AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene01688

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01688.t1 MTR_2g010630 91.558 154 12 1 13 166 13 165 3.51e-105 298
MS.gene01688.t1 MTR_2g010650 86.310 168 18 5 1 166 1 165 8.29e-101 287
MS.gene01688.t1 MTR_2g010600 74.251 167 37 3 1 166 1 162 6.44e-91 262
MS.gene01688.t1 MTR_2g010700 71.176 170 43 3 1 166 1 168 7.44e-85 247
MS.gene01688.t1 MTR_2g010590 67.470 166 47 3 1 166 1 159 4.36e-83 242
MS.gene01688.t1 MTR_4g050762 73.054 167 39 3 1 166 1 162 9.51e-82 239
MS.gene01688.t1 MTR_2g012370 73.054 167 39 3 1 166 1 162 9.51e-82 239
MS.gene01688.t1 MTR_2g010640 68.072 166 50 3 1 166 1 163 1.36e-78 231
MS.gene01688.t1 MTR_2g010670 66.867 166 53 2 1 166 1 164 7.47e-76 224
MS.gene01688.t1 MTR_2g010690 64.458 166 57 2 1 166 1 164 1.20e-73 218
MS.gene01688.t1 MTR_2g010610 64.072 167 30 5 1 166 1 138 2.01e-61 186
MS.gene01688.t1 MTR_2g435490 53.704 162 68 3 6 166 9 164 1.39e-60 186
MS.gene01688.t1 MTR_2g010580 50.676 148 66 3 19 166 24 164 7.87e-52 163
MS.gene01688.t1 MTR_4g092540 46.341 164 70 5 4 166 13 159 9.99e-48 152
MS.gene01688.t1 MTR_4g128750 56.115 139 53 4 30 166 41 173 3.38e-46 149
MS.gene01688.t1 MTR_4g128770 48.227 141 66 3 29 166 70 206 1.55e-44 145
MS.gene01688.t1 MTR_1g067290 37.589 141 78 5 29 165 73 207 1.40e-27 102
MS.gene01688.t1 MTR_8g078770 35.915 142 82 6 29 166 36 172 1.94e-22 88.6
MS.gene01688.t1 MTR_4g092515 46.392 97 45 3 3 98 6 96 3.48e-21 84.0
MS.gene01688.t1 MTR_5g018770 32.168 143 88 4 29 166 47 185 3.40e-19 80.5
MS.gene01688.t1 MTR_5g018755 37.500 88 44 3 83 166 23 103 7.82e-13 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01688.t1 AT4G33720 56.707 164 64 3 3 166 7 163 5.79e-65 196
MS.gene01688.t1 AT2G14580 58.125 160 57 5 9 166 10 161 1.48e-61 187
MS.gene01688.t1 AT2G14610 56.250 160 60 5 9 166 10 161 4.53e-60 184
MS.gene01688.t1 AT5G26130 55.280 161 67 2 7 166 10 166 7.14e-60 183
MS.gene01688.t1 AT3G19690 55.488 164 62 4 5 166 7 161 1.46e-59 182
MS.gene01688.t1 AT4G33710 58.333 144 56 1 23 166 27 166 1.03e-57 178
MS.gene01688.t1 AT1G50060 49.112 169 75 5 1 166 1 161 1.08e-51 162
MS.gene01688.t1 AT4G33730 52.000 150 64 4 18 166 30 172 6.79e-48 153
MS.gene01688.t1 AT4G25780 50.355 141 63 3 29 166 54 190 2.16e-46 150
MS.gene01688.t1 AT4G25790 49.286 140 63 4 29 166 77 210 7.13e-45 147
MS.gene01688.t1 AT1G50050 46.707 167 83 3 1 166 1 162 1.36e-44 144
MS.gene01688.t1 AT4G30320 47.134 157 71 6 12 166 15 161 1.83e-44 144
MS.gene01688.t1 AT5G57625 50.360 139 61 4 30 166 75 207 5.56e-44 144
MS.gene01688.t1 AT2G19990 48.227 141 66 3 27 166 42 176 2.34e-43 142
MS.gene01688.t1 AT3G09590 47.518 141 65 4 29 166 52 186 1.57e-41 137
MS.gene01688.t1 AT5G02730 48.592 142 64 4 28 166 58 193 2.52e-40 135
MS.gene01688.t1 AT1G50050 46.795 156 77 3 1 155 1 151 7.52e-40 134
MS.gene01688.t1 AT1G01310 45.324 139 69 3 29 166 87 219 2.58e-38 131
MS.gene01688.t1 AT4G07820 44.138 145 73 4 22 166 24 160 2.28e-37 126
MS.gene01688.t1 AT4G31470 40.385 156 85 4 13 166 36 185 1.15e-35 122
MS.gene01688.t1 AT5G66590 39.583 144 73 5 30 166 49 185 3.27e-28 103
MS.gene01688.t1 AT2G19980 40.230 174 79 8 3 166 7 165 4.88e-28 102
MS.gene01688.t1 AT2G19970 38.816 152 74 8 26 166 34 177 9.72e-24 92.0

Find 40 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTAAAATTTCAAATATTGTT+TGG 0.293275 2.4:-72705617 MS.gene01688:CDS
TTAGGTTTAACACTCATTAT+TGG 0.301623 2.4:-72705723 MS.gene01688:CDS
TAAAATTTCAAATATTGTTT+GGG 0.326236 2.4:-72705616 MS.gene01688:CDS
TTACTACTATAATCATAGTT+TGG 0.369699 2.4:+72705432 None:intergenic
TTGATCCACTCCGGTGGTGG+TGG 0.379754 2.4:-72705534 MS.gene01688:CDS
CGTAGTCTGCTGGTGAGTCT+TGG 0.381814 2.4:+72705682 None:intergenic
GCCACTATACTCAGGTGGTT+TGG 0.400142 2.4:-72705383 MS.gene01688:CDS
TCCGGTGGTGGTGGGCGTTA+CGG 0.427305 2.4:-72705525 MS.gene01688:CDS
GCCAAAGTGAAATGTGATAA+TGG 0.427399 2.4:-72705336 MS.gene01688:CDS
AGTAGTAACTCATGTACTAA+TGG 0.438033 2.4:-72705417 MS.gene01688:CDS
GTAGTCTGCTGGTGAGTCTT+GGG 0.448748 2.4:+72705683 None:intergenic
TGGAGAAACACAAAGCGTAT+TGG 0.455942 2.4:-72705363 MS.gene01688:CDS
TCCATTATCACATTTCACTT+TGG 0.469667 2.4:+72705335 None:intergenic
CTTTCGCCAATATAGTTGCC+AGG 0.474936 2.4:+72705282 None:intergenic
TCCGTAACGCCCACCACCAC+CGG 0.485057 2.4:+72705524 None:intergenic
TGCCGATCTTGCATTGTTGT+GGG 0.491310 2.4:+72705653 None:intergenic
CTGCCGATCTTGCATTGTTG+TGG 0.503037 2.4:+72705652 None:intergenic
TCCAAACCACCTGAGTATAG+TGG 0.511835 2.4:+72705382 None:intergenic
TGCCCACAACAATGCAAGAT+CGG 0.519302 2.4:-72705655 MS.gene01688:CDS
TGATCCACTCCGGTGGTGGT+GGG 0.526774 2.4:-72705533 MS.gene01688:CDS
TGGGCATTCACGTAGTCTGC+TGG 0.533658 2.4:+72705672 None:intergenic
CAATTGATCCACTCCGGTGG+TGG 0.548354 2.4:-72705537 MS.gene01688:CDS
TTTCGCCAATATAGTTGCCA+GGG 0.556325 2.4:+72705283 None:intergenic
GCATCGAAGCAGTGAAGTTG+TGG 0.565988 2.4:-72705467 MS.gene01688:CDS
AAGCTATGCTAATCAACGCA+AGG 0.587995 2.4:-72705568 MS.gene01688:CDS
CATCGAAGCAGTGAAGTTGT+GGG 0.588926 2.4:-72705466 MS.gene01688:CDS
CGCCAATATAGTTGCCAGGG+GGG 0.599696 2.4:+72705286 None:intergenic
AACGCCCACCACCACCGGAG+TGG 0.599839 2.4:+72705529 None:intergenic
GAGAGCAGCGGCGACATGAG+TGG 0.600653 2.4:-72705489 MS.gene01688:CDS
GAAAATATCGCAGAGAGCAG+CGG 0.617856 2.4:-72705501 MS.gene01688:CDS
TTCGCCAATATAGTTGCCAG+GGG 0.619900 2.4:+72705284 None:intergenic
AGCTATGCTAATCAACGCAA+GGG 0.628360 2.4:-72705567 MS.gene01688:CDS
GATTGTCAATTGATCCACTC+CGG 0.634101 2.4:-72705543 MS.gene01688:CDS
CGAAGCAGTGAAGTTGTGGG+TGG 0.656466 2.4:-72705463 MS.gene01688:CDS
TCGCCAATATAGTTGCCAGG+GGG 0.658113 2.4:+72705285 None:intergenic
GTGTGGCCACTATACTCAGG+TGG 0.688606 2.4:-72705388 MS.gene01688:CDS
TGTCAATTGATCCACTCCGG+TGG 0.707723 2.4:-72705540 MS.gene01688:CDS
TGTACTAATGGTGAAATGTG+TGG 0.716008 2.4:-72705405 MS.gene01688:CDS
AATGTGTGGCCACTATACTC+AGG 0.735120 2.4:-72705391 MS.gene01688:CDS
AAAGTGAAATGTGATAATGG+AGG 0.772799 2.4:-72705333 MS.gene01688:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAAATTTCAAATATTGTTT+GGG - chr2.4:72705406-72705425 MS.gene01688:CDS 10.0%
!! TTAAAATTTCAAATATTGTT+TGG - chr2.4:72705405-72705424 MS.gene01688:CDS 10.0%
!! TTACTACTATAATCATAGTT+TGG + chr2.4:72705593-72705612 None:intergenic 20.0%
! TTAGGTTTAACACTCATTAT+TGG - chr2.4:72705299-72705318 MS.gene01688:CDS 25.0%
AGTAGTAACTCATGTACTAA+TGG - chr2.4:72705605-72705624 MS.gene01688:CDS 30.0%
TCCATTATCACATTTCACTT+TGG + chr2.4:72705690-72705709 None:intergenic 30.0%
!! AAAGTGAAATGTGATAATGG+AGG - chr2.4:72705689-72705708 MS.gene01688:CDS 30.0%
GCCAAAGTGAAATGTGATAA+TGG - chr2.4:72705686-72705705 MS.gene01688:CDS 35.0%
TGTACTAATGGTGAAATGTG+TGG - chr2.4:72705617-72705636 MS.gene01688:CDS 35.0%
! TTTTCTCTGTTGTGCTTGTT+AGG - chr2.4:72705281-72705300 MS.gene01688:CDS 35.0%
AAGCTATGCTAATCAACGCA+AGG - chr2.4:72705454-72705473 MS.gene01688:CDS 40.0%
AGCTATGCTAATCAACGCAA+GGG - chr2.4:72705455-72705474 MS.gene01688:CDS 40.0%
GATTGTCAATTGATCCACTC+CGG - chr2.4:72705479-72705498 MS.gene01688:CDS 40.0%
TGGAGAAACACAAAGCGTAT+TGG - chr2.4:72705659-72705678 MS.gene01688:CDS 40.0%
TTTCGCCAATATAGTTGCCA+GGG + chr2.4:72705742-72705761 None:intergenic 40.0%
AATGTGTGGCCACTATACTC+AGG - chr2.4:72705631-72705650 MS.gene01688:CDS 45.0%
CATCGAAGCAGTGAAGTTGT+GGG - chr2.4:72705556-72705575 MS.gene01688:CDS 45.0%
CTTTCGCCAATATAGTTGCC+AGG + chr2.4:72705743-72705762 None:intergenic 45.0%
GAAAATATCGCAGAGAGCAG+CGG - chr2.4:72705521-72705540 MS.gene01688:CDS 45.0%
TCCAAACCACCTGAGTATAG+TGG + chr2.4:72705643-72705662 None:intergenic 45.0%
TGCCCACAACAATGCAAGAT+CGG - chr2.4:72705367-72705386 MS.gene01688:CDS 45.0%
TGCCGATCTTGCATTGTTGT+GGG + chr2.4:72705372-72705391 None:intergenic 45.0%
TTCGCCAATATAGTTGCCAG+GGG + chr2.4:72705741-72705760 None:intergenic 45.0%
CTGCCGATCTTGCATTGTTG+TGG + chr2.4:72705373-72705392 None:intergenic 50.0%
GCATCGAAGCAGTGAAGTTG+TGG - chr2.4:72705555-72705574 MS.gene01688:CDS 50.0%
GCCACTATACTCAGGTGGTT+TGG - chr2.4:72705639-72705658 MS.gene01688:CDS 50.0%
GTAGTCTGCTGGTGAGTCTT+GGG + chr2.4:72705342-72705361 None:intergenic 50.0%
TCGCCAATATAGTTGCCAGG+GGG + chr2.4:72705740-72705759 None:intergenic 50.0%
TGTCAATTGATCCACTCCGG+TGG - chr2.4:72705482-72705501 MS.gene01688:CDS 50.0%
ACTTGCAATTACGACCCCCC+TGG - chr2.4:72705722-72705741 MS.gene01688:CDS 55.0%
CAATTGATCCACTCCGGTGG+TGG - chr2.4:72705485-72705504 MS.gene01688:CDS 55.0%
CGAAGCAGTGAAGTTGTGGG+TGG - chr2.4:72705559-72705578 MS.gene01688:CDS 55.0%
CGCCAATATAGTTGCCAGGG+GGG + chr2.4:72705739-72705758 None:intergenic 55.0%
CGTAGTCTGCTGGTGAGTCT+TGG + chr2.4:72705343-72705362 None:intergenic 55.0%
GACCCCCCTGGCAACTATAT+TGG - chr2.4:72705734-72705753 MS.gene01688:CDS 55.0%
GTGTGGCCACTATACTCAGG+TGG - chr2.4:72705634-72705653 MS.gene01688:CDS 55.0%
TGGGCATTCACGTAGTCTGC+TGG + chr2.4:72705353-72705372 None:intergenic 55.0%
! TGATCCACTCCGGTGGTGGT+GGG - chr2.4:72705489-72705508 MS.gene01688:CDS 60.0%
! TTGATCCACTCCGGTGGTGG+TGG - chr2.4:72705488-72705507 MS.gene01688:CDS 60.0%
GAGAGCAGCGGCGACATGAG+TGG - chr2.4:72705533-72705552 MS.gene01688:CDS 65.0%
TCCGTAACGCCCACCACCAC+CGG + chr2.4:72705501-72705520 None:intergenic 65.0%
!! TCCGGTGGTGGTGGGCGTTA+CGG - chr2.4:72705497-72705516 MS.gene01688:CDS 65.0%
AACGCCCACCACCACCGGAG+TGG + chr2.4:72705496-72705515 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 72705272 72705772 72705272 ID=MS.gene01688
chr2.4 mRNA 72705272 72705772 72705272 ID=MS.gene01688.t1;Parent=MS.gene01688
chr2.4 exon 72705272 72705772 72705272 ID=MS.gene01688.t1.exon1;Parent=MS.gene01688.t1
chr2.4 CDS 72705272 72705772 72705272 ID=cds.MS.gene01688.t1;Parent=MS.gene01688.t1
Gene Sequence

>MS.gene01688

ATGGGTTCATTTTCTCTGTTGTGCTTGTTAGGTTTAACACTCATTATTGGTAGTCACGTTGCACATGCCCAAGACTCACCAGCAGACTACGTGAATGCCCACAACAATGCAAGATCGGCAGTTCATACAAACGTTAAAATTTCAAATATTGTTTGGGACAACAAAGTTGCTGCTTTTGCACAAAGCTATGCTAATCAACGCAAGGGTGATTGTCAATTGATCCACTCCGGTGGTGGTGGGCGTTACGGAGAAAATATCGCAGAGAGCAGCGGCGACATGAGTGGCATCGAAGCAGTGAAGTTGTGGGTGGATGAAAAACCAAACTATGATTATAGTAGTAACTCATGTACTAATGGTGAAATGTGTGGCCACTATACTCAGGTGGTTTGGAGAAACACAAAGCGTATTGGATGTGCCAAAGTGAAATGTGATAATGGAGGCACATTCATTACTTGCAATTACGACCCCCCTGGCAACTATATTGGCGAAAGACCTTACTAA
Protein sequence

>MS.gene01688.t1

MGSFSLLCLLGLTLIIGSHVAHAQDSPADYVNAHNNARSAVHTNVKISNIVWDNKVAAFAQSYANQRKGDCQLIHSGGGGRYGENIAESSGDMSGIEAVKLWVDEKPNYDYSSNSCTNGEMCGHYTQVVWRNTKRIGCAKVKCDNGGTFITCNYDPPGNYIGERPY