
(1) 		172.5
(1.6) 		134
(-0.2) 		91.5
(-2.2) 		74.7
(-3) 		200.9
(3) 		126
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 37
1 2 3 4 range
A 36.3
(3)
A 		20.1
(-0.1)
A 		19.9
(-0.1)
A 		4.9
(-3)
A 		31
B 38.6
(3)
A 		3
(-3)
A 		8.5
(-2.1)
A 		4.2
(-2.8)
A 		36
C 28.8
(1.3)
A 		31.9
(1.8)
A 		39.1
(3)
A 		2.1
(-3)
A 		37
avr 34.6
(3) 		18.3
(-0.2) 		22.5
(0.7) 		3.7
(-3) 		31

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 27.2
(-1.8)
A 		73.4
(3)
A 		17.9
(-2.7)
A 		30.2
(-1.4)
A 		15.1
(-3)
A 		51.1
(0.7)
A 		58
B 57
(1.5)
A 		43.7
(0.1)
A 		43.2
(0)
A 		16.3
(-3)
A 		36.4
(-0.8)
A 		70.1
(3)
P 		54
C 60.1
(2)
A 		54.8
(1.3)
A 		36.2
(-0.9)
A 		18.9
(-3)
A 		27.3
(-2)
A 		68.6
(3)
A 		50
avr 48.1
(0.8) 		57.3
(2.1) 		32.4
(-1.5) 		21.8
(-3) 		26.3
(-2.3) 		63.3
(3) 		42
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187781_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18447
Sequence Type Exemplar sequence
Representative Public ID B0410.2 NCBI
Target Description B0410.2 /REP_DB=WormBase Gene ID /WP=CE06708 /CHR=X /FEA=Sanger Annotation /DEF=(ST.LOUIS) TR:Q17500 protein_id:AAA96091.1
Cluster Evidence This cluster is supported by a 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_076099(11), NM_076100(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076099 NCBI Caenorhabditis elegans VANG (Van Gogh/Strabismus planar polarity protein) homolog family member (vang-1) (vang-1) mRNA, complete cds. 11/11 None
NM_076100 NCBI Caenorhabditis elegans VANG (Van Gogh/Strabismus planar polarity protein) homolog family member (vang-1) (vang-1) mRNA, complete cds. 11/11 None
SNAP00000001857 ENSEMBL cdna:SNAP chromosome:CEL140:X:2885865:2890294:1 11/11 None
GENEFINDER00000001861 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:2885865:2890294:1 11/11 None
B0410.2a ENSEMBL cdna:known chromosome:CEL140:X:2885860:2890294:1 gene:B0410.2 11/11 None
B0410.2b ENSEMBL cdna:known chromosome:CEL140:X:2885863:2890594:1 gene:B0410.2 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
chrX:2885864-2890294(+) 100.0 100.0
Public Domain and Genome References
Ensembl B0410.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA96091 Vang (van gogh/strabismus planar polarity protein) homolog protein 1, isoform a [Caenorhabditis elegans] ref|NP_508500.1| VANG (Van Gogh/Strabismus planar polarity protein) homolog family member (vang-1) [Caenorhabditis elegans] 0.0
blast AAK68677 Vang (van gogh/strabismus planar polarity protein) homolog protein 1, isoform b [Caenorhabditis elegans] ref|NP_508501.1| VANG (Van Gogh/Strabismus planar polarity protein) homolog family member (vang-1) [Caenorhabditis elegans] 0.0
blast CAE58819 Hypothetical protein CBG02029 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR009539 EMBL-EBI Strabismus 1.0E-126
Pfam IPR009539 EMBL-EBI Strabismus 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508500.1 3 105-127,147-166,178-200
NP_508501.1 3 102-124,144-163,175-197
B0410.2a 3 105-127,147-166,178-200
B0410.2b 3 102-124,144-163,175-197
SNAP00000001857 3 105-127,147-166,178-200
GENEFINDER00000001861 3 105-127,147-166,178-200
Sequence
Target Sequence 
>C. ELEGANS:187781_S_AT
gagaaagtatcgcctaattgccgccgccgaagacgcattctcccatgttcagaacactgc
cgagtccggaacgaaccaaaagcctggaattaacaaccagatggactcactgaccgctgc
tcaaaacgtattcacatggattgtccggccgctcaccaaatatttaaaaactactcgtct
tcagtcaagacatccttcaggagaagttacgaggcacattgaaagatgcctaacactcaa
gttgtctcatcgaacatttctccaacgcttcttcagtgaccgtattccccaacgggaaat
tgtcggggaatcgaaatggtcggtaatttgcgacgaggcggtgagctctggagttcaaca
cggaacgtatctagtgctcaaatcgcacaacccagatatcgactgcggagttcaacttgt
ttgcaccatctcgagtattcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGAAAGTATCGCCTAATTGCCGCC 256 391 1092 Antisense
GCATTCTCCCATGTTCAGAACACTG 139 307 1126 Antisense
GAACACTGCCGAGTCCGGAACGAAC 71 353 1143 Antisense
CAACCAGATGGACTCACTGACCGCT 406 187 1185 Antisense
ACTGACCGCTGCTCAAAACGTATTC 41 99 1200 Antisense
GTATTCACATGGATTGTCCGGCCGC 2 453 1219 Antisense
GTTGTCTCATCGAACATTTCTCCAA 1 437 1332 Antisense
AACGCTTCTTCAGTGACCGTATTCC 581 145 1355 Antisense
GACGAGGCGGTGAGCTCTGGAGTTC 157 379 1423 Antisense
GGAACGTATCTAGTGCTCAAATCGC 262 529 1453 Antisense
TTGTTTGCACCATCTCGAGTATTCC 568 705 1508 Antisense
Sequence Source Affymetrix Proprietary Database