AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1221300

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1221300 MtrunA17_Chr4g0072631 81.707 82 15 0 1 82 10 91 3.18e-43 136
Msa1221300 MtrunA17_Chr7g0258911 78.652 89 13 1 1 89 9 91 7.31e-43 140
Msa1221300 MtrunA17_Chr4g0072611 79.518 83 17 0 7 89 10 92 5.06e-42 138
Msa1221300 MtrunA17_Chr4g0071341 81.579 76 14 0 14 89 17 92 1.37e-37 127
Msa1221300 MtrunA17_Chr4g0072671 84.507 71 11 0 19 89 23 93 1.42e-36 124
Msa1221300 MtrunA17_Chr8g0389641 67.045 88 28 1 3 90 11 97 1.26e-34 119
Msa1221300 MtrunA17_Chr2g0299061 67.816 87 28 0 3 89 7 93 1.41e-34 119
Msa1221300 MtrunA17_Chr8g0377841 77.778 72 16 0 19 90 28 99 1.89e-34 119
Msa1221300 MtrunA17_Chr3g0122021 65.169 89 30 1 2 90 9 96 3.17e-34 118
Msa1221300 MtrunA17_Chr3g0122031 66.667 87 28 1 3 89 10 95 5.47e-34 118
Msa1221300 MtrunA17_Chr4g0072601 66.279 86 28 1 4 89 11 95 7.77e-34 117
Msa1221300 MtrunA17_Chr5g0443391 54.023 87 40 0 3 89 9 95 1.76e-22 88.2
Msa1221300 MtrunA17_Chr3g0096651 57.333 75 32 0 15 89 23 97 2.91e-21 85.1
Msa1221300 MtrunA17_Chr4g0054451 43.182 88 50 0 3 90 15 102 5.24e-21 84.3
Msa1221300 MtrunA17_Chr4g0054431 48.611 72 37 0 19 90 29 100 2.26e-20 82.8
Msa1221300 MtrunA17_Chr8g0390181 54.286 70 30 1 20 89 26 93 8.53e-20 76.6
Msa1221300 MtrunA17_Chr6g0461761 46.154 91 46 1 3 90 10 100 3.70e-18 76.6
Msa1221300 MtrunA17_Chr7g0252601 45.652 92 48 1 3 92 11 102 6.80e-18 75.9
Msa1221300 MtrunA17_Chr7g0252621 43.617 94 51 1 3 94 11 104 7.70e-18 75.9
Msa1221300 MtrunA17_Chr1g0206681 42.169 83 45 1 8 90 23 102 8.10e-18 75.9
Msa1221300 MtrunA17_Chr6g0461731 44.444 90 47 1 3 89 33 122 2.33e-17 74.7
Msa1221300 MtrunA17_Chr7g0252631 47.945 73 38 0 22 94 32 104 3.71e-17 73.9
Msa1221300 MtrunA17_Chr1g0206081 43.011 93 45 1 7 91 12 104 7.93e-17 73.2
Msa1221300 MtrunA17_Chr6g0486581 52.857 70 31 1 20 89 24 91 2.84e-16 71.6
Msa1221300 MtrunA17_Chr2g0323161 43.333 90 49 1 1 90 4 91 3.01e-16 71.6
Msa1221300 MtrunA17_Chr4g0023961 44.156 77 41 1 14 90 19 93 5.36e-15 68.2
Msa1221300 MtrunA17_Chr7g0264731 35.443 79 49 1 15 93 30 106 5.30e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1221300 AT5G57550.1 65.957 94 27 1 2 90 5 98 5.38e-36 123
Msa1221300 AT4G25820.1 71.605 81 23 0 9 89 17 97 1.74e-35 122
Msa1221300 AT4G25810.1 67.045 88 27 1 2 89 8 93 1.85e-34 119
Msa1221300 AT5G57530.1 75.000 72 18 0 18 89 23 94 6.63e-33 115
Msa1221300 AT5G57540.1 76.056 71 17 0 19 89 23 93 1.37e-32 114
Msa1221300 AT5G57560.1 61.798 89 33 1 1 89 3 90 2.55e-32 114
Msa1221300 AT4G14130.1 61.798 89 33 1 2 90 9 96 2.36e-31 111
Msa1221300 AT3G23730.1 60.674 89 34 1 2 90 8 95 4.76e-31 110
Msa1221300 AT4G30270.1 68.493 73 23 0 18 90 20 92 1.00e-30 109
Msa1221300 AT2G18800.1 55.056 89 40 0 1 89 7 95 1.31e-28 105
Msa1221300 AT5G48070.1 56.322 87 37 1 4 89 11 97 1.77e-27 101
Msa1221300 AT4G30290.1 57.303 89 36 2 2 89 5 92 3.08e-20 82.4
Msa1221300 AT4G37800.1 43.182 88 48 1 5 90 15 102 3.11e-19 80.1
Msa1221300 AT4G28850.1 49.383 81 39 1 9 89 16 94 8.92e-19 78.6
Msa1221300 AT4G30280.1 52.874 87 40 1 4 89 11 97 1.16e-18 78.2
Msa1221300 AT1G65310.1 61.111 72 27 1 19 89 26 97 1.63e-18 77.8
Msa1221300 AT5G65730.1 35.632 87 56 0 4 90 17 103 1.71e-18 78.2
Msa1221300 AT1G65310.2 61.111 72 27 1 19 89 48 119 3.41e-18 77.4
Msa1221300 AT2G14620.1 39.326 89 54 0 2 90 17 105 3.05e-17 74.7
Msa1221300 AT1G11545.1 40.449 89 53 0 3 91 19 107 6.65e-17 73.9
Msa1221300 AT5G13870.2 42.697 89 51 0 3 91 13 101 1.07e-16 73.2
Msa1221300 AT5G13870.1 42.697 89 51 0 3 91 13 101 1.07e-16 73.2
Msa1221300 AT5G13870.3 42.697 89 51 0 3 91 13 101 1.07e-16 73.2
Msa1221300 AT2G06850.1 47.143 70 37 0 22 91 35 104 2.61e-14 66.6
Msa1221300 AT4G03210.1 50.943 53 26 0 38 90 43 95 1.18e-13 64.7
Msa1221300 AT4G13090.1 43.056 72 41 0 18 89 28 99 9.95e-13 62.4
Msa1221300 AT4G13080.1 41.176 68 40 0 22 89 39 106 1.17e-12 62.0
Msa1221300 AT3G25050.1 39.706 68 41 0 22 89 35 102 3.13e-12 60.8

Find 21 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGACAAAGCTTCTGGTTC+TGG 0.171186 8_1:+84857687 Msa1221300:CDS
CTTTCTCTTGACAAAGCTTC+TGG 0.235031 8_1:+84857681 Msa1221300:CDS
GCCAAAGAGATATTCATTCT+TGG 0.330231 8_1:-84857718 None:intergenic
GACTATCCTCCTATCTCTAT+TGG 0.358307 8_1:+84857548 Msa1221300:CDS
TCCAAGAATGAATATCTCTT+TGG 0.372292 8_1:+84857717 Msa1221300:CDS
CCCATGTTATATCAAAGTTC+TGG 0.398944 8_1:-84857614 None:intergenic
AGAGATATTCATTCTTGGAT+TGG 0.408705 8_1:-84857713 None:intergenic
ACGGTGCCTGCAGAGTTTCC+AGG 0.472156 8_1:-84857768 None:intergenic
ATGCAGCTCAAGCTTGTACC+TGG 0.480284 8_1:+84857750 Msa1221300:CDS
TGGCAAATGCCAATAGAGAT+AGG 0.490276 8_1:-84857557 None:intergenic
TTCATTACAACATATGCAGC+AGG 0.518113 8_1:+84857582 Msa1221300:CDS
CTTGTACCTGGAAACTCTGC+AGG 0.539694 8_1:+84857762 Msa1221300:CDS
ACCAGAACTTTGATATAACA+TGG 0.548519 8_1:+84857613 Msa1221300:CDS
TTTGATATAACATGGGGAGA+TGG 0.561650 8_1:+84857621 Msa1221300:CDS
TGCATATGTTGTAATGAAAG+TGG 0.604062 8_1:-84857577 None:intergenic
CCAGAACTTTGATATAACAT+GGG 0.609957 8_1:+84857614 Msa1221300:CDS
CGTTGTCAAGTATCTTAGCA+CGG 0.649757 8_1:-84857644 None:intergenic
CAGAACTTTGATATAACATG+GGG 0.667931 8_1:+84857615 Msa1221300:CDS
CAAATGCCAATAGAGATAGG+AGG 0.702437 8_1:-84857554 None:intergenic
ACTTACGTAATAAGCAGTGA+CGG 0.708900 8_1:-84857787 None:intergenic
CGTGCTAAGATACTTGACAA+CGG 0.753379 8_1:+84857645 Msa1221300:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TGCATATGTTGTAATGAAAG+TGG - chr8_1:84857580-84857599 None:intergenic 30.0%
ACCAGAACTTTGATATAACA+TGG + chr8_1:84857613-84857632 Msa1221300:CDS 30.0%
CCAGAACTTTGATATAACAT+GGG + chr8_1:84857614-84857633 Msa1221300:CDS 30.0%
CAGAACTTTGATATAACATG+GGG + chr8_1:84857615-84857634 Msa1221300:CDS 30.0%
AGAGATATTCATTCTTGGAT+TGG - chr8_1:84857716-84857735 None:intergenic 30.0%
TCCAAGAATGAATATCTCTT+TGG + chr8_1:84857717-84857736 Msa1221300:CDS 30.0%
TTCATTACAACATATGCAGC+AGG + chr8_1:84857582-84857601 Msa1221300:CDS 35.0%
CCCATGTTATATCAAAGTTC+TGG - chr8_1:84857617-84857636 None:intergenic 35.0%
TTTGATATAACATGGGGAGA+TGG + chr8_1:84857621-84857640 Msa1221300:CDS 35.0%
GCCAAAGAGATATTCATTCT+TGG - chr8_1:84857721-84857740 None:intergenic 35.0%
ACTTACGTAATAAGCAGTGA+CGG - chr8_1:84857790-84857809 None:intergenic 35.0%
GACTATCCTCCTATCTCTAT+TGG + chr8_1:84857548-84857567 Msa1221300:CDS 40.0%
CAAATGCCAATAGAGATAGG+AGG - chr8_1:84857557-84857576 None:intergenic 40.0%
TGGCAAATGCCAATAGAGAT+AGG - chr8_1:84857560-84857579 None:intergenic 40.0%
CGTTGTCAAGTATCTTAGCA+CGG - chr8_1:84857647-84857666 None:intergenic 40.0%
CGTGCTAAGATACTTGACAA+CGG + chr8_1:84857645-84857664 Msa1221300:CDS 40.0%
CTTTCTCTTGACAAAGCTTC+TGG + chr8_1:84857681-84857700 Msa1221300:CDS 40.0%
!! CTTGACAAAGCTTCTGGTTC+TGG + chr8_1:84857687-84857706 Msa1221300:CDS 45.0%
ATGCAGCTCAAGCTTGTACC+TGG + chr8_1:84857750-84857769 Msa1221300:CDS 50.0%
CTTGTACCTGGAAACTCTGC+AGG + chr8_1:84857762-84857781 Msa1221300:CDS 50.0%
ACGGTGCCTGCAGAGTTTCC+AGG - chr8_1:84857771-84857790 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
chr8_1 gene 84857546 84857842 84857546 ID=Msa1221300;Name=Msa1221300
chr8_1 mRNA 84857546 84857842 84857546 ID=Msa1221300-mRNA-1;Parent=Msa1221300;Name=Msa1221300-mRNA-1;_AED=0.51;_eAED=0.51;_QI=0|-1|0|1|-1|1|1|0|98
chr8_1 exon 84857546 84857842 84857546 ID=Msa1221300-mRNA-1:exon:30481;Parent=Msa1221300-mRNA-1
chr8_1 CDS 84857546 84857842 84857546 ID=Msa1221300-mRNA-1:cds;Parent=Msa1221300-mRNA-1
Gene Sequence

>Msa1221300

ATGACTATCCTCCTATCTCTATTGGCATTTGCCACTTTCATTACAACATATGCAGCAGGAAACTTCTACCAGAACTTTGATATAACATGGGGAGATGGCCGTGCTAAGATACTTGACAACGGTCAACTTCTCACTCTTTCTCTTGACAAAGCTTCTGGTTCTGGATTCCAATCCAAGAATGAATATCTCTTTGGCAACATTGATATGCAGCTCAAGCTTGTACCTGGAAACTCTGCAGGCACCGTCACTGCTTATTACGTAAGTACAAATAATTGTTACTATTGTCTTAACTCTTAA
Protein sequence

>Msa1221300

MTILLSLLAFATFITTYAAGNFYQNFDITWGDGRAKILDNGQLLTLSLDKASGSGFQSKNEYLFGNIDMQLKLVPGNSAGTVTAYYVSTNNCYYCLNS*