AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1410100


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1410100 MtrunA17_Chr1g0160961 74.359 39 10 0 35 73 1382 1420 1.87e-14 66.2
Msa1410100 MtrunA17_Chr5g0419891 71.795 39 11 0 35 73 1258 1296 6.27e-13 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 11 sgRNAs with CRISPR-Local

Find 17 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGCTTTACATGATCTTTA+TGG 0.133014 tig0023613:-61005 Msa1410100:CDS
GGAAATACTTGAACAAAATA+TGG 0.213077 tig0023613:-61041 Msa1410100:CDS
AATCAAATCACCATAAGATA+TGG 0.411090 tig0023613:+60839 None:intergenic
ATCACGTAACTCGTGAATCT+CGG 0.478392 tig0023613:+60894 None:intergenic
GAAATACTTGAACAAAATAT+GGG 0.498830 tig0023613:-61040 Msa1410100:CDS
CGTGATATTTATTGAAGACC+TGG 0.520735 tig0023613:-60877 Msa1410100:CDS
GTGAGCTTCTTGATAAGTCA+AGG 0.535389 tig0023613:-60983 Msa1410100:intron
TGGCAGAAAACTGCTCTACC+AGG 0.557176 tig0023613:+60859 None:intergenic
TACTTGAACAAAATATGGGT+GGG 0.594710 tig0023613:-61036 Msa1410100:CDS
ATACTTGAACAAAATATGGG+TGG 0.616313 tig0023613:-61037 Msa1410100:CDS
AAATAGAAGTTTCAACATAG+CGG 0.666181 tig0023613:+60787 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CAAAATAAACAAGTTATTTT+GGG - tig0023613:60874-60893 Msa1410100:CDS 15.0%
!!! AAAATAAACAAGTTATTTTG+GGG - tig0023613:60875-60894 Msa1410100:CDS 15.0%
!! GAAATACTTGAACAAAATAT+GGG - tig0023613:60788-60807 Msa1410100:CDS 20.0%
!!! CCAAAATAACTTGTTTATTT+TGG + tig0023613:60876-60895 None:intergenic 20.0%
!!! CCAAAATAAACAAGTTATTT+TGG - tig0023613:60873-60892 Msa1410100:CDS 20.0%
! GGAAATACTTGAACAAAATA+TGG - tig0023613:60787-60806 Msa1410100:CDS 25.0%
! AATCAAATCACCATAAGATA+TGG + tig0023613:60992-61011 None:intergenic 25.0%
! AAATAGAAGTTTCAACATAG+CGG + tig0023613:61044-61063 None:intergenic 25.0%
ATACTTGAACAAAATATGGG+TGG - tig0023613:60791-60810 Msa1410100:CDS 30.0%
TACTTGAACAAAATATGGGT+GGG - tig0023613:60792-60811 Msa1410100:CDS 30.0%
GAAGCTTTACATGATCTTTA+TGG - tig0023613:60823-60842 Msa1410100:CDS 30.0%
!! ATGGTGATTTGATTTTTGCT+CGG - tig0023613:60998-61017 Msa1410100:CDS 30.0%
CGTGATATTTATTGAAGACC+TGG - tig0023613:60951-60970 Msa1410100:intron 35.0%
! CAGTTTTCTGCCATATCTTA+TGG - tig0023613:60979-60998 Msa1410100:intron 35.0%
GTGAGCTTCTTGATAAGTCA+AGG - tig0023613:60845-60864 Msa1410100:CDS 40.0%
ATCACGTAACTCGTGAATCT+CGG + tig0023613:60937-60956 None:intergenic 40.0%
TGGCAGAAAACTGCTCTACC+AGG + tig0023613:60972-60991 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
tig0023613 gene 60785 61065 60785 ID=Msa1410100;Name=Msa1410100
tig0023613 mRNA 60785 61065 60785 ID=Msa1410100-mRNA-1;Parent=Msa1410100;Name=Msa1410100-mRNA-1;_AED=0.48;_eAED=0.48;_QI=0|0|0|1|0|0|2|0|73
tig0023613 exon 60984 61065 60984 ID=Msa1410100-mRNA-1:exon:26389;Parent=Msa1410100-mRNA-1
tig0023613 exon 60785 60924 60785 ID=Msa1410100-mRNA-1:exon:26388;Parent=Msa1410100-mRNA-1
tig0023613 CDS 60984 61065 60984 ID=Msa1410100-mRNA-1:cds;Parent=Msa1410100-mRNA-1
tig0023613 CDS 60785 60924 60785 ID=Msa1410100-mRNA-1:cds;Parent=Msa1410100-mRNA-1
Gene Sequence

>Msa1410100

ATGGAAATACTTGAACAAAATATGGGTGGGATACTTTTGAAGCTTTACATGATCTTTATGGTGAGCTTCTTGATAAGTCAAGATTCAAATCCGAGATTCACGAGTTACGTGATATTTATTGAAGACCTGGTAGAGCAGTTTTCTGCCATATCTTATGGTGATTTGATTTTTGCTCGGAAAATTTCACTATATTTACACCGCTATGTTGAAACTTCTATTTAA

Protein sequence

>Msa1410100

MEILEQNMGGILLKLYMIFMVSFLISQDSNPRFTSYVIFIEDLVEQFSAISYGDLIFARKISLYLHRYVETSI*