AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0233360

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0233360 MtrunA17_Chr2g0280901 90.769 130 4 2 1 130 1 122 5.64e-80 231
Msa0233360 MtrunA17_Chr2g0323271 43.382 136 57 1 1 116 1 136 7.18e-34 117
Msa0233360 MtrunA17_Chr2g0322971 49.153 59 30 0 3 61 29 87 1.48e-13 62.8
Msa0233360 MtrunA17_Chr4g0024021 45.763 59 32 0 5 63 36 94 1.12e-11 58.2
Msa0233360 MtrunA17_Chr4g0002211 46.552 58 31 0 3 60 6 63 5.50e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0233360 AT5G54470.1 52.632 95 45 0 2 96 3 97 5.04e-33 115
Msa0233360 AT4G27310.1 46.226 106 57 0 1 106 1 106 1.32e-32 114
Msa0233360 AT3G21890.1 37.778 90 48 2 4 89 30 115 1.04e-11 58.2
Msa0233360 AT3G21150.1 45.902 61 33 0 1 61 1 61 3.12e-11 58.9
Msa0233360 AT4G15248.1 41.176 68 37 1 5 69 32 99 4.71e-11 56.2

Find 24 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCATTGTTGTTGTTATTGT+TGG 0.313257 2_2:-5691875 None:intergenic
GATTCACAAAACAACTTTGC+TGG 0.324029 2_2:-5691676 None:intergenic
GTGTTAGAGATTGACAAATA+TGG 0.391136 2_2:-5691786 None:intergenic
CAGATCAAGCAAGCCTTTGT+TGG 0.420231 2_2:+5691698 Msa0233360:CDS
GGAGATGGTGGGTACAAACT+TGG 0.425123 2_2:-5691827 None:intergenic
TTTGAAGAACAAGAAGAAAC+TGG 0.439733 2_2:-5692003 None:intergenic
AGATCAAGCAAGCCTTTGTT+GGG 0.466195 2_2:+5691699 Msa0233360:CDS
AAGAAAATCAAGTGGTTCCA+TGG 0.473604 2_2:+5691962 Msa0233360:CDS
TTGTTGGGAATGTGATGCTA+AGG 0.513214 2_2:+5691714 Msa0233360:CDS
CTAACACCTTGGCATGGCAC+TGG 0.516554 2_2:+5691802 Msa0233360:CDS
GAGATGGTGGGTACAAACTT+GGG 0.560143 2_2:-5691826 None:intergenic
GTGATTGCAAAGGGAGATGG+TGG 0.566393 2_2:-5691839 None:intergenic
AGTGACACAGTGATTGCAAA+GGG 0.569368 2_2:-5691848 None:intergenic
GGTGGAGTTGTAGATTTCCA+TGG 0.581275 2_2:-5691979 None:intergenic
TTTGTCAATCTCTAACACCT+TGG 0.584477 2_2:+5691791 Msa0233360:CDS
GAACAAGAAGAAACTGGTGG+TGG 0.609570 2_2:-5691997 None:intergenic
TTGGGTCCAGTGCCATGCCA+AGG 0.611081 2_2:-5691808 None:intergenic
ACAGTGATTGCAAAGGGAGA+TGG 0.619548 2_2:-5691842 None:intergenic
CAGTGACACAGTGATTGCAA+AGG 0.628505 2_2:-5691849 None:intergenic
TAGCATCACATTCCCAACAA+AGG 0.629004 2_2:-5691711 None:intergenic
CAATCTCTAACACCTTGGCA+TGG 0.658549 2_2:+5691796 Msa0233360:CDS
TGATGATGAAGAAAATCAAG+TGG 0.695519 2_2:+5691954 Msa0233360:CDS
GAAGAACAAGAAGAAACTGG+TGG 0.704625 2_2:-5692000 None:intergenic
TGATTGCAAAGGGAGATGGT+GGG 0.733841 2_2:-5691838 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATCATTGTTGTTGTTATTGT+TGG - chr2_2:5691878-5691897 None:intergenic 25.0%
GTGTTAGAGATTGACAAATA+TGG - chr2_2:5691789-5691808 None:intergenic 30.0%
! TGATGATGAAGAAAATCAAG+TGG + chr2_2:5691954-5691973 Msa0233360:CDS 30.0%
TTTGAAGAACAAGAAGAAAC+TGG - chr2_2:5692006-5692025 None:intergenic 30.0%
GATTCACAAAACAACTTTGC+TGG - chr2_2:5691679-5691698 None:intergenic 35.0%
TTTGTCAATCTCTAACACCT+TGG + chr2_2:5691791-5691810 Msa0233360:CDS 35.0%
! TGATGATGATGATGATACTG+AGG + chr2_2:5691924-5691943 Msa0233360:CDS 35.0%
AAGAAAATCAAGTGGTTCCA+TGG + chr2_2:5691962-5691981 Msa0233360:CDS 35.0%
AGATCAAGCAAGCCTTTGTT+GGG + chr2_2:5691699-5691718 Msa0233360:CDS 40.0%
TAGCATCACATTCCCAACAA+AGG - chr2_2:5691714-5691733 None:intergenic 40.0%
TTGTTGGGAATGTGATGCTA+AGG + chr2_2:5691714-5691733 Msa0233360:CDS 40.0%
AGTGACACAGTGATTGCAAA+GGG - chr2_2:5691851-5691870 None:intergenic 40.0%
GAAGAACAAGAAGAAACTGG+TGG - chr2_2:5692003-5692022 None:intergenic 40.0%
CAGATCAAGCAAGCCTTTGT+TGG + chr2_2:5691698-5691717 Msa0233360:CDS 45.0%
CAATCTCTAACACCTTGGCA+TGG + chr2_2:5691796-5691815 Msa0233360:CDS 45.0%
!! GAGATGGTGGGTACAAACTT+GGG - chr2_2:5691829-5691848 None:intergenic 45.0%
TGATTGCAAAGGGAGATGGT+GGG - chr2_2:5691841-5691860 None:intergenic 45.0%
ACAGTGATTGCAAAGGGAGA+TGG - chr2_2:5691845-5691864 None:intergenic 45.0%
CAGTGACACAGTGATTGCAA+AGG - chr2_2:5691852-5691871 None:intergenic 45.0%
GGTGGAGTTGTAGATTTCCA+TGG - chr2_2:5691982-5692001 None:intergenic 45.0%
GAACAAGAAGAAACTGGTGG+TGG - chr2_2:5692000-5692019 None:intergenic 45.0%
!! GGAGATGGTGGGTACAAACT+TGG - chr2_2:5691830-5691849 None:intergenic 50.0%
GTGATTGCAAAGGGAGATGG+TGG - chr2_2:5691842-5691861 None:intergenic 50.0%
CTAACACCTTGGCATGGCAC+TGG + chr2_2:5691802-5691821 Msa0233360:CDS 55.0%
TTGGGTCCAGTGCCATGCCA+AGG - chr2_2:5691811-5691830 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
chr2_2 gene 5691646 5692038 5691646 ID=Msa0233360;Name=Msa0233360
chr2_2 mRNA 5691646 5692038 5691646 ID=Msa0233360-mRNA-1;Parent=Msa0233360;Name=Msa0233360-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|130
chr2_2 exon 5691646 5692038 5691646 ID=Msa0233360-mRNA-1:exon:2496;Parent=Msa0233360-mRNA-1
chr2_2 CDS 5691646 5692038 5691646 ID=Msa0233360-mRNA-1:cds;Parent=Msa0233360-mRNA-1
Gene Sequence

>Msa0233360

ATGAAGAAGAAATGTGAGCTATGCAAAAGTCCAGCAAAGTTGTTTTGTGAATCAGATCAAGCAAGCCTTTGTTGGGAATGTGATGCTAAGGTTCACACTGCAAACTTCATAGTCACAAAGCATCACAGATTTCTTCTCTGCCATATTTGTCAATCTCTAACACCTTGGCATGGCACTGGACCCAAGTTTGTACCCACCATCTCCCTTTGCAATCACTGTGTCACTGCTACCAACAATAACAACAACAATGATGAAGATAATGATCAAGATGATGATGATGATGATGATGATGATACTGAGGATGATGATGATGATGAAGAAAATCAAGTGGTTCCATGGAAATCTACAACTCCACCACCAGTTTCTTCTTGTTCTTCAAATAGTGCAAACTAA
Protein sequence

>Msa0233360

MKKKCELCKSPAKLFCESDQASLCWECDAKVHTANFIVTKHHRFLLCHICQSLTPWHGTGPKFVPTISLCNHCVTATNNNNNNDEDNDQDDDDDDDDDTEDDDDDEENQVVPWKSTTPPPVSSCSSNSAN*