Home > Polymorphism > R_MesP_010219m.01

Polymorphism
TypeScaffold IDPolymorphism position on scaffold00506Related gene model IDGene model directionGene model description
SNPscaffold00506136513cassava4.1_010219m-PFAM:PF00069
Panther:PTHR11295
KOG:KOG0660
KEGG ec:2.7.11.24
KEGG Orthology:K04371
best arabidopsis TAIR10 hit name: AT3G45640.1
best arabidopsis TAIR10 hit symbol:ATMAPK3,ATMPK3,MPK3
best arabidopsis TAIR10 hit defline:mitogen-activated protein kinase 3
Synonymous / Nonsynonymous substitution
SNP in UTR
Cyan: synonymous substitution   Red: nonsynonymous substitution
Triangle: transversion substitution   Dot: transition substitution   Diamond: insertion/deletion

Allele  C/T  ( Transition substitution )
AM560-2 (Predicted CDS from genome sequence)  C
CAS36.01  -
CAS36.04  -
CM21772  -
CM523-7  -
MCol22  -
IAC 12.829  -
KU50  -
MBra685  -
MCol1522  -
MNga2  -
MPer183  -
Mirassol  -
SG107-35  -
Sauti, Gomani, Mbundumali, TME 1 and Mkondezi  -
TMS30572 and CM2177-2  -
Unknown  T
 ' ∗ ' : gap (insertion/deletion)     ' − ' : No data 


Primer
Left Primer sequence 
GCCCTTGGGAGAAGAACAGA
Left Primer start position  136607
Left Primer sequence length  20
Left Primer TM (DegC)  61.670
Left Primer %GC  55.000
Right Primer sequence 
GGGTTGCATTGTTTCATCCA
Right Primer start position  136443
Right Primer sequence length  20
Right Primer TM (DegC)  61.688
Right Primer %GC  45.000
Amplicon 
GCCCTTGGGAGAAGAACAGATGAAGGAAATGATTTACAGAGAGGCTTTAGCACTCAATCCTGAGTATGCATAATGGAGAAAGTAGATATGTTGCCTGGTA
TAATATTCATTCATTGTTCAAATGTTGTTTGATAGAAAAGAGCTGTGGATGAAACAATGCAACCC
Amplicon length  165