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[193384_at]

Description M03A1.1 /REP_DB=WormBase Gene ID /WP=CE25060 /GEN=vab-1 /TR=Q21477 /GB=AAA93435.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=tyrosine-protein kinase receptor
Cluster 6grp_highest_10_10 > 73      6grp_high1_10_10 > 36      4grp_high_8_8 > 27      6grp_highest_nonorm > 81      6grp_total > 37      4grp_total > 37      6grp_highest_sub > Cu      6grp_cgc > 16      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 297
1 2 3 4 range
A 333.9
(2.9)
P 		337.2
(3)
P 		201.1
(-2.5)
P 		190
(-3)
P 		147
B 328
(3)
P 		219.9
(0.7)
P 		40.2
(-3)
P 		224.4
(0.8)
P 		288
C 302.4
(3)
P 		290.1
(2.5)
P 		150.3
(-3)
A 		215.4
(-0.4)
A 		152
avr 321.4
(3) 		282.4
(1.8) 		130.5
(-3) 		209.9
(-0.5) 		191

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 283
1 2 3 4 5 6 range
A 261.9
(-1.3)
P 		390.1
(3)
P 		213.2
(-3)
P 		281.7
(-0.7)
P 		219.1
(-2.8)
P 		361.6
(2)
P 		177
B 244.8
(2.2)
P 		254
(2.8)
P 		256.3
(3)
P 		204.5
(-0.7)
P 		172.7
(-3)
P 		212.1
(-0.2)
P 		84
C 455.3
(3)
P 		229.5
(-2.4)
P 		257.7
(-1.7)
P 		203.1
(-3)
P 		297.4
(-0.8)
P 		289.8
(-0.9)
P 		252
avr 320.7
(3) 		291.2
(1.1) 		242.4
(-2.2) 		229.8
(-3) 		229.7
(-3) 		287.8
(0.8) 		91
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 112
1 2 3 4 range
A 121.6
(3)
P 		73.2
(-0.1)
P 		52.6
(-1.4)
P 		27.8
(-3)
P 		94
B 104.6
(3)
P 		54.3
(-0.2)
P 		9.3
(-3)
P 		47.8
(-0.6)
P 		95
C 100.1
(3)
P 		83.4
(1.4)
P 		52.4
(-1.5)
A 		36.3
(-3)
A 		64
avr 108.8
(3) 		70.3
(-0.2) 		38.1
(-2.9) 		37.3
(-3) 		72

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 128
1 2 3 4 5 6 range
A 48.3
(-2.9)
P 		138.7
(3)
P 		46.4
(-3)
P 		71.4
(-1.4)
P 		66.1
(-1.7)
P 		88
(-0.3)
P 		92
B 85.2
(3)
P 		84.6
(2.9)
P 		62.2
(-1.5)
P 		54.2
(-3)
P 		70.2
(0.1)
P 		79.1
(1.8)
P 		31
C 168.8
(3)
P 		70
(-1.6)
P 		65.6
(-1.8)
P 		40.8
(-3)
P 		96.2
(-0.4)
P 		97
(-0.4)
P 		128
avr 100.8
(3) 		97.8
(2.6) 		58.1
(-2.7) 		55.5
(-3) 		77.5
(-0.1) 		88
(1.3) 		45
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193384_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5682
Sequence Type Exemplar sequence
Representative Public ID M03A1.1 NCBI
Target Description M03A1.1 /REP_DB=WormBase Gene ID /WP=CE25060 /GEN=vab-1 /TR=Q21477 /GB=AAA93435.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=tyrosine-protein kinase receptor
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_062405(11), NM_062406(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062405 NCBI Caenorhabditis elegans Variable ABnormal morphology family member (vab-1) (vab-1) mRNA, complete cds. 11/11 None
NM_062406 NCBI Caenorhabditis elegans Variable ABnormal morphology family member (vab-1) (vab-1) mRNA, complete cds. 11/11 None
SNAP00000019152 ENSEMBL cdna:SNAP chromosome:CEL140:II:4585526:4590499:1 11/11 None
GENEFINDER00000019154 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:4578111:4590499:1 11/11 None
M03A1.1b ENSEMBL cdna:known chromosome:CEL140:II:4572001:4590938:1 gene:M03A1.1 11/11 A 
M03A1.1a ENSEMBL cdna:known chromosome:CEL140:II:4572076:4590499:1 gene:M03A1.1 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
chrII:4572074-4590498(+) 100.0 100.0
Public Domain and Genome References
Ensembl M03A1.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK77621 Variable abnormal morphology protein 1, isoform b [Caenorhabditis elegans] ref|NP_494806.1| Variable ABnormal morphology family member (vab-1) [Caenorhabditis elegans] sp|O61460|VAB1_CAEEL Ephrin receptor 1 precursor (Tyrosine-protein kinase Eph receptor) (Variable abnormal protein 1) gb|AAC38970.1| Eph receptor tyrosine kinase [Caenorhabditis elegans] 0.0
blast AAK77620 Variable abnormal morphology protein 1, isoform a [Caenorhabditis elegans] ref|NP_494807.1| Variable ABnormal morphology family member (vab-1) [Caenorhabditis elegans] 0.0
blast CAE67856 Hypothetical protein CBG13447 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.4E-10
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.4E-10
Pfam IPR001090 EMBL-EBI Ephrin receptor, ligand binding 3.6E-10
Pfam IPR001090 EMBL-EBI Ephrin receptor, ligand binding 9.7E-5
Pfam IPR000719 EMBL-EBI Protein kinase 5.2E-61
Pfam IPR000719 EMBL-EBI Protein kinase 3.7E-66
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.4E-10
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.4E-10
Pfam IPR000719 EMBL-EBI Protein kinase 3.7E-66
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.4E-10
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.4E-10
Pfam IPR001090 EMBL-EBI Ephrin receptor, ligand binding 3.6E-10
Pfam IPR001090 EMBL-EBI Ephrin receptor, ligand binding 9.7E-5
Pfam IPR000719 EMBL-EBI Protein kinase 3.7E-66
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_494806.1 2 558-580,776-798
NP_494807.1 2 558-580,776-798
M03A1.1b 2 558-580,776-798
M03A1.1a 2 558-580,776-798
SNAP00000019152 1 303-325
GENEFINDER00000019154 2 499-521,684-706
Sequence
Target Sequence 
>C. ELEGANS:193384_AT
tgatgatcggctatcgactaccaccaccgatggattgtccgatgggattgtatcggatcg
cccagtggtgttggaagatggagcgacacgagcgtccgacgttcacacagcttctcgcca
cattccacaagtacatcctgcagccgacacttattgagcatgatcctggagagcttccgc
gacgggttcagagtcaatctgccctgaatacctatggatctgtgaatgtcggagtagttc
caaccccaccatcgtcggctgctccgatgccatcgctcgacgattttctccgtcaaattg
gcctaaatcatgtctacggacaactcgtgtcgaataacattcactctgtgagtgacttgg
ccaacacgtctcacttggatcttcttgcctatggtctcatgtccgcggagtgctcgaccg
ttcgggatggact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGATGATCGGCTATCGACTACCACC 393 567 2825 Antisense
CTACCACCACCGATGGATTGTCCGA 379 225 2842 Antisense
CACATTCCACAAGTACATCCTGCAG 462 195 2943 Antisense
GAGCATGATCCTGGAGAGCTTCCGC 603 389 2980 Antisense
AGCTTCCGCGACGGGTTCAGAGTCA 691 77 2996 Antisense
AGAGTCAATCTGCCCTGAATACCTA 626 67 3014 Antisense
GAATGTCGGAGTAGTTCCAACCCCA 673 329 3048 Antisense
TCGCTCGACGATTTTCTCCGTCAAA 256 599 3097 Antisense
GTGAGTGACTTGGCCAACACGTCTC 120 483 3172 Antisense
TTGGATCTTCTTGCCTATGGTCTCA 324 707 3199 Antisense
AGTGCTCGACCGTTCGGGATGGACT 37 61 3233 Antisense
Sequence Source Affymetrix Proprietary Database