AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005833

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005833 MtrunA17_Chr1g0212341 98.544 206 3 0 2 207 5 210 5.41e-146 404
MsaG005833 MtrunA17_Chr8g0342651 77.083 96 22 0 44 139 131 226 2.31e-43 145
MsaG005833 MtrunA17_Chr3g0143991 61.798 89 34 0 86 174 32 120 1.75e-30 109
MsaG005833 MtrunA17_Chr5g0407011 49.091 110 50 2 83 186 16 125 7.59e-28 102
MsaG005833 MtrunA17_Chr8g0370431 45.872 109 54 1 83 186 16 124 4.55e-26 98.2
MsaG005833 MtrunA17_Chr7g0242251 60.811 74 29 0 95 168 47 120 1.90e-25 97.1
MsaG005833 MtrunA17_Chr4g0052011 48.750 80 41 0 89 168 54 133 1.51e-20 84.0
MsaG005833 MtrunA17_Chr5g0421971 29.448 163 79 7 2 164 7 133 2.23e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005833 AT5G23420.1 54.167 168 67 5 4 164 15 179 6.98e-45 149
MsaG005833 AT4G35570.1 50.000 102 50 1 90 191 25 125 3.31e-28 103
MsaG005833 AT4G35570.2 50.000 102 50 1 90 191 25 125 3.31e-28 103
MsaG005833 AT2G17560.3 47.170 106 55 1 90 194 25 130 2.16e-26 99.0
MsaG005833 AT3G51880.2 47.826 115 54 2 94 207 48 157 3.58e-26 99.8
MsaG005833 AT2G17560.2 50.538 93 45 1 90 181 25 117 2.00e-25 96.7
MsaG005833 AT2G17560.1 50.538 93 45 1 90 181 25 117 2.00e-25 96.7
MsaG005833 AT1G20693.2 55.422 83 36 1 87 168 25 107 2.23e-25 96.7
MsaG005833 AT1G20693.3 53.535 99 42 3 87 182 25 122 2.49e-25 96.7
MsaG005833 AT1G20693.1 53.535 99 42 3 87 182 25 122 2.56e-25 96.7
MsaG005833 AT3G51880.5 47.619 105 50 1 94 198 48 147 1.22e-24 95.9
MsaG005833 AT3G51880.1 47.619 105 50 1 94 198 48 147 1.22e-24 95.9
MsaG005833 AT3G51880.3 47.619 105 50 1 94 198 48 147 1.22e-24 95.9
MsaG005833 AT3G51880.4 52.381 84 40 0 94 177 48 131 1.26e-24 95.1
MsaG005833 AT1G20696.1 53.922 102 43 3 83 182 20 119 2.08e-24 94.0
MsaG005833 AT1G20696.2 57.333 75 32 0 94 168 30 104 8.51e-24 92.8
MsaG005833 AT1G20696.5 57.333 75 32 0 94 168 30 104 8.53e-24 92.0
MsaG005833 AT2G34450.4 48.571 70 36 0 99 168 63 132 8.48e-19 79.7
MsaG005833 AT2G34450.3 48.571 70 36 0 99 168 63 132 8.48e-19 79.7
MsaG005833 AT2G34450.1 48.571 70 36 0 99 168 63 132 8.48e-19 79.7
MsaG005833 AT5G23420.2 61.667 60 22 1 4 62 15 74 3.36e-18 78.2
MsaG005833 AT2G34450.2 49.296 71 35 1 99 168 63 133 3.44e-17 75.5
MsaG005833 AT1G20696.4 46.154 78 39 2 107 182 1 77 3.69e-12 60.8
MsaG005833 AT1G20696.3 46.154 78 39 2 107 182 1 77 3.96e-12 60.8

Find 46 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTAGGAGAAGAAGCCTTATT+TGG 0.238707 1:+85686066 MsaT005833.1:intron
CTCTTAACATCCTTTGAATC+AGG 0.239936 1:-85685794 None:intergenic
TCAACAACCTTATCCAAATA+AGG 0.266781 1:-85686079 None:intergenic
CAAAAGAACCAAATGCAAAA+AGG 0.273542 1:+85685574 MsaT005833.1:CDS
AGCGAAAGCACTGCCATCTT+TGG 0.274022 1:-85685108 None:intergenic
ATGGCAGTGCTTTCGCTAAA+TGG 0.280098 1:+85685114 MsaT005833.1:CDS
GGTGGACGCTTCGGAGCATT+AGG 0.350922 1:-85685630 None:intergenic
TAAAGTTGGGAAAGGGAAAA+AGG 0.356731 1:+85685599 MsaT005833.1:CDS
GAAGAAGCCTTATTTGGATA+AGG 0.386677 1:+85686072 MsaT005833.1:CDS
TGCTGCTGCAGGAGAGGTGG+AGG 0.407036 1:+85686405 MsaT005833.1:CDS
GTTACGAAATGGCAACGAAA+AGG 0.426485 1:+85685042 None:intergenic
TTACGAAATGGCAACGAAAA+GGG 0.447058 1:+85685043 None:intergenic
AGCTGCTGCTGCAGGAGAGG+TGG 0.448405 1:+85686402 MsaT005833.1:CDS
GACAAGGAAGCTGCTGCTGC+AGG 0.462916 1:+85686394 MsaT005833.1:CDS
AAAGCAGTTGGTGGACGCTT+CGG 0.463279 1:-85685639 None:intergenic
CTGATTCAAAGGATGTTAAG+AGG 0.466487 1:+85685795 MsaT005833.1:CDS
TGCATGTCAATGAGTGCAAC+AGG 0.479421 1:-85685242 None:intergenic
GGGTTCTGATAAGGAAGATA+AGG 0.479785 1:+85686357 MsaT005833.1:CDS
AAATAGGTTGGTAAGGAAGC+TGG 0.492839 1:+85685910 MsaT005833.1:intron
GGATCAAGAGGGTTCTGATA+AGG 0.494850 1:+85686348 MsaT005833.1:intron
GCCAAAATCAAAATGAATCT+CGG 0.501868 1:+85685281 MsaT005833.1:CDS
GTTCTCGTTCGTGCCAAAGA+TGG 0.507354 1:+85685095 MsaT005833.1:CDS
GTAAGGAAGCTGGTGAGAAG+TGG 0.524391 1:+85685920 MsaT005833.1:CDS
CAGCTTCCTTGTCATCAGAC+TGG 0.532712 1:-85686384 None:intergenic
TCTTAACATCCTTTGAATCA+GGG 0.535919 1:-85685793 None:intergenic
GGATAAGGTTGTTGAACTGA+AGG 0.538046 1:+85686087 MsaT005833.1:CDS
GAAGTGGAGGTCTCTGACTG+AGG 0.540601 1:+85685936 MsaT005833.1:CDS
GGAAGCTAACCCTGATTCAA+AGG 0.545294 1:+85685784 MsaT005833.1:CDS
ATGAAAACAAAGAAAGCAGT+TGG 0.548460 1:-85685651 None:intergenic
GGAAGCTGCTGCTGCAGGAG+AGG 0.549573 1:+85686399 MsaT005833.1:CDS
AAAACAAAGAAAGCAGTTGG+TGG 0.566440 1:-85685648 None:intergenic
AGTTAACTGATGAAGAGTAG+TGG 0.571245 1:+85686428 MsaT005833.1:CDS
AAAAGGGCTAAAGTTGGGAA+AGG 0.581404 1:+85685591 MsaT005833.1:CDS
AGCAGCATTATACAATTCCA+TGG 0.595262 1:-85686125 None:intergenic
AGGAAGCTGGTGAGAAGTGG+AGG 0.606568 1:+85685923 MsaT005833.1:CDS
GGCAGAATATGAGAAGGCCA+TGG 0.615072 1:+85686108 MsaT005833.1:CDS
TGATTCAAAGGATGTTAAGA+GGG 0.616338 1:+85685796 MsaT005833.1:CDS
AAAGGGCTAAAGTTGGGAAA+GGG 0.618574 1:+85685592 MsaT005833.1:CDS
GCTGTATGTATAGGATCAAG+AGG 0.620076 1:+85686336 MsaT005833.1:intron
TGAAGCGGAACGAGAATCGA+CGG 0.630596 1:-85685072 None:intergenic
GGCACGAACGAGAACTGAAG+CGG 0.641201 1:-85685087 None:intergenic
GGAAGGCCAGTCTGATGACA+AGG 0.644830 1:+85686378 MsaT005833.1:CDS
TCTGATAAGGAAGATAAGGA+AGG 0.664708 1:+85686361 MsaT005833.1:CDS
ACTGAAGGCAGAATATGAGA+AGG 0.674706 1:+85686102 MsaT005833.1:CDS
CTGTATGTATAGGATCAAGA+GGG 0.690024 1:+85686337 MsaT005833.1:intron
CTGAAGTGAAGAAACCCGAG+AGG 0.719762 1:+85685437 MsaT005833.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 85685050 85686447 85685050 ID=MsaG005833
Chr1 mRNA 85685050 85686447 85685050 ID=MsaT005833.1;Parent=MsaG005833
Chr1 exon 85685050 85685135 85685050 ID=MsaT005833.1.exon1;Parent=MsaT005833.1
Chr1 CDS 85685050 85685135 85685050 ID=cds.MsaT005833.1;Parent=MsaT005833.1
Chr1 exon 85685220 85685302 85685220 ID=MsaT005833.1.exon2;Parent=MsaT005833.1
Chr1 CDS 85685220 85685302 85685220 ID=cds.MsaT005833.1;Parent=MsaT005833.1
Chr1 exon 85685413 85685458 85685413 ID=MsaT005833.1.exon3;Parent=MsaT005833.1
Chr1 CDS 85685413 85685458 85685413 ID=cds.MsaT005833.1;Parent=MsaT005833.1
Chr1 exon 85685560 85685673 85685560 ID=MsaT005833.1.exon4;Parent=MsaT005833.1
Chr1 CDS 85685560 85685673 85685560 ID=cds.MsaT005833.1;Parent=MsaT005833.1
Chr1 exon 85685760 85685817 85685760 ID=MsaT005833.1.exon5;Parent=MsaT005833.1
Chr1 CDS 85685760 85685817 85685760 ID=cds.MsaT005833.1;Parent=MsaT005833.1
Chr1 exon 85685916 85685960 85685916 ID=MsaT005833.1.exon6;Parent=MsaT005833.1
Chr1 CDS 85685916 85685960 85685916 ID=cds.MsaT005833.1;Parent=MsaT005833.1
Chr1 exon 85686070 85686162 85686070 ID=MsaT005833.1.exon7;Parent=MsaT005833.1
Chr1 CDS 85686070 85686162 85686070 ID=cds.MsaT005833.1;Parent=MsaT005833.1
Chr1 exon 85686349 85686447 85686349 ID=MsaT005833.1.exon8;Parent=MsaT005833.1
Chr1 CDS 85686349 85686447 85686349 ID=cds.MsaT005833.1;Parent=MsaT005833.1
Gene Sequence

>MsaT005833.1

ATGGCAACGAAAAGGGTTGATGCCGTCGATTCTCGTTCCGCTTCAGTTCTCGTTCGTGCCAAAGATGGCAGTGCTTTCGCTAAATGTGATGAGTGTAAGAAAGATGTTCCTGTTGCACTCATTGACATGCACAATTGTAGCCTTGAAGCCAAAATCAAAATGAATCTCGAATCTCATGCTGTTGAGCAAGCTGCTGAAGTGAAGAAACCCGAGAGGAAGAAGCCAAATTCAAAAGAACCAAATGCAAAAAGGGCTAAAGTTGGGAAAGGGAAAAAGGTTAAGGATCCTAATGCTCCGAAGCGTCCACCAACTGCTTTCTTTGTTTTCATGGATGAGTTTAGAAAGATTTTTAAGGAAGCTAACCCTGATTCAAAGGATGTTAAGAGGGTTGGTAAGGAAGCTGGTGAGAAGTGGAGGTCTCTGACTGAGGAAGAGAAGAAGCCTTATTTGGATAAGGTTGTTGAACTGAAGGCAGAATATGAGAAGGCCATGGAATTGTATAATGCTGCTACTGCTGAAAGTGAAGATCAAGAGGGTTCTGATAAGGAAGATAAGGAAGGCCAGTCTGATGACAAGGAAGCTGCTGCTGCAGGAGAGGTGGAGGAGTTAACTGATGAAGAGTAG
Protein sequence

>MsaT005833.1

MATKRVDAVDSRSASVLVRAKDGSAFAKCDECKKDVPVALIDMHNCSLEAKIKMNLESHAVEQAAEVKKPERKKPNSKEPNAKRAKVGKGKKVKDPNAPKRPPTAFFVFMDEFRKIFKEANPDSKDVKRVGKEAGEKWRSLTEEEKKPYLDKVVELKAEYEKAMELYNAATAESEDQEGSDKEDKEGQSDDKEAAAAGEVEELTDEE*