AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene062215

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene062215.t1 MTR_1g077020 94.241 191 7 1 8 194 1 191 4.49e-132 368
MS.gene062215.t1 MTR_4g134580 41.772 237 78 5 15 191 112 348 3.50e-56 181
MS.gene062215.t1 MTR_5g032600 45.685 197 85 4 14 189 76 271 2.38e-52 169
MS.gene062215.t1 MTR_3g100650 44.444 198 88 3 13 189 77 273 1.01e-51 167
MS.gene062215.t1 MTR_5g065440 39.906 213 90 4 14 189 56 267 4.50e-47 155
MS.gene062215.t1 MTR_5g020510 40.887 203 89 5 16 191 99 297 7.43e-46 153
MS.gene062215.t1 MTR_7g010300 40.686 204 88 6 13 189 85 282 3.14e-44 150
MS.gene062215.t1 MTR_8g069080 37.681 207 92 5 15 190 68 268 3.09e-40 137
MS.gene062215.t1 MTR_2g076780 37.799 209 86 6 16 189 37 236 4.21e-40 136
MS.gene062215.t1 MTR_6g012280 37.838 222 62 6 16 189 91 284 8.93e-40 138
MS.gene062215.t1 MTR_6g073013 37.572 173 74 6 16 185 19 160 4.08e-33 117
MS.gene062215.t1 MTR_8g467340 61.905 63 24 0 127 189 271 333 4.89e-21 89.4
MS.gene062215.t1 MTR_8g467340 64.407 59 17 2 12 67 60 117 2.12e-19 85.1
MS.gene062215.t1 MTR_3g039810 58.929 56 23 0 14 69 18 73 2.01e-19 79.0
MS.gene062215.t1 MTR_6g012220 60.000 55 18 1 10 64 15 65 5.56e-17 72.4
MS.gene062215.t1 MTR_8g069380 50.794 63 31 0 127 189 52 114 6.85e-16 70.9
MS.gene062215.t1 MTR_8g051480 38.384 99 41 2 91 189 50 128 9.78e-15 68.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene062215.t1 AT1G14440 50.505 198 81 4 10 190 84 281 1.20e-61 194
MS.gene062215.t1 AT1G14440 50.505 198 81 4 10 190 84 281 1.20e-61 194
MS.gene062215.t1 AT2G02540 48.571 210 84 5 9 194 80 289 6.28e-61 192
MS.gene062215.t1 AT2G02540 48.571 210 84 5 9 194 80 289 6.28e-61 192
MS.gene062215.t1 AT4G24660 48.876 178 84 4 14 189 47 219 6.96e-54 171
MS.gene062215.t1 AT4G24660 49.143 175 82 4 14 186 47 216 5.37e-53 169
MS.gene062215.t1 AT5G65410 42.935 184 90 2 15 188 74 252 7.46e-48 157
MS.gene062215.t1 AT2G18350 45.161 186 91 3 14 191 80 262 8.74e-48 157
MS.gene062215.t1 AT1G69600 41.414 198 92 5 8 186 23 215 1.98e-45 150
MS.gene062215.t1 AT5G60480 45.198 177 90 5 10 183 31 203 1.88e-44 147
MS.gene062215.t1 AT5G15210 43.523 193 85 7 9 183 49 235 2.97e-41 140
MS.gene062215.t1 AT3G50890 42.408 191 100 3 14 194 58 248 1.19e-40 138
MS.gene062215.t1 AT3G28920 40.476 210 80 5 14 186 50 251 2.86e-39 136
MS.gene062215.t1 AT5G42780 38.624 189 104 6 3 184 53 236 4.12e-27 103
MS.gene062215.t1 AT1G75240 68.966 58 18 0 11 68 71 128 2.44e-25 100
MS.gene062215.t1 AT1G75240 52.778 72 34 0 123 194 236 307 3.94e-19 83.6
MS.gene062215.t1 AT1G74660 61.404 57 22 0 14 70 37 93 1.44e-21 85.1
MS.gene062215.t1 AT1G74660 61.404 57 22 0 14 70 37 93 2.00e-21 84.7
MS.gene062215.t1 AT3G28917 62.069 58 21 1 14 70 31 88 2.95e-20 81.6
MS.gene062215.t1 AT5G39760 56.061 66 29 0 127 192 200 265 4.66e-20 86.3
MS.gene062215.t1 AT5G39760 56.667 60 24 1 12 69 52 111 6.84e-16 74.7
MS.gene062215.t1 AT1G18835 61.404 57 19 1 14 70 24 77 4.62e-19 78.2
MS.gene062215.t1 AT1G14687 30.726 179 98 7 16 186 7 167 1.28e-18 79.3

Find 23 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAACATTAATGCACCTTTCT+TGG 0.224192 1.1:-57718073 MS.gene062215:CDS
CTTCTTAACTATCATCATTT+CGG 0.322468 1.1:+57717957 None:intergenic
TTATGAGAAAGATTGTATTA+AGG 0.325403 1.1:-57717995 MS.gene062215:CDS
GATGTTGTGCTTTGCAGAAA+AGG 0.377384 1.1:-57717896 MS.gene062215:CDS
GCTTGTAGAAAGATTTCTCT+TGG 0.457726 1.1:+57717759 None:intergenic
AAGAACCATGCAGCTACAAT+TGG 0.462343 1.1:-57718258 MS.gene062215:CDS
TATTATGCATCCACACTTTG+AGG 0.473414 1.1:+57717797 None:intergenic
ATTGGTGGCAATGCTATTGA+TGG 0.477828 1.1:-57718240 MS.gene062215:CDS
TTATCTCCTATCAACAAAAG+TGG 0.483500 1.1:-57718045 MS.gene062215:CDS
GGTGCATTAATGTTATGATC+AGG 0.492826 1.1:+57718081 None:intergenic
TAAGTTCAGTAAAGAACAGA+AGG 0.524622 1.1:-57717923 MS.gene062215:CDS
AACCATGCAGCTACAATTGG+TGG 0.533193 1.1:-57718255 MS.gene062215:CDS
GGAGATAAATGAGCCAAGAA+AGG 0.551764 1.1:+57718060 None:intergenic
TGCCACCAATTGTAGCTGCA+TGG 0.577086 1.1:+57718253 None:intergenic
GGCAATGCTATTGATGGATG+TGG 0.581028 1.1:-57718234 MS.gene062215:CDS
TCATAATAAGACTGATCAGA+AGG 0.587605 1.1:+57718012 None:intergenic
AAATGATGATAGTTAAGAAG+AGG 0.597202 1.1:-57717954 MS.gene062215:CDS
AGAGAAGAATCCTCAAAGTG+TGG 0.619701 1.1:-57717807 MS.gene062215:CDS
TTGCAGAAAAGGCAGAGTGG+AGG 0.636718 1.1:-57717885 MS.gene062215:CDS
GTGGAGGATTCAGAAGCTAG+AGG 0.637697 1.1:-57717869 MS.gene062215:CDS
TCAGAAGCTAGAGGAATCTG+TGG 0.646518 1.1:-57717860 MS.gene062215:CDS
TGTGGTGAGTTCATGCCAAG+TGG 0.691258 1.1:-57718216 MS.gene062215:CDS
GCTTTGCAGAAAAGGCAGAG+TGG 0.697318 1.1:-57717888 MS.gene062215:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATGAGAAAGATTGTATTA+AGG - chr1.1:57718079-57718098 MS.gene062215:CDS 20.0%
! AAATGATGATAGTTAAGAAG+AGG - chr1.1:57718120-57718139 MS.gene062215:CDS 25.0%
! CTTCTTAACTATCATCATTT+CGG + chr1.1:57718120-57718139 None:intergenic 25.0%
TAACATTAATGCACCTTTCT+TGG - chr1.1:57718001-57718020 MS.gene062215:CDS 30.0%
TAAGTTCAGTAAAGAACAGA+AGG - chr1.1:57718151-57718170 MS.gene062215:CDS 30.0%
TCATAATAAGACTGATCAGA+AGG + chr1.1:57718065-57718084 None:intergenic 30.0%
TTATCTCCTATCAACAAAAG+TGG - chr1.1:57718029-57718048 MS.gene062215:CDS 30.0%
GCTTGTAGAAAGATTTCTCT+TGG + chr1.1:57718318-57718337 None:intergenic 35.0%
GGTGCATTAATGTTATGATC+AGG + chr1.1:57717996-57718015 None:intergenic 35.0%
TATTATGCATCCACACTTTG+AGG + chr1.1:57718280-57718299 None:intergenic 35.0%
! CTTTTCTGTGGAAGTTTCTA+TGG + chr1.1:57717929-57717948 None:intergenic 35.0%
!! CAGAAGTTTTGTCAAGAGAT+TGG - chr1.1:57718239-57718258 MS.gene062215:CDS 35.0%
!! CAGACTCTATTTCTTTTCTG+TGG + chr1.1:57717941-57717960 None:intergenic 35.0%
!! GTTGATCCACTTTTGTTGAT+AGG + chr1.1:57718038-57718057 None:intergenic 35.0%
AAGAACCATGCAGCTACAAT+TGG - chr1.1:57717816-57717835 MS.gene062215:CDS 40.0%
AGAGAAGAATCCTCAAAGTG+TGG - chr1.1:57718267-57718286 MS.gene062215:CDS 40.0%
GATGTTGTGCTTTGCAGAAA+AGG - chr1.1:57718178-57718197 MS.gene062215:CDS 40.0%
GGAGATAAATGAGCCAAGAA+AGG + chr1.1:57718017-57718036 None:intergenic 40.0%
! ATTGGTGGCAATGCTATTGA+TGG - chr1.1:57717834-57717853 MS.gene062215:CDS 40.0%
!!! AGTGTGTCATTTTCTCCACT+TGG + chr1.1:57717876-57717895 None:intergenic 40.0%
AACCATGCAGCTACAATTGG+TGG - chr1.1:57717819-57717838 MS.gene062215:CDS 45.0%
TCAGAAGCTAGAGGAATCTG+TGG - chr1.1:57718214-57718233 MS.gene062215:CDS 45.0%
! GGCAATGCTATTGATGGATG+TGG - chr1.1:57717840-57717859 MS.gene062215:CDS 45.0%
GCTTTGCAGAAAAGGCAGAG+TGG - chr1.1:57718186-57718205 MS.gene062215:CDS 50.0%
GTGGAGGATTCAGAAGCTAG+AGG - chr1.1:57718205-57718224 MS.gene062215:CDS 50.0%
TGCCACCAATTGTAGCTGCA+TGG + chr1.1:57717824-57717843 None:intergenic 50.0%
TGTGGTGAGTTCATGCCAAG+TGG - chr1.1:57717858-57717877 MS.gene062215:CDS 50.0%
TTGCAGAAAAGGCAGAGTGG+AGG - chr1.1:57718189-57718208 MS.gene062215:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 57717756 57718340 57717756 ID=MS.gene062215
chr1.1 mRNA 57717756 57718340 57717756 ID=MS.gene062215.t1;Parent=MS.gene062215
chr1.1 exon 57717756 57718340 57717756 ID=MS.gene062215.t1.exon1;Parent=MS.gene062215.t1
chr1.1 CDS 57717756 57718340 57717756 ID=cds.MS.gene062215.t1;Parent=MS.gene062215.t1
Gene Sequence

>MS.gene062215

ATGGAGTCTAGCATTTTTCATGTTGAGAAAAAGATAGTAGTAAAATATAAAGAGTGTCTCAAGAACCATGCAGCTACAATTGGTGGCAATGCTATTGATGGATGTGGTGAGTTCATGCCAAGTGGAGAAAATGACACACTTGAAGCTCTCAAGTGTTGTGCTTGCAATTGCCATAGAAACTTCCACAGAAAAGAAATAGAGTCTGATTTTCAACATTATGCTAATCTTTCACTGATTCCTGATCATAACATTAATGCACCTTTCTTGGCTCATTTATCTCCTATCAACAAAAGTGGATCAACTAGTCCTTCTGATCAGTCTTATTATGAGAAAGATTGTATTAAGGATGTCGAAAATCGAACCGAAATGATGATAGTTAAGAAGAGGTCTAGAACTAAGTTCAGTAAAGAACAGAAGGAGAAGATGTTGTGCTTTGCAGAAAAGGCAGAGTGGAGGATTCAGAAGCTAGAGGAATCTGTGGTGCAGAAGTTTTGTCAAGAGATTGGAATCAAGAGAAGAATCCTCAAAGTGTGGATGCATAATAACAAGAACACTTTTGCCAAGAGAAATCTTTCTACAAGCTAG
Protein sequence

>MS.gene062215.t1

MESSIFHVEKKIVVKYKECLKNHAATIGGNAIDGCGEFMPSGENDTLEALKCCACNCHRNFHRKEIESDFQHYANLSLIPDHNINAPFLAHLSPINKSGSTSPSDQSYYEKDCIKDVENRTEMMIVKKRSRTKFSKEQKEKMLCFAEKAEWRIQKLEESVVQKFCQEIGIKRRILKVWMHNNKNTFAKRNLSTS