AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040302

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040302 MtrunA17_Chr7g0268691 95.968 372 15 0 1 372 1 372 0.0 741
MsaG040302 MtrunA17_Chr1g0150471 28.490 351 190 13 20 369 6 296 1.55e-30 118
MsaG040302 MtrunA17_Chr3g0120711 50.000 100 50 0 20 119 5 104 1.33e-29 118
MsaG040302 MtrunA17_Chr3g0120711 55.000 60 24 1 310 369 339 395 5.13e-12 66.6
MsaG040302 MtrunA17_Chr7g0251781 45.255 137 57 4 19 148 4 129 6.13e-29 115
MsaG040302 MtrunA17_Chr7g0251781 46.914 81 42 1 290 369 302 382 7.23e-14 72.4
MsaG040302 MtrunA17_Chr5g0429341 48.515 101 51 1 20 119 5 105 9.14e-29 115
MsaG040302 MtrunA17_Chr2g0322941 45.000 100 54 1 20 119 44 142 1.03e-21 92.8
MsaG040302 MtrunA17_Chr1g0209071 37.736 106 64 1 18 123 3 106 2.27e-20 90.9
MsaG040302 MtrunA17_Chr7g0220721 36.283 113 64 3 18 126 24 132 1.28e-18 86.7
MsaG040302 MtrunA17_Chr3g0136701 40.449 89 52 1 20 107 6 94 1.19e-17 82.4
MsaG040302 MtrunA17_Chr4g0072871 40.449 89 52 1 20 107 22 110 1.26e-17 83.6
MsaG040302 MtrunA17_Chr4g0072871 41.176 68 40 0 302 369 272 339 2.46e-11 64.7
MsaG040302 MtrunA17_Chr4g0033641 43.478 92 42 2 20 101 5 96 9.40e-16 76.3
MsaG040302 MtrunA17_Chr1g0155811 35.354 99 53 2 20 107 5 103 1.39e-13 70.5
MsaG040302 MtrunA17_Chr5g0405151 38.750 80 41 1 20 91 5 84 2.30e-13 68.2
MsaG040302 MtrunA17_Chr2g0329511 39.796 98 49 2 20 107 5 102 3.41e-13 68.6
MsaG040302 MtrunA17_Chr2g0322951 63.636 44 16 0 326 369 90 133 5.43e-12 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040302 AT2G47890.1 46.281 363 147 9 14 369 7 328 1.50e-95 288
MsaG040302 AT2G47890.3 42.433 337 146 9 14 343 7 302 1.90e-76 238
MsaG040302 AT2G47890.2 48.718 234 95 4 14 246 7 216 6.71e-72 224
MsaG040302 AT1G28050.1 35.897 195 103 6 19 209 8 184 5.26e-34 130
MsaG040302 AT1G28050.1 50.725 69 33 1 302 369 358 426 4.87e-13 70.5
MsaG040302 AT2G33500.2 51.351 111 53 1 19 128 11 121 1.80e-33 129
MsaG040302 AT2G33500.2 41.525 118 60 3 258 369 283 397 2.20e-15 77.4
MsaG040302 AT2G33500.1 51.351 111 53 1 19 128 11 121 1.87e-33 129
MsaG040302 AT2G33500.1 39.831 118 63 2 258 369 283 398 3.80e-15 76.6
MsaG040302 AT5G48250.1 46.226 106 54 1 20 122 5 110 9.47e-29 115
MsaG040302 AT3G07650.3 42.623 122 59 3 20 130 5 126 1.66e-26 109
MsaG040302 AT3G07650.2 42.623 122 59 3 20 130 5 126 1.66e-26 109
MsaG040302 AT3G07650.4 42.623 122 59 3 20 130 5 126 1.66e-26 109
MsaG040302 AT3G07650.1 42.623 122 59 3 20 130 5 126 1.66e-26 109
MsaG040302 AT3G21880.3 47.423 97 50 1 20 116 9 104 7.73e-22 95.9
MsaG040302 AT3G21880.2 47.423 97 50 1 20 116 9 104 7.73e-22 95.9
MsaG040302 AT3G21880.1 47.423 97 50 1 20 116 5 100 8.39e-22 95.9
MsaG040302 AT1G68190.1 38.679 106 64 1 18 123 12 116 2.12e-20 91.7
MsaG040302 AT1G68190.3 38.679 106 64 1 18 123 12 116 2.12e-20 91.7
MsaG040302 AT4G15250.1 42.000 100 57 1 20 119 5 103 2.20e-20 91.3
MsaG040302 AT1G68190.2 38.679 106 64 1 18 123 41 145 2.64e-20 91.7
MsaG040302 AT5G15840.1 43.011 93 52 1 18 109 18 110 8.86e-20 90.1
MsaG040302 AT5G15840.2 43.011 93 52 1 18 109 18 110 1.70e-19 87.8
MsaG040302 AT5G24930.1 40.449 89 52 1 20 107 6 94 3.95e-18 85.1
MsaG040302 AT5G24930.1 52.632 57 23 1 313 369 284 336 8.80e-11 63.2
MsaG040302 AT5G15850.1 42.045 88 50 1 18 104 10 97 4.40e-18 85.1
MsaG040302 AT5G15850.1 35.075 134 66 5 252 369 199 327 2.87e-11 64.7
MsaG040302 AT3G02380.1 40.000 95 56 1 11 104 7 101 5.43e-18 84.7
MsaG040302 AT3G02380.1 60.417 48 19 0 322 369 272 319 2.41e-11 64.7
MsaG040302 AT2G24790.1 39.560 91 54 1 18 107 6 96 6.08e-18 83.6
MsaG040302 AT2G24790.2 39.560 91 54 1 18 107 6 96 7.57e-18 82.0
MsaG040302 AT5G57660.1 39.560 91 50 2 18 107 20 106 1.55e-17 83.6
MsaG040302 AT4G38960.1 40.000 80 40 1 20 91 5 84 6.63e-13 67.0
MsaG040302 AT4G38960.6 40.000 80 40 1 20 91 5 84 6.63e-13 67.0
MsaG040302 AT2G21320.1 38.750 80 41 1 20 91 5 84 2.87e-12 65.1
MsaG040302 AT1G75540.1 35.000 100 52 2 20 106 5 104 4.07e-12 67.0
MsaG040302 AT2G31380.1 36.170 94 51 1 20 104 5 98 1.54e-11 64.3
MsaG040302 AT1G06040.1 35.106 94 52 1 20 104 5 98 9.35e-11 62.0

Find 88 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGTTAGGGTTAGGGTTTCT+AGG 0.248419 7:+98865913 None:intergenic
TTGTGTGAAGGGTTAGGGTT+AGG 0.274503 7:+98865904 None:intergenic
ATCGCATGAATCACAGATTA+AGG 0.318847 7:+98865747 None:intergenic
ATTCTGGGTTTGCAGGATAT+TGG 0.319782 7:-98865571 MsaT040302.1:CDS
TATGGAGAAGGAACGGCTTT+AGG 0.323731 7:+98864207 None:intergenic
GACTGTCTGATATGTTTGTT+TGG 0.326886 7:-98865483 MsaT040302.1:CDS
ACAGATATGACAAGCATATA+AGG 0.340161 7:-98863636 MsaT040302.1:intron
TCTTGACTTGCTAACTCATA+TGG 0.342545 7:+98864189 None:intergenic
AATAGTTTGTGTGAAGGGTT+AGG 0.348641 7:+98865898 None:intergenic
GCCGGTGGTATATACTCTTC+AGG 0.353812 7:+98864857 None:intergenic
TGTGTGAAGGGTTAGGGTTA+GGG 0.355224 7:+98865905 None:intergenic
AGTGTAGGAGATGGGTTTGT+TGG 0.360731 7:-98865520 MsaT040302.1:CDS
TATATACTCTTCAGGATCAT+AGG 0.367421 7:+98864865 None:intergenic
ATGATTTCAGTGCTCTATCT+TGG 0.379435 7:+98863558 None:intergenic
GGAGAGCAGGACAAGAGTTA+AGG 0.397226 7:-98863590 MsaT040302.1:CDS
AAACATTCTGTATCTTCTGC+TGG 0.403504 7:-98864342 MsaT040302.1:CDS
CTTAGAGAAGAGTTGATTTG+TGG 0.405751 7:+98865780 None:intergenic
TTTGTCGATTCTGGGTTTGC+AGG 0.409347 7:-98865578 MsaT040302.1:CDS
GTGTAGGAGATGGGTTTGTT+GGG 0.419510 7:-98865519 MsaT040302.1:CDS
AAAGGGATTCTGCATTATTA+CGG 0.421974 7:-98864167 MsaT040302.1:CDS
GCGTCCCTCCGTTGTTACAC+TGG 0.441856 7:+98864307 None:intergenic
GTATGAATCACGTAAAGTTC+GGG 0.445996 7:-98863614 MsaT040302.1:CDS
GGTATGAATCACGTAAAGTT+CGG 0.449433 7:-98863615 MsaT040302.1:CDS
AACATTCTGTATCTTCTGCT+GGG 0.455081 7:-98864341 MsaT040302.1:CDS
CCACCGGCAAATTTATCTAC+AGG 0.455322 7:-98864842 MsaT040302.1:CDS
TTCTCATAATTATCGTGCTA+TGG 0.457659 7:-98865410 MsaT040302.1:CDS
AAACCTGTAGATAAATTTGC+CGG 0.458844 7:+98864839 None:intergenic
GAGAGCAGGACAAGAGTTAA+GGG 0.458882 7:-98863589 MsaT040302.1:CDS
ACTGTCTGATATGTTTGTTT+GGG 0.461387 7:-98865482 MsaT040302.1:CDS
AGTGCTCTATCTTGGCAAAT+CGG 0.463266 7:+98863566 None:intergenic
ATAGTTTGTGTGAAGGGTTA+GGG 0.471313 7:+98865899 None:intergenic
ATGTTTAAGTGAAATTTCTT+CGG 0.479598 7:+98864359 None:intergenic
GTCACAAGAGAAACAGAGTT+TGG 0.482714 7:+98865816 None:intergenic
CATGAACGAAGGCCTCTTGA+GGG 0.483331 7:-98865631 MsaT040302.1:CDS
GCTTTGAATGATGTATCAAC+AGG 0.496442 7:+98864387 None:intergenic
ATGAGTTAGCAAGTCAAGAA+AGG 0.496861 7:-98864185 MsaT040302.1:CDS
TGATATTGTTTCTTCAAATG+AGG 0.499555 7:-98864798 MsaT040302.1:intron
GTAAAGTTCGGGCGGAGAGC+AGG 0.504523 7:-98863603 MsaT040302.1:CDS
GTCGAAATAGTTTGTGTGAA+GGG 0.509191 7:+98865893 None:intergenic
CCGTTGTTACACTGGGTATG+AGG 0.510202 7:+98864315 None:intergenic
GCACGATAATTATGAGAAGA+AGG 0.510409 7:+98865415 None:intergenic
CTCAGGAAAGTGTAGGAGAT+GGG 0.521940 7:-98865528 MsaT040302.1:CDS
ATATACTCTTCAGGATCATA+GGG 0.522685 7:+98864866 None:intergenic
TCGTCAAGACTAACAAAAGA+AGG 0.524243 7:+98865454 None:intergenic
TGAGTTAGCAAGTCAAGAAA+GGG 0.532628 7:-98864184 MsaT040302.1:CDS
TTTGTTGGGTATGAGATTGA+AGG 0.533817 7:-98865505 MsaT040302.1:CDS
CGTCCCTCCGTTGTTACACT+GGG 0.546187 7:+98864308 None:intergenic
TCATGAACGAAGGCCTCTTG+AGG 0.546653 7:-98865632 MsaT040302.1:CDS
CCTCAGGAAAGTGTAGGAGA+TGG 0.550053 7:-98865529 MsaT040302.1:CDS
GTTATTGAAACAGAATCGTA+AGG 0.552534 7:-98864951 MsaT040302.1:intron
GGAGGTTCCTCCTTTGCCCA+AGG 0.554443 7:-98865389 MsaT040302.1:intron
TTTCGACCTTGTGATTATTG+TGG 0.554518 7:-98865877 MsaT040302.1:CDS
GTAGAACAGAGTATAGTAGC+AGG 0.559506 7:+98865718 None:intergenic
CTCTTAAACCACACCATGGG+TGG 0.560180 7:-98865940 None:intergenic
ACAGGAACAACTTGATGCAT+AGG 0.575038 7:+98864405 None:intergenic
GACAAAAGCTCAGTAACTGA+AGG 0.575937 7:+98865595 None:intergenic
ATGAATTATACCTTGGGCAA+AGG 0.577881 7:+98865379 None:intergenic
AATTATACCTTGGGCAAAGG+AGG 0.579881 7:+98865382 None:intergenic
GGTCGAAATAGTTTGTGTGA+AGG 0.583503 7:+98865892 None:intergenic
GATTTGTGGAGTGAACTTCA+CGG 0.583624 7:+98865794 None:intergenic
GCGTCCCTCCGTTGTTACAG+TGG 0.590695 7:+98864268 None:intergenic
TCTCTCAACCACTGTAACAA+CGG 0.600835 7:-98864276 MsaT040302.1:CDS
TCATAATTATCGTGCTATGG+AGG 0.601458 7:-98865407 MsaT040302.1:CDS
CTTGCTAACTCATATGGAGA+AGG 0.601483 7:+98864195 None:intergenic
CATGAGGTGAAGATAGTGAA+AGG 0.604807 7:+98865650 None:intergenic
TCAACCACTGTAACAACGGA+GGG 0.607091 7:-98864272 MsaT040302.1:CDS
AGCAAAAGAAGAAAACAAGA+AGG 0.608996 7:-98864140 MsaT040302.1:intron
TCCTGAAGAGTATATACCAC+CGG 0.614465 7:-98864858 MsaT040302.1:CDS
ACATTCTGTATCTTCTGCTG+GGG 0.618029 7:-98864340 MsaT040302.1:CDS
TCAAGAGGCCTTCGTTCATG+AGG 0.621272 7:+98865634 None:intergenic
CAGAATCGTAAGGCTGCTTG+TGG 0.621356 7:-98864941 MsaT040302.1:CDS
TTTCTGTCAAAACTGTGACT+GGG 0.626975 7:-98865683 MsaT040302.1:CDS
ATACCCAGTGTAACAACGGA+GGG 0.637441 7:-98864311 MsaT040302.1:CDS
GGCTTTAGGAGTAGTTGACA+AGG 0.642101 7:+98864221 None:intergenic
CACCCTGTAAAACCCTCAAG+AGG 0.645981 7:+98865619 None:intergenic
ACAAAAGCTCAGTAACTGAA+GGG 0.647464 7:+98865596 None:intergenic
TCAGACTTGAGATACTCTGA+AGG 0.649177 7:+98864246 None:intergenic
CTCAACCACTGTAACAACGG+AGG 0.655253 7:-98864273 MsaT040302.1:CDS
TAACTCATATGGAGAAGGAA+CGG 0.655311 7:+98864200 None:intergenic
CCTGTAGATAAATTTGCCGG+TGG 0.659097 7:+98864842 None:intergenic
CCTCATACCCAGTGTAACAA+CGG 0.666009 7:-98864315 MsaT040302.1:CDS
CAGTGGTTGAGAGATTCTGA+AGG 0.668190 7:+98864285 None:intergenic
GAATTGCCACAATAATCACA+AGG 0.683272 7:+98865871 None:intergenic
TGAATCACGTAAAGTTCGGG+CGG 0.683457 7:-98863611 MsaT040302.1:CDS
CCATCTCCTACACTTTCCTG+AGG 0.685251 7:+98865529 None:intergenic
TATCTTCACCTCATGAACGA+AGG 0.697940 7:-98865642 MsaT040302.1:CDS
CATACCCAGTGTAACAACGG+AGG 0.713642 7:-98864312 MsaT040302.1:CDS
GTTTCTAGGAGAACCACCCA+TGG 0.721828 7:+98865927 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 98863564 98865947 98863564 ID=MsaG040302
Chr7 mRNA 98863564 98865947 98863564 ID=MsaT040302.1;Parent=MsaG040302
Chr7 exon 98863564 98863654 98863564 ID=MsaT040302.1.exon4;Parent=MsaT040302.1
Chr7 CDS 98863564 98863654 98863564 ID=cds.MsaT040302.1;Parent=MsaT040302.1
Chr7 exon 98864141 98864448 98864141 ID=MsaT040302.1.exon3;Parent=MsaT040302.1
Chr7 CDS 98864141 98864448 98864141 ID=cds.MsaT040302.1;Parent=MsaT040302.1
Chr7 exon 98864799 98864960 98864799 ID=MsaT040302.1.exon2;Parent=MsaT040302.1
Chr7 CDS 98864799 98864960 98864799 ID=cds.MsaT040302.1;Parent=MsaT040302.1
Chr7 exon 98865390 98865947 98865390 ID=MsaT040302.1.exon1;Parent=MsaT040302.1
Chr7 CDS 98865390 98865947 98865390 ID=cds.MsaT040302.1;Parent=MsaT040302.1
Gene Sequence

>MsaT040302.1

ATGGGTGGTTCTCCTAGAAACCCTAACCCTAACCCTTCACACAAACTATTTCGACCTTGTGATTATTGTGGCAATTCAAACGCAGTTATATACTGCAGAGCAGATTCAGCCAAACTCTGTTTCTCTTGTGACCGTGAAGTTCACTCCACAAATCAACTCTTCTCTAAGCACACACGCTCCTTAATCTGTGATTCATGCGATGATTCACCTGCTACTATACTCTGTTCTACAGAATCCTCTGTTTTCTGTCAAAACTGTGACTGGGAAAATCACAACCTTTCACTATCTTCACCTCATGAACGAAGGCCTCTTGAGGGTTTTACAGGGTGCCCTTCAGTTACTGAGCTTTTGTCGATTCTGGGTTTGCAGGATATTGGAAAAAAATCTTTGCTTTTGCCTCAGGAAAGTGTAGGAGATGGGTTTGTTGGGTATGAGATTGAAGGACTGTCTGATATGTTTGTTTGGGATGCTCCTTCTTTTGTTAGTCTTGACGATCTTATTTCTTCTTCTCCTTCTTCTCATAATTATCGTGCTATGGAGGTTCCTCCTTTGCCCAAGAATCGTAAGGCTGCTTGTGGTAGACACAGAGAAGAGATTTTAAATCAGCTTCGTGAGATGACAAAGTCTGAGCCCTATGATCCTGAAGAGTATATACCACCGGCAAATTTATCTACAGGTTTTGATTGCGATGTAAAGGCTGATATTGTTTCTTCAAATGAGTGGCTCAGAGAAAGTAGCGAGCCTATGCATCAAGTTGTTCCTGTTGATACATCATTCAAAGCTCACACCGAAGAAATTTCACTTAAACATTCTGTATCTTCTGCTGGGGATCCTCATACCCAGTGTAACAACGGAGGGACGCCTTCAGAATCTCTCAACCACTGTAACAACGGAGGGACGCCTTCAGAGTATCTCAAGTCTGAAACCTTGTCAACTACTCCTAAAGCCGTTCCTTCTCCATATGAGTTAGCAAGTCAAGAAAGGGATTCTGCATTATTACGGTACAAGCAAAAGAAGAAAACAAGAAGATATGACAAGCATATAAGGTATGAATCACGTAAAGTTCGGGCGGAGAGCAGGACAAGAGTTAAGGGCCGATTTGCCAAGATAGAGCACTGA
Protein sequence

>MsaT040302.1

MGGSPRNPNPNPSHKLFRPCDYCGNSNAVIYCRADSAKLCFSCDREVHSTNQLFSKHTRSLICDSCDDSPATILCSTESSVFCQNCDWENHNLSLSSPHERRPLEGFTGCPSVTELLSILGLQDIGKKSLLLPQESVGDGFVGYEIEGLSDMFVWDAPSFVSLDDLISSSPSSHNYRAMEVPPLPKNRKAACGRHREEILNQLREMTKSEPYDPEEYIPPANLSTGFDCDVKADIVSSNEWLRESSEPMHQVVPVDTSFKAHTEEISLKHSVSSAGDPHTQCNNGGTPSESLNHCNNGGTPSEYLKSETLSTTPKAVPSPYELASQERDSALLRYKQKKKTRRYDKHIRYESRKVRAESRTRVKGRFAKIEH*