AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0289250


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0289250 MtrunA17_Chr1g0160961 74.359 39 10 0 35 73 1382 1420 1.87e-14 66.2
Msa0289250 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 2_3:-35467662 Msa0289250:CDS
GGAAATACTTGAACAAAATA+TGG 0.213077 2_3:-35467698 Msa0289250:CDS
AATCAAATCACCATAAGATA+TGG 0.411090 2_3:+35467496 None:intergenic
ATCACGTAACTCGTGAATCT+CGG 0.478392 2_3:+35467551 None:intergenic
GAAATACTTGAACAAAATAT+GGG 0.498830 2_3:-35467697 Msa0289250:CDS
CGTGATATTTATTGAAGACC+TGG 0.520735 2_3:-35467534 Msa0289250:CDS
GTGAGCTTCTTGATAAGTCA+AGG 0.535389 2_3:-35467640 Msa0289250:intron
TGGCAGAAAACTGCTCTACC+AGG 0.557176 2_3:+35467516 None:intergenic
TACTTGAACAAAATATGGGT+GGG 0.594710 2_3:-35467693 Msa0289250:CDS
ATACTTGAACAAAATATGGG+TGG 0.616313 2_3:-35467694 Msa0289250:CDS
AAATAGAAGTTTCAACATAG+CGG 0.666181 2_3:+35467444 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CAAAATAAACAAGTTATTTT+GGG - chr2_3:35467531-35467550 Msa0289250:CDS 15.0%
!!! AAAATAAACAAGTTATTTTG+GGG - chr2_3:35467532-35467551 Msa0289250:CDS 15.0%
!! GAAATACTTGAACAAAATAT+GGG - chr2_3:35467445-35467464 Msa0289250:CDS 20.0%
!!! CCAAAATAACTTGTTTATTT+TGG + chr2_3:35467533-35467552 None:intergenic 20.0%
!!! CCAAAATAAACAAGTTATTT+TGG - chr2_3:35467530-35467549 Msa0289250:CDS 20.0%
! GGAAATACTTGAACAAAATA+TGG - chr2_3:35467444-35467463 Msa0289250:CDS 25.0%
! AATCAAATCACCATAAGATA+TGG + chr2_3:35467649-35467668 None:intergenic 25.0%
! AAATAGAAGTTTCAACATAG+CGG + chr2_3:35467701-35467720 None:intergenic 25.0%
ATACTTGAACAAAATATGGG+TGG - chr2_3:35467448-35467467 Msa0289250:CDS 30.0%
TACTTGAACAAAATATGGGT+GGG - chr2_3:35467449-35467468 Msa0289250:CDS 30.0%
GAAGCTTTACATGATCTTTA+TGG - chr2_3:35467480-35467499 Msa0289250:CDS 30.0%
!! ATGGTGATTTGATTTTTGCT+CGG - chr2_3:35467655-35467674 Msa0289250:CDS 30.0%
CGTGATATTTATTGAAGACC+TGG - chr2_3:35467608-35467627 Msa0289250:intron 35.0%
! CAGTTTTCTGCCATATCTTA+TGG - chr2_3:35467636-35467655 Msa0289250:intron 35.0%
GTGAGCTTCTTGATAAGTCA+AGG - chr2_3:35467502-35467521 Msa0289250:CDS 40.0%
ATCACGTAACTCGTGAATCT+CGG + chr2_3:35467594-35467613 None:intergenic 40.0%
TGGCAGAAAACTGCTCTACC+AGG + chr2_3:35467629-35467648 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
chr2_3 gene 35467442 35467722 35467442 ID=Msa0289250;Name=Msa0289250
chr2_3 mRNA 35467442 35467722 35467442 ID=Msa0289250-mRNA-1;Parent=Msa0289250;Name=Msa0289250-mRNA-1;_AED=0.48;_eAED=0.48;_QI=0|0|0|1|0|0|2|0|73
chr2_3 exon 35467641 35467722 35467641 ID=Msa0289250-mRNA-1:exon:11487;Parent=Msa0289250-mRNA-1
chr2_3 exon 35467442 35467581 35467442 ID=Msa0289250-mRNA-1:exon:11486;Parent=Msa0289250-mRNA-1
chr2_3 CDS 35467641 35467722 35467641 ID=Msa0289250-mRNA-1:cds;Parent=Msa0289250-mRNA-1
chr2_3 CDS 35467442 35467581 35467442 ID=Msa0289250-mRNA-1:cds;Parent=Msa0289250-mRNA-1
Gene Sequence

>Msa0289250

ATGGAAATACTTGAACAAAATATGGGTGGGATACTTTTGAAGCTTTACATGATCTTTATGGTGAGCTTCTTGATAAGTCAAGATTCAAATCCGAGATTCACGAGTTACGTGATATTTATTGAAGACCTGGTAGAGCAGTTTTCTGCCATATCTTATGGTGATTTGATTTTTGCTCGGAAAATTTCACTATATTTACACCGCTATGTTGAAACTTCTATTTAA

Protein sequence

>Msa0289250

MEILEQNMGGILLKLYMIFMVSFLISQDSNPRFTSYVIFIEDLVEQFSAISYGDLIFARKISLYLHRYVETSI*