AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene071070

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071070.t1 MTR_1g033620 94.286 175 10 0 7 181 6 180 6.46e-117 331
MS.gene071070.t1 MTR_8g063600 61.494 174 55 4 13 175 113 285 1.10e-61 193
MS.gene071070.t1 MTR_4g111975 66.667 135 37 4 13 140 145 278 1.56e-48 159
MS.gene071070.t1 MTR_8g063870 44.920 187 74 4 5 173 91 266 1.13e-40 138
MS.gene071070.t1 MTR_1g111830 73.913 69 18 0 13 81 131 199 5.21e-30 110
MS.gene071070.t1 MTR_3g462790 78.788 66 14 0 14 79 155 220 1.11e-29 111
MS.gene071070.t1 MTR_5g069710 80.645 62 12 0 13 74 139 200 5.36e-29 109
MS.gene071070.t1 MTR_7g067080 69.737 76 23 0 14 89 148 223 8.36e-29 108
MS.gene071070.t1 MTR_5g081860 63.415 82 28 1 13 92 132 213 2.65e-26 101
MS.gene071070.t1 MTR_4g015130 72.881 59 16 0 16 74 3 61 8.50e-26 95.1
MS.gene071070.t1 MTR_6g092540 57.955 88 30 2 14 101 105 185 9.78e-25 97.8
MS.gene071070.t1 MTR_4g100630 61.194 67 26 0 13 79 102 168 2.41e-23 94.7
MS.gene071070.t1 MTR_8g101650 70.175 57 16 1 14 70 113 168 1.41e-22 91.7
MS.gene071070.t1 MTR_2g100930 51.020 98 40 1 13 102 116 213 2.97e-22 92.0
MS.gene071070.t1 MTR_5g027570 55.714 70 29 1 13 80 99 168 1.67e-20 85.5
MS.gene071070.t1 MTR_0036s0260 63.333 60 22 0 13 72 35 94 2.30e-20 84.3
MS.gene071070.t1 MTR_5g088010 58.209 67 24 2 14 77 68 133 2.36e-20 85.1
MS.gene071070.t1 MTR_5g088060 58.209 67 24 2 14 77 280 345 2.39e-19 84.7
MS.gene071070.t1 MTR_5g488160 58.209 67 24 2 14 77 280 345 2.39e-19 84.7
MS.gene071070.t1 MTR_5g037080 71.667 60 17 0 13 72 109 168 1.59e-18 81.3
MS.gene071070.t1 MTR_2g090305 61.667 60 23 0 13 72 35 94 1.91e-18 79.0
MS.gene071070.t1 MTR_4g107230 82.051 39 7 0 14 52 92 130 7.12e-16 73.9
MS.gene071070.t1 MTR_3g104370 57.627 59 22 2 15 70 100 158 8.65e-16 72.8
MS.gene071070.t1 MTR_5g027550 52.113 71 31 1 13 80 84 154 1.76e-15 72.0
MS.gene071070.t1 MTR_1g048660 46.875 64 34 0 14 77 20 83 6.33e-14 64.7
MS.gene071070.t1 MTR_1g083180 50.746 67 29 2 13 76 68 133 4.13e-12 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071070.t1 AT5G08520 64.324 185 35 4 13 179 125 296 3.50e-67 207
MS.gene071070.t1 AT1G49010 55.634 142 46 4 13 143 141 276 9.02e-41 140
MS.gene071070.t1 AT5G23650 40.000 205 77 4 13 171 127 331 2.22e-32 119
MS.gene071070.t1 AT5G04760 77.419 62 14 0 13 74 106 167 1.53e-29 108
MS.gene071070.t1 AT5G58900 80.328 61 12 0 14 74 149 209 2.96e-29 109
MS.gene071070.t1 AT2G38090 78.689 61 13 0 14 74 149 209 1.09e-27 105
MS.gene071070.t1 AT5G01200 74.576 59 15 0 16 74 156 214 2.64e-25 98.6
MS.gene071070.t1 AT5G05790 69.014 71 20 1 13 81 138 208 1.47e-24 97.1
MS.gene071070.t1 AT5G05790 69.014 71 20 1 13 81 138 208 1.47e-24 97.1
MS.gene071070.t1 AT3G11280 74.194 62 16 0 13 74 134 195 5.29e-24 95.1
MS.gene071070.t1 AT3G11280 74.194 62 16 0 13 74 134 195 5.29e-24 95.1
MS.gene071070.t1 AT5G61620 56.977 86 27 2 13 88 115 200 1.30e-23 95.1
MS.gene071070.t1 AT5G47390 63.636 66 24 0 13 78 103 168 2.85e-23 95.1
MS.gene071070.t1 AT5G56840 53.659 82 37 1 13 93 98 179 6.12e-22 89.4
MS.gene071070.t1 AT3G10580 59.420 69 26 1 13 81 102 168 6.44e-20 84.3
MS.gene071070.t1 AT3G10580 59.420 69 26 1 13 81 102 168 1.19e-19 84.0
MS.gene071070.t1 AT1G70000 75.862 58 14 0 14 71 106 163 2.00e-18 80.5
MS.gene071070.t1 AT1G70000 75.862 58 14 0 14 71 106 163 2.00e-18 80.5
MS.gene071070.t1 AT4G09450 61.017 59 23 0 13 71 98 156 4.13e-18 78.2
MS.gene071070.t1 AT3G16350 80.488 41 8 0 13 53 144 184 9.09e-17 77.0
MS.gene071070.t1 AT1G19000 51.485 101 43 2 14 109 110 209 6.15e-16 73.9
MS.gene071070.t1 AT1G19000 51.485 101 43 2 14 109 110 209 6.15e-16 73.9
MS.gene071070.t1 AT1G74840 77.500 40 9 0 13 52 103 142 3.58e-15 71.2
MS.gene071070.t1 AT1G74840 77.500 40 9 0 13 52 103 142 5.31e-15 71.2
MS.gene071070.t1 AT3G10590 58.621 58 23 1 14 71 119 175 1.66e-12 63.5

Find 62 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTCAACAGGTTATTTCTTC+TGG 0.105969 1.4:-3576505 MS.gene071070:CDS
AGCTACTTGTGTTGGTGTTC+GGG 0.297973 1.4:+3576425 None:intergenic
TTCAACAGGTTATTTCTTCT+GGG 0.318260 1.4:-3576504 MS.gene071070:CDS
TAGCTACTTGTGTTGGTGTT+CGG 0.322855 1.4:+3576424 None:intergenic
TTGCTTCAAATTGGTTCAAC+AGG 0.363865 1.4:-3576518 MS.gene071070:CDS
ACTGTCTGTTTCTAATGAAA+TGG 0.377845 1.4:-3576551 None:intergenic
GCTCCTCCACACATGGCTTA+TGG 0.382264 1.4:-3576114 MS.gene071070:CDS
GGTCTAACGAACGGTTCATC+TGG 0.387901 1.4:-3576279 MS.gene071070:CDS
GGTATTCGAGCACCAGTTCC+CGG 0.416184 1.4:-3576093 MS.gene071070:CDS
CAAGCTGTTCCATCGACAAC+CGG 0.417587 1.4:-3576231 MS.gene071070:CDS
CAGGTTATTTCTTCTGGGCC+TGG 0.439867 1.4:-3576499 MS.gene071070:CDS
GACACAACTGTACCGGGAAC+TGG 0.456953 1.4:+3576081 None:intergenic
GCAGAAGTATGATGAGGCAT+AGG 0.460682 1.4:+3576024 None:intergenic
AGATGAACCGTTCGTTAGAC+CGG 0.461425 1.4:+3576281 None:intergenic
TGAGGCATAGGGTATGTCAT+AGG 0.463430 1.4:+3576036 None:intergenic
CTATCGGTTGTCCAATGGTA+GGG 0.470550 1.4:+3576181 None:intergenic
ACCGTTCGTTAGACCGGTGA+TGG 0.496202 1.4:+3576287 None:intergenic
CATTCCTGCACCTTGTACCC+CGG 0.506025 1.4:+3576212 None:intergenic
GACCATGTTCACTGGTGCAC+CGG 0.507025 1.4:+3576059 None:intergenic
GGCCTGGACAAGTACGGAAA+AGG 0.510767 1.4:-3576483 MS.gene071070:CDS
CCATCGACAACCGGGGTACA+AGG 0.513026 1.4:-3576222 MS.gene071070:CDS
GGAGGAGCGGAAAGATTCAC+AGG 0.514662 1.4:+3576129 None:intergenic
GCACCGGACACAACTGTACC+GGG 0.516203 1.4:+3576075 None:intergenic
CCTATCGGTTGTCCAATGGT+AGG 0.516898 1.4:+3576180 None:intergenic
CCTTGTACCCCGGTTGTCGA+TGG 0.517851 1.4:+3576222 None:intergenic
GGTTCATCTGGAAATTCTGC+TGG 0.518051 1.4:-3576267 MS.gene071070:CDS
ATGTATGCTGCCCCTACCAT+TGG 0.523237 1.4:-3576192 MS.gene071070:CDS
TCTTTCCGCTCCTCCACACA+TGG 0.528941 1.4:-3576121 MS.gene071070:CDS
GTCATAGGGACCATGTTCAC+TGG 0.529140 1.4:+3576051 None:intergenic
TGCACCGGACACAACTGTAC+CGG 0.536071 1.4:+3576074 None:intergenic
ATCATACTTCTGCTCCTCAC+AGG 0.536148 1.4:-3576014 None:intergenic
AAGCTGTTCCATCGACAACC+GGG 0.540673 1.4:-3576230 MS.gene071070:CDS
GAGGCATAGGGTATGTCATA+GGG 0.567085 1.4:+3576037 None:intergenic
GGACCTTTAGTATCTGCTGT+TGG 0.570389 1.4:-3576156 MS.gene071070:CDS
GTTCCCGGTACAGTTGTGTC+CGG 0.571740 1.4:-3576078 MS.gene071070:CDS
GCATGACTAGCTACTTGTGT+TGG 0.571899 1.4:+3576417 None:intergenic
GATACTAAAGGTCCTCCTAT+CGG 0.572681 1.4:+3576165 None:intergenic
CTTCTGGGCCTGGACAAGTA+CGG 0.573150 1.4:-3576489 MS.gene071070:CDS
TCCTCCTATCGGTTGTCCAA+TGG 0.578098 1.4:+3576176 None:intergenic
ACAACCGGGGTACAAGGTGC+AGG 0.583490 1.4:-3576216 MS.gene071070:CDS
CCGTTCGTTAGACCGGTGAT+GGG 0.587287 1.4:+3576288 None:intergenic
CAGAAGTATGATGAGGCATA+GGG 0.592758 1.4:+3576025 None:intergenic
TATCGGTTGTCCAATGGTAG+GGG 0.594005 1.4:+3576182 None:intergenic
GTGCCAACAGCAGATACTAA+AGG 0.601157 1.4:+3576153 None:intergenic
ACCATTGGACAACCGATAGG+AGG 0.606609 1.4:-3576177 MS.gene071070:CDS
GTCCGGTGCACCAGTGAACA+TGG 0.607516 1.4:-3576061 MS.gene071070:CDS
ACGCCTCAAGGACCCATCAC+CGG 0.608239 1.4:-3576300 MS.gene071070:CDS
GGAGATGTTTCAACGCCTCA+AGG 0.611096 1.4:-3576312 MS.gene071070:CDS
ATAAGCCATGTGTGGAGGAG+CGG 0.616404 1.4:+3576116 None:intergenic
CGAATACCATAAGCCATGTG+TGG 0.628587 1.4:+3576108 None:intergenic
CCCATCACCGGTCTAACGAA+CGG 0.630444 1.4:-3576288 MS.gene071070:CDS
CCTACCATTGGACAACCGAT+AGG 0.635695 1.4:-3576180 MS.gene071070:CDS
ACAAGTACGGAAAAGGCGAC+TGG 0.636078 1.4:-3576476 MS.gene071070:CDS
ATACCATAAGCCATGTGTGG+AGG 0.651153 1.4:+3576111 None:intergenic
ACTCGATGAACAAAGACAGA+AGG 0.651461 1.4:-3576371 MS.gene071070:CDS
GAGGAGCGGAAAGATTCACA+GGG 0.668882 1.4:+3576130 None:intergenic
AGACCGGTGATGGGTCCTTG+AGG 0.669095 1.4:+3576297 None:intergenic
TGAGGAGCAGAAGTATGATG+AGG 0.681290 1.4:+3576018 None:intergenic
GACATTACAAGCGTTAACAA+CGG 0.687822 1.4:-3576333 MS.gene071070:CDS
AGCTGTTCCATCGACAACCG+GGG 0.715284 1.4:-3576229 MS.gene071070:CDS
ACAGCAGCACTTTACCTGTG+AGG 0.725384 1.4:+3576000 None:intergenic
AGGAGCGGAAAGATTCACAG+GGG 0.822895 1.4:+3576131 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCTCATATTTTGCTTCAAAT+TGG - chr1.4:3576025-3576044 MS.gene071070:CDS 25.0%
!! TTCAACAGGTTATTTCTTCT+GGG - chr1.4:3576048-3576067 MS.gene071070:CDS 30.0%
GACATTACAAGCGTTAACAA+CGG - chr1.4:3576219-3576238 MS.gene071070:CDS 35.0%
! TTGCTTCAAATTGGTTCAAC+AGG - chr1.4:3576034-3576053 MS.gene071070:CDS 35.0%
!! GTTCAACAGGTTATTTCTTC+TGG - chr1.4:3576047-3576066 MS.gene071070:CDS 35.0%
ACTCGATGAACAAAGACAGA+AGG - chr1.4:3576181-3576200 MS.gene071070:CDS 40.0%
GATACTAAAGGTCCTCCTAT+CGG + chr1.4:3576390-3576409 None:intergenic 40.0%
! CAGAAGTATGATGAGGCATA+GGG + chr1.4:3576530-3576549 None:intergenic 40.0%
! TAGCTACTTGTGTTGGTGTT+CGG + chr1.4:3576131-3576150 None:intergenic 40.0%
AGATGAACCGTTCGTTAGAC+CGG + chr1.4:3576274-3576293 None:intergenic 45.0%
ATACCATAAGCCATGTGTGG+AGG + chr1.4:3576444-3576463 None:intergenic 45.0%
CGAATACCATAAGCCATGTG+TGG + chr1.4:3576447-3576466 None:intergenic 45.0%
GAGGCATAGGGTATGTCATA+GGG + chr1.4:3576518-3576537 None:intergenic 45.0%
GGACCTTTAGTATCTGCTGT+TGG - chr1.4:3576396-3576415 MS.gene071070:CDS 45.0%
GGTTCATCTGGAAATTCTGC+TGG - chr1.4:3576285-3576304 MS.gene071070:CDS 45.0%
GTGCCAACAGCAGATACTAA+AGG + chr1.4:3576402-3576421 None:intergenic 45.0%
TGAGGCATAGGGTATGTCAT+AGG + chr1.4:3576519-3576538 None:intergenic 45.0%
! AGCTACTTGTGTTGGTGTTC+GGG + chr1.4:3576130-3576149 None:intergenic 45.0%
! CTATCGGTTGTCCAATGGTA+GGG + chr1.4:3576374-3576393 None:intergenic 45.0%
! GCAGAAGTATGATGAGGCAT+AGG + chr1.4:3576531-3576550 None:intergenic 45.0%
! GCATGACTAGCTACTTGTGT+TGG + chr1.4:3576138-3576157 None:intergenic 45.0%
! TATCGGTTGTCCAATGGTAG+GGG + chr1.4:3576373-3576392 None:intergenic 45.0%
! TGAGGAGCAGAAGTATGATG+AGG + chr1.4:3576537-3576556 None:intergenic 45.0%
AAGCTGTTCCATCGACAACC+GGG - chr1.4:3576322-3576341 MS.gene071070:CDS 50.0%
ACAAGTACGGAAAAGGCGAC+TGG - chr1.4:3576076-3576095 MS.gene071070:CDS 50.0%
ACCATTGGACAACCGATAGG+AGG - chr1.4:3576375-3576394 MS.gene071070:CDS 50.0%
AGGAGCGGAAAGATTCACAG+GGG + chr1.4:3576424-3576443 None:intergenic 50.0%
ATAAGCCATGTGTGGAGGAG+CGG + chr1.4:3576439-3576458 None:intergenic 50.0%
ATGTATGCTGCCCCTACCAT+TGG - chr1.4:3576360-3576379 MS.gene071070:CDS 50.0%
CAAGCTGTTCCATCGACAAC+CGG - chr1.4:3576321-3576340 MS.gene071070:CDS 50.0%
CCTACCATTGGACAACCGAT+AGG - chr1.4:3576372-3576391 MS.gene071070:CDS 50.0%
GAGGAGCGGAAAGATTCACA+GGG + chr1.4:3576425-3576444 None:intergenic 50.0%
GGAGATGTTTCAACGCCTCA+AGG - chr1.4:3576240-3576259 MS.gene071070:CDS 50.0%
GGTCTAACGAACGGTTCATC+TGG - chr1.4:3576273-3576292 MS.gene071070:CDS 50.0%
GTCATAGGGACCATGTTCAC+TGG + chr1.4:3576504-3576523 None:intergenic 50.0%
! CCTATCGGTTGTCCAATGGT+AGG + chr1.4:3576375-3576394 None:intergenic 50.0%
! TCCTCCTATCGGTTGTCCAA+TGG + chr1.4:3576379-3576398 None:intergenic 50.0%
!! CAGGTTATTTCTTCTGGGCC+TGG - chr1.4:3576053-3576072 MS.gene071070:CDS 50.0%
ACCGTTCGTTAGACCGGTGA+TGG + chr1.4:3576268-3576287 None:intergenic 55.0%
AGCTGTTCCATCGACAACCG+GGG - chr1.4:3576323-3576342 MS.gene071070:CDS 55.0%
CATTCCTGCACCTTGTACCC+CGG + chr1.4:3576343-3576362 None:intergenic 55.0%
CCCATCACCGGTCTAACGAA+CGG - chr1.4:3576264-3576283 MS.gene071070:CDS 55.0%
CCGTTCGTTAGACCGGTGAT+GGG + chr1.4:3576267-3576286 None:intergenic 55.0%
CTTCTGGGCCTGGACAAGTA+CGG - chr1.4:3576063-3576082 MS.gene071070:CDS 55.0%
GACACAACTGTACCGGGAAC+TGG + chr1.4:3576474-3576493 None:intergenic 55.0%
GACCATGTTCACTGGTGCAC+CGG + chr1.4:3576496-3576515 None:intergenic 55.0%
GCTCCTCCACACATGGCTTA+TGG - chr1.4:3576438-3576457 MS.gene071070:CDS 55.0%
GGAGGAGCGGAAAGATTCAC+AGG + chr1.4:3576426-3576445 None:intergenic 55.0%
GGCCTGGACAAGTACGGAAA+AGG - chr1.4:3576069-3576088 MS.gene071070:CDS 55.0%
GGTATTCGAGCACCAGTTCC+CGG - chr1.4:3576459-3576478 MS.gene071070:CDS 55.0%
GTTCCCGGTACAGTTGTGTC+CGG - chr1.4:3576474-3576493 MS.gene071070:CDS 55.0%
TCTTTCCGCTCCTCCACACA+TGG - chr1.4:3576431-3576450 MS.gene071070:CDS 55.0%
TGCACCGGACACAACTGTAC+CGG + chr1.4:3576481-3576500 None:intergenic 55.0%
! CGCCTTTTCCGTACTTGTCC+AGG + chr1.4:3576074-3576093 None:intergenic 55.0%
ACAACCGGGGTACAAGGTGC+AGG - chr1.4:3576336-3576355 MS.gene071070:CDS 60.0%
ACGCCTCAAGGACCCATCAC+CGG - chr1.4:3576252-3576271 MS.gene071070:CDS 60.0%
CCATCGACAACCGGGGTACA+AGG - chr1.4:3576330-3576349 MS.gene071070:CDS 60.0%
CCTTGTACCCCGGTTGTCGA+TGG + chr1.4:3576333-3576352 None:intergenic 60.0%
GCACCGGACACAACTGTACC+GGG + chr1.4:3576480-3576499 None:intergenic 60.0%
GTCCGGTGCACCAGTGAACA+TGG - chr1.4:3576491-3576510 MS.gene071070:CDS 60.0%
!! AGACCGGTGATGGGTCCTTG+AGG + chr1.4:3576258-3576277 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 3576015 3576559 3576015 ID=MS.gene071070
chr1.4 mRNA 3576015 3576559 3576015 ID=MS.gene071070.t1;Parent=MS.gene071070
chr1.4 exon 3576015 3576559 3576015 ID=MS.gene071070.t1.exon1;Parent=MS.gene071070.t1
chr1.4 CDS 3576015 3576559 3576015 ID=cds.MS.gene071070.t1;Parent=MS.gene071070.t1
Gene Sequence

>MS.gene071070

ATGAAATGGTTCTCATATTTTGCTTCAAATTGGTTCAACAGGTTATTTCTTCTGGGCCTGGACAAGTACGGAAAAGGCGACTGGCGAAGCATTTCAAGAAACTTTGTTGTAACCCGAACACCAACACAAGTAGCTAGTCATGCACAAAAGTACTTCATTCGACTGAACTCGATGAACAAAGACAGAAGGCGATCGAGCATACATGACATTACAAGCGTTAACAACGGAGATGTTTCAACGCCTCAAGGACCCATCACCGGTCTAACGAACGGTTCATCTGGAAATTCTGCTGGCAAATCAGTCAAACAAGCTGTTCCATCGACAACCGGGGTACAAGGTGCAGGAATGTATGCTGCCCCTACCATTGGACAACCGATAGGAGGACCTTTAGTATCTGCTGTTGGCACCCCTGTGAATCTTTCCGCTCCTCCACACATGGCTTATGGTATTCGAGCACCAGTTCCCGGTACAGTTGTGTCCGGTGCACCAGTGAACATGGTCCCTATGACATACCCTATGCCTCATCATACTTCTGCTCCTCACAG
Protein sequence

>MS.gene071070.t1

MKWFSYFASNWFNRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFIRLNSMNKDRRRSSIHDITSVNNGDVSTPQGPITGLTNGSSGNSAGKSVKQAVPSTTGVQGAGMYAAPTIGQPIGGPLVSAVGTPVNLSAPPHMAYGIRAPVPGTVVSGAPVNMVPMTYPMPHHTSAPH