AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene37097

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene37097.t1 MTR_6g016850 93.491 169 10 1 4 171 3 171 6.82e-117 328
MS.gene37097.t1 MTR_8g105600 91.975 162 13 0 4 165 3 164 1.85e-106 316
MS.gene37097.t1 MTR_4g021790 47.826 161 83 1 1 161 1 160 5.63e-47 154
MS.gene37097.t1 MTR_4g021845 45.625 160 86 1 1 160 1 159 6.12e-46 150
MS.gene37097.t1 MTR_8g093040 53.147 143 61 3 1 138 1 142 1.54e-44 148
MS.gene37097.t1 MTR_4g021760 45.342 161 86 2 1 160 1 160 2.50e-44 149
MS.gene37097.t1 MTR_5g055260 44.099 161 82 1 1 161 1 153 3.31e-43 144
MS.gene37097.t1 MTR_4g021855 44.375 160 88 1 1 160 1 159 8.24e-43 144
MS.gene37097.t1 MTR_6g045327 41.250 160 91 3 5 162 9 167 5.16e-32 118
MS.gene37097.t1 MTR_1g032570 39.286 140 83 2 2 140 3 141 3.25e-30 115
MS.gene37097.t1 MTR_3g086100 37.594 133 81 2 3 134 6 137 2.28e-27 107
MS.gene37097.t1 MTR_8g079940 34.641 153 98 2 10 161 25 176 3.50e-26 103
MS.gene37097.t1 MTR_3g106220 33.728 169 106 3 7 170 5 172 5.86e-25 100
MS.gene37097.t1 MTR_1g013180 34.756 164 104 3 8 170 154 315 6.40e-25 100
MS.gene37097.t1 MTR_4g121020 37.302 126 77 2 8 132 29 153 1.70e-24 99.8
MS.gene37097.t1 MTR_4g121020 37.302 126 77 2 8 132 29 153 1.76e-24 99.8
MS.gene37097.t1 MTR_2g034960 38.095 126 76 2 8 132 27 151 3.31e-24 98.6
MS.gene37097.t1 MTR_1g013170 38.095 126 76 2 8 132 3 127 4.73e-24 97.8
MS.gene37097.t1 MTR_7g117705 36.220 127 78 2 8 132 3 128 1.41e-23 96.7
MS.gene37097.t1 MTR_4g023980 40.566 106 62 1 55 160 35 139 1.63e-23 91.7
MS.gene37097.t1 MTR_4g131600 33.333 156 102 2 6 160 16 170 5.51e-23 95.1
MS.gene37097.t1 MTR_4g131570 31.977 172 110 3 6 176 13 178 1.53e-22 94.0
MS.gene37097.t1 MTR_3g102600 34.646 127 81 2 6 131 4 129 6.85e-21 85.1
MS.gene37097.t1 MTR_4g131580 29.762 168 111 3 10 176 17 178 7.40e-21 89.0
MS.gene37097.t1 MTR_3g102600 34.646 127 81 2 6 131 4 129 1.08e-20 85.5
MS.gene37097.t1 MTR_2g450070 32.540 126 83 2 8 132 16 140 8.98e-20 85.9
MS.gene37097.t1 MTR_2g450070 32.540 126 83 2 8 132 16 140 9.73e-20 85.9
MS.gene37097.t1 MTR_3g102590 35.156 128 80 3 7 132 5 131 1.93e-18 79.0
MS.gene37097.t1 MTR_3g102590 33.793 145 86 4 7 149 5 141 2.44e-18 79.7
MS.gene37097.t1 MTR_3g102600 39.726 73 43 1 59 131 9 80 1.14e-14 67.8
MS.gene37097.t1 MTR_8g032710 31.667 120 81 1 12 130 19 138 2.02e-14 70.5
MS.gene37097.t1 MTR_3g102600 39.726 73 43 1 59 131 9 80 2.05e-14 67.8
MS.gene37097.t1 MTR_1g032570 31.731 104 70 1 68 171 1 103 7.72e-14 68.9
MS.gene37097.t1 MTR_0450s0040 30.000 120 82 2 12 130 6 124 5.46e-13 66.2
MS.gene37097.t1 MTR_3g086100 38.806 67 40 1 68 134 1 66 9.67e-13 65.5
MS.gene37097.t1 MTR_8g024260 33.065 124 78 3 13 132 35 157 1.69e-12 65.1
MS.gene37097.t1 MTR_4g061360 31.707 123 79 3 14 132 89 210 6.82e-11 60.5
MS.gene37097.t1 MTR_7g118260 29.008 131 88 3 11 137 11 140 7.57e-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.gene37097.t1 AT1G67710 33.333 165 100 3 11 174 8 163 1.27e-26 105
MS.gene37097.t1 AT2G01760 38.583 127 75 3 8 132 5 130 6.60e-26 102
MS.gene37097.t1 AT3G16857 35.484 124 78 2 10 132 33 155 2.33e-22 93.6
MS.gene37097.t1 AT3G16857 35.484 124 78 2 10 132 33 155 2.40e-22 93.6
MS.gene37097.t1 AT4G31920 34.400 125 80 2 8 131 11 134 3.09e-21 90.1
MS.gene37097.t1 AT2G25180 32.847 137 90 2 8 143 11 146 1.09e-20 88.6
MS.gene37097.t1 AT2G01760 31.613 155 75 4 8 132 5 158 2.33e-20 87.0
MS.gene37097.t1 AT5G49240 31.783 129 86 2 6 133 34 161 4.31e-19 82.4
MS.gene37097.t1 AT1G49190 30.534 131 89 2 5 134 25 154 6.31e-17 77.4
MS.gene37097.t1 AT1G49190 30.534 131 89 2 5 134 25 154 8.60e-17 77.4
MS.gene37097.t1 AT5G58080 30.625 160 105 4 8 166 12 166 2.76e-16 75.9
MS.gene37097.t1 AT3G62670 29.927 137 92 3 15 150 42 175 5.67e-16 75.1
MS.gene37097.t1 AT1G67710 33.645 107 62 2 68 174 1 98 2.66e-14 70.1
MS.gene37097.t1 AT3G16857 36.471 85 52 2 49 132 2 85 5.85e-13 66.2
MS.gene37097.t1 AT2G46790 30.233 129 84 4 10 133 32 159 8.52e-13 65.9
MS.gene37097.t1 AT2G46790 30.233 129 84 4 10 133 32 159 9.46e-13 65.9
MS.gene37097.t1 AT5G60100 32.258 124 79 3 13 132 63 185 1.60e-11 62.0
MS.gene37097.t1 AT5G60100 32.258 124 79 3 13 132 63 185 2.02e-11 61.6
MS.gene37097.t1 AT5G60100 32.258 124 79 3 13 132 63 185 2.02e-11 61.6
MS.gene37097.t1 AT5G60100 32.258 124 79 3 13 132 63 185 2.02e-11 61.6
MS.gene37097.t1 AT5G60100 32.258 124 79 3 13 132 63 185 2.47e-11 61.6
MS.gene37097.t1 AT5G60100 32.258 124 79 3 13 132 63 185 2.47e-11 61.6
MS.gene37097.t1 AT5G60100 32.258 124 79 3 13 132 63 185 2.47e-11 61.6

Find 23 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATCATCTCTTGCCCTTATT+TGG 0.189913 6.2:-12456547 None:intergenic
GGGTTGAAGGTAGCCAAATA+AGG 0.310675 6.2:+12456534 MS.gene37097:CDS
AACGATGCAACATCGGAAAA+AGG 0.322362 6.2:+12456584 MS.gene37097:CDS
ATAATGAAGGCCATTGAAAA+TGG 0.335391 6.2:+12456395 MS.gene37097:CDS
ACAAGAACTTTAACATTGGC+TGG 0.429953 6.2:-12455946 None:intergenic
ATATGTGGCATCATGCTGTT+AGG 0.443627 6.2:+12456465 MS.gene37097:CDS
CATGAATTTGATAGCACAAA+AGG 0.447668 6.2:+12456141 MS.gene37097:CDS
TATATTTACTTACTAATGAC+AGG 0.483959 6.2:-12456253 None:intergenic
TGTTCTGAAGGATCAACAAA+TGG 0.496320 6.2:+12456371 MS.gene37097:CDS
ATCAACAAATGGAATAATGA+AGG 0.507137 6.2:+12456382 MS.gene37097:CDS
GGTTGAAGGTAGCCAAATAA+GGG 0.508208 6.2:+12456535 MS.gene37097:CDS
AAAATCAAGTAAAGTATATG+TGG 0.524588 6.2:+12456450 MS.gene37097:CDS
AATCACAAGAACTTTAACAT+TGG 0.529369 6.2:-12455950 None:intergenic
TGAAACTCAAATGCCGGACA+TGG 0.529643 6.2:+12456186 MS.gene37097:CDS
ACGCTTAAACGATGCAACAT+CGG 0.539685 6.2:+12456577 MS.gene37097:CDS
AAATCAAATGAATCCATGTC+CGG 0.545425 6.2:-12456199 None:intergenic
ACTACTTGAAACTCAAATGC+CGG 0.562943 6.2:+12456180 MS.gene37097:CDS
GGCTGGAAACTCATTTCCAA+AGG 0.566229 6.2:-12455929 None:intergenic
GCTGTTAGGAAAATGATGAA+AGG 0.599623 6.2:+12456479 MS.gene37097:CDS
TGGTCTCGATTCAATTACCA+AGG 0.605981 6.2:+12456012 MS.gene37097:CDS
TTCAGTTACAACATGCTCGA+CGG 0.610352 6.2:+12456108 MS.gene37097:intron
TCAATGCTATTGAGAAAACA+TGG 0.646799 6.2:+12455992 MS.gene37097:CDS
GCAGTGACGATGTGTTCTGA+AGG 0.690924 6.2:+12456359 MS.gene37097:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAATCAAGTAAAGTATATG+TGG + chr6.2:12456450-12456469 MS.gene37097:CDS 20.0%
!! TATATTTACTTACTAATGAC+AGG - chr6.2:12456256-12456275 None:intergenic 20.0%
! AAAAAATCAATGAGCAATTG+GGG + chr6.2:12456513-12456532 MS.gene37097:CDS 25.0%
! AAAAAGATTGAGACTTTCAT+AGG - chr6.2:12456066-12456085 None:intergenic 25.0%
! AATCACAAGAACTTTAACAT+TGG - chr6.2:12455953-12455972 None:intergenic 25.0%
! ACAAAAAATCAATGAGCAAT+TGG + chr6.2:12456511-12456530 MS.gene37097:CDS 25.0%
! ATCAACAAATGGAATAATGA+AGG + chr6.2:12456382-12456401 MS.gene37097:CDS 25.0%
! CAAAAAATCAATGAGCAATT+GGG + chr6.2:12456512-12456531 MS.gene37097:CDS 25.0%
! CAATTAAGAATTACAAACCT+TGG - chr6.2:12456032-12456051 None:intergenic 25.0%
!! TTTACTTGATTTTCAGTGAA+TGG - chr6.2:12456443-12456462 None:intergenic 25.0%
AAAAATCAATGAGCAATTGG+GGG + chr6.2:12456514-12456533 MS.gene37097:CDS 30.0%
AAATCAAATGAATCCATGTC+CGG - chr6.2:12456202-12456221 None:intergenic 30.0%
ATAATGAAGGCCATTGAAAA+TGG + chr6.2:12456395-12456414 MS.gene37097:CDS 30.0%
TCAATGCTATTGAGAAAACA+TGG + chr6.2:12455992-12456011 MS.gene37097:CDS 30.0%
! CATGAATTTGATAGCACAAA+AGG + chr6.2:12456141-12456160 MS.gene37097:CDS 30.0%
! CTTTTGTGCTATCAAATTCA+TGG - chr6.2:12456143-12456162 None:intergenic 30.0%
!!! ACAAAAGGTGCATTTTGATT+TGG + chr6.2:12456156-12456175 MS.gene37097:CDS 30.0%
AATCATCTCTTGCCCTTATT+TGG - chr6.2:12456550-12456569 None:intergenic 35.0%
ACAAGAACTTTAACATTGGC+TGG - chr6.2:12455949-12455968 None:intergenic 35.0%
ACTACTTGAAACTCAAATGC+CGG + chr6.2:12456180-12456199 MS.gene37097:CDS 35.0%
GCTGTTAGGAAAATGATGAA+AGG + chr6.2:12456479-12456498 MS.gene37097:CDS 35.0%
!! TGTTCTGAAGGATCAACAAA+TGG + chr6.2:12456371-12456390 MS.gene37097:CDS 35.0%
AACGATGCAACATCGGAAAA+AGG + chr6.2:12456584-12456603 MS.gene37097:CDS 40.0%
ACGCTTAAACGATGCAACAT+CGG + chr6.2:12456577-12456596 MS.gene37097:CDS 40.0%
ATATGTGGCATCATGCTGTT+AGG + chr6.2:12456465-12456484 MS.gene37097:CDS 40.0%
GGTTGAAGGTAGCCAAATAA+GGG + chr6.2:12456535-12456554 MS.gene37097:CDS 40.0%
TGGTCTCGATTCAATTACCA+AGG + chr6.2:12456012-12456031 MS.gene37097:CDS 40.0%
TTCAGTTACAACATGCTCGA+CGG + chr6.2:12456108-12456127 MS.gene37097:intron 40.0%
! GTCACAAGCTCCATTTTCAA+TGG - chr6.2:12456408-12456427 None:intergenic 40.0%
AATGAGCAATTGGGGGTTGA+AGG + chr6.2:12456521-12456540 MS.gene37097:CDS 45.0%
GGCTGGAAACTCATTTCCAA+AGG - chr6.2:12455932-12455951 None:intergenic 45.0%
GGGTTGAAGGTAGCCAAATA+AGG + chr6.2:12456534-12456553 MS.gene37097:CDS 45.0%
TGAAACTCAAATGCCGGACA+TGG + chr6.2:12456186-12456205 MS.gene37097:CDS 45.0%
GCAGTGACGATGTGTTCTGA+AGG + chr6.2:12456359-12456378 MS.gene37097:intron 50.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 12455916 12456625 12455916 ID=MS.gene37097
chr6.2 mRNA 12455916 12456625 12455916 ID=MS.gene37097.t1;Parent=MS.gene37097
chr6.2 exon 12455916 12456033 12455916 ID=MS.gene37097.t1.exon1;Parent=MS.gene37097.t1
chr6.2 CDS 12455916 12456033 12455916 ID=cds.MS.gene37097.t1;Parent=MS.gene37097.t1
chr6.2 exon 12456113 12456262 12456113 ID=MS.gene37097.t1.exon2;Parent=MS.gene37097.t1
chr6.2 CDS 12456113 12456262 12456113 ID=cds.MS.gene37097.t1;Parent=MS.gene37097.t1
chr6.2 exon 12456363 12456625 12456363 ID=MS.gene37097.t1.exon3;Parent=MS.gene37097.t1
chr6.2 CDS 12456363 12456625 12456363 ID=cds.MS.gene37097.t1;Parent=MS.gene37097.t1
Gene Sequence

>MS.gene37097

ATGGCTTTTTTTTCCTTTGGAAATGAGTTTCCAGCCAATGTTAAAGTTCTTGTGATTGATCATGATATTGATCTTCTCAATGCTATTGAGAAAACATGGTCTCGATTCAATTACCAAGGTTTGTAATTCTTAATTGAATTATATTAACCTATGAAAGTCTCAATCTTTTTGTTACAATTCTTGTTTCTTTGTTTCAGTTACAACATGCTCGACGGTTTCTTCAGCCATGAATTTGATAGCACAAAAGGTGCATTTTGATTTGGTACTACTTGAAACTCAAATGCCGGACATGGATTCATTTGATTTCTTGCAACAATTGACACAACAAATCAATATTCCTGTCATTAGTAAGTAAATATATAATTAATTATATTATCATATCATATCATATCACATGATTAATTTATACTTGCATGAGATGAGACATTATAATTTATTTATGTGCAGTGACGATGTGTTCTGAAGGATCAACAAATGGAATAATGAAGGCCATTGAAAATGGAGCTTGTGACTGTTTTGTCAAGCCATTCACTGAAAATCAAGTAAAGTATATGTGGCATCATGCTGTTAGGAAAATGATGAAAGGAAATAAAAAACAAAAAATCAATGAGCAATTGGGGGTTGAAGGTAGCCAAATAAGGGCAAGAGATGATTCAAATTTACGCTTAAACGATGCAACATCGGAAAAAGGTGACGAAGAAAAAGAGTAA
Protein sequence

>MS.gene37097.t1

MAFFSFGNEFPANVKVLVIDHDIDLLNAIEKTWSRFNYQVTTCSTVSSAMNLIAQKVHFDLVLLETQMPDMDSFDFLQQLTQQINIPVIMTMCSEGSTNGIMKAIENGACDCFVKPFTENQVKYMWHHAVRKMMKGNKKQKINEQLGVEGSQIRARDDSNLRLNDATSEKGDEEKE