AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene07472

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07472.t1 MTR_1g077390 76.433 157 12 1 1 132 1 157 1.88e-80 234
MS.gene07472.t1 MTR_5g047580 58.974 156 39 1 1 131 1 156 2.48e-58 177
MS.gene07472.t1 MTR_1g077320 63.057 157 33 1 1 132 1 157 4.35e-57 174
MS.gene07472.t1 MTR_4g028720 61.783 157 35 1 1 132 1 157 3.86e-55 170
MS.gene07472.t1 MTR_7g011950 62.420 157 34 1 1 132 1 157 1.15e-54 169
MS.gene07472.t1 MTR_1g084950 59.615 156 38 1 1 131 1 156 3.97e-51 159
MS.gene07472.t1 MTR_1g077300 59.873 157 36 2 1 132 1 155 6.19e-49 154
MS.gene07472.t1 MTR_1g090697 49.032 155 54 1 1 130 1 155 1.09e-43 140
MS.gene07472.t1 MTR_1g090783 50.327 153 51 1 3 130 2 154 1.54e-43 140
MS.gene07472.t1 MTR_1g090710 48.718 156 54 2 1 130 1 156 1.83e-42 137
MS.gene07472.t1 MTR_5g047560 46.154 156 43 2 1 131 1 140 3.48e-37 124
MS.gene07472.t1 MTR_3g065100 42.675 157 64 1 1 131 1 157 3.18e-27 101
MS.gene07472.t1 MTR_5g075380 32.692 156 79 1 1 130 1 156 4.84e-27 98.6
MS.gene07472.t1 MTR_3g466980 37.908 153 69 1 1 127 1 153 4.13e-26 97.8
MS.gene07472.t1 MTR_4g032620 33.117 154 76 2 1 127 1 154 5.41e-26 97.8
MS.gene07472.t1 MTR_4g031910 39.744 156 67 2 1 129 1 156 5.79e-25 95.1
MS.gene07472.t1 MTR_3g466830 39.333 150 65 2 3 126 2 151 4.12e-24 91.3
MS.gene07472.t1 MTR_4g063790 33.333 159 79 2 1 132 1 159 3.33e-23 89.4
MS.gene07472.t1 MTR_8g036130 55.714 70 31 0 1 70 1 70 1.03e-22 89.7
MS.gene07472.t1 MTR_2g016210 36.424 151 69 3 1 124 1 151 1.59e-22 89.0
MS.gene07472.t1 MTR_3g031240 31.447 159 82 3 1 132 1 159 2.19e-22 87.4
MS.gene07472.t1 MTR_4g028800 57.143 63 25 1 1 63 1 61 5.39e-21 80.5
MS.gene07472.t1 MTR_4g032260 39.623 159 69 2 1 132 1 159 9.85e-20 80.1
MS.gene07472.t1 MTR_3g466890 36.424 151 70 2 3 127 2 152 3.69e-19 78.6
MS.gene07472.t1 MTR_3g031100 32.903 155 75 3 1 127 1 154 1.82e-18 78.6
MS.gene07472.t1 MTR_2g035610 50.000 86 41 1 1 84 1 86 8.16e-18 73.9
MS.gene07472.t1 MTR_4g032290 37.821 156 70 2 1 129 1 156 9.23e-18 76.3
MS.gene07472.t1 MTR_3g467080 29.560 159 85 2 1 132 1 159 3.59e-16 70.9
MS.gene07472.t1 MTR_4g019670 40.449 89 49 2 1 86 1 88 2.66e-13 65.9
MS.gene07472.t1 MTR_2g035580 35.366 82 53 0 1 82 1 82 4.06e-13 62.8
MS.gene07472.t1 MTR_7g106510 36.667 90 54 1 1 87 1 90 1.07e-12 63.9
MS.gene07472.t1 MTR_7g055800 33.654 104 45 2 1 93 1 91 1.94e-11 56.6
MS.gene07472.t1 MTR_3g465410 28.244 131 67 2 29 132 1 131 2.62e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07472.t1 AT3G05860 38.926 149 65 2 1 123 1 149 1.74e-25 95.9
MS.gene07472.t1 AT3G05860 51.852 81 38 1 1 81 1 80 3.44e-25 96.3
MS.gene07472.t1 AT3G05860 51.852 81 38 1 1 81 1 80 6.16e-25 95.9
MS.gene07472.t1 AT5G48670 42.208 154 61 3 1 127 1 153 3.34e-23 92.4
MS.gene07472.t1 AT1G65330 52.113 71 34 0 3 73 2 72 6.88e-21 85.5
MS.gene07472.t1 AT1G65300 32.450 151 76 1 3 127 2 152 1.70e-20 84.3
MS.gene07472.t1 AT5G26630 35.294 153 73 1 1 127 1 153 3.44e-20 82.4
MS.gene07472.t1 AT5G27960 40.187 107 38 1 4 84 2 108 3.60e-19 81.6
MS.gene07472.t1 AT5G26650 32.667 150 75 1 4 127 2 151 9.53e-19 80.9
MS.gene07472.t1 AT1G31630 29.677 155 82 3 3 131 2 155 1.35e-17 77.4
MS.gene07472.t1 AT1G22590 47.541 61 32 0 1 61 1 61 2.58e-17 73.9
MS.gene07472.t1 AT2G28700 37.113 97 56 2 1 93 1 96 1.46e-16 74.3
MS.gene07472.t1 AT1G31640 29.333 150 79 2 3 126 2 150 1.07e-14 69.7
MS.gene07472.t1 AT5G26580 39.583 96 46 1 1 84 1 96 3.94e-14 67.8
MS.gene07472.t1 AT2G40210 38.889 90 52 1 1 87 1 90 1.43e-12 63.5
MS.gene07472.t1 AT5G06500 45.312 64 35 0 1 64 1 64 3.76e-11 58.9

Find 25 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCCTTTCTTGCCGAATCAT+TGG 0.368149 1.3:-55334753 None:intergenic
TGTATGGCTCCCTCTAGATT+TGG 0.415378 1.3:-55334893 None:intergenic
CTCCAATGATTCGGCAAGAA+AGG 0.422860 1.3:+55334751 MS.gene07472:CDS
TCAAATCATCAGGCAACTCT+TGG 0.451496 1.3:-55335084 None:intergenic
AGAGAGCTCTCTATTCTTTG+TGG 0.458868 1.3:+55334815 MS.gene07472:CDS
AAATCTAGAGGGAGCCATAC+AGG 0.466931 1.3:+55334895 MS.gene07472:CDS
TCTGTAACAGTCAAATCATC+AGG 0.472686 1.3:-55335094 None:intergenic
TTTCACCTTCTTCCTAGTCA+TGG 0.474514 1.3:-55334717 None:intergenic
AAAGAAGGGTATCATTAAGA+AGG 0.475254 1.3:+55334790 MS.gene07472:CDS
TGTTATAGAATCAAACGGAT+TGG 0.483520 1.3:-55334861 None:intergenic
ATACCTCTCAATCACCTGTA+TGG 0.492173 1.3:-55334909 None:intergenic
GCAGCAGATTACTAAAACCA+GGG 0.508508 1.3:+55334988 MS.gene07472:intron
GAATGAGCTGGACATTCATA+TGG 0.511354 1.3:+55335045 MS.gene07472:CDS
TGCAGCAGATTACTAAAACC+AGG 0.515480 1.3:+55334987 MS.gene07472:intron
TAGCTACAACAAGAGAAAGA+AGG 0.531524 1.3:+55334775 MS.gene07472:CDS
ACCTCTGTTATAGAATCAAA+CGG 0.538136 1.3:-55334866 None:intergenic
CGGATTGGAAATTATAGCAC+AGG 0.556765 1.3:-55334846 None:intergenic
AGCTACAACAAGAGAAAGAA+GGG 0.560386 1.3:+55334776 MS.gene07472:CDS
TCCGTTTGATTCTATAACAG+AGG 0.561391 1.3:+55334865 MS.gene07472:CDS
ACAGAATAATGAGAATGAGC+TGG 0.567812 1.3:+55335033 MS.gene07472:CDS
TTGGAAATTATAGCACAGGC+TGG 0.567823 1.3:-55334842 None:intergenic
AGAGGTGTGGCCAAATCTAG+AGG 0.598360 1.3:+55334883 MS.gene07472:CDS
AGCTGGACATTCATATGGTT+AGG 0.635359 1.3:+55335050 MS.gene07472:CDS
GAGGTGTGGCCAAATCTAGA+GGG 0.655326 1.3:+55334884 MS.gene07472:CDS
TTGATTCTATAACAGAGGTG+TGG 0.661112 1.3:+55334870 MS.gene07472:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACCTCTGTTATAGAATCAAA+CGG - chr1.3:55334869-55334888 None:intergenic 30.0%
GAAAAAGATGAAGGAAATTG+AGG + chr1.3:55335144-55335163 MS.gene07472:CDS 30.0%
GCTAATTGAGAAAAAGATGA+AGG + chr1.3:55335135-55335154 MS.gene07472:CDS 30.0%
TGTTATAGAATCAAACGGAT+TGG - chr1.3:55334864-55334883 None:intergenic 30.0%
! TGCTTTTATCTCCAATGATT+CGG + chr1.3:55334742-55334761 MS.gene07472:CDS 30.0%
!! AAAGAAGGGTATCATTAAGA+AGG + chr1.3:55334790-55334809 MS.gene07472:CDS 30.0%
ACAGAATAATGAGAATGAGC+TGG + chr1.3:55335033-55335052 MS.gene07472:CDS 35.0%
AGCTACAACAAGAGAAAGAA+GGG + chr1.3:55334776-55334795 MS.gene07472:CDS 35.0%
GCTGCAAAAGAAAACTTTCT+TGG - chr1.3:55334973-55334992 None:intergenic 35.0%
TAGCTACAACAAGAGAAAGA+AGG + chr1.3:55334775-55334794 MS.gene07472:CDS 35.0%
TCCGTTTGATTCTATAACAG+AGG + chr1.3:55334865-55334884 MS.gene07472:CDS 35.0%
TCTGTAACAGTCAAATCATC+AGG - chr1.3:55335097-55335116 None:intergenic 35.0%
TTGATTCTATAACAGAGGTG+TGG + chr1.3:55334870-55334889 MS.gene07472:CDS 35.0%
AGAGAGCTCTCTATTCTTTG+TGG + chr1.3:55334815-55334834 MS.gene07472:CDS 40.0%
AGCTGGACATTCATATGGTT+AGG + chr1.3:55335050-55335069 MS.gene07472:CDS 40.0%
ATACCTCTCAATCACCTGTA+TGG - chr1.3:55334912-55334931 None:intergenic 40.0%
GAATGAGCTGGACATTCATA+TGG + chr1.3:55335045-55335064 MS.gene07472:CDS 40.0%
GCAGCAGATTACTAAAACCA+GGG + chr1.3:55334988-55335007 MS.gene07472:intron 40.0%
TCAAATCATCAGGCAACTCT+TGG - chr1.3:55335087-55335106 None:intergenic 40.0%
TGCAGCAGATTACTAAAACC+AGG + chr1.3:55334987-55335006 MS.gene07472:intron 40.0%
TTGGAAATTATAGCACAGGC+TGG - chr1.3:55334845-55334864 None:intergenic 40.0%
! CGGATTGGAAATTATAGCAC+AGG - chr1.3:55334849-55334868 None:intergenic 40.0%
!!! TTGCTTTTCTAGTTGTTCCC+TGG - chr1.3:55335008-55335027 None:intergenic 40.0%
AAATCTAGAGGGAGCCATAC+AGG + chr1.3:55334895-55334914 MS.gene07472:CDS 45.0%
AGCCTTTCTTGCCGAATCAT+TGG - chr1.3:55334756-55334775 None:intergenic 45.0%
TGTATGGCTCCCTCTAGATT+TGG - chr1.3:55334896-55334915 None:intergenic 45.0%
! CTCCAATGATTCGGCAAGAA+AGG + chr1.3:55334751-55334770 MS.gene07472:CDS 45.0%
GAGCCATACAGGTGATTGAG+AGG + chr1.3:55334906-55334925 MS.gene07472:intron 50.0%
GAGGTGTGGCCAAATCTAGA+GGG + chr1.3:55334884-55334903 MS.gene07472:CDS 50.0%
! AGAGGTGTGGCCAAATCTAG+AGG + chr1.3:55334883-55334902 MS.gene07472:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 55334719 55335192 55334719 ID=MS.gene07472
chr1.3 mRNA 55334719 55335192 55334719 ID=MS.gene07472.t1;Parent=MS.gene07472
chr1.3 exon 55334719 55334916 55334719 ID=MS.gene07472.t1.exon1;Parent=MS.gene07472.t1
chr1.3 CDS 55334719 55334916 55334719 ID=cds.MS.gene07472.t1;Parent=MS.gene07472.t1
chr1.3 exon 55334992 55335192 55334992 ID=MS.gene07472.t1.exon2;Parent=MS.gene07472.t1
chr1.3 CDS 55334992 55335192 55334992 ID=cds.MS.gene07472.t1;Parent=MS.gene07472.t1
Gene Sequence

>MS.gene07472

ATGACTAGGAAGAAGGTGAAACTTGCTTTTATCTCCAATGATTCGGCAAGAAAGGCTAGCTACAACAAGAGAAAGAAGGGTATCATTAAGAAGGTGAGAGAGCTCTCTATTCTTTGTGGTATTCCAGCCTGTGCTATAATTTCCAATCCGTTTGATTCTATAACAGAGGTGTGGCCAAATCTAGAGGGAGCCATACAGGTGATTGAGAGGTATCAAAATGCATATATCAAACACAAGAAAAATAATGTGAACCAAGAAAGTTTTCTTTTGCAGCAGATTACTAAAACCAGGGAACAACTAGAAAAGCAAAGACAACAGAATAATGAGAATGAGCTGGACATTCATATGGTTAGGCACTTGCAAAACCAAGAGTTGCCTGATGATTTGACTGTTACAGATTTAAGTGATTATGATAAGCTAATTGAGAAAAAGATGAAGGAAATTGAGGACAAGATTGTTGCACTCAGTTTATGA
Protein sequence

>MS.gene07472.t1

MTRKKVKLAFISNDSARKASYNKRKKGIIKKVRELSILCGIPACAIISNPFDSITEVWPNLEGAIQQITKTREQLEKQRQQNNENELDIHMVRHLQNQELPDDLTVTDLSDYDKLIEKKMKEIEDKIVALSL