AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene91420

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91420.t1 MTR_1g105010 50.495 101 50 0 3 103 2 102 1.20e-28 102
MS.gene91420.t1 MTR_7g089490 52.809 89 41 1 1 89 1 88 8.18e-22 85.1
MS.gene91420.t1 MTR_1g105955 48.611 72 37 0 11 82 10 81 4.60e-16 72.0
MS.gene91420.t1 MTR_1g105955 46.269 67 36 0 15 81 93 159 1.41e-12 62.8
MS.gene91420.t1 MTR_3g006125 44.578 83 45 1 11 92 174 256 7.29e-15 70.1
MS.gene91420.t1 MTR_5g036670 41.558 77 45 0 9 85 35 111 2.00e-14 70.1
MS.gene91420.t1 MTR_3g006185 45.122 82 44 1 12 92 93 174 4.07e-14 66.6
MS.gene91420.t1 MTR_8g062700 42.308 78 44 1 8 85 34 110 1.41e-13 67.8
MS.gene91420.t1 MTR_8g062700 42.308 78 44 1 8 85 34 110 1.41e-13 67.8
MS.gene91420.t1 MTR_4g133470 40.187 107 60 2 16 121 88 191 2.70e-13 65.9
MS.gene91420.t1 MTR_4g133470 42.424 66 38 0 20 85 175 240 5.75e-11 59.3
MS.gene91420.t1 MTR_1g105960 41.558 77 44 1 18 93 2 78 7.34e-13 61.6
MS.gene91420.t1 MTR_4g133300 38.318 107 62 2 16 121 88 191 1.23e-12 63.9
MS.gene91420.t1 MTR_4g133300 42.424 66 38 0 20 85 175 240 6.55e-11 59.3
MS.gene91420.t1 MTR_3g006105 42.169 83 47 1 11 92 93 175 2.53e-12 62.0
MS.gene91420.t1 MTR_1g104940 50.000 62 31 0 17 78 14 75 5.32e-12 59.7
MS.gene91420.t1 MTR_1g104937 46.875 64 34 0 15 78 10 73 6.92e-12 59.3
MS.gene91420.t1 MTR_6g008970 35.227 88 56 1 13 99 59 146 2.22e-11 61.2
MS.gene91420.t1 MTR_1g104960 45.902 61 33 0 18 78 100 160 2.98e-11 58.9
MS.gene91420.t1 MTR_1g104960 46.774 62 33 0 17 78 13 74 4.89e-11 58.5
MS.gene91420.t1 MTR_1g104980 48.276 58 30 0 21 78 3 60 8.59e-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.gene91420.t1 AT3G01320 36.782 87 55 0 13 99 53 139 6.22e-13 65.9
MS.gene91420.t1 AT3G01320 36.782 87 55 0 13 99 53 139 6.66e-13 65.9
MS.gene91420.t1 AT1G70060 38.889 90 54 1 5 94 3 91 2.10e-12 64.3
MS.gene91420.t1 AT1G70060 38.889 90 54 1 5 94 3 91 2.10e-12 64.3
MS.gene91420.t1 AT1G24190 39.474 76 45 1 5 80 3 77 7.12e-12 62.8
MS.gene91420.t1 AT1G24190 39.474 76 45 1 5 80 3 77 7.61e-12 62.8
MS.gene91420.t1 AT1G24190 39.474 76 45 1 5 80 3 77 7.69e-12 62.8
MS.gene91420.t1 AT5G15040 42.188 64 37 0 15 78 1 64 1.95e-11 57.4
MS.gene91420.t1 AT5G15040 42.188 64 37 0 15 78 1 64 1.95e-11 57.4
MS.gene91420.t1 AT5G15040 42.188 64 37 0 15 78 1 64 1.95e-11 57.4
MS.gene91420.t1 AT1G27250 34.667 75 49 0 6 80 10 84 9.31e-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 1.3:+71710902 None:intergenic
TAGAGATCTCTTTAGCATTA+AGG 0.235668 1.3:+71711002 None:intergenic
TGACCCTATTTGATCGAGTT+TGG 0.318141 1.3:+71710849 None:intergenic
ATTGCCAAACTCGATCAAAT+AGG 0.324623 1.3:-71710853 MS.gene91420:CDS
AGTTGTGTTTCAAGATAAGA+TGG 0.435039 1.3:-71711151 MS.gene91420:CDS
AAGCAAAACAGCACATCAAA+CGG 0.452640 1.3:-71710951 MS.gene91420:CDS
TTGCCAAACTCGATCAAATA+GGG 0.483923 1.3:-71710852 MS.gene91420:CDS
AGCAAAACAGCACATCAAAC+GGG 0.507498 1.3:-71710950 MS.gene91420:CDS
CAAACGGGATCGATTCAAGT+TGG 0.545140 1.3:-71710935 MS.gene91420:CDS
AAGGATTACAGTGGTGATGC+TGG 0.561781 1.3:-71711225 MS.gene91420:CDS
ACGGGATCGATTCAAGTTGG+AGG 0.593315 1.3:-71710932 MS.gene91420:CDS
AAAATGGAGGAGTTGTTCGA+TGG 0.597043 1.3:-71711054 MS.gene91420:CDS
TCAGAAACTACTAAGCATGA+AGG 0.638522 1.3:-71711202 MS.gene91420:CDS
GCAGAGAACATGAAGAAGCG+AGG 0.677188 1.3:-71710790 MS.gene91420:CDS
CGACTGATGAAGGATTACAG+TGG 0.795711 1.3:-71711234 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGTCAAGCATTTGATTAAAT+TGG + chr1.3:71711094-71711113 None:intergenic 25.0%
!!! GAAAGTTTTGTATGATTTCA+AGG - chr1.3:71710884-71710903 MS.gene91420:CDS 25.0%
AGTTGTGTTTCAAGATAAGA+TGG - chr1.3:71710842-71710861 MS.gene91420:CDS 30.0%
TAGAGATCTCTTTAGCATTA+AGG + chr1.3:71710994-71711013 None:intergenic 30.0%
AAGCAAAACAGCACATCAAA+CGG - chr1.3:71711042-71711061 MS.gene91420:CDS 35.0%
ATTGCCAAACTCGATCAAAT+AGG - chr1.3:71711140-71711159 MS.gene91420:CDS 35.0%
TCAGAAACTACTAAGCATGA+AGG - chr1.3:71710791-71710810 MS.gene91420:CDS 35.0%
TTGCCAAACTCGATCAAATA+GGG - chr1.3:71711141-71711160 MS.gene91420:CDS 35.0%
AAAATGGAGGAGTTGTTCGA+TGG - chr1.3:71710939-71710958 MS.gene91420:CDS 40.0%
AGCAAAACAGCACATCAAAC+GGG - chr1.3:71711043-71711062 MS.gene91420:CDS 40.0%
TGACCCTATTTGATCGAGTT+TGG + chr1.3:71711147-71711166 None:intergenic 40.0%
!! AGAAAGTGCCACAGCAAAAA+TGG - chr1.3:71710923-71710942 MS.gene91420:CDS 40.0%
AAGTGCCACAGCAAAAATGG+AGG - chr1.3:71710926-71710945 MS.gene91420:CDS 45.0%
! AAGGATTACAGTGGTGATGC+TGG - chr1.3:71710768-71710787 MS.gene91420:CDS 45.0%
! CAAACGGGATCGATTCAAGT+TGG - chr1.3:71711058-71711077 MS.gene91420:CDS 45.0%
!! CAACTCCTCCATTTTTGCTG+TGG + chr1.3:71710934-71710953 None:intergenic 45.0%
GCAGAGAACATGAAGAAGCG+AGG - chr1.3:71711203-71711222 MS.gene91420:CDS 50.0%
!! ACGGGATCGATTCAAGTTGG+AGG - chr1.3:71711061-71711080 MS.gene91420:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 71710765 71711250 71710765 ID=MS.gene91420
chr1.3 mRNA 71710765 71711250 71710765 ID=MS.gene91420.t1;Parent=MS.gene91420
chr1.3 exon 71710765 71711250 71710765 ID=MS.gene91420.t1.exon1;Parent=MS.gene91420.t1
chr1.3 CDS 71710765 71711250 71710765 ID=cds.MS.gene91420.t1;Parent=MS.gene91420.t1
Gene Sequence

>MS.gene91420

ATGAAGGATTACAGTGGTGATGCTGGTCAGAAACTACTAAGCATGAAGGAAGCATCAGCGTTTGTAAATGATGTAAAAGTTGTGTTTCAAGATAAGATGGAAAAGTATGATGAGTTTGTGAAAGTTTTGTATGATTTCAAGGCTATGAGAATTGATCAAGAAAGTGCCACAGCAAAAATGGAGGAGTTGTTCGATGGACATTCAGATTTGATTATGAAATTAAACTCCTTAATGCTAAAGAGATCTCTAATGACTAACAATGATCATAATGACACTGAAGCAAAACAGCACATCAAACGGGATCGATTCAAGTTGGAGGTAATTGACCAATTTAATCAAATGCTTGACAAACTAGAGAAATTTGAGTTGAAAGTGATTGCCAAACTCGATCAAATAGGGTCAAGTGCTCAACATTCAACTAAAGCAATATTAGACATTGCAGAGAACATGAAGAAGCGAGGCGTGACAAACGTGAGTCAAAAGTGA
Protein sequence

>MS.gene91420.t1

MKDYSGDAGQKLLSMKEASAFVNDVKVVFQDKMEKYDEFVKVLYDFKAMRIDQESATAKMEELFDGHSDLIMKLNSLMLKRSLMTNNDHNDTEAKQHIKRDRFKLEVIDQFNQMLDKLEKFELKVIAKLDQIGSSAQHSTKAILDIAENMKKRGVTNVSQK