AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004891

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004891 MtrunA17_Chr1g0201911 96.479 568 17 1 1 568 1 565 0.0 1139
MsaG004891 MtrunA17_Chr1g0201941 46.090 601 203 16 3 500 2 584 1.11e-152 452
MsaG004891 MtrunA17_Chr6g0463941 54.167 288 111 3 52 318 52 339 9.03e-74 247
MsaG004891 MtrunA17_Chr6g0463941 58.642 162 61 2 363 521 449 607 2.23e-46 172
MsaG004891 MtrunA17_Chr6g0463941 43.617 94 52 1 51 143 460 553 8.17e-19 90.1
MsaG004891 MtrunA17_Chr6g0463941 41.379 87 50 1 375 461 55 140 5.34e-17 84.7
MsaG004891 MtrunA17_Chr1g0198171 29.647 425 224 12 36 432 95 472 5.59e-46 169
MsaG004891 MtrunA17_Chr1g0198171 38.129 139 81 3 329 466 71 205 3.93e-20 94.0
MsaG004891 MtrunA17_Chr2g0290511 37.860 243 123 4 241 463 116 350 1.49e-43 159
MsaG004891 MtrunA17_Chr2g0290511 39.091 110 59 2 54 162 261 363 4.43e-16 80.5
MsaG004891 MtrunA17_Chr7g0265831 37.818 275 153 5 46 317 107 366 2.30e-43 161
MsaG004891 MtrunA17_Chr7g0265831 41.463 123 60 4 368 479 108 229 2.03e-19 91.3
MsaG004891 MtrunA17_Chr1g0179191 34.354 294 161 5 55 343 131 397 1.68e-41 156
MsaG004891 MtrunA17_Chr1g0179191 42.202 109 61 2 364 471 120 227 2.88e-20 94.4
MsaG004891 MtrunA17_Chr1g0190851 33.835 266 125 6 239 462 251 507 1.27e-33 135
MsaG004891 MtrunA17_Chr1g0190851 40.426 94 53 2 53 143 416 509 3.52e-14 75.5
MsaG004891 MtrunA17_Chr7g0273941 31.174 247 142 7 240 465 241 480 3.25e-29 120
MsaG004891 MtrunA17_Chr7g0273941 43.434 99 46 2 55 143 381 479 3.58e-16 81.3
MsaG004891 MtrunA17_Chr5g0409071 29.323 133 82 3 335 465 10 132 2.90e-12 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004891 AT1G76890.2 49.797 492 181 10 50 496 36 506 8.12e-142 422
MsaG004891 AT1G76880.1 51.975 481 195 8 50 497 56 533 1.94e-136 410
MsaG004891 AT5G03680.1 34.038 426 235 12 55 462 119 516 2.85e-60 210
MsaG004891 AT5G28300.1 38.224 259 126 6 240 464 300 558 2.62e-40 155
MsaG004891 AT3G10000.1 33.861 316 181 8 12 323 56 347 2.73e-39 150
MsaG004891 AT3G10000.1 35.915 142 81 3 343 477 53 191 5.14e-21 96.7
MsaG004891 AT1G33240.3 68.132 91 29 0 375 465 435 525 1.10e-37 147
MsaG004891 AT1G33240.2 68.132 91 29 0 375 465 396 486 1.36e-37 147
MsaG004891 AT1G33240.2 43.678 87 48 1 55 140 396 482 1.88e-16 83.2
MsaG004891 AT1G33240.1 68.132 91 29 0 375 465 435 525 2.35e-37 147
MsaG004891 AT3G10000.2 32.698 315 176 8 12 323 56 337 1.66e-35 139
MsaG004891 AT3G10000.2 34.043 141 75 3 343 477 53 181 6.28e-18 87.0
MsaG004891 AT5G47660.1 31.718 227 140 4 238 463 177 389 1.80e-27 115
MsaG004891 AT5G47660.1 41.304 92 51 2 55 145 303 392 4.27e-13 71.6
MsaG004891 AT3G25990.1 32.000 100 67 1 376 474 55 154 5.87e-11 65.1

Find 117 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTATAGAAAGAAGAGAAAA+TGG 0.189121 1:+75242269 MsaT004891.1:CDS
GAACCAAAGTATCAAGAAAA+TGG 0.192524 1:+75242748 MsaT004891.1:CDS
TTCATGTTTGGCAAAGAATT+TGG 0.196846 1:-75242178 None:intergenic
TTATTATTTGGTTGTGGTTT+TGG 0.205052 1:-75242025 None:intergenic
GAAAATGGAAGGACTATTTC+AGG 0.211748 1:+75242284 MsaT004891.1:CDS
GGAGGTCTCCATTGTTGTTC+TGG 0.263104 1:-75243051 None:intergenic
GAATTTCAAAATTTGAATAA+TGG 0.276547 1:+75242634 MsaT004891.1:CDS
TCTTCCCACAATGGCGCTTT+TGG 0.281382 1:-75242772 None:intergenic
GAGCTGCTGATGATCTTTCT+TGG 0.298176 1:-75242459 None:intergenic
GTGAAGTTCATGCTCTAATA+AGG 0.301161 1:+75242710 MsaT004891.1:CDS
GCTTCAAGTTCATTAAAATA+AGG 0.305695 1:-75242931 None:intergenic
GATGAGAGTGTGTTATTATT+TGG 0.316885 1:-75242037 None:intergenic
TCAAGAGAGCCAATGTTTCT+TGG 0.332675 1:-75240912 None:intergenic
GAGAATAGGTTGTTCATGTT+TGG 0.353362 1:-75242190 None:intergenic
TTAACGGTGGTGGAGGAAAT+AGG 0.356278 1:+75240881 MsaT004891.1:CDS
AACTTCTTCTTCCACAGCTT+CGG 0.361209 1:+75242228 MsaT004891.1:CDS
GAAACGAATTAGAACCAAAA+AGG 0.368019 1:-75242984 None:intergenic
TATTGTTTGTGTGGTTTCAT+TGG 0.368826 1:-75242074 None:intergenic
CTTGAAGATAAGATCAGATA+TGG 0.382626 1:+75240930 MsaT004891.1:CDS
TTGAATAATGGTTACAAAAG+TGG 0.392274 1:+75242646 MsaT004891.1:CDS
GCTGGCGGTGGTTGTGGTGG+TGG 0.395680 1:-75242529 None:intergenic
GTTTCATTGGGATTTGTTGT+TGG 0.399933 1:-75242061 None:intergenic
AAGTCTTAAGGGTCCACTTT+GGG 0.401378 1:+75240972 MsaT004891.1:CDS
TCTGGTGCTGGCGGTGGTTG+TGG 0.405288 1:-75242535 None:intergenic
AACGAATGTGGTAGGGTTTG+TGG 0.409596 1:-75242122 None:intergenic
TGAGAATATTGTGCCGGTTA+CGG 0.409713 1:+75240783 MsaT004891.1:CDS
GAAGAGAAAGGAAGAGAGAT+TGG 0.412336 1:+75240826 MsaT004891.1:CDS
CACAGCTTCGGACGAAGACT+TGG 0.417011 1:+75242240 MsaT004891.1:CDS
TGTTCTGGCTGCACCATCAA+TGG 0.420164 1:-75243036 None:intergenic
ATTGTTTGTGTGGTTTCATT+GGG 0.421975 1:-75242073 None:intergenic
TGCTTTGAGAATTCAAGAAA+TGG 0.425606 1:+75242405 MsaT004891.1:CDS
AATTCAACAATGTTGTTGTT+TGG 0.432386 1:-75242616 None:intergenic
TTTGGAACATTGTTGTTGTT+AGG 0.434536 1:-75242160 None:intergenic
CACTTTGGGAAGAGGTTTCA+AGG 0.436137 1:+75240986 MsaT004891.1:CDS
AACAAATAAACTTTCATCAA+TGG 0.444317 1:+75243245 MsaT004891.1:CDS
GACAGCTCTGGTGCTGGCGG+TGG 0.444859 1:-75242541 None:intergenic
AAGTTGTTGTGGTTGAGAAT+AGG 0.446298 1:-75242204 None:intergenic
AACCAAAGTATCAAGAAAAT+GGG 0.447699 1:+75242749 MsaT004891.1:CDS
TGAAGAGACAAGGATACAAT+AGG 0.451641 1:+75242809 MsaT004891.1:CDS
ATCAATATTAACGGTGGTGG+AGG 0.457605 1:+75240874 MsaT004891.1:CDS
GTGCTTCTCCTTCTCCATCA+AGG 0.462199 1:+75242677 MsaT004891.1:CDS
GAGAGCCAATGTTTCTTGGC+GGG 0.464598 1:-75240908 None:intergenic
AATGGTTACAAAAGTGGTAA+TGG 0.466799 1:+75242652 MsaT004891.1:CDS
CACGGAGACAGCTCTGGTGC+TGG 0.472655 1:-75242547 None:intergenic
TAAGGGTCCACTTTGGGAAG+AGG 0.472903 1:+75240978 MsaT004891.1:CDS
TTTCGTGATTCAAGTCTTAA+GGG 0.478392 1:+75240961 MsaT004891.1:CDS
AAGATGAATATCAATATTAA+CGG 0.478883 1:+75240865 MsaT004891.1:CDS
ACATTGTTGTTGTTAGGTTG+TGG 0.486612 1:-75242154 None:intergenic
AGGAAGAGAGATTGGTGGTG+AGG 0.490326 1:+75240834 MsaT004891.1:CDS
TGAGACGATGGAGCCATTGA+TGG 0.495814 1:+75243023 MsaT004891.1:CDS
CAAGTCTTAAGGGTCCACTT+TGG 0.495967 1:+75240971 MsaT004891.1:CDS
ATCTTCTTCTATATGCAGCT+TGG 0.501249 1:+75240727 None:intergenic
GGTGCTGGCGGTGGTTGTGG+TGG 0.502284 1:-75242532 None:intergenic
GCACCCTCTTCAAATGTAGT+TGG 0.502758 1:-75243072 None:intergenic
GTCTGACACGGAGACAGCTC+TGG 0.505511 1:-75242553 None:intergenic
AATATCAATATTAACGGTGG+TGG 0.506001 1:+75240871 MsaT004891.1:CDS
CCCTCTTCAAATGTAGTTGG+AGG 0.507603 1:-75243069 None:intergenic
TGTAGGAAACTAGCTGAACT+TGG 0.509833 1:+75241839 MsaT004891.1:intron
GTCTCCGTGTCAGACAGCTC+TGG 0.513072 1:+75242561 MsaT004891.1:CDS
TAGAAAGAAGAGAAAATGGA+AGG 0.520671 1:+75242273 MsaT004891.1:CDS
GAAGGAGAAACGAATGTGGT+AGG 0.521206 1:-75242130 None:intergenic
TGGGCCAAAAGCGCCATTGT+GGG 0.524060 1:+75242768 MsaT004891.1:CDS
CAAGTCTTCGTCCGAAGCTG+TGG 0.529430 1:-75242239 None:intergenic
GATAGCATGGAAGAAGATGA+AGG 0.531181 1:+75243192 MsaT004891.1:CDS
AGTGTGTTATTATTTGGTTG+TGG 0.532548 1:-75242031 None:intergenic
GACATATGATATTGTTTGTG+TGG 0.533682 1:-75242083 None:intergenic
GTGCCGGTTACGGCGCAAAA+CGG 0.534516 1:+75240793 MsaT004891.1:CDS
ACGGCGCAAAACGGAGGCGG+CGG 0.535961 1:+75240802 MsaT004891.1:CDS
TTTGGCCACCTTGATGGAGA+AGG 0.538200 1:-75242685 None:intergenic
TATCACAAAAGAACCAAAGA+AGG 0.539271 1:+75241914 MsaT004891.1:CDS
CTCCGGTGAGAATATTGTGC+CGG 0.540412 1:+75240777 MsaT004891.1:CDS
ATATGAAGATGGAGATAGCA+TGG 0.544034 1:+75243179 MsaT004891.1:CDS
AGAGCCAATGTTTCTTGGCG+GGG 0.547860 1:-75240907 None:intergenic
TTGTTGTCACAACTTCATAA+CGG 0.553559 1:-75243227 None:intergenic
CTTGAAACCTCTTCCCAAAG+TGG 0.553632 1:-75240985 None:intergenic
GGTAGGAGTGGAAAATCAGA+AGG 0.553996 1:+75241935 MsaT004891.1:CDS
TGGTGATGCAACAGTAATGA+TGG 0.554542 1:+75240747 MsaT004891.1:CDS
ATGGGCCAAAAGCGCCATTG+TGG 0.554967 1:+75242767 MsaT004891.1:CDS
GAGAAAGGAAGAGAGATTGG+TGG 0.555860 1:+75240829 MsaT004891.1:CDS
TTGTTGTTAGGTTGTGGTGA+AGG 0.559792 1:-75242148 None:intergenic
GGAGGCGGCGGTGAAGAGAA+AGG 0.561124 1:+75240814 MsaT004891.1:CDS
GTTACGGCGCAAAACGGAGG+CGG 0.565758 1:+75240799 MsaT004891.1:CDS
AACATGGATGAATATGAAGA+TGG 0.566553 1:+75243168 MsaT004891.1:CDS
AGAAGAAGTTGAAGTTGTTG+TGG 0.571331 1:-75242215 None:intergenic
AAGGAGAAACGAATGTGGTA+GGG 0.571339 1:-75242129 None:intergenic
AGAGAGCCAATGTTTCTTGG+CGG 0.579042 1:-75240909 None:intergenic
CAAATACTACAAGAAAATGA+AGG 0.579174 1:+75242870 MsaT004891.1:CDS
TGAAGGAAAGTAACAAGCAA+AGG 0.584180 1:+75242887 MsaT004891.1:CDS
GTGGCCCCGCCAAGAAACAT+TGG 0.588347 1:+75240903 MsaT004891.1:CDS
GGAGACAGCTCTGGTGCTGG+CGG 0.588687 1:-75242544 None:intergenic
GATACAATAGGAATGCGAAA+AGG 0.589387 1:+75242821 MsaT004891.1:CDS
TGATGAAGAAGATGAAAACA+TGG 0.596066 1:+75243152 MsaT004891.1:CDS
AGAACCAAAGAAGGTAGGAG+TGG 0.596126 1:+75241923 MsaT004891.1:CDS
ACCTCCAACTACATTTGAAG+AGG 0.596492 1:+75243068 MsaT004891.1:CDS
AAGATAAGATCAGATATGGA+TGG 0.598844 1:+75240934 MsaT004891.1:CDS
AATGCAAAAGAAGTTTCTTG+AGG 0.603327 1:+75242342 MsaT004891.1:CDS
ACAAGTGCTTGCAAAACAAG+AGG 0.605374 1:+75242318 MsaT004891.1:CDS
GTAATGATGGAGACTTGCTC+CGG 0.605776 1:+75240760 MsaT004891.1:CDS
TAGAAGCTCAAAGAAGTGCA+AGG 0.606310 1:+75241868 MsaT004891.1:CDS
ACAAAAGAACCAAAGAAGGT+AGG 0.608634 1:+75241918 MsaT004891.1:CDS
AACCGGCACAATATTCTCAC+CGG 0.619642 1:-75240779 None:intergenic
TGGTGCAGCCAGAACAACAA+TGG 0.627830 1:+75243043 MsaT004891.1:CDS
CCGGTTACGGCGCAAAACGG+AGG 0.631559 1:+75240796 MsaT004891.1:CDS
GCAAAAGAAGAAGATGACAA+TGG 0.642786 1:+75243120 MsaT004891.1:CDS
AGCATGGAAGAAGATGAAGG+AGG 0.648293 1:+75243195 MsaT004891.1:CDS
ATGAATATCAATATTAACGG+TGG 0.649447 1:+75240868 MsaT004891.1:CDS
CATGAAGTCAAATGAGACGA+TGG 0.663039 1:+75243011 MsaT004891.1:CDS
TACATTTGAAGAGGGTGCTG+TGG 0.663974 1:+75243077 MsaT004891.1:CDS
GCTGAAATATCTTCCCACAA+TGG 0.664092 1:-75242781 None:intergenic
CCTCCAACTACATTTGAAGA+GGG 0.665021 1:+75243069 MsaT004891.1:CDS
GGTTACAAAAGTGGTAATGG+TGG 0.667767 1:+75242655 MsaT004891.1:CDS
AATGTGGTAGGGTTTGTGGA+TGG 0.673197 1:-75242118 None:intergenic
CTTCTCCTTCTCCATCAAGG+TGG 0.673995 1:+75242680 MsaT004891.1:CDS
TCAGCTGCAATGAAGAGACA+AGG 0.690286 1:+75242799 MsaT004891.1:CDS
GATGCCAGAGCTGTCTGACA+CGG 0.707672 1:-75242565 None:intergenic
TGGTGAAGGAGAAACGAATG+TGG 0.713404 1:-75242134 None:intergenic
ACGGTGGTGGAGGAAATAGG+TGG 0.747281 1:+75240884 MsaT004891.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 75240739 75243281 75240739 ID=MsaG004891
Chr1 mRNA 75240739 75243281 75240739 ID=MsaT004891.1;Parent=MsaG004891
Chr1 exon 75240739 75241007 75240739 ID=MsaT004891.1.exon1;Parent=MsaT004891.1
Chr1 CDS 75240739 75241007 75240739 ID=cds.MsaT004891.1;Parent=MsaT004891.1
Chr1 exon 75241844 75243281 75241844 ID=MsaT004891.1.exon2;Parent=MsaT004891.1
Chr1 CDS 75241844 75243281 75241844 ID=cds.MsaT004891.1;Parent=MsaT004891.1
Gene Sequence

>MsaT004891.1

ATGCAGCTTGGTGATGCAACAGTAATGATGGAGACTTGCTCCGGTGAGAATATTGTGCCGGTTACGGCGCAAAACGGAGGCGGCGGTGAAGAGAAAGGAAGAGAGATTGGTGGTGAGGAAGATGATAAGATGAATATCAATATTAACGGTGGTGGAGGAAATAGGTGGCCCCGCCAAGAAACATTGGCTCTCTTGAAGATAAGATCAGATATGGATGGTGTTTTTCGTGATTCAAGTCTTAAGGGTCCACTTTGGGAAGAGGTTTCAAGGAAACTAGCTGAACTTGGCTATCATAGAAGCTCAAAGAAGTGCAAGGAGAAATTTGAAAATGTATACAAGTATCACAAAAGAACCAAAGAAGGTAGGAGTGGAAAATCAGAAGGAAAAACCTATAGATTTTTTGATCAATTACAAGCACTTGAAAAACAACTCACATTCTCCTCTTACCATCCAAAACCACAACCAAATAATAACACACTCTCATCACCAACAACAAATCCCAATGAAACCACACAAACAATATCATATGTCACAAACACTGTTCCATCCACAAACCCTACCACATTCGTTTCTCCTTCACCACAACCTAACAACAACAATGTTCCAAATTCTTTGCCAAACATGAACAACCTATTCTCAACCACAACAACTTCAACTTCTTCTTCCACAGCTTCGGACGAAGACTTGGAAGAGAAGTATAGAAAGAAGAGAAAATGGAAGGACTATTTCAGGAGACTCACAAGACAAGTGCTTGCAAAACAAGAGGAAATGCAAAAGAAGTTTCTTGAGGCTATAGACAAACGTGAAAAAGAACACATTGCTCAACAAGATGCTTTGAGAATTCAAGAAATGGATAGAATCAATAAAGAACACGAACTTCTTATCCAAGAAAGATCATCAGCAGCTCAAAAAAATGCAGCTGTTATTGCATTTCTCCAAAAATTGTCTGGACAGCCACCACCACAACCACCGCCAGCACCAGAGCTGTCTCCGTGTCAGACAGCTCTGGCATCACAAGTTCAAACACAGCAACTAGTGATACCAAACAACAACATTGTTGAATTTCAAAATTTGAATAATGGTTACAAAAGTGGTAATGGTGGTGCTTCTCCTTCTCCATCAAGGTGGCCAAAAAGTGAAGTTCATGCTCTAATAAGGATAAGAACAAGTCTTGAACCAAAGTATCAAGAAAATGGGCCAAAAGCGCCATTGTGGGAAGATATTTCAGCTGCAATGAAGAGACAAGGATACAATAGGAATGCGAAAAGGTGCAAAGAAAAATGGGAGAATATCAACAAATACTACAAGAAAATGAAGGAAAGTAACAAGCAAAGGCGTGATGATAGTAAGACATGTCCTTATTTTAATGAACTTGAAGCTATTTACAAAGAAAAGAACAAAACACAGAACCTTTTTGGTTCTAATTCGTTTCATAGCATGAAGTCAAATGAGACGATGGAGCCATTGATGGTGCAGCCAGAACAACAATGGAGACCTCCAACTACATTTGAAGAGGGTGCTGTGGTGAAGAAGAATGTTGATGAAGCAAAAGAAGAAGATGACAATGGTGATGTTGATGATGAAGAAGATGAAAACATGGATGAATATGAAGATGGAGATAGCATGGAAGAAGATGAAGGAGGTGTTAGTAGCCGTTATGAAGTTGTGACAACAAATAAACTTTCATCAATGGACACAGTTGTATGA
Protein sequence

>MsaT004891.1

MQLGDATVMMETCSGENIVPVTAQNGGGGEEKGREIGGEEDDKMNININGGGGNRWPRQETLALLKIRSDMDGVFRDSSLKGPLWEEVSRKLAELGYHRSSKKCKEKFENVYKYHKRTKEGRSGKSEGKTYRFFDQLQALEKQLTFSSYHPKPQPNNNTLSSPTTNPNETTQTISYVTNTVPSTNPTTFVSPSPQPNNNNVPNSLPNMNNLFSTTTTSTSSSTASDEDLEEKYRKKRKWKDYFRRLTRQVLAKQEEMQKKFLEAIDKREKEHIAQQDALRIQEMDRINKEHELLIQERSSAAQKNAAVIAFLQKLSGQPPPQPPPAPELSPCQTALASQVQTQQLVIPNNNIVEFQNLNNGYKSGNGGASPSPSRWPKSEVHALIRIRTSLEPKYQENGPKAPLWEDISAAMKRQGYNRNAKRCKEKWENINKYYKKMKESNKQRRDDSKTCPYFNELEAIYKEKNKTQNLFGSNSFHSMKSNETMEPLMVQPEQQWRPPTTFEEGAVVKKNVDEAKEEDDNGDVDDEEDENMDEYEDGDSMEEDEGGVSSRYEVVTTNKLSSMDTVV*