AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028516


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028516 MtrunA17_Chr5g0432531 97.512 201 4 1 150 350 56 255 1.62e-138 393
MsaG028516 MtrunA17_Chr5g0432531 98.246 57 1 0 11 67 1 57 5.81e-24 99.0
MsaG028516 MtrunA17_Chr7g0244571 39.276 387 153 15 1 346 1 346 3.53e-66 212
MsaG028516 MtrunA17_Chr4g0013081 45.087 173 73 4 181 347 224 380 7.97e-34 128
MsaG028516 MtrunA17_Chr8g0379681 42.143 140 63 4 225 347 186 324 3.36e-24 101
MsaG028516 MtrunA17_Chr2g0284471 52.941 68 32 0 280 347 246 313 8.56e-22 94.4
MsaG028516 MtrunA17_Chr1g0177881 51.613 62 30 0 281 342 102 163 2.61e-16 76.3
MsaG028516 MtrunA17_Chr8g0390531 56.452 62 27 0 281 342 258 319 6.21e-16 77.8
MsaG028516 MtrunA17_Chr4g0025901 57.377 61 26 0 284 344 102 162 5.62e-15 72.4
MsaG028516 MtrunA17_Chr7g0267111 48.485 66 34 0 284 349 113 178 1.02e-14 72.0
MsaG028516 MtrunA17_Chr3g0141471 43.000 100 57 0 246 345 163 262 1.69e-13 70.1
MsaG028516 MtrunA17_Chr4g0075391 35.165 91 56 1 258 345 55 145 4.77e-13 66.2
MsaG028516 MtrunA17_Chr5g0435131 39.189 74 45 0 272 345 82 155 1.47e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028516 AT5G58360.1 36.571 350 155 12 1 347 5 290 3.06e-46 159
MsaG028516 AT1G06920.1 34.844 353 176 13 1 345 1 307 1.83e-44 155
MsaG028516 AT2G30400.1 35.933 359 181 14 1 349 1 320 2.37e-40 144
MsaG028516 AT5G01840.1 48.214 112 50 2 235 345 158 262 1.55e-24 101
MsaG028516 AT2G18500.1 53.623 69 32 0 277 345 222 290 1.69e-17 82.4
MsaG028516 AT4G18830.1 47.126 87 42 2 262 344 259 345 2.15e-17 82.8
MsaG028516 AT5G19650.1 52.308 65 31 0 281 345 154 218 1.59e-15 75.1
MsaG028516 AT3G52525.1 52.459 61 29 0 284 344 69 129 1.09e-14 71.2
MsaG028516 AT2G36026.1 50.000 56 28 0 287 342 92 147 1.99e-13 68.6
MsaG028516 AT4G04025.1 47.619 63 33 0 279 341 111 173 2.00e-11 62.4

Find 40 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCACTTGCTTTGTCAATAT+TGG 0.161919 5:+63437706 None:intergenic
GATTCCTTGAAATCACTTAT+TGG 0.184540 5:+63437403 None:intergenic
CTTCTTGGTGAATCATTAAA+TGG 0.215429 5:+63438033 None:intergenic
AGCTTTATACCTTGAGAATT+AGG 0.222952 5:+63437544 None:intergenic
AAATGGAAAATTCAAATCTT+TGG 0.240418 5:+63438050 None:intergenic
ATTTCTCAAATGAACCAAAA+AGG 0.289597 5:-63438104 MsaT028516.1:CDS
TTCAAATCTTTGGTTTGAAT+TGG 0.305617 5:+63438060 None:intergenic
TATAAGGGAATCAAAGGATT+TGG 0.325148 5:-63437353 MsaT028516.1:CDS
TGATTGTGGAGAATAATATA+AGG 0.350640 5:-63437369 MsaT028516.1:CDS
AATGATGCAGGGTTTGTAGA+TGG 0.356794 5:-63437454 MsaT028516.1:CDS
TGGTTGAGAAGGCTTGTAAA+TGG 0.361373 5:+63437981 None:intergenic
AAGATCTTTACATTCTAAGT+TGG 0.393025 5:+63437239 None:intergenic
AGCTTGTAAAACCAAGCATT+TGG 0.394500 5:+63438240 None:intergenic
AGTTGAACTACTTCGCGATT+CGG 0.396798 5:+63437657 None:intergenic
CAACTGCAGTTAAGCAAATC+AGG 0.411925 5:+63437841 None:intergenic
TGATCCAATAAGTGATTTCA+AGG 0.412491 5:-63437407 MsaT028516.1:CDS
AGATCTTTACATTCTAAGTT+GGG 0.428724 5:+63437240 None:intergenic
AGTATTTCAAAGAATGATGC+AGG 0.439556 5:-63437466 MsaT028516.1:CDS
TCTCCTTCTTTGAGTAACTT+TGG 0.446790 5:+63437597 None:intergenic
TGTGATTGAACTTGATCAAA+TGG 0.456333 5:+63437961 None:intergenic
CAGATATGATACCAAATGCT+TGG 0.463165 5:-63438251 MsaT028516.1:CDS
TATCTCTTATGGGAAACAAC+AGG 0.478460 5:-63438284 None:intergenic
CTACCAAAGTTACTCAAAGA+AGG 0.488250 5:-63437600 MsaT028516.1:CDS
AAATCATCAAGGAAGAGAAA+TGG 0.497520 5:-63438204 MsaT028516.1:CDS
AAGGGAATCAAAGGATTTGG+AGG 0.497577 5:-63437350 MsaT028516.1:CDS
TGAGACCTTTGAGATGTTGT+TGG 0.501197 5:+63438144 None:intergenic
GATTGTGGAGAATAATATAA+GGG 0.505867 5:-63437368 MsaT028516.1:CDS
AAGTGATTTCAAGGAATCAA+TGG 0.509939 5:-63437398 MsaT028516.1:CDS
ACTTGATCAAATGGTTGAGA+AGG 0.519734 5:+63437970 None:intergenic
CATTTAATGATTCACCAAGA+AGG 0.535424 5:-63438032 MsaT028516.1:CDS
ATCAATGGTGGAAATGATTG+TGG 0.536665 5:-63437383 MsaT028516.1:CDS
GAATAATATAAGGGAATCAA+AGG 0.538128 5:-63437359 MsaT028516.1:CDS
AAAACTTCTCCTAATTCTCA+AGG 0.546162 5:-63437553 MsaT028516.1:CDS
AAGATATGAGCAAATCATCA+AGG 0.573800 5:-63438215 MsaT028516.1:CDS
ACTTCGCGATTCGGTCACCT+TGG 0.587482 5:+63437666 None:intergenic
TGAGCAAATTTGGTATGACA+TGG 0.588029 5:-63437263 MsaT028516.1:CDS
CTTCACCAACAACATCTCAA+AGG 0.609838 5:-63438149 MsaT028516.1:CDS
ATTTGAAGAAAAGATTGCCA+AGG 0.612353 5:-63437683 MsaT028516.1:CDS
GTATTTCAAAGAATGATGCA+GGG 0.644805 5:-63437465 MsaT028516.1:CDS
TGATTTCAAGGAATCAATGG+TGG 0.649131 5:-63437395 MsaT028516.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 63437246 63438298 63437246 ID=MsaG028516
Chr5 mRNA 63437246 63438298 63437246 ID=MsaT028516.1;Parent=MsaG028516
Chr5 exon 63437246 63438298 63437246 ID=MsaT028516.1.exon1;Parent=MsaT028516.1
Chr5 CDS 63437246 63438298 63437246 ID=cds.MsaT028516.1;Parent=MsaT028516.1
Gene Sequence

>MsaT028516.1

ATGGGAAACAACAGGTTCAAATTTTCAGATATGATACCAAATGCTTGGTTTTACAAGCTAAAAGATATGAGCAAATCATCAAGGAAGAGAAATGGTTCTCATCATGTTATGAAGAACAAAGTTACATCTTCACCAACAACATCTCAAAGGTCTCATTCAAGCTATTCACATTATTTCTCAAATGAACCAAAAAGGAATGGTAAGCTATTCAACACACCAATTCAAACCAAAGATTTGAATTTTCCATTTAATGATTCACCAAGAAGGTCTTCAAAAAGAAGGGCTAAAAGAAAAACCATTTACAAGCCTTCTCAACCATTTGATCAAGTTCAATCACAAGAACATGATTTGTCTTCAATTGAAAATTCTTCTTCTGAGTCTTATCATAATCAATGTGTTTCTTCTGAATCTGAATTTTGTGATAGCTTTTCTGTTCCTGATTTGCTTAACTGCAGTTGTAGAGTTAGTTCTTCTACTAATGATATCATAATAGATATGAACAATGAATCTTTTCAAGGCAATTCTAAAAACTTAGATGGTTTTGATGCATTTTCACAACTTGGTTTAGCTCCAATATTGACAAAGCAAGTGAAATTTGAAGAAAAGATTGCCAAGGTGACCGAATCGCGAAGTAGTTCAACTGAATCAGACGAGCGAAAAATCGATCATTCATTCTCTACCAAAGTTACTCAAAGAAGGAGAAGAAAAAGTCAAATAGCCAGAAAAACTTCTCCTAATTCTCAAGGTATAAAGCTTAGAGTGAATTCTCCAAAACTTGTTAGCAAAAAAATTCAAGCTAGTGCAAGAAAGAGTATTTCAAAGAATGATGCAGGGTTTGTAGATGGATTTGCTGTTGTTAAGTCTTCAATTGATCCAATAAGTGATTTCAAGGAATCAATGGTGGAAATGATTGTGGAGAATAATATAAGGGAATCAAAGGATTTGGAGGATTTACTTGCTTGCTATCTTTCTCTTAATTCAAGTGAATATCATGATGTTATAGTTAAAGCTTTTGAGCAAATTTGGTATGACATGGCCCAACTTAGAATGTAA

Protein sequence

>MsaT028516.1

MGNNRFKFSDMIPNAWFYKLKDMSKSSRKRNGSHHVMKNKVTSSPTTSQRSHSSYSHYFSNEPKRNGKLFNTPIQTKDLNFPFNDSPRRSSKRRAKRKTIYKPSQPFDQVQSQEHDLSSIENSSSESYHNQCVSSESEFCDSFSVPDLLNCSCRVSSSTNDIIIDMNNESFQGNSKNLDGFDAFSQLGLAPILTKQVKFEEKIAKVTESRSSSTESDERKIDHSFSTKVTQRRRRKSQIARKTSPNSQGIKLRVNSPKLVSKKIQASARKSISKNDAGFVDGFAVVKSSIDPISDFKESMVEMIVENNIRESKDLEDLLACYLSLNSSEYHDVIVKAFEQIWYDMAQLRM*