AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039255


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039255 MtrunA17_Chr7g0256321 100.000 482 0 0 1 482 1 482 0.0 993
MsaG039255 MtrunA17_Chr1g0171771 79.208 505 69 8 1 482 1 492 0.0 727
MsaG039255 MtrunA17_Chr5g0442661 34.239 368 212 9 24 386 66 408 1.41e-51 184
MsaG039255 MtrunA17_Chr2g0291741 35.156 384 222 9 6 386 44 403 2.66e-50 180
MsaG039255 MtrunA17_Chr2g0299621 30.376 372 216 7 24 388 65 400 3.19e-33 132
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039255 AT2G41370.1 78.893 488 76 10 3 478 4 476 0.0 744
MsaG039255 AT3G57130.1 75.625 480 82 8 2 476 4 453 0.0 713
MsaG039255 AT3G57130.2 75.301 166 33 2 2 162 4 166 2.39e-83 255
MsaG039255 AT4G19660.1 31.880 367 208 7 25 386 56 385 5.41e-46 169
MsaG039255 AT4G19660.2 31.880 367 208 7 25 386 56 385 7.69e-46 169
MsaG039255 AT5G45110.1 30.990 384 234 8 6 386 40 395 4.53e-42 158
MsaG039255 AT5G45110.2 30.990 384 234 8 6 386 40 395 7.60e-42 156
MsaG039255 AT1G64280.1 29.132 357 221 6 32 386 73 399 8.08e-33 132
MsaG039255 AT4G26120.1 29.640 361 209 9 33 386 76 398 1.28e-31 128
MsaG039255 AT4G26120.2 29.640 361 209 9 33 386 77 399 1.38e-31 128

Find 119 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAATAGAAAATCTGAAGTT+AGG 0.230108 7:-86650586 None:intergenic
GATGCGAAGCTCTTCGATTT+TGG 0.235029 7:-86650150 None:intergenic
TGTGGGCCAGACCCACCTTC+TGG 0.259914 7:+86648407 MsaT039255.1:CDS
ATGATGGTGGTGAGGCATTA+AGG 0.333824 7:-86650195 None:intergenic
AACAAGACATGCACCAACTA+TGG 0.344045 7:+86650048 MsaT039255.1:CDS
CTAATGCTTCATCAAGGTTT+AGG 0.354695 7:-86650340 None:intergenic
AAGCACAACCTTAGTTTGTT+TGG 0.359212 7:-86650641 None:intergenic
GGAGATGGTCTCACCGGATA+TGG 0.367743 7:+86650484 MsaT039255.1:CDS
TGCAGCCGATGTTAACTTCC+CGG 0.370396 7:+86650424 MsaT039255.1:CDS
CAACCACGGTCACCACAATT+AGG 0.374903 7:-86648584 None:intergenic
CCATCAACTGTTCTCACATT+CGG 0.388403 7:-86650536 None:intergenic
AACTTCCCGGCTGGTCCAAC+GGG 0.394050 7:+86650437 MsaT039255.1:CDS
CATCAACTGTTCTCACATTC+GGG 0.411634 7:-86650535 None:intergenic
CTATTCAAAGGTGCTGTCCC+TGG 0.412212 7:+86650602 MsaT039255.1:CDS
CTGCAATTCTCAACGGCATA+AGG 0.421725 7:-86650368 None:intergenic
AGAAGTTGTGAAAGCCTTGT+TGG 0.425240 7:+86650394 MsaT039255.1:CDS
TGTTATTGTTGTTGTGGCTA+TGG 0.425330 7:-86650799 None:intergenic
GAGATCTTAGTGAGTCTTCA+AGG 0.426128 7:-86648250 None:intergenic
GGGTTGACTCGGTTTCCTGA+TGG 0.427587 7:-86648437 None:intergenic
GAATAGAAAATCTGAAGTTA+GGG 0.433840 7:-86650585 None:intergenic
TCGTAACCAACTGAGTTAAC+TGG 0.436058 7:-86648488 None:intergenic
AGTACTTCAAGAATGGATTC+TGG 0.438677 7:+86650869 MsaT039255.1:CDS
GGTTGACTCGGTTTCCTGAT+GGG 0.440013 7:-86648436 None:intergenic
AACACCAGACCTAGCTGAAC+CGG 0.442219 7:-86648462 None:intergenic
AGCAATACAGCCACCATATC+CGG 0.442702 7:-86650497 None:intergenic
TTCTTCAGAAAATTCTTCTG+TGG 0.443436 7:+86648389 MsaT039255.1:CDS
CTAGTGAAACTCATGGTAAT+GGG 0.452837 7:+86650311 MsaT039255.1:CDS
GCTAGTGAAACTCATGGTAA+TGG 0.456091 7:+86650310 MsaT039255.1:CDS
TCTAATCCAGAAGGTGGGTC+TGG 0.456640 7:-86648413 None:intergenic
CATTAAGGAGCGGCGTGATA+AGG 0.463719 7:-86650180 None:intergenic
GGTTCAATGTGAGTTAATCC+AGG 0.466615 7:-86650620 None:intergenic
GTCTTCAAGGTCGGCTGCAG+CGG 0.467472 7:-86650240 None:intergenic
GTTATACCAGTTAACTCAGT+TGG 0.472537 7:+86648482 MsaT039255.1:CDS
TCCCACCTTGTAGCAAAATC+AGG 0.472615 7:+86650080 MsaT039255.1:CDS
AATCCATGTTATTGTTGTTG+TGG 0.476042 7:-86650805 None:intergenic
TCAAATGAGTACTTCAAGAA+TGG 0.477419 7:+86650862 MsaT039255.1:CDS
GGTCGGCTGCAGCGGTGAGA+TGG 0.490105 7:-86650232 None:intergenic
CTTGTTATGTCAAGGGAAGA+AGG 0.491332 7:+86650686 MsaT039255.1:CDS
GCCGATGTTAACTTCCCGGC+TGG 0.496241 7:+86650428 MsaT039255.1:CDS
AGTTGATGGTGTTACACCCT+TGG 0.497853 7:+86650550 MsaT039255.1:CDS
ATTGTGGTGACCGTGGTTGT+TGG 0.504368 7:+86648588 MsaT039255.1:CDS
TAACTTCCCGGCTGGTCCAA+CGG 0.512321 7:+86650436 MsaT039255.1:CDS
ACAACAATAACATGGATTCA+AGG 0.512387 7:+86650810 MsaT039255.1:CDS
TCTTCAGAAAATTCTTCTGT+GGG 0.516918 7:+86648390 MsaT039255.1:CDS
ACGCTTGTCCGTTGATGAGA+AGG 0.520055 7:-86648292 None:intergenic
AAACAAACTAAGGTTGTGCT+TGG 0.520870 7:+86650643 MsaT039255.1:CDS
CCGAATGTGAGAACAGTTGA+TGG 0.521071 7:+86650536 MsaT039255.1:CDS
CCTTCTGGATTAGACCCATC+AGG 0.521120 7:+86648422 MsaT039255.1:CDS
ACATTGAACCAAACAAACTA+AGG 0.522706 7:+86650633 MsaT039255.1:CDS
GCTACATATTGCAGCGGAGA+TGG 0.524554 7:+86650469 MsaT039255.1:CDS
TGCTACAAGGTGGGAACATG+TGG 0.531996 7:-86650072 None:intergenic
CTGCAGCTCTTGTTATGTCA+AGG 0.533449 7:+86650678 MsaT039255.1:CDS
TAGGGTTCTTAGAATGTCCA+AGG 0.536805 7:-86650567 None:intergenic
CCATCCGGTTCAGCTAGGTC+TGG 0.539454 7:+86648458 MsaT039255.1:CDS
GGAAACCGAGTCAACCCATC+CGG 0.539988 7:+86648443 MsaT039255.1:CDS
GGTCGTGATGGTGAGGATGA+TGG 0.543235 7:-86650211 None:intergenic
TACTTAAACCTTCTCATCAA+CGG 0.546164 7:+86648284 MsaT039255.1:CDS
ATGTATCATCATCACTCTCA+TGG 0.548599 7:+86650932 MsaT039255.1:CDS
AGGTTGGTGTATCTTAACCT+TGG 0.550322 7:+86650830 MsaT039255.1:CDS
CTTGCAGCCGCTAGATACTT+CGG 0.551437 7:+86648653 MsaT039255.1:CDS
TCACATTCGGGTCAGCGTGA+TGG 0.551477 7:-86650523 None:intergenic
CTGAACCGGATGGGTTGACT+CGG 0.552813 7:-86648448 None:intergenic
TATTGTTGTTGTGGCTATGG+TGG 0.553140 7:-86650796 None:intergenic
CAATAACATGGATTCAAGGT+TGG 0.554832 7:+86650814 MsaT039255.1:CDS
GGCCTAGGTTCATGTTTCTG+AGG 0.555362 7:-86648563 None:intergenic
TGCAGCGGAGATGGTCTCAC+CGG 0.562963 7:+86650478 MsaT039255.1:CDS
GTGATGATGATAATACTCAC+AGG 0.563231 7:+86650891 MsaT039255.1:CDS
AAACTCATGGTAATGGGAGA+AGG 0.568060 7:+86650317 MsaT039255.1:CDS
ACAGCTTGCATTGCTCACTC+AGG 0.569799 7:+86648682 MsaT039255.1:CDS
GTAATGCTAATGCTTCATCA+AGG 0.571238 7:-86650346 None:intergenic
GTTCAATGTGAGTTAATCCA+GGG 0.571864 7:-86650619 None:intergenic
GTGAAAGCCTTGTTGGAACT+CGG 0.572326 7:+86650401 MsaT039255.1:CDS
ATGCTTCAGTTTCTGTACAG+TGG 0.576559 7:+86648524 MsaT039255.1:CDS
TTTCATTACATCTTCAATCG+AGG 0.580013 7:-86650006 None:intergenic
CTCGACGTCTGAGGAGTCGA+GGG 0.584832 7:-86650288 None:intergenic
TGCAGCTCTTGTTATGTCAA+GGG 0.587236 7:+86650679 MsaT039255.1:CDS
AAGAGCAAGATCAACGGCTG+AGG 0.588511 7:-86648624 None:intergenic
CGGTCACCACAATTAGGCCT+AGG 0.589003 7:-86648578 None:intergenic
TTCTCTACTGCAATTCTCAA+CGG 0.590267 7:-86650375 None:intergenic
TCAACCCATCCGGTTCAGCT+AGG 0.592108 7:+86648453 MsaT039255.1:CDS
CTAAGATGCATCTGTGTGCG+TGG 0.593852 7:-86648352 None:intergenic
TAAGGAGCGGCGTGATAAGG+AGG 0.595576 7:-86650177 None:intergenic
GGGAACATGTGGTCCATAGT+TGG 0.598309 7:-86650061 None:intergenic
GATGGGTCTAATCCAGAAGG+TGG 0.598545 7:-86648419 None:intergenic
ACAGAAACAACTAGCGAGCA+TGG 0.599468 7:+86649974 MsaT039255.1:intron
AGTTAACTCAGTTGGTTACG+AGG 0.607152 7:+86648490 MsaT039255.1:CDS
GATGGTCTCACCGGATATGG+TGG 0.607668 7:+86650487 MsaT039255.1:CDS
CGAGGGCTCGTCTCATCCGA+CGG 0.607669 7:-86650271 None:intergenic
CAGCGGTGAGATGGTCGTGA+TGG 0.610483 7:-86650223 None:intergenic
CCAGACCTAGCTGAACCGGA+TGG 0.611566 7:-86648458 None:intergenic
GCTCGACGTCTGAGGAGTCG+AGG 0.612628 7:-86650289 None:intergenic
AGATCTTAGTGAGTCTTCAA+GGG 0.612991 7:-86648249 None:intergenic
TTTCACTAGCTCGACGTCTG+AGG 0.613557 7:-86650297 None:intergenic
TCTTCATTCATATTATGATG+AGG 0.620406 7:-86650770 None:intergenic
CCTGATGGGTCTAATCCAGA+AGG 0.623455 7:-86648422 None:intergenic
CAGACCTAGCTGAACCGGAT+GGG 0.623790 7:-86648457 None:intergenic
TGGTGAGGATGATGGTGGTG+AGG 0.629304 7:-86650203 None:intergenic
ATGAGAGTGATGATGATACA+TGG 0.631388 7:-86650930 None:intergenic
CGTGATGGTGAGGATGATGG+TGG 0.631651 7:-86650208 None:intergenic
CGTCGAGCTAGTGAAACTCA+TGG 0.635542 7:+86650304 MsaT039255.1:CDS
TAGCCACAACAACAATAACA+TGG 0.640552 7:+86650802 MsaT039255.1:CDS
CATGAACCTAGGCCTAATTG+TGG 0.646688 7:+86648572 MsaT039255.1:CDS
GGCTGCACCGAGTTCCAACA+AGG 0.646855 7:-86650408 None:intergenic
TCATTTGAGTATTAGCACCA+AGG 0.650291 7:-86650847 None:intergenic
GTGAGATGGTCGTGATGGTG+AGG 0.655300 7:-86650218 None:intergenic
ATGGGTCTAATCCAGAAGGT+GGG 0.656727 7:-86648418 None:intergenic
ATCTCCGCTGCAATATGTAG+CGG 0.657846 7:-86650467 None:intergenic
AGTATCAAGAGCAAGATCAA+CGG 0.660445 7:-86648630 None:intergenic
AGGGTTCTTAGAATGTCCAA+GGG 0.662287 7:-86650566 None:intergenic
TTCAACTCCGAAGTATCTAG+CGG 0.662542 7:-86648660 None:intergenic
TTCCTCAGAAACATGAACCT+AGG 0.668829 7:+86648561 MsaT039255.1:CDS
AACTCCGCTACATATTGCAG+CGG 0.669845 7:+86650463 MsaT039255.1:CDS
GGTGGTGAGGCATTAAGGAG+CGG 0.674544 7:-86650190 None:intergenic
AATGTGTATGCCAACAACCA+CGG 0.675672 7:-86648598 None:intergenic
TGATGATGATAATACTCACA+GGG 0.685503 7:+86650892 MsaT039255.1:CDS
ACCAGCCGGGAAGTTAACAT+CGG 0.692763 7:-86650429 None:intergenic
TTGAAGACCAGAAAATCCGT+CGG 0.696642 7:+86650255 MsaT039255.1:CDS
AGGCCTAATTGTGGTGACCG+TGG 0.704495 7:+86648581 MsaT039255.1:CDS
GAAACAACTAGCGAGCATGG+TGG 0.736366 7:+86649977 MsaT039255.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 86648245 86650967 86648245 ID=MsaG039255
Chr7 mRNA 86648245 86650967 86648245 ID=MsaT039255.1;Parent=MsaG039255
Chr7 exon 86648245 86648703 86648245 ID=MsaT039255.1.exon1;Parent=MsaT039255.1
Chr7 CDS 86648245 86648703 86648245 ID=cds.MsaT039255.1;Parent=MsaT039255.1
Chr7 exon 86649978 86650967 86649978 ID=MsaT039255.1.exon2;Parent=MsaT039255.1
Chr7 CDS 86649978 86650967 86649978 ID=cds.MsaT039255.1;Parent=MsaT039255.1
Gene Sequence

>MsaT039255.1

ATGTCCCTTGAAGACTCACTAAGATCTCTTTCTTTAGATTACTTAAACCTTCTCATCAACGGACAAGCGTTCAGCGACGTTGTTTTCAGCGTCGAAGGACGTTTAGTCCACGCACACAGATGCATCTTAGCAGCAAGAAGTCTCTTCTTCAGAAAATTCTTCTGTGGGCCAGACCCACCTTCTGGATTAGACCCATCAGGAAACCGAGTCAACCCATCCGGTTCAGCTAGGTCTGGTGTTATACCAGTTAACTCAGTTGGTTACGAGGTTTTCTTGTTGATGCTTCAGTTTCTGTACAGTGGACAAGTTTCTATTGTTCCTCAGAAACATGAACCTAGGCCTAATTGTGGTGACCGTGGTTGTTGGCATACACATTGTACCTCAGCCGTTGATCTTGCTCTTGATACTCTTGCAGCCGCTAGATACTTCGGAGTTGAACAGCTTGCATTGCTCACTCAGAAACAACTAGCGAGCATGGTGGAAAAAGCCTCGATTGAAGATGTAATGAAAGTGCTCCTAGCATCAAGAAAACAAGACATGCACCAACTATGGACCACATGTTCCCACCTTGTAGCAAAATCAGGTCTTCCCCCAGAAGTACTTGCAAAACATCTCCCTATTGATATCATAGCCAAAATCGAAGAGCTTCGCATCAAAACCTCCTTATCACGCCGCTCCTTAATGCCTCACCACCATCATCCTCACCATCACGACCATCTCACCGCTGCAGCCGACCTTGAAGACCAGAAAATCCGTCGGATGAGACGAGCCCTCGACTCCTCAGACGTCGAGCTAGTGAAACTCATGGTAATGGGAGAAGGCCTAAACCTTGATGAAGCATTAGCATTACCTTATGCCGTTGAGAATTGCAGTAGAGAAGTTGTGAAAGCCTTGTTGGAACTCGGTGCAGCCGATGTTAACTTCCCGGCTGGTCCAACGGGTAAAACTCCGCTACATATTGCAGCGGAGATGGTCTCACCGGATATGGTGGCTGTATTGCTCGACCATCACGCTGACCCGAATGTGAGAACAGTTGATGGTGTTACACCCTTGGACATTCTAAGAACCCTAACTTCAGATTTTCTATTCAAAGGTGCTGTCCCTGGATTAACTCACATTGAACCAAACAAACTAAGGTTGTGCTTGGAACTTGTTCAATCTGCAGCTCTTGTTATGTCAAGGGAAGAAGGAAATAACAACAATAGTAATAATAATAATAATGCTACAGCTTCTTCAGCAACAAATATGTATCCTCATCATAATATGAATGAAGATCACCACCATAGCCACAACAACAATAACATGGATTCAAGGTTGGTGTATCTTAACCTTGGTGCTAATACTCAAATGAGTACTTCAAGAATGGATTCTGGTGATGATGATAATACTCACAGGGAAGCTATCAACAACTCCATGTATCATCATCACTCTCATGGTCATGACTACTAA

Protein sequence

>MsaT039255.1

MSLEDSLRSLSLDYLNLLINGQAFSDVVFSVEGRLVHAHRCILAARSLFFRKFFCGPDPPSGLDPSGNRVNPSGSARSGVIPVNSVGYEVFLLMLQFLYSGQVSIVPQKHEPRPNCGDRGCWHTHCTSAVDLALDTLAAARYFGVEQLALLTQKQLASMVEKASIEDVMKVLLASRKQDMHQLWTTCSHLVAKSGLPPEVLAKHLPIDIIAKIEELRIKTSLSRRSLMPHHHHPHHHDHLTAAADLEDQKIRRMRRALDSSDVELVKLMVMGEGLNLDEALALPYAVENCSREVVKALLELGAADVNFPAGPTGKTPLHIAAEMVSPDMVAVLLDHHADPNVRTVDGVTPLDILRTLTSDFLFKGAVPGLTHIEPNKLRLCLELVQSAALVMSREEGNNNNSNNNNNATASSATNMYPHHNMNEDHHHSHNNNNMDSRLVYLNLGANTQMSTSRMDSGDDDNTHREAINNSMYHHHSHGHDY*