AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene020793

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene020793.t1 MTR_5g095740 95.699 186 5 2 1 185 1 184 1.34e-129 361
MS.gene020793.t1 MTR_3g058980 75.258 194 35 5 1 185 1 190 2.20e-84 247
MS.gene020793.t1 MTR_2g026710 83.051 118 14 1 1 118 1 112 4.49e-67 202
MS.gene020793.t1 MTR_8g091720 74.074 135 31 2 10 140 13 147 3.89e-65 199
MS.gene020793.t1 MTR_1g072790 68.182 132 36 1 1 126 1 132 1.09e-61 189
MS.gene020793.t1 MTR_7g061270 75.207 121 24 2 9 125 10 128 9.54e-61 186
MS.gene020793.t1 MTR_7g100650 81.731 104 19 0 22 125 25 128 1.31e-60 186
MS.gene020793.t1 MTR_8g093920 85.567 97 14 0 22 118 39 135 6.84e-59 183
MS.gene020793.t1 MTR_4g133938 74.167 120 27 2 1 120 1 116 1.16e-58 180
MS.gene020793.t1 MTR_4g133952 66.990 103 34 0 16 118 51 153 3.83e-50 162
MS.gene020793.t1 MTR_1g088860 71.875 96 27 0 22 117 35 130 1.12e-49 159
MS.gene020793.t1 MTR_4g119500 67.010 97 32 0 22 118 21 117 7.17e-48 152
MS.gene020793.t1 MTR_0392s0020 60.526 114 35 1 4 117 9 112 7.71e-48 152
MS.gene020793.t1 MTR_1g039040 61.818 110 42 0 22 131 5 114 3.53e-47 153
MS.gene020793.t1 MTR_1g083070 53.279 122 48 2 23 135 4 125 9.77e-40 132
MS.gene020793.t1 MTR_1g029070 48.246 114 52 1 3 116 39 145 1.50e-29 107
MS.gene020793.t1 MTR_5g095900 47.368 95 47 1 20 111 10 104 1.37e-22 89.7
MS.gene020793.t1 MTR_1g029100 43.421 76 43 0 28 103 7 82 3.05e-19 78.6
MS.gene020793.t1 MTR_1g028480 45.349 86 43 1 53 134 19 104 4.58e-19 78.6
MS.gene020793.t1 MTR_2g056000 34.118 85 56 0 19 103 37 121 1.13e-15 71.6
MS.gene020793.t1 MTR_4g112380 36.250 80 51 0 24 103 12 91 1.15e-15 70.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene020793.t1 AT4G14540 86.777 121 14 1 1 121 1 119 2.05e-74 221
MS.gene020793.t1 AT5G47640 88.889 108 12 0 19 126 23 130 2.01e-67 204
MS.gene020793.t1 AT2G38880 70.732 123 36 0 4 126 2 124 3.70e-60 184
MS.gene020793.t1 AT2G38880 70.732 123 36 0 4 126 2 124 5.19e-60 184
MS.gene020793.t1 AT2G38880 70.732 123 36 0 4 126 2 124 5.19e-60 184
MS.gene020793.t1 AT2G38880 70.732 123 36 0 4 126 2 124 5.19e-60 184
MS.gene020793.t1 AT3G53340 59.477 153 58 2 19 170 25 174 1.59e-59 184
MS.gene020793.t1 AT3G53340 59.477 153 58 2 19 170 25 174 1.59e-59 184
MS.gene020793.t1 AT2G37060 63.087 149 45 2 6 154 15 153 3.50e-59 182
MS.gene020793.t1 AT2G37060 63.087 149 45 2 6 154 15 153 3.50e-59 182
MS.gene020793.t1 AT2G37060 63.087 149 45 2 6 154 15 153 3.50e-59 182
MS.gene020793.t1 AT2G38880 75.455 110 27 0 4 113 2 111 2.86e-57 176
MS.gene020793.t1 AT2G38880 69.919 123 35 1 4 126 2 122 5.14e-57 176
MS.gene020793.t1 AT2G38880 75.455 110 27 0 4 113 2 111 1.09e-56 176
MS.gene020793.t1 AT2G38880 75.455 110 27 0 4 113 2 111 1.09e-56 176
MS.gene020793.t1 AT2G38880 75.455 110 27 0 4 113 2 111 1.24e-56 176
MS.gene020793.t1 AT2G38880 75.455 110 27 0 4 113 2 111 1.24e-56 176
MS.gene020793.t1 AT2G38880 75.455 110 27 0 4 113 2 111 1.24e-56 176
MS.gene020793.t1 AT3G53340 80.000 95 19 0 19 113 25 119 1.98e-56 174
MS.gene020793.t1 AT3G53340 80.208 96 19 0 19 114 25 120 4.33e-56 174
MS.gene020793.t1 AT3G53340 80.208 96 19 0 19 114 25 120 4.33e-56 174
MS.gene020793.t1 AT2G13570 78.218 101 22 0 22 122 35 135 4.33e-56 176
MS.gene020793.t1 AT5G47670 50.909 165 74 3 6 163 12 176 1.19e-54 172
MS.gene020793.t1 AT5G47670 49.693 163 74 2 6 160 41 203 3.30e-54 172
MS.gene020793.t1 AT5G47670 49.693 163 74 2 6 160 41 203 3.30e-54 172
MS.gene020793.t1 AT2G47810 72.917 96 26 0 22 117 50 145 8.06e-50 159
MS.gene020793.t1 AT1G21970 63.366 101 37 0 22 122 58 158 1.04e-46 153
MS.gene020793.t1 AT1G09030 60.417 96 38 0 23 118 3 98 7.02e-42 137
MS.gene020793.t1 AT5G08190 38.272 81 50 0 23 103 11 91 7.43e-17 74.3
MS.gene020793.t1 AT5G08190 38.272 81 50 0 23 103 11 91 7.84e-17 74.3
MS.gene020793.t1 AT5G23090 37.179 78 49 0 24 101 12 89 2.17e-16 72.8
MS.gene020793.t1 AT5G23090 37.179 78 49 0 24 101 12 89 2.37e-16 72.8
MS.gene020793.t1 AT5G23090 37.179 78 49 0 24 101 12 89 2.37e-16 72.8
MS.gene020793.t1 AT5G23090 37.179 78 49 0 24 101 12 89 2.37e-16 72.8
MS.gene020793.t1 AT5G23090 35.938 64 41 0 40 103 15 78 5.48e-12 60.8

Find 48 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCGCATTAGTTTCAGCATT+AGG 0.327218 5.3:+77328051 None:intergenic
TTTCTCTCTCTGACACTTAT+CGG 0.341007 5.3:+77328362 None:intergenic
TCCTTCTTCTTCTTCGTCTT+CGG 0.344056 5.3:-77328190 MS.gene020793:CDS
AGTTTCAGCATTAGGATAAC+CGG 0.355328 5.3:+77328059 None:intergenic
AATAATGAAGAAGGCGTTAC+CGG 0.357624 5.3:-77328469 MS.gene020793:CDS
ATTCTGCTCACGTTTGCTAT+TGG 0.361435 5.3:+77328489 None:intergenic
CGGTGATAACTCGCTGTTCC+CGG 0.363693 5.3:+77328533 None:intergenic
CAGGGACACGTGTACGGTTC+TGG 0.366578 5.3:-77328108 MS.gene020793:CDS
AACTCGCTGTTCCCGGCGTT+CGG 0.373131 5.3:+77328540 None:intergenic
GGCTGATTCCGACAATGAAT+CGG 0.393443 5.3:-77328571 MS.gene020793:CDS
GCAGCATCAGCATCAGCATC+AGG 0.402922 5.3:-77328127 MS.gene020793:CDS
TTCGAGATCTTCGCGTTCGC+CGG 0.412847 5.3:+77328450 None:intergenic
TCAACGGCGACGATCTACTT+TGG 0.416392 5.3:-77328329 MS.gene020793:CDS
CGGGAGGAGCACCGAACGCC+GGG 0.420650 5.3:-77328551 MS.gene020793:CDS
ACTAATAAGCTTGTTCTACC+TGG 0.429128 5.3:+77328023 None:intergenic
CGTTGAAGATAAATCTTCAA+TGG 0.432633 5.3:+77328270 None:intergenic
CATCAAGTGCCTGGTGGGCC+CGG 0.439513 5.3:-77328078 MS.gene020793:CDS
AGACGCGAAGGAAACAGTTC+AGG 0.459480 5.3:-77328427 MS.gene020793:CDS
CAACGGCGACGATCTACTTT+GGG 0.462526 5.3:-77328328 MS.gene020793:CDS
CTTTGGGCGATGACTACGTT+AGG 0.467469 5.3:-77328312 MS.gene020793:CDS
TGCTCCTCCCGATTCATTGT+CGG 0.482065 5.3:+77328563 None:intergenic
CGTTTGCTATTGGTAAGAAT+CGG 0.499147 5.3:+77328499 None:intergenic
GCTGATTCCGACAATGAATC+GGG 0.501404 5.3:-77328570 MS.gene020793:CDS
ACACTTATCGGAAGCTTCGC+CGG 0.521889 5.3:+77328374 None:intergenic
ATCTTTATCACGTGCAGCAA+CGG 0.524172 5.3:+77328221 None:intergenic
ACCGAAGACGAAGAAGAAGA+AGG 0.526792 5.3:+77328189 None:intergenic
TTAGGATAACCGGGCCCACC+AGG 0.536533 5.3:+77328069 None:intergenic
TATGGTGCTCCTCCTCAAGT+TGG 0.540598 5.3:-77328159 MS.gene020793:CDS
CCTAATGCTGAAACTAATGC+GGG 0.543861 5.3:-77328051 MS.gene020793:CDS
TCGGGAGGAGCACCGAACGC+CGG 0.558380 5.3:-77328552 MS.gene020793:CDS
CGTGAGCAGAATAATGAAGA+AGG 0.569587 5.3:-77328478 MS.gene020793:CDS
CAGCATCAGGGACACGTGTA+CGG 0.574817 5.3:-77328114 MS.gene020793:CDS
AACAGTTCAGGAATGTGTAT+CGG 0.575632 5.3:-77328415 MS.gene020793:CDS
GTTTCAGCATTAGGATAACC+GGG 0.577286 5.3:+77328060 None:intergenic
TCCTAATGCTGAAACTAATG+CGG 0.577317 5.3:-77328052 MS.gene020793:CDS
GAGAAACGAAAGACGATCAA+CGG 0.592030 5.3:-77328345 MS.gene020793:CDS
CTAATAAGCTTGTTCTACCT+GGG 0.593198 5.3:+77328024 None:intergenic
AAACTAATGCGGGTAGACCC+AGG 0.595538 5.3:-77328041 MS.gene020793:CDS
CAGCATCAGCATCAGCATCA+GGG 0.606009 5.3:-77328126 MS.gene020793:CDS
GAGTTCATCAGCTTCATCAC+CGG 0.608726 5.3:-77328393 MS.gene020793:CDS
TGCATGATCATTCCAACTTG+AGG 0.613313 5.3:+77328147 None:intergenic
GGACACGTGTACGGTTCTGG+TGG 0.628725 5.3:-77328105 MS.gene020793:CDS
GAAGATCTCGAAAGACGCGA+AGG 0.642019 5.3:-77328439 MS.gene020793:CDS
AAGAATCGGTCTTGTTCTCG+CGG 0.644860 5.3:+77328513 None:intergenic
CAACGATTCAGAGAGATCGA+AGG 0.645752 5.3:-77328252 MS.gene020793:CDS
ATGATCATTCCAACTTGAGG+AGG 0.658950 5.3:+77328150 None:intergenic
GTTGCTGCACGTGATAAAGA+TGG 0.679086 5.3:-77328219 MS.gene020793:CDS
GATTCCGACAATGAATCGGG+AGG 0.690680 5.3:-77328567 MS.gene020793:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CGTTGAAGATAAATCTTCAA+TGG + chr5.3:77328344-77328363 None:intergenic 30.0%
AACAGTTCAGGAATGTGTAT+CGG - chr5.3:77328196-77328215 MS.gene020793:CDS 35.0%
AGTTTCAGCATTAGGATAAC+CGG + chr5.3:77328555-77328574 None:intergenic 35.0%
TCCTAATGCTGAAACTAATG+CGG - chr5.3:77328559-77328578 MS.gene020793:CDS 35.0%
TTTCTCTCTCTGACACTTAT+CGG + chr5.3:77328252-77328271 None:intergenic 35.0%
!! AATAATGAAGAAGGCGTTAC+CGG - chr5.3:77328142-77328161 MS.gene020793:CDS 35.0%
!! CGTTTGCTATTGGTAAGAAT+CGG + chr5.3:77328115-77328134 None:intergenic 35.0%
ATCTTTATCACGTGCAGCAA+CGG + chr5.3:77328393-77328412 None:intergenic 40.0%
ATGATCATTCCAACTTGAGG+AGG + chr5.3:77328464-77328483 None:intergenic 40.0%
CCTAATGCTGAAACTAATGC+GGG - chr5.3:77328560-77328579 MS.gene020793:CDS 40.0%
CGTGAGCAGAATAATGAAGA+AGG - chr5.3:77328133-77328152 MS.gene020793:CDS 40.0%
GAGAAACGAAAGACGATCAA+CGG - chr5.3:77328266-77328285 MS.gene020793:CDS 40.0%
GTTTCAGCATTAGGATAACC+GGG + chr5.3:77328554-77328573 None:intergenic 40.0%
TCCTTCTTCTTCTTCGTCTT+CGG - chr5.3:77328421-77328440 MS.gene020793:CDS 40.0%
TGCATGATCATTCCAACTTG+AGG + chr5.3:77328467-77328486 None:intergenic 40.0%
! TCGTCTTCGGTTTTCGATTA+TGG - chr5.3:77328434-77328453 MS.gene020793:CDS 40.0%
!! ATTCTGCTCACGTTTGCTAT+TGG + chr5.3:77328125-77328144 None:intergenic 40.0%
ACCGAAGACGAAGAAGAAGA+AGG + chr5.3:77328425-77328444 None:intergenic 45.0%
CAACGATTCAGAGAGATCGA+AGG - chr5.3:77328359-77328378 MS.gene020793:CDS 45.0%
GAGTTCATCAGCTTCATCAC+CGG - chr5.3:77328218-77328237 MS.gene020793:CDS 45.0%
GTTGCTGCACGTGATAAAGA+TGG - chr5.3:77328392-77328411 MS.gene020793:CDS 45.0%
! CCCGCATTAGTTTCAGCATT+AGG + chr5.3:77328563-77328582 None:intergenic 45.0%
! GCTGATTCCGACAATGAATC+GGG - chr5.3:77328041-77328060 MS.gene020793:CDS 45.0%
! GGCTGATTCCGACAATGAAT+CGG - chr5.3:77328040-77328059 MS.gene020793:CDS 45.0%
! GTTTTCATCAAGTGCCTGGT+GGG - chr5.3:77328528-77328547 MS.gene020793:CDS 45.0%
!! AAGAATCGGTCTTGTTCTCG+CGG + chr5.3:77328101-77328120 None:intergenic 45.0%
AAACTAATGCGGGTAGACCC+AGG - chr5.3:77328570-77328589 MS.gene020793:CDS 50.0%
ACACTTATCGGAAGCTTCGC+CGG + chr5.3:77328240-77328259 None:intergenic 50.0%
AGACGCGAAGGAAACAGTTC+AGG - chr5.3:77328184-77328203 MS.gene020793:CDS 50.0%
CAACGGCGACGATCTACTTT+GGG - chr5.3:77328283-77328302 MS.gene020793:CDS 50.0%
CAGCATCAGCATCAGCATCA+GGG - chr5.3:77328485-77328504 MS.gene020793:CDS 50.0%
CTTTGGGCGATGACTACGTT+AGG - chr5.3:77328299-77328318 MS.gene020793:CDS 50.0%
GAAGATCTCGAAAGACGCGA+AGG - chr5.3:77328172-77328191 MS.gene020793:CDS 50.0%
GATTCCGACAATGAATCGGG+AGG - chr5.3:77328044-77328063 MS.gene020793:CDS 50.0%
TATGGTGCTCCTCCTCAAGT+TGG - chr5.3:77328452-77328471 MS.gene020793:CDS 50.0%
TCAACGGCGACGATCTACTT+TGG - chr5.3:77328282-77328301 MS.gene020793:CDS 50.0%
TGCTCCTCCCGATTCATTGT+CGG + chr5.3:77328051-77328070 None:intergenic 50.0%
! GGTGGTTTTCATCAAGTGCC+TGG - chr5.3:77328524-77328543 MS.gene020793:CDS 50.0%
! GGTTTTCATCAAGTGCCTGG+TGG - chr5.3:77328527-77328546 MS.gene020793:CDS 50.0%
CAGCATCAGGGACACGTGTA+CGG - chr5.3:77328497-77328516 MS.gene020793:CDS 55.0%
CGGTGATAACTCGCTGTTCC+CGG + chr5.3:77328081-77328100 None:intergenic 55.0%
GCAGCATCAGCATCAGCATC+AGG - chr5.3:77328484-77328503 MS.gene020793:CDS 55.0%
TTCGAGATCTTCGCGTTCGC+CGG + chr5.3:77328164-77328183 None:intergenic 55.0%
AACTCGCTGTTCCCGGCGTT+CGG + chr5.3:77328074-77328093 None:intergenic 60.0%
CAGGGACACGTGTACGGTTC+TGG - chr5.3:77328503-77328522 MS.gene020793:CDS 60.0%
TTAGGATAACCGGGCCCACC+AGG + chr5.3:77328545-77328564 None:intergenic 60.0%
! GGACACGTGTACGGTTCTGG+TGG - chr5.3:77328506-77328525 MS.gene020793:CDS 60.0%
! CATCAAGTGCCTGGTGGGCC+CGG - chr5.3:77328533-77328552 MS.gene020793:CDS 65.0%
!! TCGGGAGGAGCACCGAACGC+CGG - chr5.3:77328059-77328078 MS.gene020793:CDS 70.0%
!! CGGGAGGAGCACCGAACGCC+GGG - chr5.3:77328060-77328079 MS.gene020793:CDS 75.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 77328038 77328595 77328038 ID=MS.gene020793
chr5.3 mRNA 77328038 77328595 77328038 ID=MS.gene020793.t1;Parent=MS.gene020793
chr5.3 exon 77328038 77328595 77328038 ID=MS.gene020793.t1.exon1;Parent=MS.gene020793.t1
chr5.3 CDS 77328038 77328595 77328038 ID=cds.MS.gene020793.t1;Parent=MS.gene020793.t1
Gene Sequence

>MS.gene020793

ATGGCTGATTCCGACAATGAATCGGGAGGAGCACCGAACGCCGGGAACAGCGAGTTATCACCGCGAGAACAAGACCGATTCTTACCAATAGCAAACGTGAGCAGAATAATGAAGAAGGCGTTACCGGCGAACGCGAAGATCTCGAAAGACGCGAAGGAAACAGTTCAGGAATGTGTATCGGAGTTCATCAGCTTCATCACCGGCGAAGCTTCCGATAAGTGTCAGAGAGAGAAACGAAAGACGATCAACGGCGACGATCTACTTTGGGCGATGACTACGTTAGGATTTGAAGAGTACGTTGAACCATTGAAGATTTATCTTCAACGATTCAGAGAGATCGAAGGTGAGAAAACCGTTGCTGCACGTGATAAAGATGGTGTTGCTCCTTCTTCTTCTTCGTCTTCGGTTTTCGATTATGGTGCTCCTCCTCAAGTTGGAATGATCATGCAGCATCAGCATCAGCATCAGGGACACGTGTACGGTTCTGGTGGTTTTCATCAAGTGCCTGGTGGGCCCGGTTATCCTAATGCTGAAACTAATGCGGGTAGACCCAGGTAG
Protein sequence

>MS.gene020793.t1

MADSDNESGGAPNAGNSELSPREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFITGEASDKCQREKRKTINGDDLLWAMTTLGFEEYVEPLKIYLQRFREIEGEKTVAARDKDGVAPSSSSSSVFDYGAPPQVGMIMQHQHQHQGHVYGSGGFHQVPGGPGYPNAETNAGRPR