AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0191060

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0191060 MtrunA17_Chr2g0280901 91.473 129 4 2 1 129 1 122 2.80e-80 231
Msa0191060 MtrunA17_Chr2g0323271 43.382 136 56 1 1 115 1 136 1.79e-33 116
Msa0191060 MtrunA17_Chr2g0322971 50.000 58 29 0 3 60 29 86 1.46e-13 62.8
Msa0191060 MtrunA17_Chr4g0024021 45.763 59 32 0 5 63 36 94 1.25e-11 57.8
Msa0191060 MtrunA17_Chr4g0002211 46.552 58 31 0 3 60 6 63 4.98e-11 58.2
Msa0191060 MtrunA17_Chr1g0150471 48.276 58 28 2 3 59 4 60 9.83e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0191060 AT5G54470.1 52.632 95 45 0 2 96 3 97 7.33e-33 115
Msa0191060 AT4G27310.1 47.706 109 54 1 1 106 1 109 1.26e-32 114
Msa0191060 AT3G21890.1 37.778 90 48 2 4 89 30 115 9.46e-12 58.2
Msa0191060 AT3G21150.1 45.902 61 33 0 1 61 1 61 3.36e-11 58.5
Msa0191060 AT4G15248.1 41.176 68 37 1 5 69 32 99 4.48e-11 56.6

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_1:-6581678 None:intergenic
GATTCACAAAACAACTTTGC+TGG 0.324029 2_1:-6581479 None:intergenic
GTGTTAGAGATTGACAAATA+TGG 0.391136 2_1:-6581589 None:intergenic
CAGATCAAGCAAGCCTTTGT+TGG 0.420231 2_1:+6581501 Msa0191060:CDS
GGAGATGGTGGGTACAAACT+TGG 0.425123 2_1:-6581630 None:intergenic
TTTGAAGAACAAGAAGAAAC+TGG 0.439733 2_1:-6581803 None:intergenic
AGATCAAGCAAGCCTTTGTT+GGG 0.466195 2_1:+6581502 Msa0191060:CDS
AAGAAAATCAAGTGGTTCCA+TGG 0.473604 2_1:+6581762 Msa0191060:CDS
TTGTTGGGAATGTGATGCTA+AGG 0.513214 2_1:+6581517 Msa0191060:CDS
CTAACACCTTGGCATGGCAC+TGG 0.516554 2_1:+6581605 Msa0191060:CDS
GAGATGGTGGGTACAAACTT+GGG 0.560143 2_1:-6581629 None:intergenic
GTGATTGCAAAGGGAGATGG+TGG 0.566393 2_1:-6581642 None:intergenic
AGTGACACAGTGATTGCAAA+GGG 0.569368 2_1:-6581651 None:intergenic
GGTGGAGTTGTAGATTTCCA+TGG 0.581275 2_1:-6581779 None:intergenic
TTTGTCAATCTCTAACACCT+TGG 0.584477 2_1:+6581594 Msa0191060:CDS
GAACAAGAAGAAACTGGTGG+TGG 0.609570 2_1:-6581797 None:intergenic
TTGGGTCCAGTGCCATGCCA+AGG 0.611081 2_1:-6581611 None:intergenic
ACAGTGATTGCAAAGGGAGA+TGG 0.619548 2_1:-6581645 None:intergenic
CAGTGACACAGTGATTGCAA+AGG 0.628505 2_1:-6581652 None:intergenic
TAGCATCACATTCCCAACAA+AGG 0.629004 2_1:-6581514 None:intergenic
CAATCTCTAACACCTTGGCA+TGG 0.658549 2_1:+6581599 Msa0191060:CDS
TGATGATGAAGAAAATCAAG+TGG 0.695519 2_1:+6581754 Msa0191060:CDS
GAAGAACAAGAAGAAACTGG+TGG 0.704625 2_1:-6581800 None:intergenic
TGATTGCAAAGGGAGATGGT+GGG 0.733841 2_1:-6581641 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATCATTGTTGTTGTTATTGT+TGG - chr2_1:6581681-6581700 None:intergenic 25.0%
GTGTTAGAGATTGACAAATA+TGG - chr2_1:6581592-6581611 None:intergenic 30.0%
! TGATGATGAAGAAAATCAAG+TGG + chr2_1:6581754-6581773 Msa0191060:CDS 30.0%
TTTGAAGAACAAGAAGAAAC+TGG - chr2_1:6581806-6581825 None:intergenic 30.0%
GATTCACAAAACAACTTTGC+TGG - chr2_1:6581482-6581501 None:intergenic 35.0%
TTTGTCAATCTCTAACACCT+TGG + chr2_1:6581594-6581613 Msa0191060:CDS 35.0%
AAGAAAATCAAGTGGTTCCA+TGG + chr2_1:6581762-6581781 Msa0191060:CDS 35.0%
AGATCAAGCAAGCCTTTGTT+GGG + chr2_1:6581502-6581521 Msa0191060:CDS 40.0%
TAGCATCACATTCCCAACAA+AGG - chr2_1:6581517-6581536 None:intergenic 40.0%
TTGTTGGGAATGTGATGCTA+AGG + chr2_1:6581517-6581536 Msa0191060:CDS 40.0%
AGTGACACAGTGATTGCAAA+GGG - chr2_1:6581654-6581673 None:intergenic 40.0%
! TGATGATGATGATGATGCTG+AGG + chr2_1:6581727-6581746 Msa0191060:CDS 40.0%
GAAGAACAAGAAGAAACTGG+TGG - chr2_1:6581803-6581822 None:intergenic 40.0%
CAGATCAAGCAAGCCTTTGT+TGG + chr2_1:6581501-6581520 Msa0191060:CDS 45.0%
CAATCTCTAACACCTTGGCA+TGG + chr2_1:6581599-6581618 Msa0191060:CDS 45.0%
!! GAGATGGTGGGTACAAACTT+GGG - chr2_1:6581632-6581651 None:intergenic 45.0%
TGATTGCAAAGGGAGATGGT+GGG - chr2_1:6581644-6581663 None:intergenic 45.0%
ACAGTGATTGCAAAGGGAGA+TGG - chr2_1:6581648-6581667 None:intergenic 45.0%
CAGTGACACAGTGATTGCAA+AGG - chr2_1:6581655-6581674 None:intergenic 45.0%
GGTGGAGTTGTAGATTTCCA+TGG - chr2_1:6581782-6581801 None:intergenic 45.0%
GAACAAGAAGAAACTGGTGG+TGG - chr2_1:6581800-6581819 None:intergenic 45.0%
!! GGAGATGGTGGGTACAAACT+TGG - chr2_1:6581633-6581652 None:intergenic 50.0%
GTGATTGCAAAGGGAGATGG+TGG - chr2_1:6581645-6581664 None:intergenic 50.0%
CTAACACCTTGGCATGGCAC+TGG + chr2_1:6581605-6581624 Msa0191060:CDS 55.0%
TTGGGTCCAGTGCCATGCCA+AGG - chr2_1:6581614-6581633 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
chr2_1 gene 6581449 6581838 6581449 ID=Msa0191060;Name=Msa0191060
chr2_1 mRNA 6581449 6581838 6581449 ID=Msa0191060-mRNA-1;Parent=Msa0191060;Name=Msa0191060-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|129
chr2_1 exon 6581449 6581838 6581449 ID=Msa0191060-mRNA-1:exon:2936;Parent=Msa0191060-mRNA-1
chr2_1 CDS 6581449 6581838 6581449 ID=Msa0191060-mRNA-1:cds;Parent=Msa0191060-mRNA-1
Gene Sequence

>Msa0191060

ATGAAGAAGAAATGTGAGCTATGCAAAAGTCCAGCAAAGTTGTTTTGTGAATCAGATCAAGCAAGCCTTTGTTGGGAATGTGATGCTAAGGTTCACACTGCAAACTTCATAGTCACAAAGCATCACAGATTTCTTCTCTGCCATATTTGTCAATCTCTAACACCTTGGCATGGCACTGGACCCAAGTTTGTACCCACCATCTCCCTTTGCAATCACTGTGTCACTGCTACCAACAATAACAACAACAATGATGAAGATAATGATCAAGATGATGATGATGATGATGATGATGATGCTGAGGATGATGATGATGAAGAAAATCAAGTGGTTCCATGGAAATCTACAACTCCACCACCAGTTTCTTCTTGTTCTTCAAATAGTGCAAACTAA
Protein sequence

>Msa0191060

MKKKCELCKSPAKLFCESDQASLCWECDAKVHTANFIVTKHHRFLLCHICQSLTPWHGTGPKFVPTISLCNHCVTATNNNNNNDEDNDQDDDDDDDDDAEDDDDEENQVVPWKSTTPPPVSSCSSNSAN*