AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene042089

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene042089.t1 MTR_4g133938 96.324 136 5 0 1 136 1 136 1.70e-94 268
MS.gene042089.t1 MTR_2g026710 75.385 130 27 2 1 130 1 125 1.20e-64 194
MS.gene042089.t1 MTR_5g095740 75.000 120 26 2 1 116 1 120 1.48e-59 182
MS.gene042089.t1 MTR_3g058980 71.901 121 26 1 1 113 1 121 4.29e-59 181
MS.gene042089.t1 MTR_1g072790 70.588 119 32 2 10 127 22 138 6.82e-55 170
MS.gene042089.t1 MTR_8g091720 81.443 97 18 0 20 116 29 125 1.01e-54 170
MS.gene042089.t1 MTR_8g093920 79.787 94 19 0 20 113 41 134 2.84e-54 169
MS.gene042089.t1 MTR_0392s0020 68.182 110 33 1 6 113 3 112 6.33e-53 164
MS.gene042089.t1 MTR_4g119500 68.182 110 30 1 4 113 12 116 7.38e-53 163
MS.gene042089.t1 MTR_7g061270 65.079 126 41 1 7 129 14 139 2.02e-52 163
MS.gene042089.t1 MTR_7g100650 65.079 126 41 1 7 129 14 139 3.42e-52 163
MS.gene042089.t1 MTR_1g088860 74.468 94 24 0 20 113 37 130 1.33e-51 162
MS.gene042089.t1 MTR_4g133952 67.021 94 31 0 20 113 59 152 1.62e-45 148
MS.gene042089.t1 MTR_1g083070 54.867 113 45 1 21 133 6 112 4.20e-42 135
MS.gene042089.t1 MTR_1g039040 57.426 101 41 1 13 113 2 100 6.87e-40 132
MS.gene042089.t1 MTR_1g029070 53.261 92 43 0 20 111 53 144 1.42e-28 103
MS.gene042089.t1 MTR_5g095900 46.667 105 51 2 7 108 3 105 4.75e-25 94.4
MS.gene042089.t1 MTR_1g028480 51.515 66 32 0 49 114 19 84 6.23e-19 76.6
MS.gene042089.t1 MTR_1g029100 40.789 76 45 0 24 99 7 82 6.66e-19 75.9
MS.gene042089.t1 MTR_2g056000 30.952 84 58 0 24 107 46 129 2.23e-13 63.9
MS.gene042089.t1 MTR_4g112380 30.952 84 58 0 24 107 16 99 3.91e-13 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene042089.t1 AT4G14540 75.424 118 23 2 1 114 1 116 2.79e-60 183
MS.gene042089.t1 AT5G47640 82.105 95 17 0 20 114 28 122 4.60e-55 171
MS.gene042089.t1 AT2G38880 65.323 124 39 3 9 130 12 133 4.16e-52 162
MS.gene042089.t1 AT2G47810 76.596 94 22 0 20 113 52 145 4.69e-52 162
MS.gene042089.t1 AT2G38880 65.323 124 39 3 9 130 12 133 6.09e-52 161
MS.gene042089.t1 AT2G38880 65.323 124 39 3 9 130 12 133 6.09e-52 161
MS.gene042089.t1 AT2G38880 65.323 124 39 3 9 130 12 133 6.09e-52 161
MS.gene042089.t1 AT2G13570 76.596 94 22 0 20 113 37 130 1.86e-51 162
MS.gene042089.t1 AT3G53340 74.194 93 24 0 20 112 30 122 2.89e-50 158
MS.gene042089.t1 AT3G53340 74.194 93 24 0 20 112 30 122 2.89e-50 158
MS.gene042089.t1 AT2G37060 69.725 109 29 2 7 112 16 123 3.51e-50 158
MS.gene042089.t1 AT2G37060 69.725 109 29 2 7 112 16 123 3.51e-50 158
MS.gene042089.t1 AT2G37060 69.725 109 29 2 7 112 16 123 3.51e-50 158
MS.gene042089.t1 AT2G38880 72.549 102 25 2 9 109 12 111 1.14e-49 154
MS.gene042089.t1 AT2G38880 72.549 102 25 2 9 109 12 111 2.12e-49 155
MS.gene042089.t1 AT2G38880 72.549 102 25 2 9 109 12 111 2.12e-49 155
MS.gene042089.t1 AT2G38880 72.549 102 25 2 9 109 12 111 2.12e-49 155
MS.gene042089.t1 AT2G38880 63.415 123 41 3 9 130 12 131 3.37e-49 154
MS.gene042089.t1 AT2G38880 72.549 102 25 2 9 109 12 111 4.56e-49 155
MS.gene042089.t1 AT2G38880 72.549 102 25 2 9 109 12 111 4.56e-49 155
MS.gene042089.t1 AT3G53340 73.333 90 24 0 20 109 30 119 1.03e-48 152
MS.gene042089.t1 AT3G53340 73.626 91 24 0 20 110 30 120 3.17e-48 152
MS.gene042089.t1 AT3G53340 73.626 91 24 0 20 110 30 120 3.17e-48 152
MS.gene042089.t1 AT5G47670 63.918 97 35 0 20 116 30 126 6.22e-45 145
MS.gene042089.t1 AT5G47670 63.918 97 35 0 20 116 59 155 1.37e-44 145
MS.gene042089.t1 AT5G47670 63.918 97 35 0 20 116 59 155 1.37e-44 145
MS.gene042089.t1 AT1G09030 57.391 115 46 1 20 131 4 118 2.09e-44 142
MS.gene042089.t1 AT1G21970 58.163 98 41 0 20 117 60 157 2.81e-41 137
MS.gene042089.t1 AT5G08190 35.052 97 61 1 24 118 16 112 7.29e-18 75.5
MS.gene042089.t1 AT5G08190 34.694 98 61 2 24 118 16 113 4.08e-16 70.9
MS.gene042089.t1 AT5G23090 30.928 97 65 1 24 118 16 112 8.68e-15 67.4
MS.gene042089.t1 AT5G23090 34.118 85 54 1 24 106 16 100 5.56e-14 65.1
MS.gene042089.t1 AT5G23090 34.118 85 54 1 24 106 16 100 5.56e-14 65.1
MS.gene042089.t1 AT5G23090 34.118 85 54 1 24 106 16 100 5.56e-14 65.1
MS.gene042089.t1 AT5G23090 32.941 85 54 2 25 106 3 87 7.86e-11 56.6

Find 30 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAATCAGGTGGTCAAGCTTC+AGG 0.278269 8.3:-590504 MS.gene042089:CDS
GGGTTACCTTCACAAGTATA+GGG 0.382046 8.3:-590223 MS.gene042089:CDS
GATCATGAAGAAAGCTTTAC+CGG 0.392387 8.3:-590430 MS.gene042089:CDS
AGAATATGCAGAGCCTCTTA+AGG 0.393028 8.3:-590244 MS.gene042089:CDS
AGGGTTACCTTCACAAGTAT+AGG 0.429699 8.3:-590224 MS.gene042089:CDS
TTCGATATCTTTGCTCTCGC+CGG 0.458504 8.3:+590411 None:intergenic
GAGTTCATAAGCTTCATAAC+AGG 0.460674 8.3:-590354 MS.gene042089:CDS
GATCCTACCAACGTTTGCTA+TGG 0.475579 8.3:+590449 None:intergenic
GCAGAATCAGATGATGAATC+AGG 0.475967 8.3:-590519 MS.gene042089:CDS
GAGAAGAGGAAGACAATAAA+CGG 0.477283 8.3:-590306 MS.gene042089:CDS
TTGTGAAGGTAACCCTTAAG+AGG 0.483388 8.3:+590231 None:intergenic
CAATTTCCCTATACTTGTGA+AGG 0.485169 8.3:+590217 None:intergenic
GAATATGCAGAGCCTCTTAA+GGG 0.488554 8.3:-590243 MS.gene042089:CDS
AATCAGGTGGTCAAGCTTCA+GGG 0.501937 8.3:-590503 MS.gene042089:CDS
GAATATGATTGGTAGTAGTA+AGG 0.514281 8.3:-590172 MS.gene042089:CDS
GCAGAGAATTACTGCAAGAA+AGG 0.517934 8.3:-590479 MS.gene042089:CDS
CACAAGTATAGGGAAATTGA+AGG 0.531636 8.3:-590213 MS.gene042089:CDS
GTTGCAAATATAATCAACCT+TGG 0.534009 8.3:+590121 None:intergenic
ATCCTACCAACGTTTGCTAT+GGG 0.537868 8.3:+590450 None:intergenic
AAAAGTGTCAGAAAGAGAAG+AGG 0.551950 8.3:-590320 MS.gene042089:CDS
AGTATTGATCGATTCTTCCA+AGG 0.558864 8.3:-590138 MS.gene042089:CDS
TTCAAAGCCAAGTGTAGTCA+TGG 0.563942 8.3:+590266 None:intergenic
GTGTGGGCCATGACTACACT+TGG 0.565546 8.3:-590273 MS.gene042089:CDS
TACCAACGTTTGCTATGGGA+AGG 0.599059 8.3:+590454 None:intergenic
TTCCCATAGCAAACGTTGGT+AGG 0.621000 8.3:-590452 MS.gene042089:CDS
CTCCTTCCCATAGCAAACGT+TGG 0.626066 8.3:-590456 MS.gene042089:CDS
GGTAGTAGTAAGGAGCAGCA+AGG 0.645799 8.3:-590162 MS.gene042089:CDS
TAAACGGTGATGATCTTGTG+TGG 0.661494 8.3:-590290 MS.gene042089:CDS
AAACGGTGATGATCTTGTGT+GGG 0.691215 8.3:-590289 MS.gene042089:CDS
GAATCAGATGATGAATCAGG+TGG 0.704177 8.3:-590516 MS.gene042089:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATTTTTCTATGAATATGAT+TGG - chr8.3:590473-590492 MS.gene042089:CDS 15.0%
! GAATATGATTGGTAGTAGTA+AGG - chr8.3:590484-590503 MS.gene042089:CDS 30.0%
CAATTTCCCTATACTTGTGA+AGG + chr8.3:590442-590461 None:intergenic 35.0%
CACAAGTATAGGGAAATTGA+AGG - chr8.3:590443-590462 MS.gene042089:CDS 35.0%
GAGAAGAGGAAGACAATAAA+CGG - chr8.3:590350-590369 MS.gene042089:CDS 35.0%
GAGTTCATAAGCTTCATAAC+AGG - chr8.3:590302-590321 MS.gene042089:CDS 35.0%
GATCATGAAGAAAGCTTTAC+CGG - chr8.3:590226-590245 MS.gene042089:CDS 35.0%
!! AAAAGTGTCAGAAAGAGAAG+AGG - chr8.3:590336-590355 MS.gene042089:CDS 35.0%
!! AGTATTGATCGATTCTTCCA+AGG - chr8.3:590518-590537 MS.gene042089:CDS 35.0%
AAACGGTGATGATCTTGTGT+GGG - chr8.3:590367-590386 MS.gene042089:CDS 40.0%
AGAATATGCAGAGCCTCTTA+AGG - chr8.3:590412-590431 MS.gene042089:CDS 40.0%
AGGGTTACCTTCACAAGTAT+AGG - chr8.3:590432-590451 MS.gene042089:CDS 40.0%
GAATATGCAGAGCCTCTTAA+GGG - chr8.3:590413-590432 MS.gene042089:CDS 40.0%
GAATCAGATGATGAATCAGG+TGG - chr8.3:590140-590159 MS.gene042089:CDS 40.0%
GCAGAATCAGATGATGAATC+AGG - chr8.3:590137-590156 MS.gene042089:CDS 40.0%
GCAGAGAATTACTGCAAGAA+AGG - chr8.3:590177-590196 MS.gene042089:CDS 40.0%
GGGTTACCTTCACAAGTATA+GGG - chr8.3:590433-590452 MS.gene042089:CDS 40.0%
TAAACGGTGATGATCTTGTG+TGG - chr8.3:590366-590385 MS.gene042089:CDS 40.0%
TTCAAAGCCAAGTGTAGTCA+TGG + chr8.3:590393-590412 None:intergenic 40.0%
TTGTGAAGGTAACCCTTAAG+AGG + chr8.3:590428-590447 None:intergenic 40.0%
!! ATCCTACCAACGTTTGCTAT+GGG + chr8.3:590209-590228 None:intergenic 40.0%
AATCAGGTGGTCAAGCTTCA+GGG - chr8.3:590153-590172 MS.gene042089:CDS 45.0%
TTCCCATAGCAAACGTTGGT+AGG - chr8.3:590204-590223 MS.gene042089:CDS 45.0%
TTCGATATCTTTGCTCTCGC+CGG + chr8.3:590248-590267 None:intergenic 45.0%
! GATCCTACCAACGTTTGCTA+TGG + chr8.3:590210-590229 None:intergenic 45.0%
!! TACCAACGTTTGCTATGGGA+AGG + chr8.3:590205-590224 None:intergenic 45.0%
CTCCTTCCCATAGCAAACGT+TGG - chr8.3:590200-590219 MS.gene042089:CDS 50.0%
GAATCAGGTGGTCAAGCTTC+AGG - chr8.3:590152-590171 MS.gene042089:CDS 50.0%
GGTAGTAGTAAGGAGCAGCA+AGG - chr8.3:590494-590513 MS.gene042089:CDS 50.0%
GTGTGGGCCATGACTACACT+TGG - chr8.3:590383-590402 MS.gene042089:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 590134 590544 590134 ID=MS.gene042089
chr8.3 mRNA 590134 590544 590134 ID=MS.gene042089.t1;Parent=MS.gene042089
chr8.3 exon 590134 590544 590134 ID=MS.gene042089.t1.exon1;Parent=MS.gene042089.t1
chr8.3 CDS 590134 590544 590134 ID=cds.MS.gene042089.t1;Parent=MS.gene042089.t1
Gene Sequence

>MS.gene042089

ATGGCAGAATCAGATGATGAATCAGGTGGTCAAGCTTCAGGGAGCAGAGAATTACTGCAAGAAAGGCTCCTTCCCATAGCAAACGTTGGTAGGATCATGAAGAAAGCTTTACCGGCGAGAGCAAAGATATCGAAAGAAGCTAAAGAAACGATGCAAGAGTGTGTATCAGAGTTCATAAGCTTCATAACAGGTGAAGCATCTGAAAAGTGTCAGAAAGAGAAGAGGAAGACAATAAACGGTGATGATCTTGTGTGGGCCATGACTACACTTGGCTTTGAAGAATATGCAGAGCCTCTTAAGGGTTACCTTCACAAGTATAGGGAAATTGAAGGTGACAAGAATTTTTCTATGAATATGATTGGTAGTAGTAAGGAGCAGCAAGGTAGTATTGATCGATTCTTCCAAGGTTGA
Protein sequence

>MS.gene042089.t1

MAESDDESGGQASGSRELLQERLLPIANVGRIMKKALPARAKISKEAKETMQECVSEFISFITGEASEKCQKEKRKTINGDDLVWAMTTLGFEEYAEPLKGYLHKYREIEGDKNFSMNMIGSSKEQQGSIDRFFQG