AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene010756

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene010756.t1 MTR_0160s0030 97.640 339 6 1 1 337 23 361 0.0 675
MS.gene010756.t1 MTR_4g100860 43.151 292 123 10 47 331 60 315 1.10e-57 189
MS.gene010756.t1 MTR_4g027440 45.038 393 118 16 1 335 24 376 1.68e-53 180
MS.gene010756.t1 MTR_4g109340 39.241 158 53 4 206 322 340 495 8.60e-25 105
MS.gene010756.t1 MTR_5g012630 37.019 208 90 8 38 238 67 240 1.38e-23 98.2
MS.gene010756.t1 MTR_1g067650 35.256 156 81 5 177 318 5 154 3.83e-21 89.4
MS.gene010756.t1 MTR_1g067640 34.545 165 88 5 177 327 4 162 6.16e-21 88.6
MS.gene010756.t1 MTR_7g100100 40.136 147 70 9 189 320 6 149 8.64e-21 88.2
MS.gene010756.t1 MTR_1g106730 40.876 137 60 6 201 317 64 199 1.06e-19 87.4
MS.gene010756.t1 MTR_4g028610 34.783 161 50 4 211 316 222 382 2.97e-19 88.6
MS.gene010756.t1 MTR_3g102980 35.979 189 93 6 159 321 30 216 1.63e-18 83.6
MS.gene010756.t1 MTR_2g096540 35.664 143 68 5 188 320 1 129 5.78e-18 79.3
MS.gene010756.t1 MTR_1g018420 31.915 188 82 6 141 313 37 193 1.61e-16 78.2
MS.gene010756.t1 MTR_1g067660 38.583 127 60 6 216 327 35 158 5.29e-16 75.1
MS.gene010756.t1 MTR_5g062300 41.176 102 40 3 215 296 118 219 7.28e-16 76.6
MS.gene010756.t1 MTR_7g023560 40.367 109 53 4 182 284 6 108 1.53e-15 74.3
MS.gene010756.t1 MTR_4g057230 33.133 166 56 4 216 328 113 276 4.49e-15 75.1
MS.gene010756.t1 MTR_4g082980 52.459 61 21 2 262 317 393 450 6.35e-14 72.8
MS.gene010756.t1 MTR_1g115345 42.683 82 38 2 208 284 41 118 2.00e-13 68.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene010756.t1 AT3G60580 42.042 333 114 11 1 323 23 286 2.77e-58 190
MS.gene010756.t1 AT2G45120 42.342 333 137 10 1 323 23 310 3.53e-50 170
MS.gene010756.t1 AT1G02030 39.929 283 108 10 57 321 25 263 7.60e-34 125
MS.gene010756.t1 AT3G53600 38.760 129 66 4 216 334 49 174 1.47e-21 90.5
MS.gene010756.t1 AT3G19580 30.876 217 79 7 140 320 64 245 2.82e-21 92.0
MS.gene010756.t1 AT3G19580 30.876 217 79 7 140 320 64 245 2.82e-21 92.0
MS.gene010756.t1 AT2G37430 42.623 122 44 6 215 318 46 159 1.30e-18 82.4
MS.gene010756.t1 AT2G28200 34.416 154 45 5 216 317 115 264 3.57e-18 83.6
MS.gene010756.t1 AT5G61470 46.667 75 40 0 212 286 224 298 1.17e-17 82.4
MS.gene010756.t1 AT5G43170 35.762 151 50 3 142 292 45 148 2.33e-17 79.7
MS.gene010756.t1 AT4G35280 36.719 128 57 4 215 328 161 278 1.05e-16 79.7
MS.gene010756.t1 AT1G49900 47.887 71 35 1 216 284 750 820 1.77e-16 80.9
MS.gene010756.t1 AT1G49900 44.000 75 36 1 216 284 193 267 7.08e-14 73.2
MS.gene010756.t1 AT5G03510 35.616 146 52 4 214 317 116 261 2.24e-16 78.6
MS.gene010756.t1 AT2G28710 37.778 135 61 7 201 320 21 147 3.59e-16 75.1
MS.gene010756.t1 AT3G49930 41.739 115 47 4 216 321 94 197 2.02e-15 74.7
MS.gene010756.t1 AT2G17180 38.017 121 48 3 215 318 147 257 2.13e-15 75.5
MS.gene010756.t1 AT5G67450 40.217 92 30 2 216 284 97 186 3.06e-15 74.7
MS.gene010756.t1 AT3G46090 41.739 115 42 6 216 311 40 148 3.58e-15 72.8
MS.gene010756.t1 AT1G27730 33.493 209 63 9 140 320 48 208 4.24e-15 73.9
MS.gene010756.t1 AT5G59820 53.623 69 29 2 216 284 39 104 4.68e-15 72.4
MS.gene010756.t1 AT1G26610 59.016 61 20 2 260 317 397 455 5.44e-15 75.9
MS.gene010756.t1 AT3G46080 47.368 76 28 3 216 284 37 107 1.47e-14 70.9
MS.gene010756.t1 AT5G04340 41.176 85 31 2 216 284 89 170 9.72e-14 70.5
MS.gene010756.t1 AT3G46070 42.308 78 40 2 212 284 31 108 4.23e-13 67.0
MS.gene010756.t1 AT4G16610 38.462 117 57 3 43 157 52 155 1.96e-12 65.9

Find 40 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGAAAAGGGTCTTAATTA+TGG 0.258113 7.2:+56985437 MS.gene010756:CDS
ACGAGACGAATGCTTCTCTT+TGG 0.311235 7.2:-56985473 None:intergenic
AATTGAAATCGAAAGATCTT+TGG 0.317289 7.2:+56985865 MS.gene010756:CDS
TTGTCTATTCCATTTGTCTC+TGG 0.384596 7.2:-56985774 None:intergenic
AAAAGAACACATGTGATTCA+TGG 0.392470 7.2:+56986151 MS.gene010756:CDS
AGATGATGACGTTGATGAAA+AGG 0.399134 7.2:+56985424 MS.gene010756:CDS
CTAACTTCATCATCATCAAT+TGG 0.412597 7.2:-56986250 None:intergenic
ACAAAATGCAACATCTTCTT+CGG 0.417782 7.2:-56985738 None:intergenic
TTCAAATCTTATCAAGCATT+GGG 0.429788 7.2:+56985983 MS.gene010756:CDS
GCATCAGAAACCGAACTAAC+AGG 0.435004 7.2:-56985710 None:intergenic
GTTCAAATCTTATCAAGCAT+TGG 0.444666 7.2:+56985982 MS.gene010756:CDS
CTTCTTGCTTTGTAACAAGA+AGG 0.459791 7.2:-56985331 None:intergenic
TGAACATGAACCTGTTAGTT+CGG 0.475159 7.2:+56985700 MS.gene010756:CDS
GATTCTTCCACCGTTATGTT+CGG 0.482402 7.2:-56986037 None:intergenic
TGCAGTTGTCCAGAGACAAA+TGG 0.490021 7.2:+56985765 MS.gene010756:CDS
GATGATGACGTTGATGAAAA+GGG 0.491203 7.2:+56985425 MS.gene010756:CDS
TTCAATTCGGGTCAAGCACT+TGG 0.496045 7.2:+56986121 MS.gene010756:CDS
TTCTATATCTTGAAGAATCA+CGG 0.508062 7.2:-56985534 None:intergenic
AAAGAAAGTTCATGAATGTC+CGG 0.517315 7.2:+56986084 MS.gene010756:CDS
AATAATAATAAAGTACGTAA+AGG 0.519533 7.2:+56985929 MS.gene010756:CDS
CAACTCGGAAAAGATCCAAA+AGG 0.530550 7.2:+56985585 MS.gene010756:CDS
AATTCGGGTCAAGCACTTGG+TGG 0.534790 7.2:+56986124 MS.gene010756:CDS
AAAGGGTGTGGAAAATTCGC+GGG 0.538446 7.2:+56985603 MS.gene010756:CDS
AACTCGGAAAAGATCCAAAA+GGG 0.553686 7.2:+56985586 MS.gene010756:CDS
TCATCATCATCAATTGGAGC+AGG 0.554191 7.2:-56986244 None:intergenic
AAAGAGAAGCATTCGTCTCG+TGG 0.559474 7.2:+56985475 MS.gene010756:CDS
AAAAGGGTGTGGAAAATTCG+CGG 0.559838 7.2:+56985602 MS.gene010756:CDS
ACGGAACTTGTATCCACTTG+TGG 0.567540 7.2:-56985515 None:intergenic
GGAAAAGATCCAAAAGGGTG+TGG 0.567774 7.2:+56985591 MS.gene010756:CDS
GAAGATTAAACCGAACATAA+CGG 0.578318 7.2:+56986027 MS.gene010756:CDS
TTGAATACTCGAAAACATAC+CGG 0.586652 7.2:-56986103 None:intergenic
CATCGAAGAATAATCCAACT+CGG 0.596368 7.2:+56985570 MS.gene010756:CDS
ATAATAAAGTACGTAAAGGA+AGG 0.605908 7.2:+56985933 MS.gene010756:CDS
AAATGAACAATATGAAGATG+TGG 0.609717 7.2:+56985796 MS.gene010756:CDS
CATCATCAATTGGAGCAGGA+AGG 0.614177 7.2:-56986240 None:intergenic
CGACGACGAAGCTGAAGACG+AGG 0.639240 7.2:+56985832 MS.gene010756:CDS
AAATCTTATCAAGCATTGGG+TGG 0.639931 7.2:+56985986 MS.gene010756:CDS
AGAAGAAGAATCATCGCGAA+CGG 0.649326 7.2:+56985349 MS.gene010756:CDS
TCTGATGACGATGATGAAGA+CGG 0.688378 7.2:-56985401 None:intergenic
GATTAAACCGAACATAACGG+TGG 0.692339 7.2:+56986030 MS.gene010756:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATAATAAAGTACGTAA+AGG + chr7.2:56985929-56985948 MS.gene010756:CDS 15.0%
!!! TTTTAACAAGAATGATTCTT+CGG + chr7.2:56985673-56985692 MS.gene010756:CDS 20.0%
! AAATGAACAATATGAAGATG+TGG + chr7.2:56985796-56985815 MS.gene010756:CDS 25.0%
! AATTGAAATCGAAAGATCTT+TGG + chr7.2:56985865-56985884 MS.gene010756:CDS 25.0%
! ATAATAAAGTACGTAAAGGA+AGG + chr7.2:56985933-56985952 MS.gene010756:CDS 25.0%
! TTCAAATCTTATCAAGCATT+GGG + chr7.2:56985983-56986002 MS.gene010756:CDS 25.0%
! TTCTATATCTTGAAGAATCA+CGG - chr7.2:56985537-56985556 None:intergenic 25.0%
!!! ATGTTTTCGAGTATTCAATT+CGG + chr7.2:56986108-56986127 MS.gene010756:CDS 25.0%
AAAAGAACACATGTGATTCA+TGG + chr7.2:56986151-56986170 MS.gene010756:CDS 30.0%
AAAGAAAGTTCATGAATGTC+CGG + chr7.2:56986084-56986103 MS.gene010756:CDS 30.0%
ACAAAATGCAACATCTTCTT+CGG - chr7.2:56985741-56985760 None:intergenic 30.0%
CTAACTTCATCATCATCAAT+TGG - chr7.2:56986253-56986272 None:intergenic 30.0%
GAAGATTAAACCGAACATAA+CGG + chr7.2:56986027-56986046 MS.gene010756:CDS 30.0%
GATGAAAAGGGTCTTAATTA+TGG + chr7.2:56985437-56985456 MS.gene010756:CDS 30.0%
GTTCAAATCTTATCAAGCAT+TGG + chr7.2:56985982-56986001 MS.gene010756:CDS 30.0%
TTGAATACTCGAAAACATAC+CGG - chr7.2:56986106-56986125 None:intergenic 30.0%
! TTTTCAACAACTTCGAATTC+TGG - chr7.2:56986067-56986086 None:intergenic 30.0%
!! ACTCTTTTTGAGCTGAAAAT+TGG - chr7.2:56986196-56986215 None:intergenic 30.0%
!!! TGTTTTCGAGTATTCAATTC+GGG + chr7.2:56986109-56986128 MS.gene010756:CDS 30.0%
AACTCGGAAAAGATCCAAAA+GGG + chr7.2:56985586-56985605 MS.gene010756:CDS 35.0%
CATCGAAGAATAATCCAACT+CGG + chr7.2:56985570-56985589 MS.gene010756:CDS 35.0%
CTTCTTGCTTTGTAACAAGA+AGG - chr7.2:56985334-56985353 None:intergenic 35.0%
TGAACATGAACCTGTTAGTT+CGG + chr7.2:56985700-56985719 MS.gene010756:CDS 35.0%
TTGTCTATTCCATTTGTCTC+TGG - chr7.2:56985777-56985796 None:intergenic 35.0%
! AGAGTTTTCTTTTCCACAAG+TGG + chr7.2:56985502-56985521 MS.gene010756:CDS 35.0%
! AGATGATGACGTTGATGAAA+AGG + chr7.2:56985424-56985443 MS.gene010756:CDS 35.0%
! GATGATGACGTTGATGAAAA+GGG + chr7.2:56985425-56985444 MS.gene010756:CDS 35.0%
!! AAATCTTATCAAGCATTGGG+TGG + chr7.2:56985986-56986005 MS.gene010756:CDS 35.0%
AGAAGAAGAATCATCGCGAA+CGG + chr7.2:56985349-56985368 MS.gene010756:CDS 40.0%
CAACTCGGAAAAGATCCAAA+AGG + chr7.2:56985585-56985604 MS.gene010756:CDS 40.0%
GATTAAACCGAACATAACGG+TGG + chr7.2:56986030-56986049 MS.gene010756:CDS 40.0%
GATTCTTCCACCGTTATGTT+CGG - chr7.2:56986040-56986059 None:intergenic 40.0%
TCATCATCATCAATTGGAGC+AGG - chr7.2:56986247-56986266 None:intergenic 40.0%
! AAAAGGGTGTGGAAAATTCG+CGG + chr7.2:56985602-56985621 MS.gene010756:CDS 40.0%
! CTTTTGGATCTTTTCCGAGT+TGG - chr7.2:56985587-56985606 None:intergenic 40.0%
! TCTGATGACGATGATGAAGA+CGG - chr7.2:56985404-56985423 None:intergenic 40.0%
ACGAGACGAATGCTTCTCTT+TGG - chr7.2:56985476-56985495 None:intergenic 45.0%
ACGGAACTTGTATCCACTTG+TGG - chr7.2:56985518-56985537 None:intergenic 45.0%
CATCATCAATTGGAGCAGGA+AGG - chr7.2:56986243-56986262 None:intergenic 45.0%
GCATCAGAAACCGAACTAAC+AGG - chr7.2:56985713-56985732 None:intergenic 45.0%
GGAAAAGATCCAAAAGGGTG+TGG + chr7.2:56985591-56985610 MS.gene010756:CDS 45.0%
TGCAGTTGTCCAGAGACAAA+TGG + chr7.2:56985765-56985784 MS.gene010756:CDS 45.0%
TTCAATTCGGGTCAAGCACT+TGG + chr7.2:56986121-56986140 MS.gene010756:CDS 45.0%
! AAAGGGTGTGGAAAATTCGC+GGG + chr7.2:56985603-56985622 MS.gene010756:CDS 45.0%
! GCGAATTTTCCACACCCTTT+TGG - chr7.2:56985603-56985622 None:intergenic 45.0%
!! AAAGAGAAGCATTCGTCTCG+TGG + chr7.2:56985475-56985494 MS.gene010756:CDS 45.0%
AATTCGGGTCAAGCACTTGG+TGG + chr7.2:56986124-56986143 MS.gene010756:CDS 50.0%
CGACGACGAAGCTGAAGACG+AGG + chr7.2:56985832-56985851 MS.gene010756:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 56985311 56986324 56985311 ID=MS.gene010756
chr7.2 mRNA 56985311 56986324 56985311 ID=MS.gene010756.t1;Parent=MS.gene010756
chr7.2 exon 56985311 56986324 56985311 ID=MS.gene010756.t1.exon1;Parent=MS.gene010756.t1
chr7.2 CDS 56985311 56986324 56985311 ID=cds.MS.gene010756.t1;Parent=MS.gene010756.t1
Gene Sequence

>MS.gene010756

ATGAGATCTCATATGATGAACCTTCTTGTTACAAAGCAAGAAGAAGAATCATCGCGAACGGTTCAACTTAGTTTCGAAGCTGAATCAGCACCGTCTTCATCATCGTCATCAGAAGATGATGACGTTGATGAAAAGGGTCTTAATTATGGTCTTAGAGAGAATCCAAAGAGAAGCATTCGTCTCGTGGATCAAGAGTTTTCTTTTCCACAAGTGGATACAAGTTCCGTGATTCTTCAAGATATAGAAAGCGAAACTGAATCATCGAAGAATAATCCAACTCGGAAAAGATCCAAAAGGGTGTGGAAAATTCGCGGGTTTGAACAAAAGTATTACAATGAATCTGCTACGAAGAAAATGAAATTTTTTAACAAGAATGATTCTTCGGTTGTTGAACATGAACCTGTTAGTTCGGTTTCTGATGCAACAACCGAAGAAGATGTTGCATTTTGTCTAATGCAGTTGTCCAGAGACAAATGGAATAGACAAAATGAACAATATGAAGATGTGGAAGATGAAGATGACGACGACGAAGCTGAAGACGAGGAAGAAGATGAAATTGAAATCGAAAGATCTTTGGAAGATAGTGATGAATCTCAAGAGCTAGTAAAAGTATGCAAGAATAATAATAAAGTACGTAAAGGAAGGTACAAATGTGAAACATGTAATAAAGTGTTCAAATCTTATCAAGCATTGGGTGGTCATAGAGCAAGTCACAAGAAGATTAAACCGAACATAACGGTGGAAGAATCGTCGCCAGAATTCGAAGTTGTTGAAAAGAAAGTTCATGAATGTCCGGTATGTTTTCGAGTATTCAATTCGGGTCAAGCACTTGGTGGACACAAAAGAACACATGTGATTCATGGATCATCATCAACAACAGTTCCAATTTTCAGCTCAAAAAGAGTTGCAAAAAGTGTTATAGATCTTAACCTTCCTGCTCCAATTGATGATGATGAAGTTAGTCAAATTGAAAATTCTGCTGTTTCTGATGCAGAATTTGTCAAAACTCGTTAA
Protein sequence

>MS.gene010756.t1

MRSHMMNLLVTKQEEESSRTVQLSFEAESAPSSSSSSEDDDVDEKGLNYGLRENPKRSIRLVDQEFSFPQVDTSSVILQDIESETESSKNNPTRKRSKRVWKIRGFEQKYYNESATKKMKFFNKNDSSVVEHEPVSSVSDATTEEDVAFCLMQLSRDKWNRQNEQYEDVEDEDDDDEAEDEEEDEIEIERSLEDSDESQELVKVCKNNNKVRKGRYKCETCNKVFKSYQALGGHRASHKKIKPNITVEESSPEFEVVEKKVHECPVCFRVFNSGQALGGHKRTHVIHGSSSTTVPIFSSKRVAKSVIDLNLPAPIDDDEVSQIENSAVSDAEFVKTR