AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028045

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028045 MtrunA17_Chr5g0429341 96.829 410 13 0 1 410 1 410 0.0 817
MsaG028045 MtrunA17_Chr3g0120711 68.193 415 121 7 1 409 1 410 0.0 534
MsaG028045 MtrunA17_Chr2g0322941 52.066 121 54 2 1 120 40 157 5.29e-35 129
MsaG028045 MtrunA17_Chr1g0209071 49.138 116 55 2 1 115 1 113 1.32e-29 117
MsaG028045 MtrunA17_Chr7g0268691 49.505 101 50 1 5 105 20 119 8.83e-29 115
MsaG028045 MtrunA17_Chr7g0268691 52.941 51 24 0 344 394 319 369 7.62e-11 63.2
MsaG028045 MtrunA17_Chr2g0322951 48.485 99 43 2 309 404 50 143 7.11e-24 96.7
MsaG028045 MtrunA17_Chr7g0251781 40.909 110 59 1 1 104 1 110 9.08e-21 93.2
MsaG028045 MtrunA17_Chr7g0251781 65.306 49 17 0 349 397 337 385 4.59e-14 73.2
MsaG028045 MtrunA17_Chr1g0150471 33.133 166 100 3 4 162 5 166 1.77e-19 88.6
MsaG028045 MtrunA17_Chr1g0150471 40.244 82 40 1 313 394 224 296 2.07e-11 64.7
MsaG028045 MtrunA17_Chr3g0136701 43.333 90 51 0 4 93 5 94 1.09e-18 85.9
MsaG028045 MtrunA17_Chr3g0136701 52.941 51 24 0 350 400 229 279 4.85e-11 63.2
MsaG028045 MtrunA17_Chr4g0072871 43.333 90 51 0 4 93 21 110 3.24e-18 85.5
MsaG028045 MtrunA17_Chr4g0072871 60.870 46 18 0 352 397 297 342 6.86e-11 63.5
MsaG028045 MtrunA17_Chr7g0220721 42.857 91 52 0 5 95 26 116 4.82e-17 82.4
MsaG028045 MtrunA17_Chr4g0033641 35.417 96 53 1 1 87 1 96 1.25e-13 70.1
MsaG028045 MtrunA17_Chr3g0145061 32.418 182 96 7 1 169 1 168 1.37e-13 69.7
MsaG028045 MtrunA17_Chr4g0035651 36.082 97 52 1 1 87 1 97 2.71e-13 68.9
MsaG028045 MtrunA17_Chr1g0155811 31.959 97 56 1 1 87 1 97 3.62e-12 66.6
MsaG028045 MtrunA17_Chr5g0405151 36.905 84 45 1 1 76 1 84 4.51e-12 64.7
MsaG028045 MtrunA17_Chr3g0142221 31.633 98 56 1 1 87 1 98 7.70e-12 64.7
MsaG028045 MtrunA17_Chr2g0314671 33.333 96 55 1 1 87 1 96 5.40e-11 63.2
MsaG028045 MtrunA17_Chr2g0329511 32.292 96 56 1 1 87 1 96 7.61e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028045 AT3G07650.3 52.594 424 133 12 1 409 1 371 2.13e-138 400
MsaG028045 AT3G07650.2 52.594 424 133 12 1 409 1 371 2.13e-138 400
MsaG028045 AT3G07650.4 52.594 424 133 12 1 409 1 371 2.13e-138 400
MsaG028045 AT3G07650.1 52.594 424 133 12 1 409 1 371 2.13e-138 400
MsaG028045 AT5G48250.1 52.235 425 134 13 1 409 1 372 1.03e-135 394
MsaG028045 AT4G15250.1 54.717 106 46 1 1 106 1 104 8.72e-35 131
MsaG028045 AT4G15250.1 53.684 95 43 1 309 403 233 326 8.07e-20 90.1
MsaG028045 AT2G33500.1 49.020 102 52 0 5 106 12 113 8.32e-33 127
MsaG028045 AT2G33500.1 68.182 44 14 0 352 395 356 399 1.29e-12 69.3
MsaG028045 AT2G33500.2 49.020 102 52 0 5 106 12 113 8.78e-33 127
MsaG028045 AT2G33500.2 68.182 44 14 0 352 395 355 398 1.27e-12 69.3
MsaG028045 AT3G21880.1 50.000 116 56 1 1 116 1 114 1.00e-32 127
MsaG028045 AT3G21880.1 47.899 119 50 4 292 407 252 361 2.86e-24 103
MsaG028045 AT3G21880.3 50.000 116 56 1 1 116 5 118 1.14e-32 127
MsaG028045 AT3G21880.3 47.899 119 50 4 292 407 256 365 2.95e-24 103
MsaG028045 AT3G21880.2 50.000 116 56 1 1 116 5 118 1.14e-32 127
MsaG028045 AT3G21880.2 47.899 119 50 4 292 407 256 365 2.95e-24 103
MsaG028045 AT1G28050.1 41.935 124 70 1 5 128 9 130 7.06e-31 123
MsaG028045 AT1G28050.1 29.609 179 111 4 224 397 261 429 1.61e-12 69.3
MsaG028045 AT1G68190.1 46.296 108 56 1 1 108 10 115 3.49e-28 114
MsaG028045 AT1G68190.3 46.296 108 56 1 1 108 10 115 3.49e-28 114
MsaG028045 AT1G68190.2 46.296 108 56 1 1 108 39 144 5.58e-28 114
MsaG028045 AT2G47890.2 49.020 102 50 1 4 105 12 111 4.25e-27 108
MsaG028045 AT2G47890.3 49.020 102 50 1 4 105 12 111 9.74e-27 109
MsaG028045 AT2G47890.1 49.020 102 50 1 4 105 12 111 1.44e-26 109
MsaG028045 AT5G57660.1 26.733 404 199 13 5 402 22 334 5.74e-21 94.0
MsaG028045 AT5G24930.1 45.556 90 49 0 4 93 5 94 2.97e-20 92.0
MsaG028045 AT5G24930.1 58.824 51 21 0 348 398 290 340 4.96e-12 67.4
MsaG028045 AT2G24790.2 43.333 90 51 0 4 93 7 96 9.72e-19 84.7
MsaG028045 AT2G24790.1 41.346 104 59 1 4 105 7 110 9.79e-19 86.3
MsaG028045 AT2G24790.1 49.153 59 30 0 344 402 220 278 2.61e-11 64.7
MsaG028045 AT5G15840.1 45.055 91 50 0 5 95 20 110 2.21e-17 83.6
MsaG028045 AT5G15840.2 45.055 91 50 0 5 95 20 110 2.87e-17 82.0
MsaG028045 AT5G15850.1 45.349 86 47 0 5 90 12 97 1.02e-16 81.3
MsaG028045 AT3G02380.1 38.835 103 57 1 5 101 16 118 2.22e-15 77.4
MsaG028045 AT3G02380.1 64.286 42 15 0 353 394 278 319 8.04e-11 63.5
MsaG028045 AT2G31380.1 34.375 96 54 1 1 87 1 96 6.56e-13 68.6
MsaG028045 AT1G06040.2 34.375 96 54 1 1 87 1 96 1.17e-12 66.6
MsaG028045 AT4G38960.1 26.857 175 106 4 1 166 1 162 1.88e-12 65.9
MsaG028045 AT4G38960.6 26.857 175 106 4 1 166 1 162 1.88e-12 65.9
MsaG028045 AT1G06040.1 34.375 96 54 1 1 87 1 96 2.08e-12 67.0
MsaG028045 AT1G78600.1 31.250 96 57 1 1 87 1 96 1.17e-11 65.5
MsaG028045 AT1G78600.2 31.250 96 57 1 1 87 1 96 1.29e-11 65.9
MsaG028045 AT2G21320.1 36.842 95 50 2 1 87 1 93 3.42e-11 62.0
MsaG028045 AT1G75540.1 32.323 99 55 1 1 87 1 99 3.96e-11 64.3

Find 81 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAGACACACTCTTGCTTTC+TGG 0.079702 5:-56185853 None:intergenic
AGAAGGGATGTCTGAGAAAA+AGG 0.263603 5:-56185755 None:intergenic
CTTCCGAGCTTTCTTCAATA+TGG 0.271446 5:+56185731 MsaT028045.1:CDS
GATGCAGCATTGCTGCATTC+TGG 0.314142 5:-56187928 None:intergenic
AGTGTAAACTCAGCAGCTTC+TGG 0.321377 5:-56189457 None:intergenic
CAATCAATCAATTGCTTCTC+TGG 0.329875 5:+56185697 MsaT028045.1:CDS
TTCTCACAGGGGAGCCTCCC+TGG 0.331546 5:+56188085 MsaT028045.1:CDS
TACCTTAGGCTTAAGTTCAT+TGG 0.331901 5:-56185986 None:intergenic
CAATGCTGTCATGCGTTATA+AGG 0.336608 5:+56188152 MsaT028045.1:CDS
CTGGTTCAAAATACGGGGTT+TGG 0.355047 5:-56185950 None:intergenic
CTTTCCGTAAAATAAATAAC+TGG 0.358970 5:-56187982 None:intergenic
TTGCGGAGACCAGAGGTCTT+TGG 0.371869 5:+56185456 MsaT028045.1:CDS
CACTTTGTCAGAACTGTGAT+TGG 0.387558 5:+56185632 MsaT028045.1:CDS
TCACATGCTTCACCCGTAGA+AGG 0.388659 5:-56185772 None:intergenic
TTTCCCCAGCTTTGACGAAC+CGG 0.416476 5:-56189407 None:intergenic
CAGCTTCTGGTTTGACTCAA+AGG 0.419857 5:-56189444 None:intergenic
CTTAAGTTCATTGGAAGATC+CGG 0.420398 5:-56185977 None:intergenic
CGGGCGCCTGGTTCAAAATA+CGG 0.425108 5:-56185957 None:intergenic
AAAGGCCGGTTCGTCAAAGC+TGG 0.426807 5:+56189402 MsaT028045.1:CDS
TTGCTTCTCTGGCTGTCCTT+CGG 0.430721 5:+56185708 MsaT028045.1:CDS
TTTCTCAGACATCCCTTCTA+CGG 0.434188 5:+56185759 MsaT028045.1:CDS
CCAGAAAGCAAGAGTGTGTC+TGG 0.441871 5:+56185853 MsaT028045.1:CDS
GGGCGCCTGGTTCAAAATAC+GGG 0.445144 5:-56185956 None:intergenic
AGCAGATTGAATAGAATTCT+CGG 0.457491 5:-56188121 None:intergenic
AGAACAGTGACAACAGTGCC+AGG 0.462494 5:+56185824 MsaT028045.1:CDS
GCAGATTGAATAGAATTCTC+GGG 0.465896 5:-56188120 None:intergenic
AGCTTCTGGTTTGACTCAAA+GGG 0.472965 5:-56189443 None:intergenic
TTCTCAGACATCCCTTCTAC+GGG 0.474377 5:+56185760 MsaT028045.1:CDS
CTCGGGGCAAGGAGGACACC+AGG 0.476613 5:-56188103 None:intergenic
CATTGGAAGATCCGGGCGCC+TGG 0.483294 5:-56185969 None:intergenic
ATTTACAACCTGCATATGTA+AGG 0.488185 5:+56185590 MsaT028045.1:CDS
AGAAAGTAAGATATGCTTCT+CGG 0.490575 5:+56189349 MsaT028045.1:CDS
TTAAGTTCATTGGAAGATCC+GGG 0.503987 5:-56185976 None:intergenic
TAGTGCAAGAGCCTTTCTGC+TGG 0.508800 5:-56187016 None:intergenic
CTTGCTTTCTGGAGGAACCC+TGG 0.509409 5:-56185842 None:intergenic
TCAACACACCTTACATATGC+AGG 0.509855 5:-56185598 None:intergenic
CGGGGTTTGGCACTTGACTC+AGG 0.510138 5:-56185937 None:intergenic
TCGATCACACGACAAACATA+AGG 0.512174 5:-56185503 None:intergenic
TTGCCTCTTGTGTGTTGAAG+AGG 0.512520 5:-56185677 None:intergenic
TGATTTCAACATAGATGAGA+TGG 0.515486 5:+56187062 MsaT028045.1:CDS
ACTTCTTCAATGCTTCTCAC+AGG 0.517555 5:+56188072 MsaT028045.1:CDS
TCAGAAAACGTGTGAAAGGC+CGG 0.518186 5:+56189388 MsaT028045.1:CDS
TTCCAATGAACTTAAGCCTA+AGG 0.522978 5:+56185984 MsaT028045.1:CDS
CTCTTGTGTGTTGAAGAGGA+TGG 0.523560 5:-56185673 None:intergenic
TGTTAACGCCAGAAAATGAA+AGG 0.527986 5:-56188014 None:intergenic
GGCAGTACACCAAAGACCTC+TGG 0.535687 5:-56185465 None:intergenic
CTTCTTCAATGCTTCTCACA+GGG 0.540534 5:+56188073 MsaT028045.1:CDS
GATATGCTTCTCGGAAGGCA+AGG 0.543762 5:+56189358 MsaT028045.1:CDS
TGAATAGAATTCTCGGGGCA+AGG 0.546742 5:-56188114 None:intergenic
CACATGCTTCACCCGTAGAA+GGG 0.554759 5:-56185771 None:intergenic
CAGCATTGCTGCATTCTGGT+TGG 0.554970 5:-56187924 None:intergenic
TGTGTCTGGTTCAGCTCAAG+TGG 0.560306 5:+56185867 MsaT028045.1:CDS
AAAGACATGTCTGCTAGTGC+TGG 0.564402 5:+56187183 MsaT028045.1:CDS
AACTGTGATTGGTTAGCTCA+TGG 0.565628 5:+56185643 MsaT028045.1:CDS
GATGTCAGAAAACGTGTGAA+AGG 0.569991 5:+56189384 MsaT028045.1:CDS
AGTGCAAGAGCCTTTCTGCT+GGG 0.574032 5:-56187015 None:intergenic
ATATGCTTCTCGGAAGGCAA+GGG 0.575562 5:+56189359 MsaT028045.1:CDS
GTTACTATGTCCCAGCAGAA+AGG 0.575589 5:+56187005 MsaT028045.1:intron
GGGCCATATTGAAGAAAGCT+CGG 0.577030 5:-56185734 None:intergenic
AAGGCCGGTTCGTCAAAGCT+GGG 0.589643 5:+56189403 MsaT028045.1:CDS
GACACACTCTTGCTTTCTGG+AGG 0.592085 5:-56185850 None:intergenic
GTGTGTTGAAGAGGATGGAT+TGG 0.598104 5:-56185668 None:intergenic
TGTGAAGATGATAAGTTGCT+TGG 0.611126 5:+56187039 MsaT028045.1:CDS
AGTAAGATATGCTTCTCGGA+AGG 0.619208 5:+56189353 MsaT028045.1:CDS
GAAGAAAGCTCGGAAGCCGA+AGG 0.625937 5:-56185724 None:intergenic
CATCCTCTTCAACACACAAG+AGG 0.627085 5:+56185674 MsaT028045.1:CDS
GTTAACAAAGATACTAGTGC+TGG 0.627470 5:+56188030 MsaT028045.1:CDS
TCGGGGCAAGGAGGACACCA+GGG 0.628096 5:-56188102 None:intergenic
CAGATTGAATAGAATTCTCG+GGG 0.628312 5:-56188119 None:intergenic
TCAAGGCGCTGTTGTTGCTG+AGG 0.638688 5:+56187218 MsaT028045.1:CDS
GGCGCCTGGTTCAAAATACG+GGG 0.642690 5:-56185955 None:intergenic
GCTGGTGATTCAAATTGTCA+AGG 0.642760 5:+56187201 MsaT028045.1:CDS
CAAGAACACTTGTATGCGAG+AGG 0.643376 5:+56185563 MsaT028045.1:CDS
TTCTTCAATGCTTCTCACAG+GGG 0.656918 5:+56188074 MsaT028045.1:CDS
AGGCCGGTTCGTCAAAGCTG+GGG 0.660571 5:+56189404 MsaT028045.1:CDS
GGGCAAGGAGGACACCAGGG+AGG 0.662427 5:-56188099 None:intergenic
GAACAGTGACAACAGTGCCA+GGG 0.668906 5:+56185825 MsaT028045.1:CDS
GAAGCATGTGAACATAAACT+CGG 0.675189 5:+56185784 MsaT028045.1:CDS
ATAGAATTCTCGGGGCAAGG+AGG 0.730840 5:-56188111 None:intergenic
GCTGGTGACTATCAAGAGTG+TGG 0.743394 5:+56188048 MsaT028045.1:CDS
ATAAGGAAGCAGCATCAGAG+CGG 0.751405 5:-56185486 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 56185436 56189470 56185436 ID=MsaG028045
Chr5 mRNA 56185436 56189470 56185436 ID=MsaT028045.1;Parent=MsaG028045
Chr5 exon 56185436 56186005 56185436 ID=MsaT028045.1.exon1;Parent=MsaT028045.1
Chr5 CDS 56185436 56186005 56185436 ID=cds.MsaT028045.1;Parent=MsaT028045.1
Chr5 exon 56187006 56187239 56187006 ID=MsaT028045.1.exon2;Parent=MsaT028045.1
Chr5 CDS 56187006 56187239 56187006 ID=cds.MsaT028045.1;Parent=MsaT028045.1
Chr5 exon 56187895 56188193 56187895 ID=MsaT028045.1.exon3;Parent=MsaT028045.1
Chr5 CDS 56187895 56188193 56187895 ID=cds.MsaT028045.1;Parent=MsaT028045.1
Chr5 exon 56189341 56189470 56189341 ID=MsaT028045.1.exon4;Parent=MsaT028045.1
Chr5 CDS 56189341 56189470 56189341 ID=cds.MsaT028045.1;Parent=MsaT028045.1
Gene Sequence

>MsaT028045.1

ATGGGTTCTTTATGCGATTTTTGCGGAGACCAGAGGTCTTTGGTGTACTGCCGCTCTGATGCTGCTTCCTTATGTTTGTCGTGTGATCGAAATGTTCATTCTGCTAACGAACTTTCTAAGCGTCATTCAAGAACACTTGTATGCGAGAGGTGTAATTTACAACCTGCATATGTAAGGTGTGTTGAAGAGAAAGTTTCACTTTGTCAGAACTGTGATTGGTTAGCTCATGGTACCAATCCATCCTCTTCAACACACAAGAGGCAATCAATCAATTGCTTCTCTGGCTGTCCTTCGGCTTCCGAGCTTTCTTCAATATGGCCCTTTTTCTCAGACATCCCTTCTACGGGTGAAGCATGTGAACATAAACTCGGTTTGATGAGCATTAACGAGAACAGTGACAACAGTGCCAGGGTTCCTCCAGAAAGCAAGAGTGTGTCTGGTTCAGCTCAAGTGGCCGATCTTCCAAGCAAAAACAAATCTGGCGTCGACACATCTTCAATACCTGAGTCAAGTGCCAAACCCCGTATTTTGAACCAGGCGCCCGGATCTTCCAATGAACTTAAGCCTAAGTTACTATGTCCCAGCAGAAAGGCTCTTGCACTATGTGAAGATGATAAGTTGCTTGGTGATTTCAACATAGATGAGATGGATTTTGAACTTGAGAACTATACGGAACTTTTTGACTTTGCTCTCAACCACTCTGAAGAGTTTTTTGAAAATGGTGGTATTGATAGCTTATTTGAGAGAAAAGACATGTCTGCTAGTGCTGGTGATTCAAATTGTCAAGGCGCTGTTGTTGCTGAGGGGTCATCAGCAAGGTTTGTTAGTGCTATCCAACCAGAATGCAGCAATGCTGCATCTGCAGATTCAATATTAAGTACTAAAACTGAACCAGTTATTTATTTTACGGAAAGGCAATCAAACCTTTCATTTTCTGGCGTTAACAAAGATACTAGTGCTGGTGACTATCAAGAGTGTGGTACTTCTTCAATGCTTCTCACAGGGGAGCCTCCCTGGTGTCCTCCTTGCCCCGAGAATTCTATTCAATCTGCTAATCGCAGCAATGCTGTCATGCGTTATAAGGAAAAGAAAAAGAATCAAAAGTTTGATAAGAAAGTAAGATATGCTTCTCGGAAGGCAAGGGCTGATGTCAGAAAACGTGTGAAAGGCCGGTTCGTCAAAGCTGGGGAAACATACGATTACGACCCTTTGAGTCAAACCAGAAGCTGCTGA
Protein sequence

>MsaT028045.1

MGSLCDFCGDQRSLVYCRSDAASLCLSCDRNVHSANELSKRHSRTLVCERCNLQPAYVRCVEEKVSLCQNCDWLAHGTNPSSSTHKRQSINCFSGCPSASELSSIWPFFSDIPSTGEACEHKLGLMSINENSDNSARVPPESKSVSGSAQVADLPSKNKSGVDTSSIPESSAKPRILNQAPGSSNELKPKLLCPSRKALALCEDDKLLGDFNIDEMDFELENYTELFDFALNHSEEFFENGGIDSLFERKDMSASAGDSNCQGAVVAEGSSARFVSAIQPECSNAASADSILSTKTEPVIYFTERQSNLSFSGVNKDTSAGDYQECGTSSMLLTGEPPWCPPCPENSIQSANRSNAVMRYKEKKKNQKFDKKVRYASRKARADVRKRVKGRFVKAGETYDYDPLSQTRSC*