AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene27562

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene27562.t1 MTR_7g075230 92.793 111 5 1 1 108 1 111 2.75e-72 214
MS.gene27562.t1 MTR_8g036105 77.679 112 20 3 4 112 10 119 2.77e-55 171
MS.gene27562.t1 MTR_8g036085 71.287 101 24 3 11 108 22 120 2.39e-47 151
MS.gene27562.t1 MTR_7g096530 64.286 112 35 3 4 112 6 115 3.79e-42 138
MS.gene27562.t1 MTR_1g070205 65.000 100 30 3 12 108 12 109 5.30e-42 138
MS.gene27562.t1 MTR_7g096610 66.019 103 30 3 9 108 5 105 2.04e-41 136
MS.gene27562.t1 MTR_7g074990 67.000 100 28 3 12 108 20 117 4.09e-41 135
MS.gene27562.t1 MTR_5g080470 63.043 92 32 2 10 101 5 94 1.30e-38 128
MS.gene27562.t1 MTR_1g070220 63.462 104 33 3 8 108 11 112 1.44e-38 128
MS.gene27562.t1 MTR_6g027710 67.778 90 27 2 12 101 40 127 3.23e-36 123
MS.gene27562.t1 MTR_5g083230 58.000 100 36 3 9 105 3 99 4.52e-33 113
MS.gene27562.t1 MTR_3g071590 55.340 103 40 3 6 105 2 101 9.29e-32 109
MS.gene27562.t1 MTR_4g105170 59.140 93 35 2 10 102 9 98 2.92e-31 109
MS.gene27562.t1 MTR_3g031660 54.000 100 40 3 9 105 4 100 7.71e-31 108
MS.gene27562.t1 MTR_3g077240 58.065 93 36 2 10 102 8 97 1.34e-30 107
MS.gene27562.t1 MTR_7g033800 57.609 92 36 2 10 101 9 97 4.46e-30 105
MS.gene27562.t1 MTR_4g083680 53.000 100 41 3 9 105 12 108 2.53e-29 103
MS.gene27562.t1 MTR_2g068760 53.000 100 38 3 8 101 3 99 3.84e-29 103
MS.gene27562.t1 MTR_5g083960 54.945 91 38 2 12 102 39 126 1.32e-28 102
MS.gene27562.t1 MTR_6g005070 53.763 93 40 2 9 101 6 95 1.91e-28 100
MS.gene27562.t1 MTR_6g027700 54.945 91 39 2 12 102 7 95 2.64e-27 100
MS.gene27562.t1 MTR_3g073690 53.191 94 41 2 9 102 6 96 8.80e-27 98.6
MS.gene27562.t1 MTR_6g005080 51.613 93 42 2 9 101 7 96 9.94e-27 96.7
MS.gene27562.t1 MTR_3g452660 56.044 91 37 2 12 102 7 94 2.57e-26 99.4
MS.gene27562.t1 MTR_4g060950 48.913 92 45 1 11 102 23 112 4.19e-26 96.3
MS.gene27562.t1 MTR_5g017950 54.839 93 39 2 10 102 6 95 5.59e-26 99.0
MS.gene27562.t1 MTR_5g083010 49.485 97 45 3 9 104 8 101 5.78e-26 95.5
MS.gene27562.t1 MTR_3g071420 46.602 103 51 3 9 111 11 109 2.09e-25 94.4
MS.gene27562.t1 MTR_3g094690 53.846 91 39 2 12 102 47 134 2.23e-25 95.5
MS.gene27562.t1 MTR_2g093310 47.253 91 45 2 11 101 32 119 5.18e-24 91.3
MS.gene27562.t1 MTR_3g094690 53.846 91 38 3 12 102 47 133 1.30e-23 90.9
MS.gene27562.t1 MTR_8g040900 57.500 80 31 2 12 91 7 83 2.81e-23 90.1
MS.gene27562.t1 MTR_5g075020 55.000 80 33 2 12 91 43 119 7.97e-23 89.0
MS.gene27562.t1 MTR_5g075020 55.000 80 33 2 12 91 47 123 1.03e-22 88.6
MS.gene27562.t1 MTR_1g095850 49.438 89 42 2 13 101 73 158 2.04e-22 87.8
MS.gene27562.t1 MTR_7g028905 39.394 99 57 2 13 111 6 101 1.64e-19 77.4
MS.gene27562.t1 MTR_5g093010 43.956 91 48 2 11 101 4 91 3.04e-19 77.4
MS.gene27562.t1 MTR_8g079660 38.462 104 58 3 12 112 8 108 5.58e-17 73.9
MS.gene27562.t1 MTR_8g079620 38.462 104 58 3 12 112 8 108 8.94e-15 67.8
MS.gene27562.t1 MTR_6g011250 45.000 80 40 3 13 91 10 86 1.49e-14 66.2
MS.gene27562.t1 MTR_8g017090 38.889 90 52 2 13 102 13 99 3.78e-14 67.0
MS.gene27562.t1 MTR_2g100020 36.667 90 54 2 13 102 20 106 8.07e-14 65.9
MS.gene27562.t1 MTR_6g011230 38.462 91 52 3 1 91 1 87 1.03e-13 64.3
MS.gene27562.t1 MTR_8g079580 40.000 80 46 1 12 91 8 85 2.32e-13 63.9
MS.gene27562.t1 MTR_4g107450 38.462 91 53 2 13 103 11 98 7.84e-13 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene27562.t1 AT4G00210 70.588 102 25 3 10 108 9 108 5.06e-45 145
MS.gene27562.t1 AT2G45410 77.011 87 18 2 15 101 19 103 6.67e-43 139
MS.gene27562.t1 AT2G45420 73.196 97 21 3 15 108 40 134 9.67e-43 140
MS.gene27562.t1 AT2G42430 69.000 100 26 3 10 106 13 110 7.19e-42 138
MS.gene27562.t1 AT2G42440 60.000 105 39 3 9 113 4 105 1.39e-40 135
MS.gene27562.t1 AT3G58190 62.745 102 35 3 12 113 11 109 1.48e-40 134
MS.gene27562.t1 AT4G00220 68.041 97 26 3 15 108 20 114 2.18e-40 134
MS.gene27562.t1 AT3G03760 72.527 91 23 2 11 101 50 138 4.40e-40 134
MS.gene27562.t1 AT5G06080 65.217 92 30 2 10 101 5 94 4.03e-38 126
MS.gene27562.t1 AT2G31310 63.043 92 32 2 10 101 5 94 3.27e-37 124
MS.gene27562.t1 AT2G30130 56.311 103 39 3 6 105 2 101 1.24e-31 110
MS.gene27562.t1 AT5G63090 58.696 92 35 2 10 101 9 97 7.18e-30 105
MS.gene27562.t1 AT5G63090 58.696 92 35 2 10 101 9 97 7.18e-30 105
MS.gene27562.t1 AT5G63090 58.696 92 35 2 10 101 9 97 7.18e-30 105
MS.gene27562.t1 AT5G63090 58.696 92 35 2 10 101 9 97 7.18e-30 105
MS.gene27562.t1 AT1G31320 50.526 95 44 2 9 103 10 101 1.92e-29 104
MS.gene27562.t1 AT3G27650 54.348 92 39 2 10 101 37 125 9.19e-29 102
MS.gene27562.t1 AT1G16530 50.000 100 45 2 11 107 13 110 1.31e-27 99.8
MS.gene27562.t1 AT5G66870 53.684 95 41 2 8 102 3 94 8.18e-26 98.2
MS.gene27562.t1 AT1G07900 49.451 91 43 2 11 101 32 119 1.05e-25 95.5
MS.gene27562.t1 AT3G11090 49.495 99 46 3 13 111 12 106 1.32e-25 94.4
MS.gene27562.t1 AT2G28500 49.451 91 43 2 11 101 54 141 7.37e-25 94.4
MS.gene27562.t1 AT3G26660 46.667 90 45 2 13 102 6 92 9.82e-25 90.9
MS.gene27562.t1 AT2G23660 52.273 88 39 2 12 99 5 89 1.15e-24 95.1
MS.gene27562.t1 AT2G23660 52.273 88 39 2 12 99 5 89 1.15e-24 95.1
MS.gene27562.t1 AT2G23660 52.273 88 39 2 12 99 5 89 1.15e-24 95.1
MS.gene27562.t1 AT3G26620 46.667 90 45 2 13 102 6 92 1.35e-24 90.5
MS.gene27562.t1 AT1G65620 57.317 82 32 2 10 91 7 85 1.61e-23 90.1
MS.gene27562.t1 AT1G65620 57.317 82 32 2 10 91 7 85 1.61e-23 90.1
MS.gene27562.t1 AT1G65620 57.317 82 32 2 10 91 7 85 1.61e-23 90.1
MS.gene27562.t1 AT1G65620 57.317 82 32 2 10 91 7 85 1.61e-23 90.1
MS.gene27562.t1 AT1G65620 57.317 82 32 2 10 91 7 85 1.61e-23 90.1
MS.gene27562.t1 AT2G30340 50.549 91 42 2 12 102 53 140 3.97e-23 90.5
MS.gene27562.t1 AT2G30340 50.549 91 42 2 12 102 52 139 3.99e-23 90.5
MS.gene27562.t1 AT2G40470 53.750 80 34 2 12 91 20 96 8.48e-23 88.2
MS.gene27562.t1 AT2G40470 53.750 80 34 2 12 91 45 121 8.99e-23 88.6
MS.gene27562.t1 AT3G50510 44.792 96 50 2 7 102 7 99 2.06e-20 82.0
MS.gene27562.t1 AT3G50510 44.792 96 50 2 7 102 7 99 2.06e-20 82.0
MS.gene27562.t1 AT5G35900 38.889 90 52 2 13 102 6 92 2.47e-14 66.2
MS.gene27562.t1 AT1G72980 48.052 77 37 2 13 89 14 87 2.58e-14 66.2
MS.gene27562.t1 AT3G13850 35.644 101 58 3 13 113 37 130 4.08e-14 66.6
MS.gene27562.t1 AT1G06280 41.558 77 42 2 13 89 25 98 1.63e-13 63.9
MS.gene27562.t1 AT3G47870 29.808 104 62 3 10 113 34 126 1.51e-11 59.7

Find 25 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTAGAGAGAGAGATGGATTT+GGG 0.204949 7.2:+30566251 None:intergenic
AGGGCTACTGACCCTGTTTA+TGG 0.239262 7.2:+30566506 MS.gene27562:CDS
TTTAGAGAGAGAGATGGATT+TGG 0.290229 7.2:+30566250 None:intergenic
GGGTGTGGGGATGACGGTGG+TGG 0.353668 7.2:+30566272 MS.gene27562:CDS
AGAGAGATGGATTTGGGGTG+TGG 0.373011 7.2:+30566257 None:intergenic
TGACCTGATGACTCAAAATA+TGG 0.381006 7.2:-30566356 None:intergenic
TGAGCAACACAACCATAAAC+AGG 0.407283 7.2:-30566518 None:intergenic
GAGAGATGGATTTGGGGTGT+GGG 0.427932 7.2:+30566258 None:intergenic
GCTGCAGTTCATAAGGTGTT+TGG 0.429613 7.2:+30566395 MS.gene27562:CDS
TTGGGGTGTGGGGATGACGG+TGG 0.437721 7.2:+30566269 MS.gene27562:CDS
CCTCTTTGCTCTTCAACAAC+AGG 0.440953 7.2:+30566541 MS.gene27562:CDS
GCATCAAGACGCTTATGAAC+TGG 0.441293 7.2:-30566452 None:intergenic
GATTTGGGGTGTGGGGATGA+CGG 0.456260 7.2:+30566266 MS.gene27562:CDS
AATGTATATTCTCAAGGTGT+TGG 0.469356 7.2:+30566795 MS.gene27562:CDS
TCTGCTATGAGGCTCTTGCT+AGG 0.495453 7.2:+30566486 MS.gene27562:CDS
CTGCTATGAGGCTCTTGCTA+GGG 0.502068 7.2:+30566487 MS.gene27562:CDS
GGTGTGGGGATGACGGTGGT+GGG 0.515639 7.2:+30566273 MS.gene27562:CDS
TGTTGTTACTCTCTGCTATG+AGG 0.534536 7.2:+30566475 MS.gene27562:CDS
TAGAGAGAGAGATGGATTTG+GGG 0.538982 7.2:+30566252 None:intergenic
AGAGATGGATTTGGGGTGTG+GGG 0.541784 7.2:+30566259 None:intergenic
TTGAGAAGAAAGTGTGTGAA+AGG 0.553888 7.2:+30566317 MS.gene27562:CDS
GCAGCTAATGTATATTCTCA+AGG 0.570610 7.2:+30566789 MS.gene27562:CDS
GATGACGGTGGTGGGCCTTG+TGG 0.575954 7.2:+30566281 MS.gene27562:CDS
CCTGTTGTTGAAGAGCAAAG+AGG 0.633272 7.2:-30566541 None:intergenic
GAGCAACACAACCATAAACA+GGG 0.707824 7.2:-30566517 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTCAAGAAAAACTTATAAT+AGG + chr7.2:30566759-30566778 MS.gene27562:intron 15.0%
!! TAATTCGTATATATATAACT+TGG + chr7.2:30566639-30566658 MS.gene27562:intron 15.0%
!! TATATATATACGAATTAGTT+AGG - chr7.2:30566636-30566655 None:intergenic 15.0%
AATGTATATTCTCAAGGTGT+TGG + chr7.2:30566795-30566814 MS.gene27562:CDS 30.0%
AGGCAGAAAAATGAAAACTA+AGG - chr7.2:30566616-30566635 None:intergenic 30.0%
!! TAACTTGGTGCTTTAAAAAC+TGG + chr7.2:30566654-30566673 MS.gene27562:intron 30.0%
GCAGCTAATGTATATTCTCA+AGG + chr7.2:30566789-30566808 MS.gene27562:CDS 35.0%
TGACCTGATGACTCAAAATA+TGG - chr7.2:30566359-30566378 None:intergenic 35.0%
! TCATTTTGCTGCAGTTCATA+AGG + chr7.2:30566388-30566407 MS.gene27562:CDS 35.0%
! TTGAGAAGAAAGTGTGTGAA+AGG + chr7.2:30566317-30566336 MS.gene27562:CDS 35.0%
!! TATTTTGAGTCATCAGGTCA+AGG + chr7.2:30566359-30566378 MS.gene27562:CDS 35.0%
AAAAACTTGCAAGCACCACA+AGG - chr7.2:30566299-30566318 None:intergenic 40.0%
AAAACTGGTAACCACTAACC+TGG + chr7.2:30566669-30566688 MS.gene27562:intron 40.0%
GAGCAACACAACCATAAACA+GGG - chr7.2:30566520-30566539 None:intergenic 40.0%
TGAGCAACACAACCATAAAC+AGG - chr7.2:30566521-30566540 None:intergenic 40.0%
TGTTGTTACTCTCTGCTATG+AGG + chr7.2:30566475-30566494 MS.gene27562:CDS 40.0%
!! GCACCATATTTTGAGTCATC+AGG + chr7.2:30566353-30566372 MS.gene27562:CDS 40.0%
!! TTATGAACTTGTTACCCTCC+AGG - chr7.2:30566690-30566709 None:intergenic 40.0%
CCTCTTTGCTCTTCAACAAC+AGG + chr7.2:30566541-30566560 MS.gene27562:CDS 45.0%
CCTGTTGTTGAAGAGCAAAG+AGG - chr7.2:30566544-30566563 None:intergenic 45.0%
GCATCAAGACGCTTATGAAC+TGG - chr7.2:30566455-30566474 None:intergenic 45.0%
! GCTGCAGTTCATAAGGTGTT+TGG + chr7.2:30566395-30566414 MS.gene27562:CDS 45.0%
ACTGGTAACCACTAACCTGG+AGG + chr7.2:30566672-30566691 MS.gene27562:intron 50.0%
AGGGCTACTGACCCTGTTTA+TGG + chr7.2:30566506-30566525 MS.gene27562:CDS 50.0%
CTGCTATGAGGCTCTTGCTA+GGG + chr7.2:30566487-30566506 MS.gene27562:CDS 50.0%
CTGGTAACCACTAACCTGGA+GGG + chr7.2:30566673-30566692 MS.gene27562:intron 50.0%
CTTGTTACCCTCCAGGTTAG+TGG - chr7.2:30566683-30566702 None:intergenic 50.0%
TCTGCTATGAGGCTCTTGCT+AGG + chr7.2:30566486-30566505 MS.gene27562:CDS 50.0%
! GATTTGGGGTGTGGGGATGA+CGG + chr7.2:30566266-30566285 MS.gene27562:CDS 55.0%
! GGTGTGGGGATGACGGTGGT+GGG + chr7.2:30566273-30566292 MS.gene27562:CDS 65.0%
! TTGGGGTGTGGGGATGACGG+TGG + chr7.2:30566269-30566288 MS.gene27562:CDS 65.0%
!! GATGACGGTGGTGGGCCTTG+TGG + chr7.2:30566281-30566300 MS.gene27562:CDS 65.0%
! GGGTGTGGGGATGACGGTGG+TGG + chr7.2:30566272-30566291 MS.gene27562:CDS 70.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 30566263 30566822 30566263 ID=MS.gene27562
chr7.2 mRNA 30566263 30566822 30566263 ID=MS.gene27562.t1;Parent=MS.gene27562
chr7.2 exon 30566263 30566562 30566263 ID=MS.gene27562.t1.exon1;Parent=MS.gene27562.t1
chr7.2 CDS 30566263 30566562 30566263 ID=cds.MS.gene27562.t1;Parent=MS.gene27562.t1
chr7.2 exon 30566781 30566822 30566781 ID=MS.gene27562.t1.exon2;Parent=MS.gene27562.t1
chr7.2 CDS 30566781 30566822 30566781 ID=cds.MS.gene27562.t1;Parent=MS.gene27562.t1
Gene Sequence

>MS.gene27562

ATGGATTTGGGGTGTGGGGATGACGGTGGTGGGCCTTGTGGTGCTTGCAAGTTTTTGAGAAGAAAGTGTGTGAAAGGTTGTTGCATATTTGCACCATATTTTGAGTCATCAGGTCAAGGAAGTGCTCATTTTGCTGCAGTTCATAAGGTGTTTGGTGCTAGCAATGCTGCTAAGCTACTCACACGTATTCCAGTTCATAAGCGTCTTGATGCTGTTGTTACTCTCTGCTATGAGGCTCTTGCTAGGGCTACTGACCCTGTTTATGGTTGTGTTGCTCACCTCTTTGCTCTTCAACAACAGGTATTCATATATCAGTTTTGTTTTGATACAGTGTATAACATTTGTTTCTTCCTTAGTTTTCATTTTTCTGCCTAACTAATTCGTATATATATAACTTGGTGCTTTAAAAACTGGTAACCACTAACCTGGAGGGTAACAAGTTCATAAGACTTTATAGTAATAGATTAAAAAATATATATTAAAAATTACTTCACAAATTCAAGAAAAACTTATAATAGGTTCAAATGCAGCTAATGTATATTCTCAAGGTGTTGGAGTAA
Protein sequence

>MS.gene27562.t1

MDLGCGDDGGGPCGACKFLRRKCVKGCCIFAPYFESSGQGSAHFAAVHKVFGASNAAKLLTRIPVHKRLDAVVTLCYEALARATDPVYGCVAHLFALQQQVQMQLMYILKVLE