AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039381

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039381 MtrunA17_Chr7g0257681 97.015 268 8 0 1 268 1 268 0.0 538
MsaG039381 MtrunA17_Chr1g0173421 67.247 287 73 4 1 268 1 285 9.75e-133 377
MsaG039381 MtrunA17_Chr6g0451591 42.038 157 83 3 2 154 50 202 1.36e-35 127
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039381 AT2G41835.1 58.451 284 95 5 1 268 1 277 2.13e-111 322
MsaG039381 AT3G57480.2 57.836 268 92 4 1 268 1 247 5.40e-103 300
MsaG039381 AT3G57480.1 57.836 268 92 4 1 268 1 247 5.40e-103 300
MsaG039381 AT3G28210.2 44.872 156 77 4 2 154 5 154 9.05e-36 126
MsaG039381 AT3G28210.1 44.872 156 77 4 2 154 5 154 9.05e-36 126
MsaG039381 AT5G48205.1 54.128 109 22 3 1 106 1 84 5.45e-28 106

Find 69 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGACGTGGTTGAAGTTAAAT+TGG 0.210618 7:+88428177 None:intergenic
TTGGATCTTGGTCTGGAATT+AGG 0.236801 7:+88428464 None:intergenic
AGGAGTGGCGGCAACCAATA+TGG 0.258450 7:-88427989 MsaT039381.1:CDS
ACCAAGATCCAAACATAGTT+TGG 0.297216 7:-88428453 MsaT039381.1:CDS
ACATGCTCTACAAGGGAAAC+TGG 0.328561 7:+88427911 None:intergenic
ATTGCCTAGATCTGGGAATT+CGG 0.342435 7:+88429824 None:intergenic
CCCAAACTATGTTTGGATCT+TGG 0.346442 7:+88428452 None:intergenic
GACTTCAAGCCTTCTTGACT+TGG 0.353989 7:-88428146 MsaT039381.1:CDS
CACTTGTGATCGTTGCAATC+AGG 0.365381 7:-88429757 MsaT039381.1:intron
GAGCAATGATTGCCTAGATC+TGG 0.366000 7:+88429816 None:intergenic
AACGGTGACATCTTGTTTGT+TGG 0.370225 7:+88428519 None:intergenic
TATGTCCACTTTGTGCTAAA+GGG 0.378295 7:-88428492 MsaT039381.1:CDS
ACACTTTCTTTGCCCCATAT+TGG 0.384670 7:+88427975 None:intergenic
CAGAAAACCTTTACTGCACT+TGG 0.385251 7:+88427937 None:intergenic
GGTCCAGGACATTTGTGATC+AGG 0.386396 7:+88428271 None:intergenic
GGAGTGGCGGCAACCAATAT+GGG 0.400426 7:-88427988 MsaT039381.1:CDS
TGACGCTCCCAAACTATGTT+TGG 0.404477 7:+88428445 None:intergenic
CATTGTTTGAAGCACAGGTT+TGG 0.404986 7:-88428295 MsaT039381.1:CDS
ACTAAGGTCTCTCTGCATCC+TGG 0.410212 7:+88428358 None:intergenic
ATATGTCCACTTTGTGCTAA+AGG 0.412254 7:-88428493 MsaT039381.1:CDS
TTGACCATTGTTTGAAGCAC+AGG 0.415680 7:-88428300 MsaT039381.1:CDS
TTGCCTAGATCTGGGAATTC+GGG 0.420594 7:+88429825 None:intergenic
CTAAGGTCTCTCTGCATCCT+GGG 0.434135 7:+88428359 None:intergenic
GACGTGGTTGAAGTTAAATT+GGG 0.435317 7:+88428178 None:intergenic
ACTATGTTTGGATCTTGGTC+TGG 0.435501 7:+88428457 None:intergenic
ACGGTGACATCTTGTTTGTT+GGG 0.438220 7:+88428520 None:intergenic
CCCTCTCAACATGCTCTACA+AGG 0.443451 7:+88427903 None:intergenic
CCAAGATCCAAACATAGTTT+GGG 0.458482 7:-88428452 MsaT039381.1:CDS
GTCTCTCTGCATCCTGGGGC+AGG 0.461132 7:+88428364 None:intergenic
TGGTACTAGTAATAATCAAC+TGG 0.476635 7:-88428086 MsaT039381.1:CDS
GATTGTGTTTGAGAATACTA+AGG 0.477004 7:+88428342 None:intergenic
GCATGCCCCAAGTGCAGTAA+AGG 0.479086 7:-88427944 MsaT039381.1:CDS
GCTTCTAAATTGAGTGGGAT+AGG 0.483203 7:-88428124 MsaT039381.1:CDS
ATCCACCAAACTCGTGGCCG+AGG 0.511045 7:+88428033 None:intergenic
TTCCTCGGCCACGAGTTTGG+TGG 0.518637 7:-88428035 MsaT039381.1:CDS
CTCAAACACAATCAAGTGTA+GGG 0.519840 7:-88428332 MsaT039381.1:CDS
ATTTAGAAGCCAAGTCAAGA+AGG 0.521688 7:+88428137 None:intergenic
GGACCTGATCACAAATGTCC+TGG 0.523810 7:-88428274 MsaT039381.1:CDS
AGAAAACCTTTACTGCACTT+GGG 0.532761 7:+88427938 None:intergenic
CATGCTCTACAAGGGAAACT+GGG 0.533711 7:+88427912 None:intergenic
ACTTGGCTTCTAAATTGAGT+GGG 0.535363 7:-88428129 MsaT039381.1:CDS
CTTCAACCACGTCATCTAAG+TGG 0.540578 7:-88428168 MsaT039381.1:CDS
CCTTGTAGAGCATGTTGAGA+GGG 0.543468 7:-88427903 MsaT039381.1:CDS
ACTCCCGAATTCCCAGATCT+AGG 0.548420 7:-88429828 MsaT039381.1:CDS
GACTTGGCTTCTAAATTGAG+TGG 0.550800 7:-88428130 MsaT039381.1:CDS
AGCAATGATTGCCTAGATCT+GGG 0.556635 7:+88429817 None:intergenic
CAAACCTGTGCTTCAAACAA+TGG 0.566927 7:+88428296 None:intergenic
GAGCATGTTGAGAGGGATCA+TGG 0.569049 7:-88427896 MsaT039381.1:CDS
ATGTCCACTTTGTGCTAAAG+GGG 0.570588 7:-88428491 MsaT039381.1:CDS
GAAAACCTTTACTGCACTTG+GGG 0.571579 7:+88427939 None:intergenic
TCTCAAACACAATCAAGTGT+AGG 0.571728 7:-88428333 MsaT039381.1:CDS
ATAGGACAGAGCAGTGGCAG+TGG 0.577401 7:-88428106 MsaT039381.1:CDS
CGCATGATCCACCAAACTCG+TGG 0.584791 7:+88428027 None:intergenic
ATTGCAACGATCACAAGTGA+AGG 0.586850 7:+88429761 None:intergenic
AGTCTTTGGAATATGAGTAA+TGG 0.594698 7:-88428217 MsaT039381.1:CDS
AATTATGCTCAATATAACTT+CGG 0.599455 7:+88428551 None:intergenic
CCCTTGTAGAGCATGTTGAG+AGG 0.611040 7:-88427904 MsaT039381.1:CDS
GAAAACTTAGCATCACATAG+TGG 0.613925 7:+88428055 None:intergenic
CGAACCCCTTTAGCACAAAG+TGG 0.621156 7:+88428487 None:intergenic
AAAGTTCATCAAAGGAGTGG+CGG 0.638449 7:-88428001 MsaT039381.1:CDS
TGAAGTCCACTTAGATGACG+TGG 0.643218 7:+88428162 None:intergenic
TTGCAACGATCACAAGTGAA+GGG 0.653221 7:+88429762 None:intergenic
CCTCTCAACATGCTCTACAA+GGG 0.654661 7:+88427904 None:intergenic
TAAGGTCTCTCTGCATCCTG+GGG 0.659577 7:+88428360 None:intergenic
GAGTGGCGGCAACCAATATG+GGG 0.665147 7:-88427987 MsaT039381.1:CDS
AATCAAGTGTAGGGACTGTG+AGG 0.678787 7:-88428323 MsaT039381.1:CDS
AGTGGGATAGGACAGAGCAG+TGG 0.703021 7:-88428112 MsaT039381.1:CDS
ACAAAGTGGACATATAACAA+CGG 0.739755 7:+88428501 None:intergenic
CATGTTGAGAGGGATCATGG+TGG 0.808965 7:-88427893 MsaT039381.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 88427883 88429856 88427883 ID=MsaG039381
Chr7 mRNA 88427883 88429856 88427883 ID=MsaT039381.1;Parent=MsaG039381
Chr7 exon 88427883 88428590 88427883 ID=MsaT039381.1.exon2;Parent=MsaT039381.1
Chr7 CDS 88427883 88428590 88427883 ID=cds.MsaT039381.1;Parent=MsaT039381.1
Chr7 exon 88429758 88429856 88429758 ID=MsaT039381.1.exon1;Parent=MsaT039381.1
Chr7 CDS 88429758 88429856 88429758 ID=cds.MsaT039381.1;Parent=MsaT039381.1
Gene Sequence

>MsaT039381.1

ATGGGGACTCCCGAATTCCCAGATCTAGGCAATCATTGCTCTGTTTCTGATTGCAGACTCATCGATTTCTTGCCCTTCACTTGTGATCGTTGCAATCAGGTATATTGTTTGGGGCACCGAAGTTATATTGAGCATAATTGTACAAAACCCAACAAACAAGATGTCACCGTTGTTATATGTCCACTTTGTGCTAAAGGGGTTCGCCTAATTCCAGACCAAGATCCAAACATAGTTTGGGAGCGTCATGTGAACACAGACTGTGATCCATCAAATTATGAAAAAGCCACAAAGAAGAAAAAGTGTCCTGCCCCAGGATGCAGAGAGACCTTAGTATTCTCAAACACAATCAAGTGTAGGGACTGTGAGGTTGACCATTGTTTGAAGCACAGGTTTGGACCTGATCACAAATGTCCTGGACCCAAAAAGTTGGAAACAAGTTTTTCATTTATGAGTCTTTGGAATATGAGTAATGGTAAAGAAGAGTCAAAACCCAATTTAACTTCAACCACGTCATCTAAGTGGACTTCAAGCCTTCTTGACTTGGCTTCTAAATTGAGTGGGATAGGACAGAGCAGTGGCAGTGGTACTAGTAATAATCAACTGGAGAAGTGTCCACTATGTGATGCTAAGTTTTCCTCGGCCACGAGTTTGGTGGATCATGCGAAAAAAGTTCATCAAAGGAGTGGCGGCAACCAATATGGGGCAAAGAAAGTGTCGATTTCTGCATGCCCCAAGTGCAGTAAAGGTTTTCTGGACCCAGTTTCCCTTGTAGAGCATGTTGAGAGGGATCATGGTGGTTGTTCTTGA
Protein sequence

>MsaT039381.1

MGTPEFPDLGNHCSVSDCRLIDFLPFTCDRCNQVYCLGHRSYIEHNCTKPNKQDVTVVICPLCAKGVRLIPDQDPNIVWERHVNTDCDPSNYEKATKKKKCPAPGCRETLVFSNTIKCRDCEVDHCLKHRFGPDHKCPGPKKLETSFSFMSLWNMSNGKEESKPNLTSTTSSKWTSSLLDLASKLSGIGQSSGSGTSNNQLEKCPLCDAKFSSATSLVDHAKKVHQRSGGNQYGAKKVSISACPKCSKGFLDPVSLVEHVERDHGGCS*