AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene011497

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene011497.t1 MTR_4g101760 93.627 204 12 1 1 204 1 203 1.34e-141 393
MS.gene011497.t1 MTR_5g012000 62.371 194 62 2 11 204 30 212 7.92e-82 243
MS.gene011497.t1 MTR_3g008840 52.121 165 78 1 39 203 24 187 1.67e-60 187
MS.gene011497.t1 MTR_3g008820 49.091 165 83 1 39 203 23 186 1.21e-56 177
MS.gene011497.t1 MTR_4g025550 40.000 200 111 5 12 204 5 202 5.45e-42 141
MS.gene011497.t1 MTR_4g025620 40.500 200 110 5 12 204 5 202 5.72e-42 141
MS.gene011497.t1 MTR_4g025610 40.500 200 110 5 12 204 5 202 2.45e-41 139
MS.gene011497.t1 MTR_4g035870 40.828 169 97 1 35 203 31 196 4.01e-40 135
MS.gene011497.t1 MTR_4g035905 39.205 176 104 1 29 204 25 197 5.98e-40 135
MS.gene011497.t1 MTR_4g035880 40.828 169 97 1 35 203 31 196 1.82e-39 134
MS.gene011497.t1 MTR_4g025590 40.230 174 96 4 38 204 1 173 3.07e-36 125
MS.gene011497.t1 MTR_8g104765 36.019 211 109 6 12 202 9 213 4.34e-35 123
MS.gene011497.t1 MTR_4g120825 36.364 198 106 5 18 202 14 204 2.16e-34 121
MS.gene011497.t1 MTR_4g120830 36.364 198 106 5 18 202 14 204 3.39e-34 120
MS.gene011497.t1 MTR_7g108790 34.884 172 104 4 30 201 26 189 3.75e-26 100
MS.gene011497.t1 MTR_4g035855 28.571 196 133 2 11 200 8 202 6.59e-25 97.1
MS.gene011497.t1 MTR_3g008760 34.146 164 98 3 40 198 66 224 4.78e-24 95.1
MS.gene011497.t1 MTR_2g043560 34.146 164 91 5 39 197 33 184 5.05e-22 89.4
MS.gene011497.t1 MTR_4g124855 32.461 191 108 6 17 197 15 194 1.70e-21 88.2
MS.gene011497.t1 MTR_8g023310 26.220 164 117 2 41 202 68 229 1.98e-15 74.3
MS.gene011497.t1 MTR_1g008140 27.230 213 123 7 8 195 37 242 5.66e-14 70.1
MS.gene011497.t1 MTR_1g088540 26.531 147 103 3 55 201 1 142 1.27e-12 63.2
MS.gene011497.t1 MTR_7g112580 34.167 120 74 3 76 195 76 190 6.87e-12 63.9
MS.gene011497.t1 MTR_3g091380 27.011 174 102 4 35 195 72 233 1.06e-11 63.5
MS.gene011497.t1 MTR_0036s0140 29.697 165 100 4 36 198 73 223 4.97e-11 60.5
MS.gene011497.t1 MTR_1g083470 25.616 203 129 6 11 201 21 213 7.12e-11 61.2
MS.gene011497.t1 MTR_1g083500 25.616 203 129 6 11 201 21 213 7.12e-11 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.gene011497.t1 AT5G62350 46.243 173 92 1 32 203 30 202 5.35e-54 171
MS.gene011497.t1 AT3G47380 40.686 204 118 2 1 203 1 202 4.02e-51 164
MS.gene011497.t1 AT4G25260 44.388 196 104 3 12 203 7 201 7.25e-51 163
MS.gene011497.t1 AT1G62770 47.692 195 94 4 11 202 9 198 1.21e-50 163
MS.gene011497.t1 AT4G12390 46.486 185 93 2 26 204 21 205 4.73e-48 156
MS.gene011497.t1 AT1G14890 36.318 201 120 3 3 200 20 215 3.09e-38 132
MS.gene011497.t1 AT2G01610 39.326 178 95 4 36 200 40 217 3.43e-36 126
MS.gene011497.t1 AT5G62360 36.970 165 100 2 39 203 42 202 4.30e-36 125
MS.gene011497.t1 AT1G62760 38.953 172 103 1 33 204 140 309 2.18e-33 121
MS.gene011497.t1 AT4G00080 35.567 194 113 6 11 198 11 198 8.44e-33 117
MS.gene011497.t1 AT1G70720 36.095 169 102 2 36 202 32 196 4.22e-30 110
MS.gene011497.t1 AT1G70720 36.095 169 102 2 36 202 44 208 5.24e-30 110
MS.gene011497.t1 AT1G23205 33.333 204 126 4 7 202 1 202 1.03e-28 107
MS.gene011497.t1 AT4G25250 28.788 198 136 3 5 201 5 198 1.34e-28 106
MS.gene011497.t1 AT5G20740 33.161 193 121 3 9 199 7 193 3.08e-27 103
MS.gene011497.t1 AT5G20740 33.161 193 121 3 9 199 41 227 8.27e-27 102
MS.gene011497.t1 AT5G51520 30.846 201 123 3 13 199 4 202 4.45e-26 100
MS.gene011497.t1 AT3G14310 31.447 159 106 2 41 198 59 215 6.35e-23 96.3
MS.gene011497.t1 AT3G62820 29.878 164 110 3 39 201 32 191 8.21e-20 83.6
MS.gene011497.t1 AT1G53830 33.125 160 102 3 41 198 62 218 2.27e-19 85.9
MS.gene011497.t1 AT2G47670 30.435 184 117 3 24 200 25 204 4.84e-19 81.6
MS.gene011497.t1 AT5G62340 26.066 211 132 6 5 203 8 206 7.72e-15 70.5
MS.gene011497.t1 AT5G53370 25.767 163 110 4 41 202 111 263 3.15e-11 62.4
MS.gene011497.t1 AT5G53370 25.767 163 110 4 41 202 75 227 4.32e-11 61.6

Find 43 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATAAAGTTTATTGAATTT+TGG 0.156978 8.2:-21651572 None:intergenic
GGTTAAGGAGCTTGGACTTT+TGG 0.250249 8.2:+21651845 MS.gene011497:CDS
TAAGGCTAAGGGAGAGGATT+TGG 0.262667 8.2:+21651869 MS.gene011497:CDS
ATTACTCAAGCTTTCTTTGC+TGG 0.298135 8.2:+21651485 MS.gene011497:CDS
TTTCCAAGTTAAAAGGGATT+AGG 0.314647 8.2:+21651751 MS.gene011497:CDS
TACTAGTAATGCACTTGCTT+TGG 0.350334 8.2:+21652034 MS.gene011497:CDS
CGAAATTTGAAGGCTGCAAT+TGG 0.381460 8.2:+21651984 MS.gene011497:CDS
AACAAATCGGTTAAGGAGCT+TGG 0.412049 8.2:+21651837 MS.gene011497:CDS
TTTGCAATTGTTGATTCAGC+AGG 0.417405 8.2:-21651540 None:intergenic
TTCAAATTTCGATCCATATG+AGG 0.417455 8.2:-21651972 None:intergenic
GCAATTGGTGCTAAGGTTGT+TGG 0.422661 8.2:+21651999 MS.gene011497:CDS
CCGTCTTAACAAATCGGTTA+AGG 0.453097 8.2:+21651830 MS.gene011497:CDS
CTAAGGGAGAGGATTTGGTT+TGG 0.466808 8.2:+21651874 MS.gene011497:CDS
GATGAACCTTGTTCTTTACA+TGG 0.472826 8.2:+21651512 MS.gene011497:CDS
AGAGTTTGAACACATACATC+AGG 0.473143 8.2:-21651621 None:intergenic
TGTAAAGAACAAGGTTCATC+AGG 0.473538 8.2:-21651509 None:intergenic
AGTTAAAAGGGATTAGGCCT+AGG 0.476614 8.2:+21651757 MS.gene011497:CDS
TCATATGGATCGAAATTTGA+AGG 0.481658 8.2:+21651974 MS.gene011497:CDS
GCTGAATCAACAATTGCAAA+AGG 0.504243 8.2:+21651543 MS.gene011497:CDS
TGTACATAGTTAACGATGCT+TGG 0.512714 8.2:-21652072 None:intergenic
TTTGGGTAAGGCTAAGGGAG+AGG 0.523302 8.2:+21651863 MS.gene011497:CDS
ACATAAGTAATGTTCAGACT+TGG 0.526858 8.2:+21651898 MS.gene011497:CDS
CGTGGACCGTCTTAACAAAT+CGG 0.527458 8.2:+21651824 MS.gene011497:CDS
GCAAGATTGCAAAGCGAACA+TGG 0.533705 8.2:+21651794 MS.gene011497:CDS
CATAAGTAATGTTCAGACTT+GGG 0.543811 8.2:+21651899 MS.gene011497:CDS
CCTTGACAGTGAGCATATCA+AGG 0.544280 8.2:+21651697 MS.gene011497:CDS
GAAGGCTGCAATTGGTGCTA+AGG 0.550533 8.2:+21651992 MS.gene011497:CDS
CCTTGATATGCTCACTGTCA+AGG 0.554205 8.2:-21651697 None:intergenic
GTTAAAAGGGATTAGGCCTA+GGG 0.560143 8.2:+21651758 MS.gene011497:CDS
TTGCAATTGTTGATTCAGCA+GGG 0.589678 8.2:-21651539 None:intergenic
TGTATGTGTTCAAACTCTCG+TGG 0.592434 8.2:+21651626 MS.gene011497:CDS
CCTTAACCGATTTGTTAAGA+CGG 0.600356 8.2:-21651830 None:intergenic
GTCAATACAAGTGTTCTGAT+CGG 0.601092 8.2:-21651937 None:intergenic
ACATAGTTAACGATGCTTGG+AGG 0.601769 8.2:-21652069 None:intergenic
TCATAGCTAAGGCTCATGAA+AGG 0.604127 8.2:+21651456 None:intergenic
TGCACAGCACTATATTCCCT+AGG 0.629333 8.2:-21651774 None:intergenic
GTAACGAGTGGCTCTACATG+AGG 0.631115 8.2:-21651598 None:intergenic
GGCTAGCCATGTAAAGAACA+AGG 0.639566 8.2:-21651518 None:intergenic
GCTCACTGTCAAGGCAACGA+TGG 0.645324 8.2:-21651688 None:intergenic
GTATGTGTTCAAACTCTCGT+GGG 0.646450 8.2:+21651627 MS.gene011497:CDS
GAGTTTGAACACATACATCA+GGG 0.661515 8.2:-21651620 None:intergenic
AGCGAACATGGATAGTAGCG+TGG 0.675590 8.2:+21651806 MS.gene011497:CDS
ACATACATCAGGGTAACGAG+TGG 0.715049 8.2:-21651610 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGATAAAGTTTATTGAATTT+TGG - chr8.2:21651575-21651594 None:intergenic 15.0%
!!! AAAGTTTATTGAATTTTGGT+TGG - chr8.2:21651571-21651590 None:intergenic 20.0%
!!! AAGAAATTTTCCAAGTTAAA+AGG + chr8.2:21651744-21651763 MS.gene011497:CDS 20.0%
!!! AGAAATTTTCCAAGTTAAAA+GGG + chr8.2:21651745-21651764 MS.gene011497:CDS 20.0%
ACATAAGTAATGTTCAGACT+TGG + chr8.2:21651898-21651917 MS.gene011497:CDS 30.0%
CATAAGTAATGTTCAGACTT+GGG + chr8.2:21651899-21651918 MS.gene011497:CDS 30.0%
TCATATGGATCGAAATTTGA+AGG + chr8.2:21651974-21651993 MS.gene011497:CDS 30.0%
TTCAAATTTCGATCCATATG+AGG - chr8.2:21651975-21651994 None:intergenic 30.0%
TTTCCAAGTTAAAAGGGATT+AGG + chr8.2:21651751-21651770 MS.gene011497:CDS 30.0%
AGAGTTTGAACACATACATC+AGG - chr8.2:21651624-21651643 None:intergenic 35.0%
ATTACTCAAGCTTTCTTTGC+TGG + chr8.2:21651485-21651504 MS.gene011497:CDS 35.0%
GAGTTTGAACACATACATCA+GGG - chr8.2:21651623-21651642 None:intergenic 35.0%
GATGAACCTTGTTCTTTACA+TGG + chr8.2:21651512-21651531 MS.gene011497:CDS 35.0%
GCTGAATCAACAATTGCAAA+AGG + chr8.2:21651543-21651562 MS.gene011497:CDS 35.0%
GTCAATACAAGTGTTCTGAT+CGG - chr8.2:21651940-21651959 None:intergenic 35.0%
TACTAGTAATGCACTTGCTT+TGG + chr8.2:21652034-21652053 MS.gene011497:CDS 35.0%
TGTAAAGAACAAGGTTCATC+AGG - chr8.2:21651512-21651531 None:intergenic 35.0%
!! CAACTTTTCTAGTCCTCATA+TGG + chr8.2:21651959-21651978 MS.gene011497:CDS 35.0%
!! CCTTAACCGATTTGTTAAGA+CGG - chr8.2:21651833-21651852 None:intergenic 35.0%
!! TTGCAATTGTTGATTCAGCA+GGG - chr8.2:21651542-21651561 None:intergenic 35.0%
!! TTTGCAATTGTTGATTCAGC+AGG - chr8.2:21651543-21651562 None:intergenic 35.0%
!!! TTGCTCGTTTTGGTTAATCA+CGG - chr8.2:21651661-21651680 None:intergenic 35.0%
AACAAATCGGTTAAGGAGCT+TGG + chr8.2:21651837-21651856 MS.gene011497:CDS 40.0%
AGTTAAAAGGGATTAGGCCT+AGG + chr8.2:21651757-21651776 MS.gene011497:CDS 40.0%
CCGTCTTAACAAATCGGTTA+AGG + chr8.2:21651830-21651849 MS.gene011497:CDS 40.0%
CGAAATTTGAAGGCTGCAAT+TGG + chr8.2:21651984-21652003 MS.gene011497:CDS 40.0%
GTATGTGTTCAAACTCTCGT+GGG + chr8.2:21651627-21651646 MS.gene011497:CDS 40.0%
GTTAAAAGGGATTAGGCCTA+GGG + chr8.2:21651758-21651777 MS.gene011497:CDS 40.0%
TGTATGTGTTCAAACTCTCG+TGG + chr8.2:21651626-21651645 MS.gene011497:CDS 40.0%
! GTTAAGGAGCTTGGACTTTT+GGG + chr8.2:21651846-21651865 MS.gene011497:CDS 40.0%
!! AGGCCTAATCCCTTTTAACT+TGG - chr8.2:21651757-21651776 None:intergenic 40.0%
!!! TGGCTAGTTTTTGCTCGTTT+TGG - chr8.2:21651671-21651690 None:intergenic 40.0%
ACATACATCAGGGTAACGAG+TGG - chr8.2:21651613-21651632 None:intergenic 45.0%
CCTTGACAGTGAGCATATCA+AGG + chr8.2:21651697-21651716 MS.gene011497:CDS 45.0%
CCTTGATATGCTCACTGTCA+AGG - chr8.2:21651700-21651719 None:intergenic 45.0%
CGTGGACCGTCTTAACAAAT+CGG + chr8.2:21651824-21651843 MS.gene011497:CDS 45.0%
GCAAGATTGCAAAGCGAACA+TGG + chr8.2:21651794-21651813 MS.gene011497:CDS 45.0%
TAAGGCTAAGGGAGAGGATT+TGG + chr8.2:21651869-21651888 MS.gene011497:CDS 45.0%
TGCACAGCACTATATTCCCT+AGG - chr8.2:21651777-21651796 None:intergenic 45.0%
! CTAAGGGAGAGGATTTGGTT+TGG + chr8.2:21651874-21651893 MS.gene011497:CDS 45.0%
! GGCTAGCCATGTAAAGAACA+AGG - chr8.2:21651521-21651540 None:intergenic 45.0%
! GGTTAAGGAGCTTGGACTTT+TGG + chr8.2:21651845-21651864 MS.gene011497:CDS 45.0%
!! GCAATTGGTGCTAAGGTTGT+TGG + chr8.2:21651999-21652018 MS.gene011497:CDS 45.0%
!! GGACTTTTGGGTAAGGCTAA+GGG + chr8.2:21651858-21651877 MS.gene011497:CDS 45.0%
!! TGGACTTTTGGGTAAGGCTA+AGG + chr8.2:21651857-21651876 MS.gene011497:CDS 45.0%
AGCGAACATGGATAGTAGCG+TGG + chr8.2:21651806-21651825 MS.gene011497:CDS 50.0%
TTTGGGTAAGGCTAAGGGAG+AGG + chr8.2:21651863-21651882 MS.gene011497:CDS 50.0%
! GTAACGAGTGGCTCTACATG+AGG - chr8.2:21651601-21651620 None:intergenic 50.0%
!! GAAGGCTGCAATTGGTGCTA+AGG + chr8.2:21651992-21652011 MS.gene011497:CDS 50.0%
!! GGAGCTTGGACTTTTGGGTA+AGG + chr8.2:21651851-21651870 MS.gene011497:CDS 50.0%
GCTCACTGTCAAGGCAACGA+TGG - chr8.2:21651691-21651710 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 21651471 21652085 21651471 ID=MS.gene011497
chr8.2 mRNA 21651471 21652085 21651471 ID=MS.gene011497.t1;Parent=MS.gene011497
chr8.2 exon 21651471 21652085 21651471 ID=MS.gene011497.t1.exon1;Parent=MS.gene011497.t1
chr8.2 CDS 21651471 21652085 21651471 ID=cds.MS.gene011497.t1;Parent=MS.gene011497.t1
Gene Sequence

>MS.gene011497

ATGAAAGGAAGATTATTACTCAAGCTTTCTTTGCTGGTCCTGATGAACCTTGTTCTTTACATGGCTAGCCCTGCTGAATCAACAATTGCAAAAGGATCCAACCAAAATTCAATAAACTTTATCAAATCCTCATGTAGAGCCACTCGTTACCCTGATGTATGTGTTCAAACTCTCGTGGGCTATGCAACCGTGATTAACCAAAACGAGCAAAAACTAGCCATCGTTGCCTTGACAGTGAGCATATCAAGGACTCAATCAAGTGCATCATTCATGAAGAAATTTTCCAAGTTAAAAGGGATTAGGCCTAGGGAATATAGTGCTGTGCAAGATTGCAAAGCGAACATGGATAGTAGCGTGGACCGTCTTAACAAATCGGTTAAGGAGCTTGGACTTTTGGGTAAGGCTAAGGGAGAGGATTTGGTTTGGCACATAAGTAATGTTCAGACTTGGGTTAGTGCTGCTCTTACCGATCAGAACACTTGTATTGACAACTTTTCTAGTCCTCATATGGATCGAAATTTGAAGGCTGCAATTGGTGCTAAGGTTGTTGGTGTTTCTCAAGTTACTAGTAATGCACTTGCTTTGGTTAACAACTTTGCCTCCAAGCATCGTTAA
Protein sequence

>MS.gene011497.t1

MKGRLLLKLSLLVLMNLVLYMASPAESTIAKGSNQNSINFIKSSCRATRYPDVCVQTLVGYATVINQNEQKLAIVALTVSISRTQSSASFMKKFSKLKGIRPREYSAVQDCKANMDSSVDRLNKSVKELGLLGKAKGEDLVWHISNVQTWVSAALTDQNTCIDNFSSPHMDRNLKAAIGAKVVGVSQVTSNALALVNNFASKHR