AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG031998

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031998 MtrunA17_Chr6g0463911 94.900 451 20 1 1 451 1 448 0.0 746
MsaG031998 MtrunA17_Chr1g0201951 71.562 429 109 6 24 445 23 445 0.0 592
MsaG031998 MtrunA17_Chr2g0328901 41.928 415 209 6 37 444 22 411 7.73e-92 285
MsaG031998 MtrunA17_Chr7g0265561 50.000 244 101 6 11 248 1 229 2.24e-66 219
MsaG031998 MtrunA17_Chr1g0179561 62.420 157 56 3 93 248 95 249 4.41e-58 198
MsaG031998 MtrunA17_Chr1g0179561 48.000 75 39 0 371 445 406 480 1.17e-17 85.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031998 AT1G21200.1 61.707 457 147 10 1 446 1 440 6.28e-178 505
MsaG031998 AT1G21200.2 61.707 457 147 10 1 446 1 440 6.28e-178 505
MsaG031998 AT1G76870.2 52.283 438 145 15 17 447 3 383 1.64e-125 370
MsaG031998 AT1G76870.1 52.283 438 145 15 17 447 3 383 1.64e-125 370
MsaG031998 AT1G76870.3 52.283 438 145 15 17 447 3 383 1.64e-125 370
MsaG031998 AT3G10040.1 54.598 174 64 3 94 252 73 246 6.19e-46 165

Find 112 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTGCAGTGTTGCAGAAAA+AGG 0.201562 6:-41964274 MsaT031998.1:CDS
CATGAAGATGCTACTACTTT+TGG 0.214221 6:-41963739 MsaT031998.1:CDS
AGAAGGAAGTAGAGGGAAAA+AGG 0.214962 6:-41964412 MsaT031998.1:CDS
AATGCAATCTATTACAATTA+TGG 0.268261 6:+41963995 None:intergenic
GGTGATAGTCGTGGAATCTT+TGG 0.277406 6:-41963805 MsaT031998.1:CDS
AATTCAACGATCTTAATAAA+AGG 0.306147 6:-41964179 MsaT031998.1:CDS
ATAACGGCGGTGTCTTATAT+TGG 0.308369 6:-41964339 MsaT031998.1:CDS
TATCATGATCATCTCTATTT+CGG 0.312915 6:+41963929 None:intergenic
ATCTTAATAAAAGGTATAAA+AGG 0.318059 6:-41964170 MsaT031998.1:CDS
AGAACAGAAGCTACAGATTC+AGG 0.318762 6:-41963569 MsaT031998.1:CDS
GTGATAGTCGTGGAATCTTT+GGG 0.328076 6:-41963804 MsaT031998.1:CDS
TGGGAATTCTTTAAATTGTC+AGG 0.360558 6:-41963719 MsaT031998.1:CDS
TGACGAGGATGATCATGATA+TGG 0.392416 6:-41963872 MsaT031998.1:CDS
CAAAAGTAGTAGCATCTTCA+TGG 0.393797 6:+41963740 None:intergenic
CTGTCAAGTTGTTGAAAATC+CGG 0.402795 6:-41964118 MsaT031998.1:CDS
CGGCGGCACCAGCTTTAACT+AGG 0.419109 6:-41963398 None:intergenic
GTCGATGAACGAGTTTAGTC+AGG 0.421399 6:-41964502 MsaT031998.1:CDS
TTCAACGTCCCTATTGTAAG+AGG 0.429215 6:+41964543 None:intergenic
TAAGTGGAAATCTATATCTA+AGG 0.434785 6:-41964250 MsaT031998.1:CDS
CAAGGTGATGGTGGTGGTGG+TGG 0.436461 6:-41964699 MsaT031998.1:CDS
GAAATCTATATCTAAGGTTA+TGG 0.439671 6:-41964244 MsaT031998.1:CDS
TGTAAGGACCGTTGCAATGC+AGG 0.440711 6:+41963961 None:intergenic
AGATGGAAATCAAGCTTTAC+CGG 0.441260 6:-41963653 MsaT031998.1:CDS
GTTCAAGGTGATGGTGGTGG+TGG 0.446247 6:-41964702 MsaT031998.1:CDS
ATTTCGGAGAGCTATTTGTA+AGG 0.472772 6:+41963945 None:intergenic
GTGCTTTCTTCGATTAATGA+AGG 0.476946 6:-41964570 MsaT031998.1:CDS
TAGTAGCATCTTCATGGCCT+TGG 0.479201 6:+41963746 None:intergenic
GGTAAAGCTTGATTTCCATC+TGG 0.481200 6:+41963655 None:intergenic
AACTCATCCGTGTCAAGGGC+CGG 0.484357 6:-41964595 MsaT031998.1:CDS
TGTTGAAAATCCGGCTTTGT+TGG 0.486943 6:-41964109 MsaT031998.1:CDS
ACAGATTCAGGTTGAGATGA+TGG 0.487352 6:-41963557 MsaT031998.1:CDS
TCTCAAGGAGGTATAGTTCA+AGG 0.489422 6:-41964717 MsaT031998.1:CDS
CGCCTTGGCAGCGTGTGAAG+TGG 0.492977 6:-41964386 MsaT031998.1:CDS
GGGAGTTCTGAAGGTGGTAG+TGG 0.493151 6:-41964309 MsaT031998.1:CDS
AAGCTTGATTTCCATCTGGT+TGG 0.498671 6:+41963659 None:intergenic
CAGCTTGGTTACAGAAGCAA+TGG 0.506444 6:-41963618 MsaT031998.1:CDS
AAAAGGCTTAACGATATGCT+TGG 0.506945 6:-41964153 MsaT031998.1:CDS
CGATGAACTCGCATCGATCC+CGG 0.508975 6:+41964654 None:intergenic
GTGTCTTATATTGGCGAGGA+CGG 0.520156 6:-41964330 MsaT031998.1:CDS
GAACTAAAGCGAAAGGAGAT+CGG 0.524201 6:-41963418 MsaT031998.1:CDS
CTGAAGGTGGTAGTGGTGGA+AGG 0.527560 6:-41964302 MsaT031998.1:CDS
CTCGTCATGATCATCATGAT+AGG 0.537593 6:+41963888 None:intergenic
TCGATTACATCCAACAAAGC+CGG 0.539815 6:+41964099 None:intergenic
GAGGAAGATGAGCCGGAGGA+AGG 0.539815 6:-41964453 MsaT031998.1:CDS
AGCTTGGTTACAGAAGCAAT+GGG 0.542768 6:-41963617 MsaT031998.1:CDS
GAGCCGGAGGAAGGTGGTGA+TGG 0.542968 6:-41964444 MsaT031998.1:CDS
GGCTTAACGATATGCTTGGA+AGG 0.546544 6:-41964149 MsaT031998.1:CDS
TGCTTTAGAACTAAAGCGAA+AGG 0.547442 6:-41963425 MsaT031998.1:CDS
CATAAAAGTTCATATCCTCA+TGG 0.548000 6:-41963691 MsaT031998.1:CDS
ATATCTTAACGAGAAAGAAA+AGG 0.550124 6:-41964076 MsaT031998.1:CDS
CATCAAACTCATCCGTGTCA+AGG 0.557158 6:-41964600 MsaT031998.1:CDS
TGTCTTATATTGGCGAGGAC+GGG 0.557593 6:-41964329 MsaT031998.1:CDS
GGGGAGTGAGGAAGATGAGC+CGG 0.557735 6:-41964460 MsaT031998.1:CDS
CGGAAAACATGAAAGCAGCT+TGG 0.558783 6:-41963633 MsaT031998.1:CDS
GGACAGATGGTCCAACCAGA+TGG 0.560352 6:-41963670 MsaT031998.1:CDS
ATCAAACTCATCCGTGTCAA+GGG 0.560403 6:-41964599 MsaT031998.1:CDS
GACACGGATGAGTTTGATGT+TGG 0.561258 6:+41964604 None:intergenic
GGCGAGGACGGGAGTTCTGA+AGG 0.563055 6:-41964318 MsaT031998.1:CDS
ATAGTTCAAGGTGATGGTGG+TGG 0.564193 6:-41964705 MsaT031998.1:CDS
AGAGTTGGAGAAGTTCAAGC+TGG 0.565535 6:-41963482 MsaT031998.1:CDS
TGATGTTGGTTCATCGTATG+CGG 0.567222 6:+41964618 None:intergenic
GGATGATCATGATATGGAAA+CGG 0.567609 6:-41963866 MsaT031998.1:CDS
TTCATATCCTCATGGACAGA+TGG 0.571432 6:-41963683 MsaT031998.1:CDS
TCTAAGGTTATGGCTGAAAG+AGG 0.573389 6:-41964234 MsaT031998.1:CDS
CGCACGATCCTGCATTGCAA+CGG 0.573999 6:-41963969 MsaT031998.1:CDS
GCTTGAACTTCTCCAACTCT+CGG 0.574294 6:+41963485 None:intergenic
GGTATAGTTCAAGGTGATGG+TGG 0.576507 6:-41964708 MsaT031998.1:CDS
AGCACCGCCGGCCCTTGACA+CGG 0.577678 6:+41964588 None:intergenic
GCTTAACGATATGCTTGGAA+GGG 0.580590 6:-41964148 MsaT031998.1:CDS
AAACAAACACTCGGGGAGTG+AGG 0.580768 6:-41964472 MsaT031998.1:CDS
GGAGGTATAGTTCAAGGTGA+TGG 0.582990 6:-41964711 MsaT031998.1:CDS
GTCCACTTCACACGCTGCCA+AGG 0.587195 6:+41964384 None:intergenic
TTAGCAAACCTAGTTAAAGC+TGG 0.588173 6:+41963390 None:intergenic
TGACCATCACCACCTTCCTC+CGG 0.589498 6:+41964441 None:intergenic
CGTTGCAATGCAGGATCGTG+CGG 0.590521 6:+41963970 None:intergenic
GGAGAAAGAAACAAACACTC+GGG 0.593309 6:-41964480 MsaT031998.1:CDS
GCTTCCCATGGTGATAGTCG+TGG 0.593985 6:-41963814 MsaT031998.1:CDS
CTTAACGATATGCTTGGAAG+GGG 0.602105 6:-41964147 MsaT031998.1:CDS
GAGTGAGGAAGATGAGCCGG+AGG 0.604600 6:-41964457 MsaT031998.1:CDS
CATCATCAAGAAGGAAGTAG+AGG 0.606503 6:-41964420 MsaT031998.1:CDS
GATAGTCGTGGAATCTTTGG+GGG 0.608379 6:-41963802 MsaT031998.1:CDS
AGTTCTGAAGGTGGTAGTGG+TGG 0.609983 6:-41964306 MsaT031998.1:CDS
TCGATGCGAGTTCATCGTCA+AGG 0.616549 6:-41964648 MsaT031998.1:CDS
AATTTATCCTCACATTGCTG+AGG 0.616974 6:+41964198 None:intergenic
GAAGATGAGCCGGAGGAAGG+TGG 0.617091 6:-41964450 MsaT031998.1:CDS
GGGAGAAAGAAACAAACACT+CGG 0.617150 6:-41964481 MsaT031998.1:CDS
GGTGATGGTCATCATCAAGA+AGG 0.617927 6:-41964429 MsaT031998.1:CDS
TGTGAAGTGGACTGATAAGA+TGG 0.627029 6:-41964373 MsaT031998.1:CDS
TGATAGTCGTGGAATCTTTG+GGG 0.627172 6:-41963803 MsaT031998.1:CDS
ATGATAACGATGATGTGAGA+AGG 0.627318 6:-41963912 MsaT031998.1:CDS
ATCATCAAGAAGGAAGTAGA+GGG 0.627850 6:-41964419 MsaT031998.1:CDS
CGATGCGAGTTCATCGTCAA+GGG 0.633456 6:-41964647 MsaT031998.1:CDS
GAAGACAACTATGCTTCCCA+TGG 0.637080 6:-41963826 MsaT031998.1:CDS
TTAATCGAAGAAAGCACCGC+CGG 0.638253 6:+41964576 None:intergenic
ATGGAAGGGAATTTGTCTCA+AGG 0.640788 6:-41964732 MsaT031998.1:CDS
TGTTGTTGAGAAGAAATGGA+AGG 0.642321 6:-41964747 None:intergenic
GTTGTTGAGAAGAAATGGAA+GGG 0.643736 6:-41964746 None:intergenic
TCGATGAACGAGTTTAGTCA+GGG 0.648981 6:-41964501 MsaT031998.1:CDS
TCATCCGTGTCAAGGGCCGG+CGG 0.649182 6:-41964592 MsaT031998.1:CDS
GGCGGTGTCTTATATTGGCG+AGG 0.657443 6:-41964334 MsaT031998.1:CDS
CTATCATGATGATCATGACG+AGG 0.661777 6:-41963887 MsaT031998.1:CDS
GATTCCACGACTATCACCAT+GGG 0.673002 6:+41963810 None:intergenic
AGATTCCACGACTATCACCA+TGG 0.684798 6:+41963809 None:intergenic
AAAAGACTAAGACAAGGCCA+AGG 0.689910 6:-41963763 MsaT031998.1:CDS
GGTTGGACCATCTGTCCATG+AGG 0.692063 6:+41963676 None:intergenic
TGTTTCGCCTCAGCAATGTG+AGG 0.699798 6:-41964205 MsaT031998.1:CDS
GAGAAAGAAACAAACACTCG+GGG 0.700667 6:-41964479 MsaT031998.1:CDS
GAAGGGAATTTGTCTCAAGG+AGG 0.706788 6:-41964729 MsaT031998.1:CDS
CTAAAGCGAAAGGAGATCGG+CGG 0.708226 6:-41963415 MsaT031998.1:CDS
GAGGACGGGAGTTCTGAAGG+TGG 0.721621 6:-41964315 MsaT031998.1:CDS
AGTGGACTGATAAGATGGTG+AGG 0.726752 6:-41964368 MsaT031998.1:CDS
ACTACGAAAAGACTAAGACA+AGG 0.735602 6:-41963769 MsaT031998.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 41963399 41964754 41963399 ID=MsaG031998
Chr6 mRNA 41963399 41964754 41963399 ID=MsaT031998.1;Parent=MsaG031998
Chr6 exon 41963399 41964754 41963399 ID=MsaT031998.1.exon1;Parent=MsaT031998.1
Chr6 CDS 41963399 41964754 41963399 ID=cds.MsaT031998.1;Parent=MsaT031998.1
Gene Sequence

>MsaT031998.1

ATGGAAGGGAATTTGTCTCAAGGAGGTATAGTTCAAGGTGATGGTGGTGGTGGTGGTTCTTTTGGTGGTTTTGATTTGCCGGGATCGATGCGAGTTCATCGTCAAGGGCAGAATCCGCATACGATGAACCAACATCAAACTCATCCGTGTCAAGGGCCGGCGGTGCTTTCTTCGATTAATGAAGGTTTTCCTCTTACAATAGGGACGTTGAAGAACTGTGATCAGACGATGTCGATGAACGAGTTTAGTCAGGGAGAAAGAAACAAACACTCGGGGAGTGAGGAAGATGAGCCGGAGGAAGGTGGTGATGGTCATCATCAAGAAGGAAGTAGAGGGAAAAAGGGGTCGCCTTGGCAGCGTGTGAAGTGGACTGATAAGATGGTGAGGCTTTTGATAACGGCGGTGTCTTATATTGGCGAGGACGGGAGTTCTGAAGGTGGTAGTGGTGGAAGGAAAAAATTTGCAGTGTTGCAGAAAAAGGGTAAGTGGAAATCTATATCTAAGGTTATGGCTGAAAGAGGTTATCGTGTTTCGCCTCAGCAATGTGAGGATAAATTCAACGATCTTAATAAAAGGTATAAAAGGCTTAACGATATGCTTGGAAGGGGAACCTCCTGTCAAGTTGTTGAAAATCCGGCTTTGTTGGATGTAATCGAATATCTTAACGAGAAAGAAAAGGATGATGTTAGAAAAATATTGAACTCGAAACATCTCTTCTATGAAGAGATGTGTTCTTACCATAATTGTAATAGATTGCATTTGCCGCACGATCCTGCATTGCAACGGTCCTTACAAATAGCTCTCCGAAATAGAGATGATCATGATAACGATGATGTGAGAAGGTCCTATCATGATGATCATGACGAGGATGATCATGATATGGAAACGGACGATCATGATGAGTTCGAAGACAACTATGCTTCCCATGGTGATAGTCGTGGAATCTTTGGGGGATTGGCGGGAACTACGAAAAGACTAAGACAAGGCCAAGGCCATGAAGATGCTACTACTTTTGGGAATTCTTTAAATTGTCAGGAGTACCATAAAAGTTCATATCCTCATGGACAGATGGTCCAACCAGATGGAAATCAAGCTTTACCGGAAAACATGAAAGCAGCTTGGTTACAGAAGCAATGGGTTGAATCTCGCTCAGTTCAGTTAGAAGAACAGAAGCTACAGATTCAGGTTGAGATGATGGAACTAAAGAAACAAAAATTCAAGTGGGAGAGGTTTAGCAAGAAAAAAGACCGAGAGTTGGAGAAGTTCAAGCTGGAGAACGACAGAATGAAGATTGAGAATGAACGTATTGCTTTAGAACTAAAGCGAAAGGAGATCGGCGGCACCAGCTTTAACTAG
Protein sequence

>MsaT031998.1

MEGNLSQGGIVQGDGGGGGSFGGFDLPGSMRVHRQGQNPHTMNQHQTHPCQGPAVLSSINEGFPLTIGTLKNCDQTMSMNEFSQGERNKHSGSEEDEPEEGGDGHHQEGSRGKKGSPWQRVKWTDKMVRLLITAVSYIGEDGSSEGGSGGRKKFAVLQKKGKWKSISKVMAERGYRVSPQQCEDKFNDLNKRYKRLNDMLGRGTSCQVVENPALLDVIEYLNEKEKDDVRKILNSKHLFYEEMCSYHNCNRLHLPHDPALQRSLQIALRNRDDHDNDDVRRSYHDDHDEDDHDMETDDHDEFEDNYASHGDSRGIFGGLAGTTKRLRQGQGHEDATTFGNSLNCQEYHKSSYPHGQMVQPDGNQALPENMKAAWLQKQWVESRSVQLEEQKLQIQVEMMELKKQKFKWERFSKKKDRELEKFKLENDRMKIENERIALELKRKEIGGTSFN*