AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene70351

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70351.t1 MTR_8g091420 95.425 153 7 0 1 153 1 153 1.69e-97 278
MS.gene70351.t1 MTR_3g087770 79.355 155 27 3 1 153 1 152 2.79e-79 231
MS.gene70351.t1 MTR_5g022620 53.846 156 65 4 5 153 2 157 1.06e-53 167
MS.gene70351.t1 MTR_3g073670 59.477 153 58 2 1 153 1 149 2.42e-53 166
MS.gene70351.t1 MTR_1g030630 53.020 149 67 2 5 153 2 147 5.16e-53 165
MS.gene70351.t1 MTR_6g003990 53.896 154 66 3 5 153 2 155 1.10e-52 164
MS.gene70351.t1 MTR_5g025150 53.691 149 64 2 5 153 2 145 3.02e-51 160
MS.gene70351.t1 MTR_4g073040 50.968 155 70 3 5 153 2 156 4.86e-51 160
MS.gene70351.t1 MTR_3g117890 50.323 155 71 3 5 153 2 156 2.59e-50 158
MS.gene70351.t1 MTR_7g083060 52.318 151 64 4 5 153 2 146 2.41e-47 150
MS.gene70351.t1 MTR_6g003990 55.932 118 51 1 37 153 1 118 7.86e-43 138
MS.gene70351.t1 MTR_5g055020 43.624 149 81 2 5 153 2 147 2.53e-39 130
MS.gene70351.t1 MTR_6g026890 43.704 135 66 4 28 153 15 148 5.35e-29 103
MS.gene70351.t1 MTR_1g078090 40.299 134 72 2 28 153 52 185 1.58e-27 101
MS.gene70351.t1 MTR_2g091235 37.333 150 62 6 28 153 1 142 5.36e-24 91.3
MS.gene70351.t1 MTR_6g045203 37.681 138 69 5 31 153 5 140 8.61e-17 72.4
MS.gene70351.t1 MTR_1g082650 51.389 72 35 0 22 93 3 74 1.13e-15 73.2
MS.gene70351.t1 MTR_1g107565 49.254 67 34 0 27 93 11 77 1.31e-14 70.1
MS.gene70351.t1 MTR_2g022250 47.761 67 35 0 27 93 8 74 3.37e-14 68.9
MS.gene70351.t1 MTR_4g117220 46.269 67 36 0 27 93 8 74 1.72e-13 67.0
MS.gene70351.t1 MTR_7g108560 47.692 65 34 0 29 93 22 86 1.88e-13 66.2
MS.gene70351.t1 MTR_4g094238 38.824 85 49 2 28 112 1 82 3.46e-13 62.0
MS.gene70351.t1 MTR_1g092670 49.231 65 33 0 29 93 4 68 4.83e-13 61.2
MS.gene70351.t1 MTR_7g113110 50.000 62 31 0 33 94 37 98 6.78e-13 65.1
MS.gene70351.t1 MTR_7g013660 46.154 65 35 0 29 93 4 68 8.30e-13 61.6
MS.gene70351.t1 MTR_4g117140 44.444 72 40 0 22 93 3 74 1.81e-12 63.9
MS.gene70351.t1 MTR_1g083310 46.269 67 35 1 29 94 15 81 6.33e-12 62.4
MS.gene70351.t1 MTR_3g067750 43.750 64 36 0 29 92 12 75 9.67e-12 60.8
MS.gene70351.t1 MTR_3g435930 37.500 128 73 5 28 153 115 237 1.03e-11 60.8
MS.gene70351.t1 MTR_4g119820 45.455 66 36 0 29 94 74 139 9.37e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70351.t1 AT4G39700 69.620 158 43 3 1 153 1 158 2.99e-70 209
MS.gene70351.t1 AT1G22990 55.195 154 61 4 5 153 2 152 3.03e-56 173
MS.gene70351.t1 AT1G71050 55.629 151 65 1 5 153 2 152 7.47e-55 170
MS.gene70351.t1 AT1G22990 53.333 150 65 4 5 153 2 147 1.05e-52 164
MS.gene70351.t1 AT4G08570 54.487 156 62 4 1 153 1 150 5.01e-52 162
MS.gene70351.t1 AT4G38580 51.634 153 69 3 5 153 2 153 6.63e-52 162
MS.gene70351.t1 AT4G38580 51.634 153 69 3 5 153 2 153 6.63e-52 162
MS.gene70351.t1 AT5G17450 51.333 150 70 2 5 153 2 149 3.38e-49 155
MS.gene70351.t1 AT5G66110 50.000 148 67 3 10 153 3 147 1.38e-47 151
MS.gene70351.t1 AT5G66110 50.000 148 67 3 10 153 3 147 1.38e-47 151
MS.gene70351.t1 AT4G35060 45.098 153 79 3 5 153 2 153 5.16e-42 137
MS.gene70351.t1 AT5G66110 51.240 121 55 2 37 153 1 121 2.08e-40 132
MS.gene70351.t1 AT5G17450 55.446 101 42 2 54 153 7 105 1.69e-32 111
MS.gene70351.t1 AT1G06330 38.411 151 67 4 28 153 1 150 1.14e-26 98.2
MS.gene70351.t1 AT2G18196 38.806 134 74 3 28 153 45 178 2.89e-25 95.5
MS.gene70351.t1 AT3G56891 37.255 153 68 4 28 153 15 166 6.87e-23 89.0
MS.gene70351.t1 AT4G10465 40.714 140 75 4 22 153 44 183 7.38e-23 89.4
MS.gene70351.t1 AT3G56891 36.111 144 64 4 37 153 1 143 3.13e-20 81.6
MS.gene70351.t1 AT2G18196 36.000 125 72 3 37 153 1 125 5.07e-20 80.5
MS.gene70351.t1 AT1G29100 36.000 150 64 6 30 153 4 147 3.25e-18 76.6
MS.gene70351.t1 AT1G29100 35.374 147 63 6 33 153 1 141 6.70e-17 72.8
MS.gene70351.t1 AT3G06130 47.761 67 35 0 27 93 8 74 6.10e-14 68.2
MS.gene70351.t1 AT3G06130 47.761 67 35 0 27 93 8 74 1.21e-13 67.4
MS.gene70351.t1 AT3G48970 37.410 139 70 5 30 153 4 140 2.32e-13 63.5
MS.gene70351.t1 AT3G48970 37.410 139 70 5 30 153 2 138 2.78e-13 63.5
MS.gene70351.t1 AT3G48970 37.410 139 70 5 30 153 2 138 2.78e-13 63.5
MS.gene70351.t1 AT5G27690 45.161 62 34 0 33 94 34 95 9.94e-13 64.7
MS.gene70351.t1 AT5G37860 37.778 90 53 1 28 114 9 98 1.03e-12 63.9
MS.gene70351.t1 AT5G19090 44.444 72 40 0 22 93 3 74 1.20e-12 64.7
MS.gene70351.t1 AT5G19090 44.444 72 40 0 22 93 3 74 1.20e-12 64.7
MS.gene70351.t1 AT5G19090 44.444 72 40 0 22 93 3 74 1.20e-12 64.7
MS.gene70351.t1 AT5G19090 44.444 72 40 0 22 93 3 74 1.24e-12 64.7
MS.gene70351.t1 AT5G19090 44.444 72 40 0 22 93 3 74 1.24e-12 64.7
MS.gene70351.t1 AT1G56210 44.000 75 42 0 33 107 44 118 1.82e-12 63.9
MS.gene70351.t1 AT1G66240 46.154 65 35 0 29 93 33 97 2.04e-12 60.5
MS.gene70351.t1 AT3G56240 46.970 66 35 0 29 94 3 68 3.99e-12 60.1
MS.gene70351.t1 AT3G56240 46.970 66 35 0 29 94 3 68 3.99e-12 60.1
MS.gene70351.t1 AT1G23000 42.254 71 41 0 27 97 11 81 4.62e-12 62.8
MS.gene70351.t1 AT1G23000 42.254 71 41 0 27 97 71 141 5.00e-12 62.8
MS.gene70351.t1 AT3G05220 46.269 67 36 0 27 93 8 74 2.29e-11 60.8

Find 42 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACATGATAGAACATGCATT+TGG 0.333354 4.2:-10527141 None:intergenic
GGTTGAGCCACCAAGTTATA+TGG 0.361824 4.2:-10526991 None:intergenic
CAGGGAAGAAGGCTGAAATT+TGG 0.369704 4.2:+10526959 MS.gene70351:CDS
CTGAAGAGGGCTAAGTCAAC+AGG 0.391098 4.2:+10526940 MS.gene70351:CDS
CTTTACCACTTAGTGAAGAT+AGG 0.407847 4.2:-10526751 None:intergenic
CTGTGATGGTTGTGAGCTTA+AGG 0.412334 4.2:+10526718 MS.gene70351:CDS
TCACTGAAAATGTTAACATA+AGG 0.415003 4.2:-10527111 None:intergenic
ACATGATAGAACATGCATTT+GGG 0.432872 4.2:-10527140 None:intergenic
TCTTCTTCTTGAGGTGGTGG+TGG 0.433030 4.2:-10526655 None:intergenic
AGTGACAGTAACTGGGTTTG+TGG 0.443352 4.2:+10526903 MS.gene70351:CDS
CACTGAAAATGTTAACATAA+GGG 0.444497 4.2:-10527110 None:intergenic
TGTAGAGCTAAAGGTTAGAA+TGG 0.448015 4.2:+10526694 MS.gene70351:CDS
CTTGTCATGGTTCCAGTGGT+TGG 0.455452 4.2:-10527078 None:intergenic
TCTTCTTCTTCTTGAGGTGG+TGG 0.456850 4.2:-10526658 None:intergenic
ACCAAGTTATATGGCACATA+AGG 0.470410 4.2:-10526982 None:intergenic
GGCTAAGTCAACAGGGAAGA+AGG 0.480113 4.2:+10526948 MS.gene70351:CDS
AATGGGAGTTGGTGGCACTT+TGG 0.493833 4.2:+10526604 None:intergenic
ATCAAAACAAGGTGCTGAAG+AGG 0.495283 4.2:+10526926 MS.gene70351:CDS
GTTACAAACTGTAGAGCTAA+AGG 0.501519 4.2:+10526685 MS.gene70351:CDS
TTTACCACTTAGTGAAGATA+GGG 0.501570 4.2:-10526750 None:intergenic
TCATAAGAAGAAACAGCATA+TGG 0.511094 4.2:-10527012 None:intergenic
GCCTTATGTGCCATATAACT+TGG 0.516662 4.2:+10526981 MS.gene70351:CDS
TTATGTGCCATATAACTTGG+TGG 0.517408 4.2:+10526984 MS.gene70351:CDS
GAGGAGAATGCTCCAACCAC+TGG 0.517991 4.2:+10527066 MS.gene70351:CDS
ATATCTTGTCATGGTTCCAG+TGG 0.523634 4.2:-10527082 None:intergenic
TCCTCTCTCCTCACATAACC+AGG 0.525386 4.2:-10527048 None:intergenic
GAATATACAGAAATGGGAGT+TGG 0.526311 4.2:+10526593 None:intergenic
CTGTTTCTTCTTATGACAAG+AGG 0.561769 4.2:+10527019 MS.gene70351:CDS
TATACAGAAATGGGAGTTGG+TGG 0.562668 4.2:+10526596 None:intergenic
AAAACCCTATCTTCACTAAG+TGG 0.569287 4.2:+10526746 MS.gene70351:CDS
AGGGTCTTCATATCTTGTCA+TGG 0.576931 4.2:-10527091 None:intergenic
TGTTTCTTCTTATGACAAGA+GGG 0.580345 4.2:+10527020 MS.gene70351:CDS
TATGACAAGAGGGCTCCTCC+TGG 0.583575 4.2:+10527030 MS.gene70351:CDS
TCAAAACAAGGTGCTGAAGA+GGG 0.592772 4.2:+10526927 MS.gene70351:CDS
GATTGCAGGGGTACAATCAG+TGG 0.594394 4.2:+10526858 MS.gene70351:intron
TCCTGGTTATGTGAGGAGAG+AGG 0.643961 4.2:+10527047 MS.gene70351:CDS
TGGGTTTGTGGATCAAAACA+AGG 0.658559 4.2:+10526915 MS.gene70351:CDS
GGGCTCCTCCTGGTTATGTG+AGG 0.665943 4.2:+10527040 MS.gene70351:CDS
TTGTCTGATCTAGTGAGCAG+TGG 0.669542 4.2:+10526632 MS.gene70351:CDS
TGAAGAGGGCTAAGTCAACA+GGG 0.675100 4.2:+10526941 MS.gene70351:CDS
AAGGTTAGAATGGACTGTGA+TGG 0.703044 4.2:+10526704 MS.gene70351:CDS
TCTCTCCTCACATAACCAGG+AGG 0.741919 4.2:-10527045 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CACTGAAAATGTTAACATAA+GGG - chr4.2:10527113-10527132 None:intergenic 25.0%
! TCACTGAAAATGTTAACATA+AGG - chr4.2:10527114-10527133 None:intergenic 25.0%
ACATGATAGAACATGCATTT+GGG - chr4.2:10527143-10527162 None:intergenic 30.0%
ATGAAGTTGCTGAAATGAAA+TGG + chr4.2:10526834-10526853 MS.gene70351:intron 30.0%
TACATGATAGAACATGCATT+TGG - chr4.2:10527144-10527163 None:intergenic 30.0%
TCATAAGAAGAAACAGCATA+TGG - chr4.2:10527015-10527034 None:intergenic 30.0%
TGTTTCTTCTTATGACAAGA+GGG + chr4.2:10527020-10527039 MS.gene70351:CDS 30.0%
TTTACCACTTAGTGAAGATA+GGG - chr4.2:10526753-10526772 None:intergenic 30.0%
AAAACCCTATCTTCACTAAG+TGG + chr4.2:10526746-10526765 MS.gene70351:CDS 35.0%
AAATGAAATGGTGATTGCAG+GGG + chr4.2:10526846-10526865 MS.gene70351:intron 35.0%
ACCAAGTTATATGGCACATA+AGG - chr4.2:10526985-10527004 None:intergenic 35.0%
AGCAAAAAGTGACAGTAACT+GGG + chr4.2:10526896-10526915 MS.gene70351:CDS 35.0%
CTTCATGTTGAAAATGTCAC+AGG - chr4.2:10526820-10526839 None:intergenic 35.0%
CTTTACCACTTAGTGAAGAT+AGG - chr4.2:10526754-10526773 None:intergenic 35.0%
GAAATGAAATGGTGATTGCA+GGG + chr4.2:10526845-10526864 MS.gene70351:intron 35.0%
GTTACAAACTGTAGAGCTAA+AGG + chr4.2:10526685-10526704 MS.gene70351:CDS 35.0%
TGAAATGAAATGGTGATTGC+AGG + chr4.2:10526844-10526863 MS.gene70351:intron 35.0%
TGTAGAGCTAAAGGTTAGAA+TGG + chr4.2:10526694-10526713 MS.gene70351:CDS 35.0%
TTATGTGCCATATAACTTGG+TGG + chr4.2:10526984-10527003 MS.gene70351:CDS 35.0%
! CTGTTTCTTCTTATGACAAG+AGG + chr4.2:10527019-10527038 MS.gene70351:CDS 35.0%
!!! CTGTCACTTTTTGCTGTTTA+CGG - chr4.2:10526891-10526910 None:intergenic 35.0%
ACTGCTTCTTCTTCTTCTTG+AGG - chr4.2:10526667-10526686 None:intergenic 40.0%
AGGGTCTTCATATCTTGTCA+TGG - chr4.2:10527094-10527113 None:intergenic 40.0%
ATATCTTGTCATGGTTCCAG+TGG - chr4.2:10527085-10527104 None:intergenic 40.0%
CAGCAAAAAGTGACAGTAAC+TGG + chr4.2:10526895-10526914 MS.gene70351:CDS 40.0%
GCCTTATGTGCCATATAACT+TGG + chr4.2:10526981-10527000 MS.gene70351:CDS 40.0%
TGGGTTTGTGGATCAAAACA+AGG + chr4.2:10526915-10526934 MS.gene70351:CDS 40.0%
!! AAGGTTAGAATGGACTGTGA+TGG + chr4.2:10526704-10526723 MS.gene70351:CDS 40.0%
!! ATCAAAACAAGGTGCTGAAG+AGG + chr4.2:10526926-10526945 MS.gene70351:CDS 40.0%
!! TCAAAACAAGGTGCTGAAGA+GGG + chr4.2:10526927-10526946 MS.gene70351:CDS 40.0%
AGTGACAGTAACTGGGTTTG+TGG + chr4.2:10526903-10526922 MS.gene70351:CDS 45.0%
CAGGGAAGAAGGCTGAAATT+TGG + chr4.2:10526959-10526978 MS.gene70351:CDS 45.0%
CTGTGATGGTTGTGAGCTTA+AGG + chr4.2:10526718-10526737 MS.gene70351:CDS 45.0%
GCTTCTTCTTCTTCTTGAGG+TGG - chr4.2:10526664-10526683 None:intergenic 45.0%
GGTTGAGCCACCAAGTTATA+TGG - chr4.2:10526994-10527013 None:intergenic 45.0%
TCTTCTTCTTCTTGAGGTGG+TGG - chr4.2:10526661-10526680 None:intergenic 45.0%
TGAAGAGGGCTAAGTCAACA+GGG + chr4.2:10526941-10526960 MS.gene70351:CDS 45.0%
TTGTCTGATCTAGTGAGCAG+TGG + chr4.2:10526632-10526651 MS.gene70351:CDS 45.0%
CTGAAGAGGGCTAAGTCAAC+AGG + chr4.2:10526940-10526959 MS.gene70351:CDS 50.0%
CTTGTCATGGTTCCAGTGGT+TGG - chr4.2:10527081-10527100 None:intergenic 50.0%
GGCTAAGTCAACAGGGAAGA+AGG + chr4.2:10526948-10526967 MS.gene70351:CDS 50.0%
TCCTCTCTCCTCACATAACC+AGG - chr4.2:10527051-10527070 None:intergenic 50.0%
TCCTGGTTATGTGAGGAGAG+AGG + chr4.2:10527047-10527066 MS.gene70351:CDS 50.0%
TCTCTCCTCACATAACCAGG+AGG - chr4.2:10527048-10527067 None:intergenic 50.0%
! GATTGCAGGGGTACAATCAG+TGG + chr4.2:10526858-10526877 MS.gene70351:intron 50.0%
! TCTTCTTCTTGAGGTGGTGG+TGG - chr4.2:10526658-10526677 None:intergenic 50.0%
GAGGAGAATGCTCCAACCAC+TGG + chr4.2:10527066-10527085 MS.gene70351:CDS 55.0%
TATGACAAGAGGGCTCCTCC+TGG + chr4.2:10527030-10527049 MS.gene70351:CDS 55.0%
GGGCTCCTCCTGGTTATGTG+AGG + chr4.2:10527040-10527059 MS.gene70351:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 10526605 10527164 10526605 ID=MS.gene70351
chr4.2 mRNA 10526605 10527164 10526605 ID=MS.gene70351.t1;Parent=MS.gene70351
chr4.2 exon 10526605 10526767 10526605 ID=MS.gene70351.t1.exon1;Parent=MS.gene70351.t1
chr4.2 CDS 10526605 10526767 10526605 ID=cds.MS.gene70351.t1;Parent=MS.gene70351.t1
chr4.2 exon 10526866 10527164 10526866 ID=MS.gene70351.t1.exon2;Parent=MS.gene70351.t1
chr4.2 CDS 10526866 10527164 10526866 ID=cds.MS.gene70351.t1;Parent=MS.gene70351.t1
Gene Sequence

>MS.gene70351

ATGGGAGTTGGTGGCACTTTGGAATATTTGTCTGATCTAGTGAGCAGTGGCCACCACCACCTCAAGAAGAAGAAGAAGCAGTTACAAACTGTAGAGCTAAAGGTTAGAATGGACTGTGATGGTTGTGAGCTTAAGGTCAAGAAAACCCTATCTTCACTAAGTGGTAAAGTCACATTCTTTTCAACTTTTCATCATTTTATATAATCATTTTACCTGTGACATTTTCAACATGAAGTTGCTGAAATGAAATGGTGATTGCAGGGGTACAATCAGTGGAAATAAACCGTAAACAGCAAAAAGTGACAGTAACTGGGTTTGTGGATCAAAACAAGGTGCTGAAGAGGGCTAAGTCAACAGGGAAGAAGGCTGAAATTTGGCCTTATGTGCCATATAACTTGGTGGCTCAACCATATGCTGTTTCTTCTTATGACAAGAGGGCTCCTCCTGGTTATGTGAGGAGAGAGGAGAATGCTCCAACCACTGGAACCATGACAAGATATGAAGACCCTTATGTTAACATTTTCAGTGATGAAAACCCAAATGCATGTTCTATCATGTAG
Protein sequence

>MS.gene70351.t1

MGVGGTLEYLSDLVSSGHHHLKKKKKQLQTVELKVRMDCDGCELKVKKTLSSLSGVQSVEINRKQQKVTVTGFVDQNKVLKRAKSTGKKAEIWPYVPYNLVAQPYAVSSYDKRAPPGYVRREENAPTTGTMTRYEDPYVNIFSDENPNACSIM