AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene71906

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene71906.t1 MTR_4g101760 93.137 204 13 1 1 204 1 203 5.71e-141 392
MS.gene71906.t1 MTR_5g012000 61.340 194 64 2 11 204 30 212 1.29e-80 239
MS.gene71906.t1 MTR_3g008840 51.220 164 79 1 40 203 25 187 2.13e-58 182
MS.gene71906.t1 MTR_3g008820 48.171 164 84 1 40 203 24 186 1.57e-54 172
MS.gene71906.t1 MTR_4g035870 40.828 169 97 1 35 203 31 196 1.80e-40 137
MS.gene71906.t1 MTR_4g025610 38.500 200 114 4 12 204 5 202 2.73e-40 137
MS.gene71906.t1 MTR_4g035905 39.205 176 104 1 29 204 25 197 5.03e-40 135
MS.gene71906.t1 MTR_4g035880 40.828 169 97 1 35 203 31 196 7.92e-40 135
MS.gene71906.t1 MTR_4g025620 38.000 200 115 4 12 204 5 202 8.51e-40 135
MS.gene71906.t1 MTR_4g025550 37.500 200 116 4 12 204 5 202 9.64e-40 135
MS.gene71906.t1 MTR_4g025590 37.931 174 100 3 38 204 1 173 2.75e-35 123
MS.gene71906.t1 MTR_4g120830 36.869 198 105 5 18 202 14 204 6.61e-35 122
MS.gene71906.t1 MTR_8g104765 36.019 211 109 6 12 202 9 213 1.08e-34 122
MS.gene71906.t1 MTR_4g120825 36.364 198 106 5 18 202 14 204 6.39e-34 120
MS.gene71906.t1 MTR_7g108790 34.884 172 104 4 30 201 26 189 1.09e-25 99.0
MS.gene71906.t1 MTR_4g035855 28.571 196 133 2 11 200 8 202 8.24e-25 96.7
MS.gene71906.t1 MTR_3g008760 32.804 189 111 5 16 198 46 224 2.64e-23 93.2
MS.gene71906.t1 MTR_4g124855 33.511 188 110 6 17 197 15 194 3.73e-23 92.4
MS.gene71906.t1 MTR_2g043560 33.742 163 91 5 40 197 34 184 2.91e-21 87.4
MS.gene71906.t1 MTR_8g023310 25.904 166 119 2 39 202 66 229 2.77e-15 73.9
MS.gene71906.t1 MTR_1g008140 27.230 213 123 7 8 195 37 242 1.00e-13 69.3
MS.gene71906.t1 MTR_1g088540 26.531 147 103 3 55 201 1 142 4.42e-12 61.6
MS.gene71906.t1 MTR_3g091380 27.011 174 102 4 35 195 72 233 1.11e-11 63.5
MS.gene71906.t1 MTR_7g112580 34.167 120 74 3 76 195 76 190 1.32e-11 63.2
MS.gene71906.t1 MTR_0036s0140 29.091 165 101 4 36 198 73 223 6.25e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene71906.t1 AT5G62350 45.665 173 93 1 32 203 30 202 1.23e-52 168
MS.gene71906.t1 AT4G25260 44.388 196 104 3 12 203 7 201 2.01e-50 162
MS.gene71906.t1 AT1G62770 47.179 195 95 4 11 202 9 198 7.04e-50 161
MS.gene71906.t1 AT3G47380 40.196 204 119 2 1 203 1 202 8.99e-50 160
MS.gene71906.t1 AT4G12390 45.405 185 95 2 26 204 21 205 3.52e-47 154
MS.gene71906.t1 AT1G14890 36.715 207 113 4 3 201 20 216 7.06e-39 133
MS.gene71906.t1 AT5G62360 37.805 164 98 2 40 203 43 202 1.21e-36 127
MS.gene71906.t1 AT2G01610 39.326 178 95 4 36 200 40 217 1.61e-35 125
MS.gene71906.t1 AT1G62760 38.953 172 103 1 33 204 140 309 4.97e-33 120
MS.gene71906.t1 AT4G00080 35.714 196 110 6 11 198 11 198 7.11e-33 117
MS.gene71906.t1 AT1G70720 36.095 169 102 2 36 202 32 196 1.34e-29 108
MS.gene71906.t1 AT1G70720 36.095 169 102 2 36 202 44 208 1.95e-29 108
MS.gene71906.t1 AT4G25250 28.788 198 136 3 5 201 5 198 1.54e-28 106
MS.gene71906.t1 AT1G23205 32.843 204 127 4 7 202 1 202 1.01e-27 104
MS.gene71906.t1 AT5G20740 32.642 193 122 3 9 199 7 193 2.79e-26 100
MS.gene71906.t1 AT5G20740 33.673 196 116 5 9 199 41 227 8.40e-26 100
MS.gene71906.t1 AT5G51520 30.846 201 123 3 13 199 4 202 9.68e-26 99.4
MS.gene71906.t1 AT3G14310 33.537 164 104 3 37 198 55 215 6.47e-23 96.3
MS.gene71906.t1 AT1G53830 33.537 164 104 3 37 198 58 218 7.41e-20 87.4
MS.gene71906.t1 AT3G62820 29.268 164 111 3 39 201 32 191 1.09e-19 83.2
MS.gene71906.t1 AT2G47670 29.891 184 118 3 24 200 25 204 1.25e-18 80.5
MS.gene71906.t1 AT5G62340 25.592 211 133 6 5 203 8 206 1.25e-13 67.0
MS.gene71906.t1 AT3G14300 25.294 170 120 2 41 204 271 439 1.39e-11 63.5
MS.gene71906.t1 AT1G53840 27.083 192 112 5 26 201 58 237 2.57e-11 62.4
MS.gene71906.t1 AT5G53370 25.767 163 110 4 41 202 111 263 5.72e-11 61.6
MS.gene71906.t1 AT5G53370 25.767 163 110 4 41 202 75 227 7.13e-11 61.2

Find 43 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATAAAGCTTATTGAATTT+TGG 0.156978 8.3:-19565478 None:intergenic
GGTTAAGGAGCTTGGACTTT+TGG 0.250249 8.3:+19565751 MS.gene71906:CDS
TAAGGCTAAGGGAGAGGATT+TGG 0.262667 8.3:+19565775 MS.gene71906:CDS
ATTACTCAAACTTTCTTTGC+TGG 0.326372 8.3:+19565391 MS.gene71906:CDS
TTTCCAAGGTAAAAGGGATT+AGG 0.330325 8.3:+19565657 MS.gene71906:CDS
TACTAGTAATGCACTTGCTT+TGG 0.337011 8.3:+19565940 MS.gene71906:CDS
CGAAATTTGAAGGCTGCAAT+TGG 0.381460 8.3:+19565890 MS.gene71906:CDS
AACAAATCGGTTAAGGAGCT+TGG 0.412049 8.3:+19565743 MS.gene71906:CDS
TTTGCAATTGTTGATTCAGC+AGG 0.417405 8.3:-19565446 None:intergenic
TTCAAATTTCGATCCATATG+AGG 0.417455 8.3:-19565878 None:intergenic
GCAATTGGTGCTAAGGTTGT+TGG 0.422661 8.3:+19565905 MS.gene71906:CDS
CCGTCTTAACAAATCGGTTA+AGG 0.453097 8.3:+19565736 MS.gene71906:CDS
CTAAGGGAGAGGATTTGGTT+TGG 0.466808 8.3:+19565780 MS.gene71906:CDS
GATGAACCTTGTTCTTTACA+TGG 0.472826 8.3:+19565418 MS.gene71906:CDS
AGAGTTTGAACACATACATC+AGG 0.473143 8.3:-19565527 None:intergenic
TGTAAAGAACAAGGTTCATC+AGG 0.473538 8.3:-19565415 None:intergenic
AGGTAAAAGGGATTAGGCCT+AGG 0.475626 8.3:+19565663 MS.gene71906:CDS
TCATATGGATCGAAATTTGA+AGG 0.481658 8.3:+19565880 MS.gene71906:CDS
GCTGAATCAACAATTGCAAA+AGG 0.504243 8.3:+19565449 MS.gene71906:CDS
TGTACATAGTTAACGATGCT+TGG 0.512714 8.3:-19565978 None:intergenic
TTTGGGTAAGGCTAAGGGAG+AGG 0.523302 8.3:+19565769 MS.gene71906:CDS
ACATAAGTAATGTTCAGACT+TGG 0.526858 8.3:+19565804 MS.gene71906:CDS
CGTGGACCGTCTTAACAAAT+CGG 0.527458 8.3:+19565730 MS.gene71906:CDS
GCAAGATTGCAAAGCGAACA+TGG 0.533705 8.3:+19565700 MS.gene71906:CDS
CATAAGTAATGTTCAGACTT+GGG 0.543811 8.3:+19565805 MS.gene71906:CDS
CCTTGACAGTGAGCATATCA+AGG 0.544280 8.3:+19565603 MS.gene71906:CDS
GAAGGCTGCAATTGGTGCTA+AGG 0.550533 8.3:+19565898 MS.gene71906:CDS
CCTTGATATGCTCACTGTCA+AGG 0.554205 8.3:-19565603 None:intergenic
TTGCAATTGTTGATTCAGCA+GGG 0.589678 8.3:-19565445 None:intergenic
GGTAAAAGGGATTAGGCCTA+GGG 0.590166 8.3:+19565664 MS.gene71906:CDS
TGTATGTGTTCAAACTCTCG+TGG 0.592434 8.3:+19565532 MS.gene71906:CDS
CCTTAACCGATTTGTTAAGA+CGG 0.600356 8.3:-19565736 None:intergenic
GTCAATACAAGTGTTCTGAT+CGG 0.601092 8.3:-19565843 None:intergenic
ACATAGTTAACGATGCTTGG+AGG 0.601769 8.3:-19565975 None:intergenic
TCATAGCTAAGGCTCATGAA+AGG 0.604127 8.3:+19565362 None:intergenic
TGCACAGCACTATATTCCCT+AGG 0.629333 8.3:-19565680 None:intergenic
GTAACGAGTGGCTCTACATG+AGG 0.631115 8.3:-19565504 None:intergenic
GGCTAGCCATGTAAAGAACA+AGG 0.639566 8.3:-19565424 None:intergenic
GCTCACTGTCAAGGCAACGA+TGG 0.645324 8.3:-19565594 None:intergenic
GTATGTGTTCAAACTCTCGT+GGG 0.646450 8.3:+19565533 MS.gene71906:CDS
GAGTTTGAACACATACATCA+GGG 0.661515 8.3:-19565526 None:intergenic
AGCGAACATGGATAGTAGCG+TGG 0.675590 8.3:+19565712 MS.gene71906:CDS
ACATACATCAGGGTAACGAG+TGG 0.715049 8.3:-19565516 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGATAAAGCTTATTGAATTT+TGG - chr8.3:19565481-19565500 None:intergenic 20.0%
!! AAGAAATTTTCCAAGGTAAA+AGG + chr8.3:19565650-19565669 MS.gene71906:CDS 25.0%
!! AGAAATTTTCCAAGGTAAAA+GGG + chr8.3:19565651-19565670 MS.gene71906:CDS 25.0%
!! ATTCATGAAGAAATTTTCCA+AGG + chr8.3:19565643-19565662 MS.gene71906:CDS 25.0%
!!! AAAGCTTATTGAATTTTGGT+TGG - chr8.3:19565477-19565496 None:intergenic 25.0%
ACATAAGTAATGTTCAGACT+TGG + chr8.3:19565804-19565823 MS.gene71906:CDS 30.0%
ATTACTCAAACTTTCTTTGC+TGG + chr8.3:19565391-19565410 MS.gene71906:CDS 30.0%
CATAAGTAATGTTCAGACTT+GGG + chr8.3:19565805-19565824 MS.gene71906:CDS 30.0%
TCATATGGATCGAAATTTGA+AGG + chr8.3:19565880-19565899 MS.gene71906:CDS 30.0%
TTCAAATTTCGATCCATATG+AGG - chr8.3:19565881-19565900 None:intergenic 30.0%
AGAGTTTGAACACATACATC+AGG - chr8.3:19565530-19565549 None:intergenic 35.0%
GAGTTTGAACACATACATCA+GGG - chr8.3:19565529-19565548 None:intergenic 35.0%
GATGAACCTTGTTCTTTACA+TGG + chr8.3:19565418-19565437 MS.gene71906:CDS 35.0%
GCTGAATCAACAATTGCAAA+AGG + chr8.3:19565449-19565468 MS.gene71906:CDS 35.0%
GTCAATACAAGTGTTCTGAT+CGG - chr8.3:19565846-19565865 None:intergenic 35.0%
TACTAGTAATGCACTTGCTT+TGG + chr8.3:19565940-19565959 MS.gene71906:CDS 35.0%
TGTAAAGAACAAGGTTCATC+AGG - chr8.3:19565418-19565437 None:intergenic 35.0%
TTTCCAAGGTAAAAGGGATT+AGG + chr8.3:19565657-19565676 MS.gene71906:CDS 35.0%
!! CAACTTTTCTAGTCCTCATA+TGG + chr8.3:19565865-19565884 MS.gene71906:CDS 35.0%
!! CCTTAACCGATTTGTTAAGA+CGG - chr8.3:19565739-19565758 None:intergenic 35.0%
!! TTGCAATTGTTGATTCAGCA+GGG - chr8.3:19565448-19565467 None:intergenic 35.0%
!! TTTGCAATTGTTGATTCAGC+AGG - chr8.3:19565449-19565468 None:intergenic 35.0%
!!! TTGCTCGTTTTGGTTAATCA+AGG - chr8.3:19565567-19565586 None:intergenic 35.0%
AACAAATCGGTTAAGGAGCT+TGG + chr8.3:19565743-19565762 MS.gene71906:CDS 40.0%
CCGTCTTAACAAATCGGTTA+AGG + chr8.3:19565736-19565755 MS.gene71906:CDS 40.0%
CGAAATTTGAAGGCTGCAAT+TGG + chr8.3:19565890-19565909 MS.gene71906:CDS 40.0%
GTATGTGTTCAAACTCTCGT+GGG + chr8.3:19565533-19565552 MS.gene71906:CDS 40.0%
TGTATGTGTTCAAACTCTCG+TGG + chr8.3:19565532-19565551 MS.gene71906:CDS 40.0%
! GTTAAGGAGCTTGGACTTTT+GGG + chr8.3:19565752-19565771 MS.gene71906:CDS 40.0%
!!! TGGCTAGTTTTTGCTCGTTT+TGG - chr8.3:19565577-19565596 None:intergenic 40.0%
ACATACATCAGGGTAACGAG+TGG - chr8.3:19565519-19565538 None:intergenic 45.0%
AGGTAAAAGGGATTAGGCCT+AGG + chr8.3:19565663-19565682 MS.gene71906:CDS 45.0%
CCTTGACAGTGAGCATATCA+AGG + chr8.3:19565603-19565622 MS.gene71906:CDS 45.0%
CCTTGATATGCTCACTGTCA+AGG - chr8.3:19565606-19565625 None:intergenic 45.0%
CGTGGACCGTCTTAACAAAT+CGG + chr8.3:19565730-19565749 MS.gene71906:CDS 45.0%
GCAAGATTGCAAAGCGAACA+TGG + chr8.3:19565700-19565719 MS.gene71906:CDS 45.0%
GGTAAAAGGGATTAGGCCTA+GGG + chr8.3:19565664-19565683 MS.gene71906:CDS 45.0%
TAAGGCTAAGGGAGAGGATT+TGG + chr8.3:19565775-19565794 MS.gene71906:CDS 45.0%
TGCACAGCACTATATTCCCT+AGG - chr8.3:19565683-19565702 None:intergenic 45.0%
! AGGCCTAATCCCTTTTACCT+TGG - chr8.3:19565663-19565682 None:intergenic 45.0%
! CTAAGGGAGAGGATTTGGTT+TGG + chr8.3:19565780-19565799 MS.gene71906:CDS 45.0%
! GGCTAGCCATGTAAAGAACA+AGG - chr8.3:19565427-19565446 None:intergenic 45.0%
! GGTTAAGGAGCTTGGACTTT+TGG + chr8.3:19565751-19565770 MS.gene71906:CDS 45.0%
!! GCAATTGGTGCTAAGGTTGT+TGG + chr8.3:19565905-19565924 MS.gene71906:CDS 45.0%
!! GGACTTTTGGGTAAGGCTAA+GGG + chr8.3:19565764-19565783 MS.gene71906:CDS 45.0%
!! TGGACTTTTGGGTAAGGCTA+AGG + chr8.3:19565763-19565782 MS.gene71906:CDS 45.0%
AGCGAACATGGATAGTAGCG+TGG + chr8.3:19565712-19565731 MS.gene71906:CDS 50.0%
TTTGGGTAAGGCTAAGGGAG+AGG + chr8.3:19565769-19565788 MS.gene71906:CDS 50.0%
! GTAACGAGTGGCTCTACATG+AGG - chr8.3:19565507-19565526 None:intergenic 50.0%
!! GAAGGCTGCAATTGGTGCTA+AGG + chr8.3:19565898-19565917 MS.gene71906:CDS 50.0%
!! GGAGCTTGGACTTTTGGGTA+AGG + chr8.3:19565757-19565776 MS.gene71906:CDS 50.0%
GCTCACTGTCAAGGCAACGA+TGG - chr8.3:19565597-19565616 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 19565377 19565991 19565377 ID=MS.gene71906
chr8.3 mRNA 19565377 19565991 19565377 ID=MS.gene71906.t1;Parent=MS.gene71906
chr8.3 exon 19565377 19565991 19565377 ID=MS.gene71906.t1.exon1;Parent=MS.gene71906.t1
chr8.3 CDS 19565377 19565991 19565377 ID=cds.MS.gene71906.t1;Parent=MS.gene71906.t1
Gene Sequence

>MS.gene71906

ATGAAAGGAAGATTATTACTCAAACTTTCTTTGCTGGTCCTGATGAACCTTGTTCTTTACATGGCTAGCCCTGCTGAATCAACAATTGCAAAAGGATCCAACCAAAATTCAATAAGCTTTATCAAATCCTCATGTAGAGCCACTCGTTACCCTGATGTATGTGTTCAAACTCTCGTGGGCTATGCAACCTTGATTAACCAAAACGAGCAAAAACTAGCCATCGTTGCCTTGACAGTGAGCATATCAAGGACTCAATCAAGTGCATCATTCATGAAGAAATTTTCCAAGGTAAAAGGGATTAGGCCTAGGGAATATAGTGCTGTGCAAGATTGCAAAGCGAACATGGATAGTAGCGTGGACCGTCTTAACAAATCGGTTAAGGAGCTTGGACTTTTGGGTAAGGCTAAGGGAGAGGATTTGGTTTGGCACATAAGTAATGTTCAGACTTGGGTTAGTGCTGCTCTTACCGATCAGAACACTTGTATTGACAACTTTTCTAGTCCTCATATGGATCGAAATTTGAAGGCTGCAATTGGTGCTAAGGTTGTTGGTGTTTCTCAATTTACTAGTAATGCACTTGCTTTGGTTAACAACTTTGCCTCCAAGCATCGTTAA
Protein sequence

>MS.gene71906.t1

MKGRLLLKLSLLVLMNLVLYMASPAESTIAKGSNQNSISFIKSSCRATRYPDVCVQTLVGYATLINQNEQKLAIVALTVSISRTQSSASFMKKFSKVKGIRPREYSAVQDCKANMDSSVDRLNKSVKELGLLGKAKGEDLVWHISNVQTWVSAALTDQNTCIDNFSSPHMDRNLKAAIGAKVVGVSQFTSNALALVNNFASKHR