Home > Polymorphism > R_MesP_011965m.00

Polymorphism
TypeScaffold IDPolymorphism position on scaffold11170Related gene model IDGene model directionGene model description
SNPscaffold11170108322cassava4.1_011965m+PFAM:PF00069,PF07714
Panther:PTHR22986
KOG:KOG0581
KEGG ec:
KEGG Orthology:
best arabidopsis TAIR10 hit name: AT1G73500.1
best arabidopsis TAIR10 hit symbol:ATMKK9,MKK9
best arabidopsis TAIR10 hit defline:MAP kinase kinase 9
Synonymous / Nonsynonymous substitution
Codon positionNucleotideCodonAmino acidSynonymous / Nonsynonymous
3cassava4.1_011965m (Reference)ACTALSynonymous
Other varietyCCTCL
Cyan: synonymous substitution   Red: nonsynonymous substitution
Triangle: transversion substitution   Dot: transition substitution   Diamond: insertion/deletion

Allele  A/C  ( Transversion substitution )
AM560-2 (Predicted CDS from genome sequence)  A
CAS36.01  -
CAS36.04  -
CM21772  -
CM523-7  -
MCol22  C
IAC 12.829  -
KU50  C
MBra685  -
MCol1522  -
MNga2  -
MPer183  -
Mirassol  -
SG107-35  -
Sauti, Gomani, Mbundumali, TME 1 and Mkondezi  -
TMS30572 and CM2177-2  -
Unknown  -
 ' ∗ ' : gap (insertion/deletion)     ' − ' : No data 


Primer
Left Primer sequence 
GACCTCGCTTTCCTTTGCC
Left Primer start position  108300
Left Primer sequence length  19
Left Primer TM (DegC)  62.185
Left Primer %GC  57.895
Right Primer sequence 
GGAGTCATCGGTATCGGCAT
Right Primer start position  108499
Right Primer sequence length  20
Right Primer TM (DegC)  62.182
Right Primer %GC  55.000
Amplicon 
GACCTCGCTTTCCTTTGCCACTACCTCCTAGTGTCACTGCTTCTACAAACAACAACAACAACTCTGCGATCTCTTCTAGTGATATTGAAAAGCTTCAAGT
TCTGGGTCATGGTAATGGTGGTACCGTCTATAAAGTACGTCATAAGAAGACTTCCCAAGTTTATGCCCTTAAAGTTGTCCATGCCGATACCGATGACTCC
Amplicon length  200