AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001798


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001798 MtrunA17_Chr1g0168181 97.516 161 4 0 1 161 5 165 4.00e-119 333
MsaG001798 MtrunA17_Chr1g0187231 40.000 200 64 11 1 157 1 187 1.91e-23 91.3
MsaG001798 MtrunA17_Chr4g0032111 33.548 155 88 4 14 157 13 163 6.56e-16 70.9
MsaG001798 MtrunA17_Chr7g0239441 65.000 40 14 0 22 61 37 76 1.71e-13 64.3
MsaG001798 MtrunA17_Chr1g0184331 62.791 43 16 0 22 64 38 80 1.99e-13 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001798 AT5G43540.1 35.115 131 56 5 24 154 35 136 1.88e-13 63.9
MsaG001798 AT3G09290.1 49.057 53 27 0 15 67 26 78 8.43e-13 63.2
MsaG001798 AT4G17810.2 34.752 141 72 7 22 155 44 171 3.71e-11 58.9
MsaG001798 AT5G06070.1 48.936 47 24 0 17 63 48 94 8.89e-11 58.5
MsaG001798 AT4G17810.1 57.895 38 16 0 22 59 44 81 9.22e-11 58.2

Find 49 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCATGGCTTGAACCAATT+TGG 0.170590 1:+26864057 None:intergenic
ACCAATTTGAGTCTCCAAAT+TGG 0.269681 1:-26864071 MsaT001798.1:CDS
ACCAATTTGGAGACTCAAAT+TGG 0.270170 1:+26864070 None:intergenic
AATGTAGGTGGAGGGTTTCT+AGG 0.296141 1:+26864137 None:intergenic
TTTGCAAAATGTGCAATCAT+AGG 0.335071 1:+26864361 None:intergenic
TTCACTAATGCTAGGGCATT+AGG 0.349869 1:-26864332 MsaT001798.1:CDS
CACAAGCTCTCAATCTTTGT+TGG 0.354557 1:-26864096 MsaT001798.1:CDS
CGGAACAAAAGGTGAGGAAT+TGG 0.365181 1:+26864250 None:intergenic
GAAAGAAAGAACAAACTATA+AGG 0.377913 1:-26864288 MsaT001798.1:CDS
ATGAGGGTAATGATCAAGTT+TGG 0.398644 1:-26864040 MsaT001798.1:CDS
GGAATTGGGTGTGCCTTGCT+TGG 0.408994 1:+26864265 None:intergenic
TGGAGAGGAATTGAGAAAGA+TGG 0.421622 1:-26864020 MsaT001798.1:CDS
ACAAGCTCTCAATCTTTGTT+GGG 0.432395 1:-26864095 MsaT001798.1:CDS
ATGTAGGTGGAGGGTTTCTA+GGG 0.449866 1:+26864138 None:intergenic
AGGAAATCATATTGAAATGT+AGG 0.460308 1:+26864122 None:intergenic
AAGATTGAGAGCTTGTGTTA+AGG 0.470067 1:+26864102 None:intergenic
GAGGCCACATGAATATTCAT+AGG 0.470983 1:-26864310 MsaT001798.1:CDS
GAAACAACGGCCGGAACAAA+AGG 0.471368 1:+26864239 None:intergenic
TGTGCAATCATAGGATCTCT+TGG 0.479279 1:+26864370 None:intergenic
GGAACAAAAGGTGAGGAATT+GGG 0.480513 1:+26864251 None:intergenic
TGCAGTAATAAGTTGAGGGT+TGG 0.500074 1:+26864213 None:intergenic
CTTTCCTATGAATATTCATG+TGG 0.514465 1:+26864306 None:intergenic
AAAATGCAGTAATAAGTTGA+GGG 0.517548 1:+26864209 None:intergenic
TCATATTGAAATGTAGGTGG+AGG 0.521094 1:+26864128 None:intergenic
CGTGACCAAGCCTAAGCTCT+AGG 0.521907 1:+26863985 None:intergenic
AAAGGGGTTTCACTAATGCT+AGG 0.523611 1:-26864340 MsaT001798.1:CDS
GAATTGAGAAAGATGGTGAA+GGG 0.527167 1:-26864013 MsaT001798.1:CDS
AAACTTGATCATTACCCTCA+TGG 0.539153 1:+26864042 None:intergenic
TGATACATGTCATAGTTCCT+AGG 0.540330 1:+26864179 None:intergenic
AAGGGGTGGACCTAGAGCTT+AGG 0.542022 1:-26863995 MsaT001798.1:CDS
TAAAATGCAGTAATAAGTTG+AGG 0.543134 1:+26864208 None:intergenic
GATTCATACTCAAATTACTA+AGG 0.552650 1:-26863963 None:intergenic
GGAATTGAGAAAGATGGTGA+AGG 0.553109 1:-26864014 MsaT001798.1:CDS
CATATTGAAATGTAGGTGGA+GGG 0.568321 1:+26864129 None:intergenic
CAAATTGGTTCAAGCCATGA+GGG 0.580633 1:-26864056 MsaT001798.1:CDS
TGAGAAAGATGGTGAAGGGG+TGG 0.585137 1:-26864009 MsaT001798.1:CDS
TGAGGGTTGGCTTGAAACAA+CGG 0.588667 1:+26864226 None:intergenic
GTGGACCTAGAGCTTAGGCT+TGG 0.599006 1:-26863990 MsaT001798.1:CDS
AAGGGGTTTCACTAATGCTA+GGG 0.603593 1:-26864339 MsaT001798.1:CDS
AAATCATATTGAAATGTAGG+TGG 0.609277 1:+26864125 None:intergenic
ACTAATGCTAGGGCATTAGG+AGG 0.612021 1:-26864329 MsaT001798.1:CDS
AATTGAGAAAGATGGTGAAG+GGG 0.613512 1:-26864012 MsaT001798.1:CDS
ACAAACTATAAGGCCAAGCA+AGG 0.614101 1:-26864278 MsaT001798.1:CDS
CCAAATTGGTTCAAGCCATG+AGG 0.617699 1:-26864057 MsaT001798.1:CDS
GGTTGGCTTGAAACAACGGC+CGG 0.631135 1:+26864230 None:intergenic
AGAGATGATAACTTCTAGTG+AGG 0.648959 1:-26864432 None:intergenic
GGTAATGATCAAGTTTGGAG+AGG 0.652429 1:-26864035 MsaT001798.1:CDS
AACGGCCGGAACAAAAGGTG+AGG 0.665787 1:+26864244 None:intergenic
TACATGTCATAGTTCCTAGG+AGG 0.671750 1:+26864182 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 26863965 26864450 26863965 ID=MsaG001798
Chr1 mRNA 26863965 26864450 26863965 ID=MsaT001798.1;Parent=MsaG001798
Chr1 exon 26863965 26864450 26863965 ID=MsaT001798.1.exon1;Parent=MsaT001798.1
Chr1 CDS 26863965 26864450 26863965 ID=cds.MsaT001798.1;Parent=MsaT001798.1
Gene Sequence

>MsaT001798.1

ATGATAACTTCTAGTGAGGAGAGTGATGAGCAAGAAGTTCAAGATGAATGTATAGTAACCAAGAGATCCTATGATTGCACATTTTGCAAAAGGGGTTTCACTAATGCTAGGGCATTAGGAGGCCACATGAATATTCATAGGAAAGAAAGAACAAACTATAAGGCCAAGCAAGGCACACCCAATTCCTCACCTTTTGTTCCGGCCGTTGTTTCAAGCCAACCCTCAACTTATTACTGCATTTTAGAGCCTCCTAGGAACTATGACATGTATCATCAAACATCAAAAACAAACCCTAGAAACCCTCCACCTACATTTCAATATGATTTCCTTAACACAAGCTCTCAATCTTTGTTGGGAACCAATTTGAGTCTCCAAATTGGTTCAAGCCATGAGGGTAATGATCAAGTTTGGAGAGGAATTGAGAAAGATGGTGAAGGGGTGGACCTAGAGCTTAGGCTTGGTCACGATTCATACTCAAATTACTAA

Protein sequence

>MsaT001798.1

MITSSEESDEQEVQDECIVTKRSYDCTFCKRGFTNARALGGHMNIHRKERTNYKAKQGTPNSSPFVPAVVSSQPSTYYCILEPPRNYDMYHQTSKTNPRNPPPTFQYDFLNTSSQSLLGTNLSLQIGSSHEGNDQVWRGIEKDGEGVDLELRLGHDSYSNY*