AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene80090

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene80090.t1 MTR_1g105010 54.737 95 39 1 3 97 2 92 2.05e-28 102
MS.gene80090.t1 MTR_7g089490 52.809 89 41 1 1 89 1 88 7.75e-22 85.5
MS.gene80090.t1 MTR_1g105955 48.611 72 37 0 11 82 10 81 4.70e-16 72.0
MS.gene80090.t1 MTR_1g105955 46.269 67 36 0 15 81 93 159 1.40e-12 62.8
MS.gene80090.t1 MTR_3g006125 44.578 83 45 1 11 92 174 256 6.72e-15 70.1
MS.gene80090.t1 MTR_5g036670 41.558 77 45 0 9 85 35 111 2.04e-14 70.1
MS.gene80090.t1 MTR_3g006185 45.122 82 44 1 12 92 93 174 4.37e-14 66.6
MS.gene80090.t1 MTR_8g062700 42.308 78 44 1 8 85 34 110 1.28e-13 67.8
MS.gene80090.t1 MTR_8g062700 42.308 78 44 1 8 85 34 110 1.29e-13 67.8
MS.gene80090.t1 MTR_4g133470 40.187 107 60 2 16 121 88 191 2.59e-13 65.9
MS.gene80090.t1 MTR_4g133470 42.424 66 38 0 20 85 175 240 5.31e-11 59.3
MS.gene80090.t1 MTR_1g105960 41.558 77 44 1 18 93 2 78 6.89e-13 61.6
MS.gene80090.t1 MTR_4g133300 38.318 107 62 2 16 121 88 191 1.13e-12 63.9
MS.gene80090.t1 MTR_4g133300 42.424 66 38 0 20 85 175 240 5.86e-11 59.3
MS.gene80090.t1 MTR_3g006105 42.169 83 47 1 11 92 93 175 2.40e-12 62.0
MS.gene80090.t1 MTR_1g104940 50.000 62 31 0 17 78 14 75 5.05e-12 59.7
MS.gene80090.t1 MTR_1g104937 46.875 64 34 0 15 78 10 73 5.84e-12 59.3
MS.gene80090.t1 MTR_6g008970 41.176 68 40 0 13 80 59 126 2.42e-11 61.2
MS.gene80090.t1 MTR_1g104960 45.902 61 33 0 18 78 100 160 2.86e-11 58.9
MS.gene80090.t1 MTR_1g104960 46.774 62 33 0 17 78 13 74 4.60e-11 58.5
MS.gene80090.t1 MTR_1g104980 48.276 58 30 0 21 78 3 60 7.75e-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
MS.gene80090.t1 AT3G01320 36.667 90 57 0 13 102 53 142 2.88e-13 67.0
MS.gene80090.t1 AT3G01320 36.667 90 57 0 13 102 53 142 3.00e-13 67.0
MS.gene80090.t1 AT1G70060 38.889 90 54 1 5 94 3 91 1.82e-12 64.7
MS.gene80090.t1 AT1G70060 38.889 90 54 1 5 94 3 91 1.82e-12 64.7
MS.gene80090.t1 AT1G24190 39.474 76 45 1 5 80 3 77 7.06e-12 62.8
MS.gene80090.t1 AT1G24190 39.474 76 45 1 5 80 3 77 7.99e-12 62.8
MS.gene80090.t1 AT1G24190 39.474 76 45 1 5 80 3 77 8.22e-12 62.8
MS.gene80090.t1 AT5G15040 42.188 64 37 0 15 78 1 64 1.85e-11 57.4
MS.gene80090.t1 AT5G15040 42.188 64 37 0 15 78 1 64 1.85e-11 57.4
MS.gene80090.t1 AT5G15040 42.188 64 37 0 15 78 1 64 1.85e-11 57.4
MS.gene80090.t1 AT1G27250 34.667 75 49 0 6 80 10 84 8.92e-11 57.0

Find 15 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTCAAGCATTTGATTAAAT+TGG 0.233339 1.1:+75209671 None:intergenic
TAGAGATCTCTTTAGCATTA+AGG 0.235668 1.1:+75209771 None:intergenic
TGACCCTATTTGATCGAGTT+TGG 0.318141 1.1:+75209618 None:intergenic
ATTGCCAAACTCGATCAAAT+AGG 0.324623 1.1:-75209622 MS.gene80090:CDS
AGTTGTGTTTCAAGATAAGA+TGG 0.435039 1.1:-75209920 MS.gene80090:CDS
AAGCAAAACAGCACATCAAA+CGG 0.452640 1.1:-75209720 MS.gene80090:CDS
TTGCCAAACTCGATCAAATA+GGG 0.483923 1.1:-75209621 MS.gene80090:CDS
AGCAAAACAGCACATCAAAC+GGG 0.507498 1.1:-75209719 MS.gene80090:CDS
CAAACGGGATCAATTCAAGT+TGG 0.557542 1.1:-75209704 MS.gene80090:CDS
AAGGATTACAGTGGTGATGC+TGG 0.561781 1.1:-75209994 MS.gene80090:CDS
ACGGGATCAATTCAAGTTGG+AGG 0.562924 1.1:-75209701 MS.gene80090:CDS
AAAATGGAGGAGTTGTTCGA+TGG 0.597043 1.1:-75209823 MS.gene80090:CDS
TCAGAAACTACTAAGCATGA+AGG 0.638522 1.1:-75209971 MS.gene80090:CDS
GCAGAGAACATGAAGAAGCG+AGG 0.677188 1.1:-75209559 MS.gene80090:CDS
CGACTGATGAAGGATTACAG+TGG 0.795711 1.1:-75210003 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGTCAAGCATTTGATTAAAT+TGG + chr1.1:75209863-75209882 None:intergenic 25.0%
!!! GAAAGTTTTGTATGATTTCA+AGG - chr1.1:75209653-75209672 MS.gene80090:CDS 25.0%
AGTTGTGTTTCAAGATAAGA+TGG - chr1.1:75209611-75209630 MS.gene80090:CDS 30.0%
TAGAGATCTCTTTAGCATTA+AGG + chr1.1:75209763-75209782 None:intergenic 30.0%
AAGCAAAACAGCACATCAAA+CGG - chr1.1:75209811-75209830 MS.gene80090:CDS 35.0%
ATTGCCAAACTCGATCAAAT+AGG - chr1.1:75209909-75209928 MS.gene80090:CDS 35.0%
TCAGAAACTACTAAGCATGA+AGG - chr1.1:75209560-75209579 MS.gene80090:CDS 35.0%
TTGCCAAACTCGATCAAATA+GGG - chr1.1:75209910-75209929 MS.gene80090:CDS 35.0%
AAAATGGAGGAGTTGTTCGA+TGG - chr1.1:75209708-75209727 MS.gene80090:CDS 40.0%
AGCAAAACAGCACATCAAAC+GGG - chr1.1:75209812-75209831 MS.gene80090:CDS 40.0%
CAAACGGGATCAATTCAAGT+TGG - chr1.1:75209827-75209846 MS.gene80090:CDS 40.0%
TGACCCTATTTGATCGAGTT+TGG + chr1.1:75209916-75209935 None:intergenic 40.0%
!! AGAAAGTGCCACAGCAAAAA+TGG - chr1.1:75209692-75209711 MS.gene80090:CDS 40.0%
AAGTGCCACAGCAAAAATGG+AGG - chr1.1:75209695-75209714 MS.gene80090:CDS 45.0%
! AAGGATTACAGTGGTGATGC+TGG - chr1.1:75209537-75209556 MS.gene80090:CDS 45.0%
!! ACGGGATCAATTCAAGTTGG+AGG - chr1.1:75209830-75209849 MS.gene80090:CDS 45.0%
!! CAACTCCTCCATTTTTGCTG+TGG + chr1.1:75209703-75209722 None:intergenic 45.0%
GCAGAGAACATGAAGAAGCG+AGG - chr1.1:75209972-75209991 MS.gene80090:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 75209534 75210019 75209534 ID=MS.gene80090
chr1.1 mRNA 75209534 75210019 75209534 ID=MS.gene80090.t1;Parent=MS.gene80090
chr1.1 exon 75209534 75210019 75209534 ID=MS.gene80090.t1.exon1;Parent=MS.gene80090.t1
chr1.1 CDS 75209534 75210019 75209534 ID=cds.MS.gene80090.t1;Parent=MS.gene80090.t1
Gene Sequence

>MS.gene80090

ATGAAGGATTACAGTGGTGATGCTGGTCAGAAACTACTAAGCATGAAGGAAGCATCAGCGTTTGTAAATGATGTAAAAGTTGTGTTTCAAGATAAGATGGAAAAGTATGATGAGTTTGTGAAAGTTTTGTATGATTTCAAGGCTATGAGAATTGATCAAGAAAGTGCCACAGCAAAAATGGAGGAGTTGTTCGATGGACATTCAGATTTGATTATGAAATTAAACTCCTTAATGCTAAAGAGATCTCTAATGACTAACAATGATCATAATGACACTGAAGCAAAACAGCACATCAAACGGGATCAATTCAAGTTGGAGGTAATTGACCAATTTAATCAAATGCTTGACAAACTAGAGAAATTTGAGTTGAAAGTGATTGCCAAACTCGATCAAATAGGGTCAAGTGCTCAACATTCAACTAAAGCAATATTAGACATTGCAGAGAACATGAAGAAGCGAGGCGTGACAAACGTGAGTCAAAAGTGA
Protein sequence

>MS.gene80090.t1

MKDYSGDAGQKLLSMKEASAFVNDVKVVFQDKMEKYDEFVKVLYDFKAMRIDQESATAKMEELFDGHSDLIMKLNSLMLKRSLMTNNDHNDTEAKQHIKRDQFKLEVIDQFNQMLDKLEKFELKVIAKLDQIGSSAQHSTKAILDIAENMKKRGVTNVSQK