AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene045264

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene045264.t1 MTR_3g085510 98.925 93 1 0 1 93 1 93 2.23e-64 189
MS.gene045264.t1 MTR_8g080380 78.495 93 20 0 1 93 92 184 3.90e-52 161
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene045264.t1 AT4G40042 79.747 79 16 0 1 79 1 79 1.26e-43 137
MS.gene045264.t1 AT2G22425 71.591 88 25 0 1 88 1 88 1.76e-41 131
MS.gene045264.t1 AT2G22425 71.591 88 25 0 1 88 1 88 1.76e-41 131

Find 24 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGAGGATGGCGGTTGAAAA+AGG 0.272451 3.2:-73334697 None:intergenic
CATTGGTGACTGTCCCAAAT+TGG 0.297025 3.2:+73334673 MS.gene045264:CDS
GCATTTGCTGTGGTTGCATT+TGG 0.308000 3.2:+73334582 MS.gene045264:CDS
TTCTTCTTTGAATTCACAAT+AGG 0.417935 3.2:-73334771 None:intergenic
GAAGAAACCCATTAAGAAGT+AGG 0.438658 3.2:+73334788 MS.gene045264:CDS
TCTGCATTAGCTTCTCTGCT+AGG 0.440951 3.2:-73334548 None:intergenic
ATAGGAGATAGCTGTGGCTT+CGG 0.450784 3.2:-73334753 None:intergenic
GCTGTGGTTGCATTTGGAAC+GGG 0.459654 3.2:+73334588 MS.gene045264:CDS
TGCTGTGGTTGCATTTGGAA+CGG 0.510809 3.2:+73334587 MS.gene045264:CDS
AAGAAACCCATTAAGAAGTA+GGG 0.531311 3.2:+73334789 MS.gene045264:CDS
TTCATCAGATGGATTGGCAA+GGG 0.536217 3.2:+73334520 None:intergenic
CCGCCATCCTCTCAAGTGGT+TGG 0.536748 3.2:+73334707 MS.gene045264:CDS
TCAACCGCCATCCTCTCAAG+TGG 0.553865 3.2:+73334703 MS.gene045264:CDS
GATCCAACCACTTGAGAGGA+TGG 0.566183 3.2:-73334710 None:intergenic
CTTCATCAGATGGATTGGCA+AGG 0.566563 3.2:+73334519 None:intergenic
CTTGGATCCAACCACTTGAG+AGG 0.567895 3.2:-73334714 None:intergenic
AATGTTGCTTGCATTTGCTG+TGG 0.601891 3.2:+73334572 MS.gene045264:CDS
ACGATGATGCTCATATATGC+TGG 0.624836 3.2:+73334633 MS.gene045264:CDS
TGGTGTTGTTCTCACCACAT+TGG 0.662379 3.2:+73334656 MS.gene045264:CDS
CAAGTGGTTGGATCCAAGTG+AGG 0.664517 3.2:+73334719 MS.gene045264:CDS
ATGATGCTCATATATGCTGG+TGG 0.699379 3.2:+73334636 MS.gene045264:CDS
CCAACCACTTGAGAGGATGG+CGG 0.730520 3.2:-73334707 None:intergenic
ATTTGGGACAGTCACCAATG+TGG 0.730637 3.2:-73334670 None:intergenic
TTCACAATAGGAGATAGCTG+TGG 0.732645 3.2:-73334759 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTCTTCTTTGAATTCACAAT+AGG - chr3.2:73334774-73334793 None:intergenic 25.0%
ACGATGATGCTCATATATGC+TGG + chr3.2:73334633-73334652 MS.gene045264:CDS 40.0%
ATGATGCTCATATATGCTGG+TGG + chr3.2:73334636-73334655 MS.gene045264:CDS 40.0%
GGTTGAAAAAGGGCCAATTT+GGG - chr3.2:73334689-73334708 None:intergenic 40.0%
TTCACAATAGGAGATAGCTG+TGG - chr3.2:73334762-73334781 None:intergenic 40.0%
! AATGTTGCTTGCATTTGCTG+TGG + chr3.2:73334572-73334591 MS.gene045264:CDS 40.0%
ATAGGAGATAGCTGTGGCTT+CGG - chr3.2:73334756-73334775 None:intergenic 45.0%
CGGTTGAAAAAGGGCCAATT+TGG - chr3.2:73334690-73334709 None:intergenic 45.0%
TGCTGTGGTTGCATTTGGAA+CGG + chr3.2:73334587-73334606 MS.gene045264:CDS 45.0%
! AGAGGATGGCGGTTGAAAAA+GGG - chr3.2:73334699-73334718 None:intergenic 45.0%
! ATTTGGGACAGTCACCAATG+TGG - chr3.2:73334673-73334692 None:intergenic 45.0%
! CATTGGTGACTGTCCCAAAT+TGG + chr3.2:73334673-73334692 MS.gene045264:CDS 45.0%
! GGATGCTTTTCTACCTCACT+TGG - chr3.2:73334735-73334754 None:intergenic 45.0%
! TCTGCATTAGCTTCTCTGCT+AGG - chr3.2:73334551-73334570 None:intergenic 45.0%
!! GCATTTGCTGTGGTTGCATT+TGG + chr3.2:73334582-73334601 MS.gene045264:CDS 45.0%
!! TGGTGTTGTTCTCACCACAT+TGG + chr3.2:73334656-73334675 MS.gene045264:CDS 45.0%
CAAGTGGTTGGATCCAAGTG+AGG + chr3.2:73334719-73334738 MS.gene045264:CDS 50.0%
CTTGGATCCAACCACTTGAG+AGG - chr3.2:73334717-73334736 None:intergenic 50.0%
GATCCAACCACTTGAGAGGA+TGG - chr3.2:73334713-73334732 None:intergenic 50.0%
! GAGAGGATGGCGGTTGAAAA+AGG - chr3.2:73334700-73334719 None:intergenic 50.0%
! GCTGTGGTTGCATTTGGAAC+GGG + chr3.2:73334588-73334607 MS.gene045264:CDS 50.0%
CCAACCACTTGAGAGGATGG+CGG - chr3.2:73334710-73334729 None:intergenic 55.0%
TCAACCGCCATCCTCTCAAG+TGG + chr3.2:73334703-73334722 MS.gene045264:CDS 55.0%
CCGCCATCCTCTCAAGTGGT+TGG + chr3.2:73334707-73334726 MS.gene045264:CDS 60.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 73334528 73334809 73334528 ID=MS.gene045264
chr3.2 mRNA 73334528 73334809 73334528 ID=MS.gene045264.t1;Parent=MS.gene045264
chr3.2 exon 73334528 73334809 73334528 ID=MS.gene045264.t1.exon1;Parent=MS.gene045264.t1
chr3.2 CDS 73334528 73334809 73334528 ID=cds.MS.gene045264.t1;Parent=MS.gene045264.t1
Gene Sequence

>MS.gene045264

ATGGATTGGCAAGGGCAAAACCTAGCAGAGAAGCTAATGCAGATAATGTTGCTTGCATTTGCTGTGGTTGCATTTGGAACGGGATATCTTACAGCTTCTTTCAAGACGATGATGCTCATATATGCTGGTGGTGTTGTTCTCACCACATTGGTGACTGTCCCAAATTGGCCCTTTTTCAACCGCCATCCTCTCAAGTGGTTGGATCCAAGTGAGGTAGAAAAGCATCCGAAGCCACAGCTATCTCCTATTGTGAATTCAAAGAAGAAACCCATTAAGAAGTAG
Protein sequence

>MS.gene045264.t1

MDWQGQNLAEKLMQIMLLAFAVVAFGTGYLTASFKTMMLIYAGGVVLTTLVTVPNWPFFNRHPLKWLDPSEVEKHPKPQLSPIVNSKKKPIKK