AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene88599

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene88599.t1 MTR_1g039040 97.368 190 4 1 1 189 1 190 7.12e-140 387
MS.gene88599.t1 MTR_4g133952 81.188 101 19 0 4 104 56 156 2.22e-58 183
MS.gene88599.t1 MTR_7g061270 65.625 96 33 0 4 99 24 119 3.39e-47 152
MS.gene88599.t1 MTR_2g026710 62.745 102 38 0 2 103 13 114 4.81e-47 152
MS.gene88599.t1 MTR_7g100650 65.625 96 33 0 4 99 24 119 6.66e-47 151
MS.gene88599.t1 MTR_5g095740 62.037 108 41 0 5 112 22 129 7.19e-47 152
MS.gene88599.t1 MTR_3g058980 68.421 95 30 0 5 99 26 120 1.74e-46 151
MS.gene88599.t1 MTR_8g091720 62.745 102 38 0 5 106 27 128 4.19e-45 148
MS.gene88599.t1 MTR_1g072790 60.194 103 41 0 5 107 28 130 1.58e-44 145
MS.gene88599.t1 MTR_8g093920 60.606 99 39 0 5 103 39 137 8.31e-44 145
MS.gene88599.t1 MTR_0392s0020 62.500 96 36 0 2 97 14 109 1.47e-42 139
MS.gene88599.t1 MTR_4g119500 63.830 94 34 0 4 97 20 113 2.59e-42 138
MS.gene88599.t1 MTR_1g088860 62.500 96 36 0 4 99 34 129 6.17e-42 140
MS.gene88599.t1 MTR_4g133938 57.426 101 41 1 2 100 13 113 1.13e-39 132
MS.gene88599.t1 MTR_1g083070 51.087 92 45 0 6 97 4 95 1.54e-31 111
MS.gene88599.t1 MTR_1g029070 51.579 95 46 0 5 99 51 145 2.88e-31 112
MS.gene88599.t1 MTR_5g095900 47.917 96 47 1 2 94 9 104 1.59e-24 94.7
MS.gene88599.t1 MTR_1g028480 57.353 68 29 0 36 103 19 86 7.06e-23 88.6
MS.gene88599.t1 MTR_1g029100 43.421 76 43 0 11 86 7 82 7.97e-19 77.4
MS.gene88599.t1 MTR_2g056000 30.337 89 62 0 6 94 41 129 6.46e-16 72.4
MS.gene88599.t1 MTR_4g112380 28.723 94 67 0 1 94 6 99 7.18e-15 68.9
MS.gene88599.t1 MTR_5g095860 39.024 82 40 1 12 93 22 93 7.70e-12 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene88599.t1 AT5G47670 84.375 96 15 0 4 99 27 122 4.10e-58 181
MS.gene88599.t1 AT5G47670 84.375 96 15 0 4 99 56 151 8.17e-58 181
MS.gene88599.t1 AT5G47670 84.375 96 15 0 4 99 56 151 8.17e-58 181
MS.gene88599.t1 AT1G21970 69.231 130 22 2 5 116 58 187 3.25e-57 180
MS.gene88599.t1 AT4G14540 65.686 102 35 0 2 103 17 118 9.55e-49 156
MS.gene88599.t1 AT2G38880 64.583 96 34 0 4 99 19 114 1.68e-46 149
MS.gene88599.t1 AT2G38880 64.583 96 34 0 4 99 19 114 2.04e-46 149
MS.gene88599.t1 AT2G38880 64.583 96 34 0 4 99 19 114 2.04e-46 149
MS.gene88599.t1 AT2G38880 64.583 96 34 0 4 99 19 114 2.04e-46 149
MS.gene88599.t1 AT5G47640 64.356 101 36 0 5 105 26 126 5.91e-46 150
MS.gene88599.t1 AT3G53340 64.583 96 34 0 4 99 27 122 9.38e-46 149
MS.gene88599.t1 AT3G53340 64.583 96 34 0 4 99 27 122 9.38e-46 149
MS.gene88599.t1 AT2G37060 63.542 96 35 0 4 99 28 123 1.56e-45 148
MS.gene88599.t1 AT2G37060 63.542 96 35 0 4 99 28 123 1.56e-45 148
MS.gene88599.t1 AT2G37060 63.542 96 35 0 4 99 28 123 1.56e-45 148
MS.gene88599.t1 AT2G38880 63.830 94 34 0 4 97 19 112 2.36e-45 147
MS.gene88599.t1 AT2G38880 48.344 151 65 2 4 154 19 156 4.73e-45 147
MS.gene88599.t1 AT2G38880 48.344 151 65 2 4 154 19 156 4.73e-45 147
MS.gene88599.t1 AT2G38880 65.217 92 32 0 4 95 19 110 1.89e-44 143
MS.gene88599.t1 AT3G53340 63.366 101 35 1 4 102 27 127 2.36e-44 144
MS.gene88599.t1 AT3G53340 63.366 101 35 1 4 102 27 127 2.36e-44 144
MS.gene88599.t1 AT3G53340 65.217 92 32 0 4 95 27 118 5.08e-44 142
MS.gene88599.t1 AT2G38880 65.217 92 32 0 4 95 19 110 8.69e-44 143
MS.gene88599.t1 AT2G38880 65.217 92 32 0 4 95 19 110 8.69e-44 143
MS.gene88599.t1 AT2G38880 65.217 92 32 0 4 95 19 110 8.69e-44 143
MS.gene88599.t1 AT2G13570 63.158 95 35 0 5 99 35 129 1.70e-43 144
MS.gene88599.t1 AT2G47810 62.500 96 36 0 4 99 49 144 2.16e-41 137
MS.gene88599.t1 AT1G09030 53.191 94 44 0 6 99 3 96 4.46e-35 120
MS.gene88599.t1 AT5G08190 31.481 108 73 1 1 107 6 113 9.83e-16 71.6
MS.gene88599.t1 AT5G08190 32.558 86 58 0 1 86 6 91 1.33e-15 71.2
MS.gene88599.t1 AT5G23090 28.723 94 67 0 1 94 6 99 2.37e-15 70.5
MS.gene88599.t1 AT5G23090 28.723 94 67 0 1 94 6 99 2.61e-15 70.1
MS.gene88599.t1 AT5G23090 28.723 94 67 0 1 94 6 99 2.61e-15 70.1
MS.gene88599.t1 AT5G23090 28.723 94 67 0 1 94 6 99 2.61e-15 70.1
MS.gene88599.t1 AT5G23090 30.986 71 49 0 24 94 16 86 7.29e-11 58.2

Find 26 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGAATGCTGCTGCATTAA+TGG 0.212560 1.4:+23558379 None:intergenic
AATTATAATAGCAATGGTTT+TGG 0.311434 1.4:-23558319 MS.gene88599:CDS
ATACGAATCACGTTTGCTAT+TGG 0.343423 1.4:+23558691 None:intergenic
TGTTATGAAGCTTATGTATT+CGG 0.344608 1.4:+23558597 None:intergenic
CGTTGAAGGTAAAATGTTAA+AGG 0.361813 1.4:+23558472 None:intergenic
TTACAGCAGAAGATATACTA+TGG 0.368505 1.4:-23558531 MS.gene88599:CDS
TTATAATTATTATTAATTAG+AGG 0.371549 1.4:+23558334 None:intergenic
CACTTTCACGGTAACGTTGA+AGG 0.420587 1.4:+23558458 None:intergenic
CTGGTTCACCTTCACTTTCA+CGG 0.425861 1.4:+23558446 None:intergenic
GAAGATATACTATGGGCAAT+GGG 0.428461 1.4:-23558523 MS.gene88599:CDS
AGAAAACTACAATCAAAGTT+TGG 0.434642 1.4:+23558214 None:intergenic
TTCGGATACACATTCTTGAA+TGG 0.445869 1.4:+23558615 None:intergenic
TTATTATTAATTAGAGGAAG+TGG 0.469233 1.4:+23558340 None:intergenic
CTATGGGCAATGGGGAAACT+AGG 0.473445 1.4:-23558514 MS.gene88599:CDS
TGCTGCATTAATGGAAAAGA+AGG 0.476955 1.4:+23558388 None:intergenic
AATAATAATTATAATAGCAA+TGG 0.482441 1.4:-23558325 MS.gene88599:CDS
CGTTTGCTATTGGCATGTAC+TGG 0.489893 1.4:+23558701 None:intergenic
GAAGTGCGTCGAACAGAAGC+TGG 0.529170 1.4:+23558427 None:intergenic
AGAAGATATACTATGGGCAA+TGG 0.533910 1.4:-23558524 MS.gene88599:CDS
AGGTGATTTGAATCAATGGC+TGG 0.544068 1.4:-23558739 None:intergenic
GGTACAAAACTAGAGGAAGA+AGG 0.581984 1.4:+23558235 None:intergenic
AAAGTTTGGTACAAAACTAG+AGG 0.609583 1.4:+23558228 None:intergenic
TACAGCAGAAGATATACTAT+GGG 0.616567 1.4:-23558530 MS.gene88599:CDS
CAACGTTACCGTGAAAGTGA+AGG 0.630890 1.4:-23558454 MS.gene88599:CDS
TGCATTAATGGAAAAGAAGG+AGG 0.643868 1.4:+23558391 None:intergenic
AAGATATACTATGGGCAATG+GGG 0.655865 1.4:-23558522 MS.gene88599:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATAATTATAATAGCAA+TGG - chr1.4:23558576-23558595 MS.gene88599:CDS 10.0%
!! TTATTATTAATTAGAGGAAG+TGG + chr1.4:23558564-23558583 None:intergenic 20.0%
!!! AATTATAATAGCAATGGTTT+TGG - chr1.4:23558582-23558601 MS.gene88599:CDS 20.0%
! AGAAAACTACAATCAAAGTT+TGG + chr1.4:23558690-23558709 None:intergenic 25.0%
! TGTTATGAAGCTTATGTATT+CGG + chr1.4:23558307-23558326 None:intergenic 25.0%
!!! ATGGTTTTGATTTTGATCAA+GGG - chr1.4:23558613-23558632 MS.gene88599:CDS 25.0%
!!! TATGGTTTTGATTTTGATCA+AGG - chr1.4:23558612-23558631 MS.gene88599:CDS 25.0%
AAAGTTTGGTACAAAACTAG+AGG + chr1.4:23558676-23558695 None:intergenic 30.0%
CGTTGAAGGTAAAATGTTAA+AGG + chr1.4:23558432-23558451 None:intergenic 30.0%
TACAGCAGAAGATATACTAT+GGG - chr1.4:23558371-23558390 MS.gene88599:CDS 30.0%
TTACAGCAGAAGATATACTA+TGG - chr1.4:23558370-23558389 MS.gene88599:CDS 30.0%
!! CTGTTTTTCTTTGTTCTCTT+TGG + chr1.4:23558350-23558369 None:intergenic 30.0%
AAGATATACTATGGGCAATG+GGG - chr1.4:23558379-23558398 MS.gene88599:CDS 35.0%
AGAAGATATACTATGGGCAA+TGG - chr1.4:23558377-23558396 MS.gene88599:CDS 35.0%
GAAGATATACTATGGGCAAT+GGG - chr1.4:23558378-23558397 MS.gene88599:CDS 35.0%
TGCATTAATGGAAAAGAAGG+AGG + chr1.4:23558513-23558532 None:intergenic 35.0%
TGCTGCATTAATGGAAAAGA+AGG + chr1.4:23558516-23558535 None:intergenic 35.0%
TTCGGATACACATTCTTGAA+TGG + chr1.4:23558289-23558308 None:intergenic 35.0%
!! ATACGAATCACGTTTGCTAT+TGG + chr1.4:23558213-23558232 None:intergenic 35.0%
!! GATCAAGGGTTTTATAGAGA+TGG - chr1.4:23558627-23558646 MS.gene88599:CDS 35.0%
!!! AATAGCAATGGTTTTGGTCA+TGG - chr1.4:23558588-23558607 MS.gene88599:CDS 35.0%
!!! AATGGTTTTGGTCATGGTTA+TGG - chr1.4:23558594-23558613 MS.gene88599:CDS 35.0%
GAAGAATGCTGCTGCATTAA+TGG + chr1.4:23558525-23558544 None:intergenic 40.0%
GGTACAAAACTAGAGGAAGA+AGG + chr1.4:23558669-23558688 None:intergenic 40.0%
! AATGGTTTCTTTTGCGTCGT+CGG + chr1.4:23558271-23558290 None:intergenic 40.0%
!! CAAGGGTTTTATAGAGATGG+TGG - chr1.4:23558630-23558649 MS.gene88599:CDS 40.0%
CAACGTTACCGTGAAAGTGA+AGG - chr1.4:23558447-23558466 MS.gene88599:CDS 45.0%
CACTTTCACGGTAACGTTGA+AGG + chr1.4:23558446-23558465 None:intergenic 45.0%
CTGGTTCACCTTCACTTTCA+CGG + chr1.4:23558458-23558477 None:intergenic 45.0%
! TCGGAGATTTTTGCATGCGA+CGG + chr1.4:23558252-23558271 None:intergenic 45.0%
!! CGTTTGCTATTGGCATGTAC+TGG + chr1.4:23558203-23558222 None:intergenic 45.0%
!! TTATAATTATTATTAATTAG+AGG + chr1.4:23558570-23558589 None:intergenic 5.0%
CTATGGGCAATGGGGAAACT+AGG - chr1.4:23558387-23558406 MS.gene88599:CDS 50.0%
GAAGTGCGTCGAACAGAAGC+TGG + chr1.4:23558477-23558496 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 23558177 23558746 23558177 ID=MS.gene88599
chr1.4 mRNA 23558177 23558746 23558177 ID=MS.gene88599.t1;Parent=MS.gene88599
chr1.4 exon 23558177 23558746 23558177 ID=MS.gene88599.t1.exon1;Parent=MS.gene88599.t1
chr1.4 CDS 23558177 23558746 23558177 ID=cds.MS.gene88599.t1;Parent=MS.gene88599.t1
Gene Sequence

>MS.gene88599

ATGGCTGGAATAAGAGAACAAGACCAGTACATGCCAATAGCAAACGTGATTCGTATAATGCGACGAATTCTTCCGTCGCATGCAAAAATCTCCGACGACGCAAAAGAAACCATTCAAGAATGTGTATCCGAATACATAAGCTTCATAACATCTGAAGCAAACGATCGTTGCCAAAGAGAACAAAGAAAAACAGTTACAGCAGAAGATATACTATGGGCAATGGGGAAACTAGGTTTTGATGATTATGTTCATCCTTTAACATTTTACCTTCAACGTTACCGTGAAAGTGAAGGTGAACCAGCTTCTGTTCGACGCACTTCTTCTCTTGCTTTGCCTCCTTCTTTTCCATTAATGCAGCAGCATTCTTCATCATTTTCATCAATGCCACTTCCTCTAATTAATAATAATTATAATAGCAATGGTTTTGGTCATGGTTATGGTTTTGATTTTGATCAAGGGTTTTATAGAGATGGTGGTGATGATGCTGCTCCTTCTTCCTCTAGTTTTGTACCAAACTTTGATTGTAGTTTTCTTCATCTCAAACGTGATAATCATAATAATAATATGTGA
Protein sequence

>MS.gene88599.t1

MAGIREQDQYMPIANVIRIMRRILPSHAKISDDAKETIQECVSEYISFITSEANDRCQREQRKTVTAEDILWAMGKLGFDDYVHPLTFYLQRYRESEGEPASVRRTSSLALPPSFPLMQQHSSSFSSMPLPLINNNYNSNGFGHGYGFDFDQGFYRDGGDDAAPSSSSFVPNFDCSFLHLKRDNHNNNM