AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene020457

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene020457.t1 MTR_5g036670 95.789 95 4 0 3 97 77 171 6.59e-56 189
MS.gene020457.t1 MTR_8g062700 70.526 95 28 0 3 97 76 170 1.11e-38 140
MS.gene020457.t1 MTR_8g062700 70.526 95 28 0 3 97 76 170 1.13e-38 140
MS.gene020457.t1 MTR_6g008970 67.368 95 31 0 3 97 97 191 1.00e-35 132
MS.gene020457.t1 MTR_6g008995 65.263 95 31 2 3 97 14 106 6.12e-32 119
MS.gene020457.t1 MTR_6g008995 65.263 95 31 2 3 97 71 163 1.11e-31 119
MS.gene020457.t1 MTR_1g023820 100.000 36 0 0 3 38 21 56 3.10e-19 79.3
MS.gene020457.t1 MTR_7g013410 44.444 90 39 3 3 89 32 113 2.42e-16 72.4
MS.gene020457.t1 MTR_1g105955 42.529 87 43 2 1 87 48 127 4.97e-13 64.3
MS.gene020457.t1 MTR_8g062350 31.429 140 53 3 8 108 53 188 2.15e-12 63.2
MS.gene020457.t1 MTR_1g105960 56.818 44 19 0 3 46 35 78 4.98e-12 60.1
MS.gene020457.t1 MTR_4g133470 36.082 97 56 1 3 99 43 133 5.59e-12 62.8
MS.gene020457.t1 MTR_0091s0080 37.333 75 43 2 106 180 403 473 7.65e-12 63.2
MS.gene020457.t1 MTR_4g133300 36.082 97 56 1 3 99 43 133 7.78e-12 62.4
MS.gene020457.t1 MTR_1g104960 31.343 134 81 4 3 132 47 173 1.17e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene020457.t1 AT1G70060 73.958 96 24 1 3 97 48 143 1.40e-39 143
MS.gene020457.t1 AT1G70060 73.958 96 24 1 3 97 48 143 1.40e-39 143
MS.gene020457.t1 AT1G24190 72.632 95 26 0 3 97 48 142 1.24e-38 140
MS.gene020457.t1 AT1G24190 72.632 95 26 0 3 97 48 142 1.29e-38 140
MS.gene020457.t1 AT1G24190 72.632 95 26 0 3 97 48 142 1.32e-38 140
MS.gene020457.t1 AT5G15020 64.894 94 31 1 4 97 87 178 5.68e-32 121
MS.gene020457.t1 AT5G15020 64.894 94 31 1 4 97 87 178 5.69e-32 121
MS.gene020457.t1 AT3G01320 64.211 95 33 1 3 97 91 184 1.13e-31 120
MS.gene020457.t1 AT3G01320 64.211 95 33 1 3 97 91 184 1.17e-31 120
MS.gene020457.t1 AT1G59890 62.105 95 34 1 3 97 79 171 2.67e-31 119
MS.gene020457.t1 AT1G59890 62.105 95 34 1 3 97 79 171 2.89e-31 119
MS.gene020457.t1 AT1G59890 62.105 95 34 1 3 97 79 171 2.89e-31 119
MS.gene020457.t1 AT1G59890 62.105 95 34 1 3 97 79 171 3.40e-31 119
MS.gene020457.t1 AT1G10450 60.000 95 36 1 3 97 118 210 8.78e-31 118
MS.gene020457.t1 AT1G10450 60.000 95 36 1 3 97 67 159 8.82e-31 118
MS.gene020457.t1 AT1G10450 60.000 95 36 1 3 97 67 159 8.82e-31 118
MS.gene020457.t1 AT1G24200 57.895 95 37 1 3 97 48 139 7.81e-30 108
MS.gene020457.t1 AT1G70030 52.222 90 41 2 8 97 50 137 1.00e-22 89.4
MS.gene020457.t1 AT5G35610 40.000 115 53 4 3 106 44 153 1.09e-15 70.9
MS.gene020457.t1 AT1G27280 35.455 110 66 2 2 110 114 219 6.62e-14 67.8
MS.gene020457.t1 AT1G24230 35.514 107 60 4 3 108 120 218 1.70e-13 67.0
MS.gene020457.t1 AT1G70030 50.000 72 33 2 8 77 61 131 1.99e-12 62.0
MS.gene020457.t1 AT1G70030 56.140 57 24 1 8 64 61 116 3.67e-12 60.8

Find 44 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCATGTTTACAAGTCATTTA+TGG 0.140196 3.3:-82372200 MS.gene020457:CDS
CTCATGGCCCTTTGGCAAAA+AGG 0.248205 3.3:+82372432 None:intergenic
CATATTGAATACGTACAAAA+AGG 0.334438 3.3:-82372176 MS.gene020457:CDS
TTCATCTGTGTCGTGTTGAT+TGG 0.378078 3.3:-82371965 MS.gene020457:CDS
TCTTTGTAGACCAGGGTGAT+AGG 0.392252 3.3:+82372145 None:intergenic
AAGTTAACCATTACTTTATG+AGG 0.408474 3.3:-82371763 MS.gene020457:CDS
TTGTATGAGTGCACTGCAAA+GGG 0.421632 3.3:+82371834 None:intergenic
TCGTGTTGATTGGCGGTGAC+TGG 0.441416 3.3:-82371955 MS.gene020457:CDS
GAGTTATGTGAACACGATAA+AGG 0.446913 3.3:-82372344 MS.gene020457:intron
AGGGTAATCTCATGGCCCTT+TGG 0.451315 3.3:+82372424 None:intergenic
ACTCGGCATCAGTGGGGAAG+GGG 0.451431 3.3:-82371885 MS.gene020457:CDS
ACTGCAAAGGGGTATGTCTC+AGG 0.456330 3.3:+82371846 None:intergenic
TGGTTGAGGTTGCTCATCCT+CGG 0.459938 3.3:+82372396 None:intergenic
CAGGTACTTTCCCTCTTGGT+AGG 0.460534 3.3:+82371737 None:intergenic
GGTCATAGAGACTTGATCTT+GGG 0.467943 3.3:-82372463 MS.gene020457:CDS
CACATACCTCTTTGTAGACC+AGG 0.470385 3.3:+82372137 None:intergenic
ACATCAGGTACTTTCCCTCT+TGG 0.471918 3.3:+82371733 None:intergenic
TTTATGCAGACTCGGTTTCA+GGG 0.487740 3.3:-82372229 MS.gene020457:intron
AAACTCGGCATCAGTGGGGA+AGG 0.492373 3.3:-82371887 MS.gene020457:CDS
CTATAAAACTCGGCATCAGT+GGG 0.502922 3.3:-82371892 MS.gene020457:CDS
AGGTACTTTCCCTCTTGGTA+GGG 0.505190 3.3:+82371738 None:intergenic
GCTATAAAACTCGGCATCAG+TGG 0.506265 3.3:-82371893 MS.gene020457:CDS
ATCTGTGTCGTGTTGATTGG+CGG 0.509936 3.3:-82371962 MS.gene020457:CDS
AGGTCATAGAGACTTGATCT+TGG 0.513611 3.3:-82372464 MS.gene020457:CDS
CTCGGCATCAGTGGGGAAGG+GGG 0.515169 3.3:-82371884 MS.gene020457:CDS
AACTCGGCATCAGTGGGGAA+GGG 0.528339 3.3:-82371886 MS.gene020457:CDS
TTGCTCATCCTCGGACGAAA+GGG 0.539598 3.3:+82372405 None:intergenic
CTTGTATGAGTGCACTGCAA+AGG 0.547650 3.3:+82371833 None:intergenic
GTTGCTCATCCTCGGACGAA+AGG 0.549267 3.3:+82372404 None:intergenic
TATATTCATCCTTCGAGCAA+TGG 0.563072 3.3:-82371809 MS.gene020457:CDS
CGGACGAAAGGGTAATCTCA+TGG 0.581909 3.3:+82372416 None:intergenic
TGAGATTACCCTTTCGTCCG+AGG 0.584557 3.3:-82372413 MS.gene020457:CDS
GTTGGTCATGCTATAAAACT+CGG 0.605058 3.3:-82371902 MS.gene020457:CDS
TCATTGACACCATTGCTCGA+AGG 0.620805 3.3:+82371800 None:intergenic
TAGGGCACCTCATAAAGTAA+TGG 0.626853 3.3:+82371756 None:intergenic
ATTTGTAGAGTTGATACTGA+TGG 0.633224 3.3:-82372517 MS.gene020457:intron
TATGAGGTGCCCTACCAAGA+GGG 0.635144 3.3:-82371747 MS.gene020457:CDS
GGAAAGTAAGCCTATCACCC+TGG 0.646683 3.3:-82372155 MS.gene020457:CDS
TTATGAGGTGCCCTACCAAG+AGG 0.660657 3.3:-82371748 MS.gene020457:CDS
TATCACCCTGGTCTACAAAG+AGG 0.680013 3.3:-82372143 MS.gene020457:intron
ACATACCTCTTTGTAGACCA+GGG 0.680303 3.3:+82372138 None:intergenic
TGGTGTCATTGAAAGAGTGA+AGG 0.685356 3.3:-82372497 MS.gene020457:CDS
TGTATGAGTGCACTGCAAAG+GGG 0.718580 3.3:+82371835 None:intergenic
TATAAAACTCGGCATCAGTG+GGG 0.747744 3.3:-82371891 MS.gene020457:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GTTGTTTTTGTATATATATT+GGG - chr3.3:82371748-82371767 MS.gene020457:CDS 15.0%
!! ATATATATACAAAAACAACG+TGG + chr3.3:82371747-82371766 None:intergenic 20.0%
!!! AATTGATTTGTTTATCCTTT+TGG - chr3.3:82371797-82371816 MS.gene020457:CDS 20.0%
!!! CGTTGTTTTTGTATATATAT+TGG - chr3.3:82371747-82371766 MS.gene020457:CDS 20.0%
!!! TAAAATTCAACCTTCTTTTT+TGG + chr3.3:82371967-82371986 None:intergenic 20.0%
! AAGTTAACCATTACTTTATG+AGG - chr3.3:82372577-82372596 MS.gene020457:intron 25.0%
! CATATTGAATACGTACAAAA+AGG - chr3.3:82372164-82372183 MS.gene020457:CDS 25.0%
! TAGAATGTTTGTGAGTTTAA+TGG - chr3.3:82372020-82372039 MS.gene020457:intron 25.0%
! TCATGTTTACAAGTCATTTA+TGG - chr3.3:82372140-82372159 MS.gene020457:intron 25.0%
! TTTGTATATATATTGGGAGA+GGG - chr3.3:82371754-82371773 MS.gene020457:CDS 25.0%
!! TTTTGTATATATATTGGGAG+AGG - chr3.3:82371753-82371772 MS.gene020457:CDS 25.0%
!!! AGTTTTAGTTTTGAGCTTAA+TGG - chr3.3:82372082-82372101 MS.gene020457:intron 25.0%
! ATTTAACACCTTTTTGCCAA+AGG - chr3.3:82371900-82371919 MS.gene020457:CDS 30.0%
! TTTAACACCTTTTTGCCAAA+GGG - chr3.3:82371901-82371920 MS.gene020457:CDS 30.0%
!! ATTTGTAGAGTTGATACTGA+TGG - chr3.3:82371823-82371842 MS.gene020457:CDS 30.0%
AACTCTACAAATGCACCAAA+AGG + chr3.3:82371815-82371834 None:intergenic 35.0%
ATAAACCCTTCAAGAAGATC+CGG + chr3.3:82372356-82372375 None:intergenic 35.0%
GAGTTATGTGAACACGATAA+AGG - chr3.3:82371996-82372015 MS.gene020457:intron 35.0%
GTCAGGAAAATCTGTAATGT+TGG - chr3.3:82372234-82372253 MS.gene020457:intron 35.0%
GTTGGTCATGCTATAAAACT+CGG - chr3.3:82372438-82372457 MS.gene020457:CDS 35.0%
TATATTCATCCTTCGAGCAA+TGG - chr3.3:82372531-82372550 MS.gene020457:intron 35.0%
! AGAGTGAAGGAACTTTTTAG+AGG - chr3.3:82371856-82371875 MS.gene020457:CDS 35.0%
!!! TCAACCTTCTTTTTTGGTTG+AGG + chr3.3:82371961-82371980 None:intergenic 35.0%
AATCATGATTGCACTTCTCC+AGG - chr3.3:82372307-82372326 MS.gene020457:intron 40.0%
ACATACCTCTTTGTAGACCA+GGG + chr3.3:82372205-82372224 None:intergenic 40.0%
AGGTCATAGAGACTTGATCT+TGG - chr3.3:82371876-82371895 MS.gene020457:CDS 40.0%
CACAGCAATATGTCAAGTAC+TGG + chr3.3:82372276-82372295 None:intergenic 40.0%
CTATAAAACTCGGCATCAGT+GGG - chr3.3:82372448-82372467 MS.gene020457:CDS 40.0%
GAAACCGAGTCTGCATAAAA+AGG + chr3.3:82372110-82372129 None:intergenic 40.0%
GCAACCTCAACCAAAAAAGA+AGG - chr3.3:82371954-82371973 MS.gene020457:CDS 40.0%
GGTCATAGAGACTTGATCTT+GGG - chr3.3:82371877-82371896 MS.gene020457:CDS 40.0%
TAAACCCTTCAAGAAGATCC+GGG + chr3.3:82372355-82372374 None:intergenic 40.0%
TATAAAACTCGGCATCAGTG+GGG - chr3.3:82372449-82372468 MS.gene020457:CDS 40.0%
TTGTATGAGTGCACTGCAAA+GGG + chr3.3:82372509-82372528 None:intergenic 40.0%
! AGGTATGTGCTGTTATAGTC+AGG - chr3.3:82372217-82372236 MS.gene020457:CDS 40.0%
! GGTTCCTTTTTATGCAGACT+CGG - chr3.3:82372103-82372122 MS.gene020457:intron 40.0%
! GTGTTGCGTAATTTTCGTGT+TGG - chr3.3:82372420-82372439 MS.gene020457:CDS 40.0%
! TAGGGCACCTCATAAAGTAA+TGG + chr3.3:82372587-82372606 None:intergenic 40.0%
! TTCATCTGTGTCGTGTTGAT+TGG - chr3.3:82372375-82372394 MS.gene020457:CDS 40.0%
! TTTATGCAGACTCGGTTTCA+GGG - chr3.3:82372111-82372130 MS.gene020457:intron 40.0%
!! AGCAATATGTCAAGTACTGG+AGG + chr3.3:82372273-82372292 None:intergenic 40.0%
!! TGGTGTCATTGAAAGAGTGA+AGG - chr3.3:82371843-82371862 MS.gene020457:CDS 40.0%
!! TTTTATGCAGACTCGGTTTC+AGG - chr3.3:82372110-82372129 MS.gene020457:intron 40.0%
AGGTACTTTCCCTCTTGGTA+GGG + chr3.3:82372605-82372624 None:intergenic 45.0%
CACATACCTCTTTGTAGACC+AGG + chr3.3:82372206-82372225 None:intergenic 45.0%
CTTGTATGAGTGCACTGCAA+AGG + chr3.3:82372510-82372529 None:intergenic 45.0%
GCTATAAAACTCGGCATCAG+TGG - chr3.3:82372447-82372466 MS.gene020457:CDS 45.0%
TATCACCCTGGTCTACAAAG+AGG - chr3.3:82372197-82372216 MS.gene020457:CDS 45.0%
TCATTGACACCATTGCTCGA+AGG + chr3.3:82372543-82372562 None:intergenic 45.0%
TCTTTGTAGACCAGGGTGAT+AGG + chr3.3:82372198-82372217 None:intergenic 45.0%
TGCATTCTTCCAAAACCACC+CGG - chr3.3:82372334-82372353 MS.gene020457:intron 45.0%
TGTATGAGTGCACTGCAAAG+GGG + chr3.3:82372508-82372527 None:intergenic 45.0%
TTTGGAAGAATGCAGCAACC+TGG + chr3.3:82372328-82372347 None:intergenic 45.0%
!! ATCTGTGTCGTGTTGATTGG+CGG - chr3.3:82372378-82372397 MS.gene020457:CDS 45.0%
AACCACCCGGATCTTCTTGA+AGG - chr3.3:82372347-82372366 MS.gene020457:CDS 50.0%
ACCACCCGGATCTTCTTGAA+GGG - chr3.3:82372348-82372367 MS.gene020457:CDS 50.0%
AGGGTAATCTCATGGCCCTT+TGG + chr3.3:82371919-82371938 None:intergenic 50.0%
CAGGTACTTTCCCTCTTGGT+AGG + chr3.3:82372606-82372625 None:intergenic 50.0%
CGGACGAAAGGGTAATCTCA+TGG + chr3.3:82371927-82371946 None:intergenic 50.0%
CTCATGGCCCTTTGGCAAAA+AGG + chr3.3:82371911-82371930 None:intergenic 50.0%
GGAAAGTAAGCCTATCACCC+TGG - chr3.3:82372185-82372204 MS.gene020457:CDS 50.0%
TGAGATTACCCTTTCGTCCG+AGG - chr3.3:82371927-82371946 MS.gene020457:CDS 50.0%
TGGTTGAGGTTGCTCATCCT+CGG + chr3.3:82371947-82371966 None:intergenic 50.0%
TTGCTCATCCTCGGACGAAA+GGG + chr3.3:82371938-82371957 None:intergenic 50.0%
! ACTGCAAAGGGGTATGTCTC+AGG + chr3.3:82372497-82372516 None:intergenic 50.0%
! CAAGAAGATCCGGGTGGTTT+TGG + chr3.3:82372346-82372365 None:intergenic 50.0%
! TATGAGGTGCCCTACCAAGA+GGG - chr3.3:82372593-82372612 MS.gene020457:intron 50.0%
! TTATGAGGTGCCCTACCAAG+AGG - chr3.3:82372592-82372611 MS.gene020457:intron 50.0%
AAACTCGGCATCAGTGGGGA+AGG - chr3.3:82372453-82372472 MS.gene020457:CDS 55.0%
AACTCGGCATCAGTGGGGAA+GGG - chr3.3:82372454-82372473 MS.gene020457:CDS 55.0%
ACCCTTCAAGAAGATCCGGG+TGG + chr3.3:82372352-82372371 None:intergenic 55.0%
GTTGCTCATCCTCGGACGAA+AGG + chr3.3:82371939-82371958 None:intergenic 55.0%
!! TCGTGTTGATTGGCGGTGAC+TGG - chr3.3:82372385-82372404 MS.gene020457:CDS 55.0%
ACTCGGCATCAGTGGGGAAG+GGG - chr3.3:82372455-82372474 MS.gene020457:CDS 60.0%
CTCGGCATCAGTGGGGAAGG+GGG - chr3.3:82372456-82372475 MS.gene020457:CDS 65.0%


Chromosome Type Strat End Strand Name
chr3.3 gene 82371736 82372626 82371736 ID=MS.gene020457
chr3.3 mRNA 82371736 82372626 82371736 ID=MS.gene020457.t1;Parent=MS.gene020457
chr3.3 exon 82372622 82372626 82372622 ID=MS.gene020457.t1.exon1;Parent=MS.gene020457.t1
chr3.3 CDS 82372622 82372626 82372622 ID=cds.MS.gene020457.t1;Parent=MS.gene020457.t1
chr3.3 exon 82372345 82372531 82372345 ID=MS.gene020457.t1.exon2;Parent=MS.gene020457.t1
chr3.3 CDS 82372345 82372531 82372345 ID=cds.MS.gene020457.t1;Parent=MS.gene020457.t1
chr3.3 exon 82372144 82372242 82372144 ID=MS.gene020457.t1.exon3;Parent=MS.gene020457.t1
chr3.3 CDS 82372144 82372242 82372144 ID=cds.MS.gene020457.t1;Parent=MS.gene020457.t1
chr3.3 exon 82371736 82371993 82371736 ID=MS.gene020457.t1.exon4;Parent=MS.gene020457.t1
chr3.3 CDS 82371736 82371993 82371736 ID=cds.MS.gene020457.t1;Parent=MS.gene020457.t1
Gene Sequence

>MS.gene020457

ATGTTGTACCACGTTGTTTTTGTATATATATTGGGAGAGGGATTATGAATTTGTTAGTTGTAATTGATTTGTTTATCCTTTTGGTGCATTTGTAGAGTTGATACTGATGGTGTCATTGAAAGAGTGAAGGAACTTTTTAGAGGTCATAGAGACTTGATCTTGGGATTTAACACCTTTTTGCCAAAGGGCCATGAGATTACCCTTTCGTCCGAGGATGAGCAACCTCAACCAAAAAAGAAGGTTGAATTTTATGAAGCTACGAGTTATGTGAACACGATAAAGGTTAGAATGTTTGTGAGTTTAATGGATTCTCTTCATGCAGATTTGTTTGCAATGTAGAATTAATAGTTTTAGTTTTGAGCTTAATGGTTCCTTTTTATGCAGACTCGGTTTCAGGGCGATGTTCATGTTTACAAGTCATTTATGGACATATTGAATACGTACAAAAAGGAAAGTAAGCCTATCACCCTGGTCTACAAAGAGGTATGTGCTGTTATAGTCAGGAAAATCTGTAATGTTGGTTTTTTTTTATTTCCTCCAGTACTTGACATATTGCTGTGATACACATTTTAATCATGATTGCACTTCTCCAGGTTGCTGCATTCTTCCAAAACCACCCGGATCTTCTTGAAGGGTTTATTCATCTGTGTCGTGTTGATTGGCGGTGACTGGAAAGCTATCTGTGTGTTGCGTAATTTTCGTGTTGGTCATGCTATAAAACTCGGCATCAGTGGGGAAGGGGGTGCTGATGTTGTGTACCTGAGACATACCCCTTTGCAGTGCACTCATACAAGCTATATTCATCCTTCGAGCAATGGTGTCAATGAGAAATTTGTATATCAAGTTAACCATTACTTTATGAGGTGCCCTACCAAGAGGGAAAGTACCTGA
Protein sequence

>MS.gene020457.t1

MLVDTDGVIERVKELFRGHRDLILGFNTFLPKGHEITLSSEDEQPQPKKKVEFYEATSYVNTIKTRFQGDVHVYKSFMDILNTYKKESKPITLVYKEGLFICVVLIGGDWKAICVLRNFRVGHAIKLGISGEGGADVVYLRHTPLQCTHTSYIHPSSNGVNEKFVYQVNHYFMRCPTKREST