AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene072432


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene072432.t1 MTR_7g114060 97.122 139 4 0 1 139 1 139 1.04e-94 269
MS.gene072432.t1 MTR_7g114040 97.122 139 4 0 1 139 1 139 1.04e-94 269
MS.gene072432.t1 MTR_7g108320 95.070 142 4 1 1 139 1 142 3.24e-92 263
MS.gene072432.t1 MTR_7g093910 85.401 137 20 0 3 139 6 142 4.01e-82 238
MS.gene072432.t1 MTR_7g114050 87.023 131 6 2 9 139 11 130 9.58e-73 213
MS.gene072432.t1 MTR_2g082510 87.603 121 11 1 10 126 3 123 6.39e-70 206
MS.gene072432.t1 MTR_2g082220 86.290 124 13 1 10 129 3 126 7.87e-70 206
MS.gene072432.t1 MTR_2g096610 75.000 120 30 0 18 137 21 140 7.95e-60 181
MS.gene072432.t1 MTR_7g113160 76.033 121 25 1 4 124 15 131 3.14e-59 180
MS.gene072432.t1 MTR_4g063280 72.441 127 34 1 1 127 1 126 2.43e-58 177
MS.gene072432.t1 MTR_8g086640 79.817 109 22 0 19 127 24 132 2.79e-58 177
MS.gene072432.t1 MTR_4g064005 79.817 109 22 0 19 127 24 132 4.57e-58 177
MS.gene072432.t1 MTR_2g096570 81.132 106 20 0 19 124 23 128 4.86e-58 177
MS.gene072432.t1 MTR_4g071150 81.132 106 20 0 19 124 24 129 6.90e-58 177
MS.gene072432.t1 MTR_4g064967 81.132 106 20 0 19 124 24 129 9.83e-58 176
MS.gene072432.t1 MTR_4g063410 80.189 106 21 0 19 124 24 129 1.90e-57 176
MS.gene072432.t1 MTR_6g005150 61.345 119 37 2 19 136 26 136 3.71e-42 136
MS.gene072432.t1 MTR_1g011750 63.551 107 37 2 18 123 25 130 1.59e-39 129
MS.gene072432.t1 MTR_1g011850 63.551 107 37 2 18 123 25 130 1.59e-39 129
MS.gene072432.t1 MTR_1g114050 62.617 107 38 2 20 125 24 129 1.90e-38 127
MS.gene072432.t1 MTR_1g071040 63.208 106 37 2 21 125 28 132 3.90e-38 126
MS.gene072432.t1 MTR_4g063300 79.730 74 15 0 40 113 10 83 9.89e-36 119
MS.gene072432.t1 MTR_4g005910 91.111 45 4 0 82 126 4 48 1.24e-23 87.0
MS.gene072432.t1 MTR_7g010440 69.697 66 20 0 73 138 122 187 5.68e-23 91.7
MS.gene072432.t1 MTR_4g048490 45.714 105 28 2 19 123 26 101 6.65e-20 79.0
MS.gene072432.t1 MTR_1g069770 55.224 67 30 0 62 128 32 98 6.85e-19 76.6
MS.gene072432.t1 MTR_7g027610 40.323 124 39 4 6 125 4 96 2.25e-16 70.1
MS.gene072432.t1 MTR_0653s0030 40.000 100 35 2 3 102 21 95 1.95e-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.gene072432.t1 AT1G54690 94.118 136 8 0 4 139 7 142 9.16e-90 257
MS.gene072432.t1 AT1G08880 93.382 136 9 0 4 139 7 142 2.28e-89 256
MS.gene072432.t1 AT4G27230 87.097 124 12 1 10 129 3 126 9.93e-71 208
MS.gene072432.t1 AT4G27230 87.097 124 12 1 10 129 3 126 9.93e-71 208
MS.gene072432.t1 AT5G54640 86.290 124 13 1 10 129 3 126 9.30e-70 206
MS.gene072432.t1 AT3G20670 85.484 124 14 1 10 129 3 126 1.04e-68 203
MS.gene072432.t1 AT1G51060 83.871 124 16 1 10 129 3 126 1.49e-68 203
MS.gene072432.t1 AT5G59870 72.308 130 31 2 1 125 1 130 1.56e-60 183
MS.gene072432.t1 AT5G27670 70.588 136 34 2 4 137 14 145 1.16e-57 176
MS.gene072432.t1 AT5G02560 78.182 110 24 0 18 127 23 132 1.81e-57 176
MS.gene072432.t1 AT5G02560 64.179 134 24 1 18 127 23 156 4.48e-52 163
MS.gene072432.t1 AT1G52740 57.377 122 43 3 12 125 12 132 6.98e-39 128
MS.gene072432.t1 AT2G38810 62.617 107 38 2 18 123 27 132 1.15e-38 127
MS.gene072432.t1 AT2G38810 62.617 107 38 2 18 123 27 132 1.15e-38 127
MS.gene072432.t1 AT2G38810 62.617 107 38 2 18 123 27 132 1.15e-38 127
MS.gene072432.t1 AT2G38810 62.617 107 38 2 18 123 27 132 1.15e-38 127
MS.gene072432.t1 AT3G54560 60.952 105 39 2 20 123 29 132 4.84e-37 123
MS.gene072432.t1 AT3G54560 60.952 105 39 2 20 123 29 132 4.84e-37 123
MS.gene072432.t1 AT4G13570 45.045 111 59 2 8 117 9 118 2.09e-22 85.9
MS.gene072432.t1 AT4G13570 49.451 91 44 2 28 117 35 124 8.80e-22 84.3

Find 51 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCCCTTCCCAGCCTTCTT+TGG 0.272919 7.3:-2901606 None:intergenic
TGAAGAACTCAGCAAGCTTT+TGG 0.286717 7.3:+2901527 MS.gene072432:CDS
TGAAGATCTGGAAACTGATT+TGG 0.302821 7.3:-2901203 None:intergenic
CAGCAAAGTCTGATGAATAT+TGG 0.310312 7.3:-2901583 None:intergenic
GGGAAGGGAAAAGGCGAAAT+TGG 0.311073 7.3:+2901618 MS.gene072432:CDS
AACACGTTCGGCGTATTTGC+CGG 0.318153 7.3:-2901275 None:intergenic
AAGTCCGGCCTTTGAAGATC+TGG 0.387108 7.3:-2901215 None:intergenic
AGCAAAGTCTGATGAATATT+GGG 0.399419 7.3:-2901582 None:intergenic
GAAACTGATTTGGAAGCCTT+CGG 0.412102 7.3:-2901193 None:intergenic
ACTTTGCTGCCAAAGAAGGC+TGG 0.424753 7.3:+2901597 MS.gene072432:CDS
TCAGACTTTGCTGCCAAAGA+AGG 0.433123 7.3:+2901593 MS.gene072432:CDS
AGCTCCGGCACCAACACGTT+CGG 0.444935 7.3:-2901287 None:intergenic
AAGAAGGCTGGGAAGGGAAA+AGG 0.471306 7.3:+2901609 MS.gene072432:CDS
GGAACTGTGACCATTGCTAA+TGG 0.483635 7.3:+2901549 MS.gene072432:CDS
ACGTGTTGGTGCCGGAGCTC+CGG 0.485122 7.3:+2901291 MS.gene072432:CDS
GGCACATTCAGCTTGCTGTC+AGG 0.491110 7.3:+2901499 MS.gene072432:CDS
CGGCGTATTTGCCGGCCTTG+AGG 0.502918 7.3:-2901267 None:intergenic
CTGGTACCACCAAGGGAGGA+AGG 0.503740 7.3:+2901164 MS.gene072432:CDS
GGTACCACCAAGGGAGGAAG+GGG 0.506354 7.3:+2901166 MS.gene072432:CDS
CTTTGCTGCCAAAGAAGGCT+GGG 0.518155 7.3:+2901598 MS.gene072432:CDS
GTTTCCAGATCTTCAAAGGC+CGG 0.518477 7.3:+2901211 MS.gene072432:CDS
TCCGACGGGGAATTGAAGTC+CGG 0.524129 7.3:-2901230 None:intergenic
TACGCCGAACGTGTTGGTGC+CGG 0.525825 7.3:+2901283 MS.gene072432:CDS
GCTGCCAAAGAAGGCTGGGA+AGG 0.531759 7.3:+2901602 MS.gene072432:CDS
AATTGGCTGGGAACGCTGCA+AGG 0.533557 7.3:+2901448 MS.gene072432:CDS
ATCGCAAGATTCCTCAAGGC+CGG 0.538535 7.3:+2901256 MS.gene072432:CDS
TGGTACCACCAAGGGAGGAA+GGG 0.539265 7.3:+2901165 MS.gene072432:CDS
ATCAGTTTCCAGATCTTCAA+AGG 0.543380 7.3:+2901207 MS.gene072432:CDS
AGAGAGGTATACCGGAGCTC+CGG 0.548996 7.3:-2901302 None:intergenic
AGGACCGCAGAGAGGTATAC+CGG 0.559095 7.3:-2901310 None:intergenic
AATCTTGCGATTCTTCCGAC+GGG 0.559881 7.3:-2901244 None:intergenic
ATTGGCTGGGAACGCTGCAA+GGG 0.562499 7.3:+2901449 MS.gene072432:CDS
GATTCTGCTGGTACCACCAA+GGG 0.568843 7.3:+2901157 MS.gene072432:CDS
GAATCTTGCGATTCTTCCGA+CGG 0.569168 7.3:-2901245 None:intergenic
GAATGTGCCTTGGTACAATA+CGG 0.571461 7.3:-2901485 None:intergenic
CTGCCAAAGAAGGCTGGGAA+GGG 0.583937 7.3:+2901603 MS.gene072432:CDS
GGCAAATACGCCGAACGTGT+TGG 0.584120 7.3:+2901277 MS.gene072432:CDS
ACAGCAAGCTGAATGTGCCT+TGG 0.605047 7.3:-2901495 None:intergenic
GGGAGGAAGGGGAAAACCGA+AGG 0.611626 7.3:+2901177 MS.gene072432:CDS
AAGAATCGCAAGATTCCTCA+AGG 0.619754 7.3:+2901252 MS.gene072432:CDS
CCTTGAGTATCTCGCTGCTG+AGG 0.632170 7.3:+2901330 MS.gene072432:CDS
CCTCAGCAGCGAGATACTCA+AGG 0.638807 7.3:-2901330 None:intergenic
TCTGCTGGTACCACCAAGGG+AGG 0.639099 7.3:+2901160 MS.gene072432:CDS
CAGAACACCACCATTAGCAA+TGG 0.646082 7.3:-2901559 None:intergenic
GCCGGACTTCAATTCCCCGT+CGG 0.658042 7.3:+2901229 MS.gene072432:CDS
GGATTCTGCTGGTACCACCA+AGG 0.659312 7.3:+2901156 MS.gene072432:CDS
AGAAGAACCGTATTGTACCA+AGG 0.686303 7.3:+2901478 MS.gene072432:CDS
ACTGTGACCATTGCTAATGG+TGG 0.694716 7.3:+2901552 MS.gene072432:CDS
ATCTTGCGATTCTTCCGACG+GGG 0.695192 7.3:-2901243 None:intergenic
GATACTCAAGGACCGCAGAG+AGG 0.712819 7.3:-2901318 None:intergenic
AGCTCCGGTATACCTCTCTG+CGG 0.763589 7.3:+2901306 MS.gene072432:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTAAACTGTATTTTAATTT+TGG + chr7.3:2901410-2901429 MS.gene072432:intron 10.0%
!!! TTAAACTGTATTTTAATTTT+GGG + chr7.3:2901411-2901430 MS.gene072432:intron 10.0%
!! AAAATACAGTTTAATCAAAT+TGG - chr7.3:2901405-2901424 None:intergenic 15.0%
!!! TATTTTAATTTTGGGTATTT+AGG + chr7.3:2901419-2901438 MS.gene072432:intron 15.0%
! ATACAAAAAAGAGAGTGAAA+GGG - chr7.3:2901377-2901396 None:intergenic 25.0%
! TATACAAAAAAGAGAGTGAA+AGG - chr7.3:2901378-2901397 None:intergenic 25.0%
!!! AATTTTGGGTATTTAGGTTT+TGG + chr7.3:2901425-2901444 MS.gene072432:intron 25.0%
AGCAAAGTCTGATGAATATT+GGG - chr7.3:2901585-2901604 None:intergenic 30.0%
ATCAGTTTCCAGATCTTCAA+AGG + chr7.3:2901207-2901226 MS.gene072432:CDS 35.0%
CAGCAAAGTCTGATGAATAT+TGG - chr7.3:2901586-2901605 None:intergenic 35.0%
TGAAGATCTGGAAACTGATT+TGG - chr7.3:2901206-2901225 None:intergenic 35.0%
!!! ATTTAGGTTTTGGAATTGGC+TGG + chr7.3:2901435-2901454 MS.gene072432:intron 35.0%
!!! GGGTATTTAGGTTTTGGAAT+TGG + chr7.3:2901431-2901450 MS.gene072432:intron 35.0%
!!! TTTAGGTTTTGGAATTGGCT+GGG + chr7.3:2901436-2901455 MS.gene072432:intron 35.0%
AAGAATCGCAAGATTCCTCA+AGG + chr7.3:2901252-2901271 MS.gene072432:CDS 40.0%
AGAAGAACCGTATTGTACCA+AGG + chr7.3:2901478-2901497 MS.gene072432:CDS 40.0%
GAATGTGCCTTGGTACAATA+CGG - chr7.3:2901488-2901507 None:intergenic 40.0%
! GAAGAACTCAGCAAGCTTTT+GGG + chr7.3:2901528-2901547 MS.gene072432:CDS 40.0%
! TGAAGAACTCAGCAAGCTTT+TGG + chr7.3:2901527-2901546 MS.gene072432:CDS 40.0%
!! GAAACTGATTTGGAAGCCTT+CGG - chr7.3:2901196-2901215 None:intergenic 40.0%
AATCTTGCGATTCTTCCGAC+GGG - chr7.3:2901247-2901266 None:intergenic 45.0%
ACTGTGACCATTGCTAATGG+TGG + chr7.3:2901552-2901571 MS.gene072432:CDS 45.0%
CAGAACACCACCATTAGCAA+TGG - chr7.3:2901562-2901581 None:intergenic 45.0%
GAATCTTGCGATTCTTCCGA+CGG - chr7.3:2901248-2901267 None:intergenic 45.0%
GGAACTGTGACCATTGCTAA+TGG + chr7.3:2901549-2901568 MS.gene072432:CDS 45.0%
GTTTCCAGATCTTCAAAGGC+CGG + chr7.3:2901211-2901230 MS.gene072432:CDS 45.0%
TCAGACTTTGCTGCCAAAGA+AGG + chr7.3:2901593-2901612 MS.gene072432:CDS 45.0%
AACACGTTCGGCGTATTTGC+CGG - chr7.3:2901278-2901297 None:intergenic 50.0%
AAGAAGGCTGGGAAGGGAAA+AGG + chr7.3:2901609-2901628 MS.gene072432:CDS 50.0%
ACAGCAAGCTGAATGTGCCT+TGG - chr7.3:2901498-2901517 None:intergenic 50.0%
ACTTTGCTGCCAAAGAAGGC+TGG + chr7.3:2901597-2901616 MS.gene072432:CDS 50.0%
ATCGCAAGATTCCTCAAGGC+CGG + chr7.3:2901256-2901275 MS.gene072432:CDS 50.0%
ATCTTGCGATTCTTCCGACG+GGG - chr7.3:2901246-2901265 None:intergenic 50.0%
CTTTGCTGCCAAAGAAGGCT+GGG + chr7.3:2901598-2901617 MS.gene072432:CDS 50.0%
GATTCTGCTGGTACCACCAA+GGG + chr7.3:2901157-2901176 MS.gene072432:CDS 50.0%
GGGAAGGGAAAAGGCGAAAT+TGG + chr7.3:2901618-2901637 MS.gene072432:CDS 50.0%
TTTCCCTTCCCAGCCTTCTT+TGG - chr7.3:2901609-2901628 None:intergenic 50.0%
! AAGTCCGGCCTTTGAAGATC+TGG - chr7.3:2901218-2901237 None:intergenic 50.0%
AATTGGCTGGGAACGCTGCA+AGG + chr7.3:2901448-2901467 MS.gene072432:CDS 55.0%
AGCTCCGGTATACCTCTCTG+CGG + chr7.3:2901306-2901325 MS.gene072432:CDS 55.0%
ATTGGCTGGGAACGCTGCAA+GGG + chr7.3:2901449-2901468 MS.gene072432:CDS 55.0%
CCTCAGCAGCGAGATACTCA+AGG - chr7.3:2901333-2901352 None:intergenic 55.0%
CCTTGAGTATCTCGCTGCTG+AGG + chr7.3:2901330-2901349 MS.gene072432:CDS 55.0%
CTGCCAAAGAAGGCTGGGAA+GGG + chr7.3:2901603-2901622 MS.gene072432:CDS 55.0%
GATACTCAAGGACCGCAGAG+AGG - chr7.3:2901321-2901340 None:intergenic 55.0%
GGATTCTGCTGGTACCACCA+AGG + chr7.3:2901156-2901175 MS.gene072432:CDS 55.0%
GGCAAATACGCCGAACGTGT+TGG + chr7.3:2901277-2901296 MS.gene072432:CDS 55.0%
TCCGACGGGGAATTGAAGTC+CGG - chr7.3:2901233-2901252 None:intergenic 55.0%
TGGTACCACCAAGGGAGGAA+GGG + chr7.3:2901165-2901184 MS.gene072432:CDS 55.0%
! AGAGAGGTATACCGGAGCTC+CGG - chr7.3:2901305-2901324 None:intergenic 55.0%
! AGGACCGCAGAGAGGTATAC+CGG - chr7.3:2901313-2901332 None:intergenic 55.0%
! TTTTCCCCTTCCTCCCTTGG+TGG - chr7.3:2901173-2901192 None:intergenic 55.0%
!! GGCACATTCAGCTTGCTGTC+AGG + chr7.3:2901499-2901518 MS.gene072432:CDS 55.0%
AGCTCCGGCACCAACACGTT+CGG - chr7.3:2901290-2901309 None:intergenic 60.0%
CTGGTACCACCAAGGGAGGA+AGG + chr7.3:2901164-2901183 MS.gene072432:CDS 60.0%
GCCGGACTTCAATTCCCCGT+CGG + chr7.3:2901229-2901248 MS.gene072432:CDS 60.0%
GCTGCCAAAGAAGGCTGGGA+AGG + chr7.3:2901602-2901621 MS.gene072432:CDS 60.0%
GGGAGGAAGGGGAAAACCGA+AGG + chr7.3:2901177-2901196 MS.gene072432:CDS 60.0%
GGTACCACCAAGGGAGGAAG+GGG + chr7.3:2901166-2901185 MS.gene072432:CDS 60.0%
TCTGCTGGTACCACCAAGGG+AGG + chr7.3:2901160-2901179 MS.gene072432:CDS 60.0%
! CGGTTTTCCCCTTCCTCCCT+TGG - chr7.3:2901176-2901195 None:intergenic 60.0%
! TACGCCGAACGTGTTGGTGC+CGG + chr7.3:2901283-2901302 MS.gene072432:CDS 60.0%
CGGCGTATTTGCCGGCCTTG+AGG - chr7.3:2901270-2901289 None:intergenic 65.0%
!! ACGTGTTGGTGCCGGAGCTC+CGG + chr7.3:2901291-2901310 MS.gene072432:CDS 65.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 2901154 2901662 2901154 ID=MS.gene072432
chr7.3 mRNA 2901154 2901662 2901154 ID=MS.gene072432.t1;Parent=MS.gene072432
chr7.3 exon 2901154 2901351 2901154 ID=MS.gene072432.t1.exon1;Parent=MS.gene072432.t1
chr7.3 CDS 2901154 2901351 2901154 ID=cds.MS.gene072432.t1;Parent=MS.gene072432.t1
chr7.3 exon 2901441 2901662 2901441 ID=MS.gene072432.t1.exon2;Parent=MS.gene072432.t1
chr7.3 CDS 2901441 2901662 2901441 ID=cds.MS.gene072432.t1;Parent=MS.gene072432.t1
Gene Sequence

>MS.gene072432

ATGGATTCTGCTGGTACCACCAAGGGAGGAAGGGGAAAACCGAAGGCTTCCAAATCAGTTTCCAGATCTTCAAAGGCCGGACTTCAATTCCCCGTCGGAAGAATCGCAAGATTCCTCAAGGCCGGCAAATACGCCGAACGTGTTGGTGCCGGAGCTCCGGTATACCTCTCTGCGGTCCTTGAGTATCTCGCTGCTGAGGTTCGTTTCTTTTCTTCAATTTCCCTTTCACTCTCTTTTTTGTATAATATCCAATTTGATTAAACTGTATTTTAATTTTGGGTATTTAGGTTTTGGAATTGGCTGGGAACGCTGCAAGGGACAACAAGAAGAACCGTATTGTACCAAGGCACATTCAGCTTGCTGTCAGGAACGATGAAGAACTCAGCAAGCTTTTGGGAACTGTGACCATTGCTAATGGTGGTGTTCTGCCCAATATTCATCAGACTTTGCTGCCAAAGAAGGCTGGGAAGGGAAAAGGCGAAATTGGATCTGCTTCTCAAGAATTTTAG

Protein sequence

>MS.gene072432.t1

MDSAGTTKGGRGKPKASKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLGTVTIANGGVLPNIHQTLLPKKAGKGKGEIGSASQEF