AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004985


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004985 MtrunA17_Chr7g0252101 48.739 119 45 4 9 125 11 115 1.89e-22 92.4
MsaG004985 MtrunA17_Chr7g0252101 61.905 42 16 0 123 164 391 432 2.35e-11 60.8
MsaG004985 MtrunA17_Chr1g0209061 48.246 114 33 3 12 125 12 99 2.53e-21 83.6
MsaG004985 MtrunA17_Chr1g0202841 37.195 164 85 6 3 164 32 179 4.52e-21 84.7
MsaG004985 MtrunA17_Chr6g0488101 39.869 153 74 6 12 150 10 158 8.34e-21 87.8
MsaG004985 MtrunA17_Chr4g0075861 47.458 118 47 4 13 124 175 283 5.94e-19 82.4
MsaG004985 MtrunA17_Chr4g0075971 63.514 74 20 2 57 124 211 283 9.69e-19 82.4
MsaG004985 MtrunA17_Chr3g0093911 33.333 162 92 4 3 164 205 350 1.44e-18 80.9
MsaG004985 MtrunA17_Chr6g0488271 46.729 107 40 5 58 150 15 118 2.79e-18 80.5
MsaG004985 MtrunA17_Chr1g0209201 53.425 73 25 2 13 85 19 82 7.87e-15 67.4
MsaG004985 MtrunA17_Chr1g0206781 47.436 78 33 1 9 86 10 79 2.44e-14 65.5
MsaG004985 MtrunA17_Chr1g0207351 47.761 67 27 1 98 164 308 366 1.27e-13 67.4
MsaG004985 MtrunA17_Chr1g0206771 48.148 81 34 1 6 86 91 163 2.15e-13 64.7
MsaG004985 MtrunA17_Chr5g0415031 43.956 91 40 2 11 98 44 126 1.17e-12 64.7
MsaG004985 MtrunA17_Chr8g0364231 36.522 115 50 3 11 125 43 134 2.85e-12 63.9
MsaG004985 MtrunA17_Chr6g0452001 44.156 77 35 1 11 87 64 132 3.28e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004985 AT1G59890.4 36.800 125 56 4 11 132 46 150 1.26e-13 68.2
MsaG004985 AT1G59890.2 36.800 125 56 4 11 132 46 150 1.44e-13 67.8
MsaG004985 AT1G59890.1 36.800 125 56 4 11 132 46 150 1.48e-13 67.8
MsaG004985 AT1G59890.3 36.800 125 56 4 11 132 46 150 1.53e-13 67.8
MsaG004985 AT3G01320.1 42.553 94 37 2 11 104 58 134 4.72e-13 66.2
MsaG004985 AT3G01320.2 42.553 94 37 2 11 104 58 134 4.94e-13 66.2
MsaG004985 AT1G24190.3 47.436 78 33 1 11 88 15 84 1.47e-12 65.1
MsaG004985 AT1G24190.2 47.436 78 33 1 11 88 15 84 1.59e-12 65.1
MsaG004985 AT1G24190.1 47.436 78 33 1 11 88 15 84 1.59e-12 65.1
MsaG004985 AT5G15020.1 43.956 91 43 1 9 99 51 133 2.36e-12 64.3
MsaG004985 AT5G15020.2 43.956 91 43 1 9 99 51 133 2.63e-12 64.3
MsaG004985 AT1G70060.2 47.436 78 33 1 11 88 15 84 1.19e-11 62.4
MsaG004985 AT1G70060.1 47.436 78 33 1 11 88 15 84 1.19e-11 62.4

Find 28 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTCATCAAAATCTAGAATTT+TGG 0.164052 1:-76404096 None:intergenic
TTTCAGCCTGGAGAAGCTTT+AGG 0.284431 1:-76403149 None:intergenic
ATGCATAATCGCGGACGTTT+GGG 0.311256 1:-76403056 None:intergenic
GATGACCACTTTCAATTTGC+CGG 0.339326 1:+76404113 MsaT004985.1:CDS
AAGTTGCATTTCAATATAAC+AGG 0.360655 1:+76403100 MsaT004985.1:CDS
AGAGTGAAGGGACTGCTTAA+AGG 0.374983 1:+76403222 MsaT004985.1:CDS
AATGCATAATCGCGGACGTT+TGG 0.387865 1:-76403057 None:intergenic
AGAGAACAGTGAACTTCCTT+TGG 0.392177 1:+76404055 MsaT004985.1:CDS
AGCAAACACATTGGTGCATC+AGG 0.395473 1:-76405019 None:intergenic
GTTGTGATATACAGGGAAAA+AGG 0.431784 1:+76404019 MsaT004985.1:intron
CAATGTGTTTGCTGCTCGAT+TGG 0.450116 1:+76405029 MsaT004985.1:CDS
GAGTGAAGGGACTGCTTAAA+GGG 0.466736 1:+76403223 MsaT004985.1:CDS
AGTGTGATTTGATGTTCCTT+TGG 0.472772 1:-76403282 None:intergenic
CACATTGGTGCATCAGGAGC+TGG 0.485059 1:-76405013 None:intergenic
TATAATCTCTTCTTTCAGCC+TGG 0.487565 1:-76403161 None:intergenic
TGATTTGATGTTCCTTTGGC+AGG 0.495215 1:-76403278 None:intergenic
TTGATGTTCCTTTGGCAGGA+AGG 0.538015 1:-76403274 None:intergenic
AAAACTCCTAAAGCTTCTCC+AGG 0.545656 1:+76403143 MsaT004985.1:CDS
TTTATCAAAGCAAGAGTGAA+GGG 0.546311 1:+76403210 MsaT004985.1:CDS
CAAATCACACTCCACACCAC+TGG 0.572542 1:+76403294 MsaT004985.1:CDS
AAACGTCCGCGATTATGCAT+TGG 0.584536 1:+76403059 MsaT004985.1:CDS
TGCATAATCGCGGACGTTTG+GGG 0.603247 1:-76403055 None:intergenic
ATGATATCAAGCACATCCAA+AGG 0.608076 1:-76404071 None:intergenic
ACACACCGGCAAATTGAAAG+TGG 0.611570 1:-76404118 None:intergenic
ATTCAATGCCTTCCTGCCAA+AGG 0.612286 1:+76403266 MsaT004985.1:CDS
TTAGTAACTAACCAGTGGTG+TGG 0.622803 1:-76403305 None:intergenic
CAATCGAGCAGCAAACACAT+TGG 0.626063 1:-76405028 None:intergenic
AATACGCCAATGCATAATCG+CGG 0.713695 1:-76403065 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 76403045 76405099 76403045 ID=MsaG004985
Chr1 mRNA 76403045 76405099 76403045 ID=MsaT004985.1;Parent=MsaG004985
Chr1 exon 76403045 76403315 76403045 ID=MsaT004985.1.exon1;Parent=MsaT004985.1
Chr1 CDS 76403045 76403315 76403045 ID=cds.MsaT004985.1;Parent=MsaT004985.1
Chr1 exon 76404033 76404134 76404033 ID=MsaT004985.1.exon2;Parent=MsaT004985.1
Chr1 CDS 76404033 76404134 76404033 ID=cds.MsaT004985.1;Parent=MsaT004985.1
Chr1 exon 76404978 76405099 76404978 ID=MsaT004985.1.exon3;Parent=MsaT004985.1
Chr1 CDS 76404978 76405099 76404978 ID=cds.MsaT004985.1;Parent=MsaT004985.1
Gene Sequence

>MsaT004985.1

ATGAACAACTCCCCAAACGTCCGCGATTATGCATTGGCGTATTTTAAGGCAGTAAAAGTTGCATTTCAATATAACAGGATAAAGTGTGATCAGTTTTCAAAACTCCTAAAGCTTCTCCAGGCTGAAAGAAGAGATTATAGTTATACACATCCCAAAAAGTTAAATTTTATCAAAGCAAGAGTGAAGGGACTGCTTAAAGGGCATGCAAATTTAATTTTAGGATTCAATGCCTTCCTGCCAAAGGAACATCAAATCACACTCCACACCACTGGGAAAAAGGTGAAGAAGGTAGAAGAGAACAGTGAACTTCCTTTGGATGTGCTTGATATCATTTCCAAAATTCTAGATTTTGATGACCACTTTCAATTTGCCGGGAATGATAAAAAATTGCAAAAAAGCATTACGCTTCCAGCTCCTGATGCACCAATGTGTTTGCTGCTCGATTGGTGTTTTAGACATCAACAATATGAGATAGATTATTCTCTAGTTGAGTAA

Protein sequence

>MsaT004985.1

MNNSPNVRDYALAYFKAVKVAFQYNRIKCDQFSKLLKLLQAERRDYSYTHPKKLNFIKARVKGLLKGHANLILGFNAFLPKEHQITLHTTGKKVKKVEENSELPLDVLDIISKILDFDDHFQFAGNDKKLQKSITLPAPDAPMCLLLDWCFRHQQYEIDYSLVE*