AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001552


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001552 MtrunA17_Chr1g0164731 90.413 605 37 1 1 605 1 584 0.0 1118
MsaG001552 MtrunA17_Chr1g0164761 73.150 581 131 4 39 614 2 562 0.0 867
MsaG001552 MtrunA17_Chr5g0410721 55.992 484 212 1 27 510 71 553 0.0 591
MsaG001552 MtrunA17_Chr3g0116441 37.067 375 200 8 30 383 3 362 5.98e-67 238
MsaG001552 MtrunA17_Chr8g0380981 36.856 388 170 10 41 362 39 417 7.60e-57 207
MsaG001552 MtrunA17_Chr1g0189211 30.427 539 282 17 41 500 146 670 1.78e-54 200
MsaG001552 MtrunA17_Chr7g0214951 75.000 120 12 2 218 336 99 201 1.01e-53 182
MsaG001552 MtrunA17_Chr5g0397501 33.666 401 225 14 124 501 302 684 2.02e-50 188
MsaG001552 MtrunA17_Chr1g0199511 44.149 188 101 1 189 376 291 474 6.06e-50 187
MsaG001552 MtrunA17_Chr2g0303101 33.807 352 201 11 171 500 232 573 6.90e-44 168
MsaG001552 MtrunA17_Chr7g0261401 25.000 440 284 12 193 610 338 753 8.48e-29 122
MsaG001552 MtrunA17_Chr7g0214941 49.333 75 32 2 506 575 1 74 1.10e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001552 AT5G46910.1 53.862 492 226 1 19 510 77 567 0.0 575
MsaG001552 AT5G46910.2 53.862 492 226 1 19 510 77 567 0.0 574
MsaG001552 AT2G34880.1 30.769 559 301 18 42 532 58 598 1.66e-59 213
MsaG001552 AT3G48430.1 33.506 385 214 7 29 376 4 383 9.12e-59 214
MsaG001552 AT4G20400.1 26.829 615 352 16 41 567 52 656 1.72e-56 206
MsaG001552 AT1G63490.1 41.697 271 132 6 124 377 46 307 2.85e-56 206
MsaG001552 AT1G63490.2 41.697 271 132 6 124 377 299 560 4.11e-56 206
MsaG001552 AT1G63490.4 41.697 271 132 6 124 377 299 560 4.11e-56 206
MsaG001552 AT1G30810.3 30.741 540 276 17 41 500 55 576 5.18e-56 203
MsaG001552 AT1G30810.2 30.741 540 276 17 41 500 55 576 5.18e-56 203
MsaG001552 AT1G30810.1 30.741 540 276 17 41 500 55 576 5.18e-56 203
MsaG001552 AT4G20400.2 27.197 603 341 16 53 567 7 599 3.10e-53 196
MsaG001552 AT1G08620.2 33.890 419 193 12 42 386 143 551 8.83e-53 196
MsaG001552 AT1G08620.4 33.890 419 193 12 42 386 143 551 8.83e-53 196
MsaG001552 AT1G08620.1 33.890 419 193 12 42 386 143 551 8.83e-53 196
MsaG001552 AT1G08620.3 33.890 419 193 12 42 386 157 565 9.09e-53 196
MsaG001552 AT5G04240.1 46.809 188 96 1 189 376 259 442 1.35e-50 189
MsaG001552 AT2G38950.1 26.394 538 317 18 39 521 102 615 1.01e-33 137
MsaG001552 AT1G63490.3 51.724 87 42 0 291 377 15 101 9.30e-24 107

Find 95 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGCCATTGTACAGTCTTTC+TGG 0.128715 1:+22227050 MsaT001552.1:CDS
TTGATTTGGATGATCTAAAT+TGG 0.212573 1:+22224934 MsaT001552.1:CDS
TGTCTTAATGAAAGAGAAAA+AGG 0.225632 1:+22225248 MsaT001552.1:CDS
GCTCCTGAGGCTTCTAAATA+TGG 0.273176 1:+22225038 MsaT001552.1:CDS
TTGGTGATTGGTTTCCATTT+GGG 0.283394 1:+22226882 MsaT001552.1:CDS
TCCTGCAATATCTTCTGTTT+TGG 0.293249 1:+22227913 MsaT001552.1:CDS
AATCCAGCATGATATGAATT+AGG 0.298533 1:-22226323 None:intergenic
CAAATCGAATGAACTTGATT+TGG 0.304291 1:+22224920 MsaT001552.1:CDS
GCAGGATTAGTGGCACTAAT+TGG 0.313079 1:-22225219 None:intergenic
AGTTCCTCATATGGAATTAT+AGG 0.316333 1:-22226944 None:intergenic
TGTTCTGATGGATGGTATAC+TGG 0.323713 1:-22224978 None:intergenic
GAGAAGGGAACAGTTGAGTA+TGG 0.324983 1:+22225574 MsaT001552.1:CDS
AGATCTTCAAATACATCATT+AGG 0.331595 1:+22227133 MsaT001552.1:CDS
ATAAAGGGTTCGCGGTCTTT+TGG 0.338413 1:-22227852 None:intergenic
ATTGGTGATTGGTTTCCATT+TGG 0.339040 1:+22226881 MsaT001552.1:CDS
TTACAAAGAAGTTCCTCATA+TGG 0.344918 1:-22226953 None:intergenic
TTACCATGGAAAAGGCAAAT+TGG 0.347643 1:-22227229 None:intergenic
GGATGGTATACTGGACATTC+TGG 0.356909 1:-22224969 None:intergenic
TATATCCTTCACATTCCATT+TGG 0.359513 1:-22225310 None:intergenic
TAAACTTTGCTATTGGTGAT+TGG 0.380389 1:+22226870 MsaT001552.1:CDS
AATGAGCAAATTCAATTTGA+AGG 0.382800 1:+22225648 MsaT001552.1:CDS
CTCATTCCAAGTTTATCATC+AGG 0.397301 1:-22225631 None:intergenic
GACGCATTCAATCATGCTAT+AGG 0.420173 1:-22227476 None:intergenic
TTCTGAACTGCAAAATCTGT+TGG 0.420224 1:-22225497 None:intergenic
GAAGAACTGTCAACTCTGTA+AGG 0.420264 1:+22227711 MsaT001552.1:CDS
GACAAAATCAGCAGGATTAG+TGG 0.424845 1:-22225229 None:intergenic
AAACAATTGTACAGCCTCTT+CGG 0.431193 1:+22225283 MsaT001552.1:CDS
TCATGTTGTAACAAGACATT+AGG 0.439737 1:-22226248 None:intergenic
TTTCTTGCTGCAGCCCCAAA+TGG 0.452844 1:-22226896 None:intergenic
GAAGCTGTAAACTTTGCTAT+TGG 0.453482 1:+22226863 MsaT001552.1:CDS
AGCCTCTTCGGCTTTCCAAA+TGG 0.455559 1:+22225295 MsaT001552.1:CDS
TGCTCAAATTCTTGTTCTGA+TGG 0.458499 1:-22224990 None:intergenic
GCTACCTATAATTCCATATG+AGG 0.458631 1:+22226940 MsaT001552.1:CDS
ACTGAAAGCAGAATGATAAT+CGG 0.460027 1:+22227669 MsaT001552.1:intron
CTGATCCTATGCTTTACATT+GGG 0.461409 1:+22225913 MsaT001552.1:CDS
TTCATTAAGACAAAATCAGC+AGG 0.464993 1:-22225237 None:intergenic
ACATGATGTGCCGGTTTACA+AGG 0.470430 1:+22226265 MsaT001552.1:CDS
TACAAGGCGGTGCAAAAGCC+AGG 0.481676 1:+22226281 MsaT001552.1:CDS
TTTCCTAATTCATATCATGC+TGG 0.481919 1:+22226320 MsaT001552.1:CDS
ACTGATCCTATGCTTTACAT+TGG 0.488180 1:+22225912 MsaT001552.1:CDS
CAAATTCTTGTTCTGATGGA+TGG 0.494920 1:-22224986 None:intergenic
GGTGGAAATAAAACTTGGTA+TGG 0.496778 1:+22226095 MsaT001552.1:CDS
ATTTACATATCAAGAATTTG+AGG 0.498743 1:+22225453 MsaT001552.1:CDS
TGACATGCAGCCTCTGCCAT+AGG 0.501176 1:+22227161 MsaT001552.1:CDS
ACCAAAACAGAAGATATTGC+AGG 0.502442 1:-22227914 None:intergenic
AATTGAGAGGCTGCCGAGCT+AGG 0.502653 1:-22226122 None:intergenic
TGGTGATTGGTTTCCATTTG+GGG 0.516058 1:+22226883 MsaT001552.1:CDS
TGCTATTCAGTATGTTTGCA+TGG 0.518171 1:+22225937 MsaT001552.1:CDS
TAGAAGATCACTATTTGTAC+AGG 0.521776 1:+22225964 MsaT001552.1:CDS
CGAAATGATACATGGAGAGA+AGG 0.529280 1:+22225558 MsaT001552.1:CDS
TTACCTTCCTCTCTTAGAGA+AGG 0.529901 1:-22225337 None:intergenic
CTCAAATTATAAAGGGTTCG+CGG 0.531379 1:-22227860 None:intergenic
ACTTAGGTGGAAATAAAACT+TGG 0.531960 1:+22226090 MsaT001552.1:CDS
TTAGCAGAACATGGAGAGAA+TGG 0.532587 1:+22226185 MsaT001552.1:CDS
TGTGATCCTGATGATAAACT+TGG 0.532849 1:+22225625 MsaT001552.1:CDS
TGTTGTAACAAGACATTAGG+AGG 0.534027 1:-22226245 None:intergenic
AGCATAAATTATCATCACTT+AGG 0.537173 1:+22226074 MsaT001552.1:intron
TCTACAGAAAATTGCTCCTG+AGG 0.540615 1:+22225025 MsaT001552.1:CDS
ATACCATATTTAGAAGCCTC+AGG 0.547248 1:-22225041 None:intergenic
TTGGTATGGTGTGCCTAGCT+CGG 0.549146 1:+22226109 MsaT001552.1:CDS
AAGCTACATAACAATCCCTA+TGG 0.550057 1:-22227177 None:intergenic
AAGGTGATGACAAACTCTCC+TGG 0.552268 1:-22226299 None:intergenic
GAGTATGGAGTCAACATTGA+GGG 0.553863 1:+22225589 MsaT001552.1:CDS
ATGGAAAAGGCAAATTGGAT+AGG 0.554570 1:-22227224 None:intergenic
GACATGCAGCCTCTGCCATA+GGG 0.557662 1:+22227162 MsaT001552.1:CDS
TAACCTTCTCTAAGAGAGGA+AGG 0.559927 1:+22225334 MsaT001552.1:CDS
CAAGACATTAGGAGGGAACA+TGG 0.568622 1:-22226237 None:intergenic
TTCTGGCACGAAATGATACA+TGG 0.572727 1:+22225550 MsaT001552.1:CDS
TACTTCTCCATCAGTGATGA+GGG 0.579966 1:+22227829 MsaT001552.1:CDS
GAAATGATACATGGAGAGAA+GGG 0.582021 1:+22225559 MsaT001552.1:CDS
ATTTGAGGCTATCGCAAACA+AGG 0.584174 1:+22225468 MsaT001552.1:CDS
ATAATAACCTTCTCTAAGAG+AGG 0.584975 1:+22225330 MsaT001552.1:CDS
ATAAATTATCATCACTTAGG+TGG 0.586118 1:+22226077 MsaT001552.1:CDS
CATAACAATCCCTATGGCAG+AGG 0.587190 1:-22227171 None:intergenic
CAAAAGCAAACTCGAAGCCA+TGG 0.587402 1:+22227018 MsaT001552.1:CDS
TATCATGCTGGATTTAGTCA+TGG 0.587724 1:+22226332 MsaT001552.1:CDS
AAGAACTGTCAACTCTGTAA+GGG 0.595848 1:+22227712 MsaT001552.1:CDS
AACAAAATCTTAGCAGAACA+TGG 0.596081 1:+22226176 MsaT001552.1:CDS
CTTGTTACAACATGATGTGC+CGG 0.599827 1:+22226256 MsaT001552.1:CDS
ATACTTCTCCATCAGTGATG+AGG 0.601559 1:+22227828 MsaT001552.1:CDS
AATGGCACAATAAGATGCCA+TGG 0.612133 1:-22227035 None:intergenic
TTCCATTTGGAAAGCCGAAG+AGG 0.612215 1:-22225297 None:intergenic
GCTTTCCAAATGGAATGTGA+AGG 0.614974 1:+22225305 MsaT001552.1:CDS
AGCATCCCAATGTAAAGCAT+AGG 0.618659 1:-22225918 None:intergenic
AAAAGAATCAGAAGACGACA+AGG 0.627850 1:+22227789 MsaT001552.1:CDS
TAAACTGAAAACAAGAGTCA+CGG 0.629474 1:+22227745 MsaT001552.1:CDS
CCGTTGCGTTTAGTTGACAG+AGG 0.635990 1:+22225775 MsaT001552.1:CDS
AGCATGATATGAATTAGGAA+AGG 0.636839 1:-22226318 None:intergenic
CTTGAATTTAGAATTTGGCG+CGG 0.653536 1:+22225740 MsaT001552.1:intron
TGAGTATGGAGTCAACATTG+AGG 0.665976 1:+22225588 MsaT001552.1:CDS
CCTCTGTCAACTAAACGCAA+CGG 0.668558 1:-22225775 None:intergenic
ACTAAACGCAACGGAGACTG+CGG 0.678157 1:-22225766 None:intergenic
GTTGTAACAAGACATTAGGA+GGG 0.697642 1:-22226244 None:intergenic
TGATGTGCCGGTTTACAAGG+CGG 0.701604 1:+22226268 MsaT001552.1:CDS
ATGCCAGAAAGACTGTACAA+TGG 0.727660 1:-22227053 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 22224843 22227958 22224843 ID=MsaG001552
Chr1 mRNA 22224843 22227958 22224843 ID=MsaT001552.1;Parent=MsaG001552
Chr1 exon 22224843 22225059 22224843 ID=MsaT001552.1.exon1;Parent=MsaT001552.1
Chr1 CDS 22224843 22225059 22224843 ID=cds.MsaT001552.1;Parent=MsaT001552.1
Chr1 exon 22225199 22225355 22225199 ID=MsaT001552.1.exon2;Parent=MsaT001552.1
Chr1 CDS 22225199 22225355 22225199 ID=cds.MsaT001552.1;Parent=MsaT001552.1
Chr1 exon 22225450 22225669 22225450 ID=MsaT001552.1.exon3;Parent=MsaT001552.1
Chr1 CDS 22225450 22225669 22225450 ID=cds.MsaT001552.1;Parent=MsaT001552.1
Chr1 exon 22225751 22225804 22225751 ID=MsaT001552.1.exon4;Parent=MsaT001552.1
Chr1 CDS 22225751 22225804 22225751 ID=cds.MsaT001552.1;Parent=MsaT001552.1
Chr1 exon 22225906 22225985 22225906 ID=MsaT001552.1.exon5;Parent=MsaT001552.1
Chr1 CDS 22225906 22225985 22225906 ID=cds.MsaT001552.1;Parent=MsaT001552.1
Chr1 exon 22226076 22226353 22226076 ID=MsaT001552.1.exon6;Parent=MsaT001552.1
Chr1 CDS 22226076 22226353 22226076 ID=cds.MsaT001552.1;Parent=MsaT001552.1
Chr1 exon 22226849 22227247 22226849 ID=MsaT001552.1.exon7;Parent=MsaT001552.1
Chr1 CDS 22226849 22227247 22226849 ID=cds.MsaT001552.1;Parent=MsaT001552.1
Chr1 exon 22227335 22227495 22227335 ID=MsaT001552.1.exon8;Parent=MsaT001552.1
Chr1 CDS 22227335 22227495 22227335 ID=cds.MsaT001552.1;Parent=MsaT001552.1
Chr1 exon 22227680 22227958 22227680 ID=MsaT001552.1.exon9;Parent=MsaT001552.1
Chr1 CDS 22227680 22227958 22227680 ID=cds.MsaT001552.1;Parent=MsaT001552.1
Gene Sequence

>MsaT001552.1

ATGGGTGCAACAAATGTTGTCAAATGTAAAAGAAGTAAAATTAGAAGAAAAATGGTTGAAAAAAGTTCAATTACTCACAAATCGAATGAACTTGATTTGGATGATCTAAATTGGACAAACATGATTCCAGAATGTCCAGTATACCATCCATCAGAACAAGAATTTGAGCATCCTTTGATTTATCTACAGAAAATTGCTCCTGAGGCTTCTAAATATGGTATATGCAAAATTGTTTCTCCAATTAGTGCCACTAATCCTGCTGATTTTGTCTTAATGAAAGAGAAAAAGGACTTCAAGTTTGAAACAATTGTACAGCCTCTTCGGCTTTCCAAATGGAATGTGAAGGATATAATAACCTTCTCTAAGAGAGGAAGAAAATTTACATATCAAGAATTTGAGGCTATCGCAAACAAGGCATTTTCCAACAGATTTTGCAGTTCAGAAGATCTTTCTTCTTTAGATATCGAAAAAGCGTTCTGGCACGAAATGATACATGGAGAGAAGGGAACAGTTGAGTATGGAGTCAACATTGAGGGTAGTGTCTTTTCATGTGATCCTGATGATAAACTTGGAATGAGCAAATTCAATTTGAAGAATTTGGCGCGGCTGCCGCAGTCTCCGTTGCGTTTAGTTGACAGAGGAATTCCTGGAATAACTGATCCTATGCTTTACATTGGGATGCTATTCAGTATGTTTGCATGGCATGTAGAAGATCACTATTTGTACAGCATAAATTATCATCACTTAGGTGGAAATAAAACTTGGTATGGTGTGCCTAGCTCGGCAGCCTCTCAATTTGAAAAGACTGTCTTGAATCATGTGTATTGCAACAAAATCTTAGCAGAACATGGAGAGAATGGTTCGTTCCAATTTCTTGCACAAAAAACAACCATGTTCCCTCCTAATGTCTTGTTACAACATGATGTGCCGGTTTACAAGGCGGTGCAAAAGCCAGGAGAGTTTGTCATCACCTTTCCTAATTCATATCATGCTGGATTTAGTCATGGTTTTAACTGTGGAGAAGCTGTAAACTTTGCTATTGGTGATTGGTTTCCATTTGGGGCTGCAGCAAGAAAACGTTATGCACATCTTAAAATGCTACCTATAATTCCATATGAGGAACTTCTTTGTAAAGAAGCAATGCTTATCTACAAGTCCTCAAAAGTCAGAAGTTACAAAAGCAAACTCGAAGCCATGGCATCTTATTGTGCCATTGTACAGTCTTTCTGGCATCTTATGCAATTTTATAAGACATCACTATCTCGATTGAGCAATTCAAGAAAGTCATCAAGATCTTCAAATACATCATTAGGTTCTGTGACATGCAGCCTCTGCCATAGGGATTGTTATGTAGCTTACTTGTTGTGCAAGAAATGCTATTCCTATCCAATTTGCCTTTTCCATGACATTGTGCCAAAAACTTGCTTATGTGGGGGAAAATATACCGTTTTTAAGAAGAATGACATGTCAGAACTCGAAGATGCTGCCAAAAGTTTTGAACAGGTAAAAGAATTGATTGACATGTTATCTTTAACATGTATATTCTCCTATAGCATGATTGAATGCAATGATAATCGGCATGAAGAAAAAAGTTCTAGAAGAACTGTCAACTCTGTAAGGGCAGTATCTTCTAAACTGAAAACAAGAGTCACGGACAACGTCAAGCGAAGTGTTGAAAAGAATCAGAAGACGACAAGGAATCATCGTAAAAACAATACTTCTCCATCAGTGATGAGGGCCAAAAGACCGCGAACCCTTTATAATTTGAGAAAACATGAATCAAAATTGATCATAGAAGCTCCTGCAATATCTTCTGTTTTGGTGAGATCTGAAAAATCAAAATAA

Protein sequence

>MsaT001552.1

MGATNVVKCKRSKIRRKMVEKSSITHKSNELDLDDLNWTNMIPECPVYHPSEQEFEHPLIYLQKIAPEASKYGICKIVSPISATNPADFVLMKEKKDFKFETIVQPLRLSKWNVKDIITFSKRGRKFTYQEFEAIANKAFSNRFCSSEDLSSLDIEKAFWHEMIHGEKGTVEYGVNIEGSVFSCDPDDKLGMSKFNLKNLARLPQSPLRLVDRGIPGITDPMLYIGMLFSMFAWHVEDHYLYSINYHHLGGNKTWYGVPSSAASQFEKTVLNHVYCNKILAEHGENGSFQFLAQKTTMFPPNVLLQHDVPVYKAVQKPGEFVITFPNSYHAGFSHGFNCGEAVNFAIGDWFPFGAAARKRYAHLKMLPIIPYEELLCKEAMLIYKSSKVRSYKSKLEAMASYCAIVQSFWHLMQFYKTSLSRLSNSRKSSRSSNTSLGSVTCSLCHRDCYVAYLLCKKCYSYPICLFHDIVPKTCLCGGKYTVFKKNDMSELEDAAKSFEQVKELIDMLSLTCIFSYSMIECNDNRHEEKSSRRTVNSVRAVSSKLKTRVTDNVKRSVEKNQKTTRNHRKNNTSPSVMRAKRPRTLYNLRKHESKLIIEAPAISSVLVRSEKSK*