AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036893

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036893 MtrunA17_Chr7g0230511 94.286 175 10 0 1 175 73 247 1.17e-118 335
MsaG036893 MtrunA17_Chr2g0297251 38.983 177 85 6 1 174 101 257 5.54e-24 94.7
MsaG036893 MtrunA17_Chr4g0065041 33.862 189 101 5 1 174 72 251 1.00e-22 91.3
MsaG036893 MtrunA17_Chr4g0052451 52.857 70 26 1 1 63 24 93 2.88e-18 75.5
MsaG036893 MtrunA17_Chr4g0040071 28.571 175 78 4 1 174 80 208 3.96e-14 67.4
MsaG036893 MtrunA17_Chr5g0411151 29.143 175 79 4 1 174 100 230 1.25e-13 66.6
MsaG036893 MtrunA17_Chr5g0395181 40.580 69 40 1 1 68 86 154 6.61e-12 61.6
MsaG036893 MtrunA17_Chr7g0265291 41.176 68 39 1 1 67 75 142 1.41e-11 60.5
MsaG036893 MtrunA17_Chr1g0179781 28.000 175 79 6 1 174 73 201 5.07e-11 58.9
MsaG036893 MtrunA17_Chr8g0366581 40.323 62 36 1 1 61 98 159 9.12e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036893 AT3G60670.1 49.727 183 76 7 1 175 71 245 7.41e-42 140
MsaG036893 AT2G12646.3 35.079 191 102 5 1 174 67 252 7.28e-23 92.0
MsaG036893 AT2G12646.1 35.079 191 102 5 1 174 70 255 7.53e-23 92.0
MsaG036893 AT2G12646.2 35.079 191 102 5 1 174 70 255 7.53e-23 92.0
MsaG036893 AT1G31040.1 36.364 176 94 5 1 174 83 242 4.75e-21 87.0
MsaG036893 AT1G21000.2 30.682 176 110 6 1 174 78 243 1.84e-13 66.6
MsaG036893 AT1G21000.1 30.682 176 110 6 1 174 81 246 1.92e-13 66.6
MsaG036893 AT1G32700.2 41.791 67 38 1 1 66 38 104 2.02e-11 60.1
MsaG036893 AT1G32700.1 41.791 67 38 1 1 66 77 143 3.49e-11 60.1
MsaG036893 AT1G76590.1 29.545 176 109 7 1 174 83 245 6.92e-11 59.3
MsaG036893 AT2G27930.5 39.437 71 33 1 1 61 73 143 8.45e-11 58.5
MsaG036893 AT2G27930.6 39.437 71 33 1 1 61 73 143 8.45e-11 58.5

Find 49 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAACATTTGGTTCACTATC+TGG 0.237092 7:-46644092 MsaT036893.1:CDS
CTCGCCCGTGTTGGAAATTT+CGG 0.297641 7:-46643835 MsaT036893.1:CDS
GTAAGGGTCTTGAAGACTTC+TGG 0.303743 7:+46644682 None:intergenic
GAGGAGCATCTCTTTGGAAT+TGG 0.338342 7:+46644728 None:intergenic
TTGCTTGAGGAGCATCTCTT+TGG 0.338603 7:+46644722 None:intergenic
AACCGAACTTCATCCGGTTC+CGG 0.371774 7:-46643972 MsaT036893.1:CDS
AGTCACTTGGTGAAAACATT+TGG 0.391874 7:-46644104 MsaT036893.1:CDS
CACCGGAACCGGATGAAGTT+CGG 0.397970 7:+46643970 None:intergenic
TTTCGGAGAGTCTGATGAAT+AGG 0.410510 7:-46643818 MsaT036893.1:CDS
GGTTCAAACCGAACTTCATC+CGG 0.422747 7:-46643978 MsaT036893.1:CDS
ATGCCACCATTATCTGATTC+TGG 0.428827 7:-46644047 MsaT036893.1:CDS
GAGAGAGAGCAGAATTTGTA+AGG 0.431185 7:+46644665 None:intergenic
GCCTGCATGCTCGCCCGTGT+TGG 0.439478 7:-46643844 MsaT036893.1:CDS
GGGGATGTATCCACCGGAAC+CGG 0.447568 7:+46643959 None:intergenic
CGGTAGTAGCGGTGCAAGCA+AGG 0.456996 7:+46643919 None:intergenic
GGATGAAGTTCGGTTTGAAC+CGG 0.475769 7:+46643980 None:intergenic
TCTAGTCCAGAATCAGATAA+TGG 0.486066 7:+46644041 None:intergenic
TCCAACACGGGCGAGCATGC+AGG 0.495854 7:+46643843 None:intergenic
GATGGTTCGAGAACCGAGTC+AGG 0.499983 7:+46644002 None:intergenic
GTTGTCCGAAAGAAAAGAAC+CGG 0.516356 7:-46643894 MsaT036893.1:CDS
CAATATAACGGGGCCCTATG+TGG 0.529393 7:+46643783 None:intergenic
GACTCGGTTCTCGAACCATC+CGG 0.529624 7:-46643999 MsaT036893.1:CDS
GTCTTGAAGACTTCTGGCAC+AGG 0.531073 7:+46644688 None:intergenic
GAGGAAAGGAACGCCACATA+GGG 0.533397 7:-46643796 MsaT036893.1:CDS
CTACAGTTCTACAGAACAAA+CGG 0.540640 7:-46644779 MsaT036893.1:intron
CGGTCTAATGACACCTGACT+CGG 0.553504 7:-46644015 MsaT036893.1:CDS
CGAACTTCATCCGGTTCCGG+TGG 0.558699 7:-46643969 MsaT036893.1:CDS
ATCAATGGGGATGTATCCAC+CGG 0.561626 7:+46643953 None:intergenic
ATTCTGCTCTCTCTCTTGCA+AGG 0.568123 7:-46644657 MsaT036893.1:intron
CGGAGAGTCTGATGAATAGG+AGG 0.568363 7:-46643815 MsaT036893.1:CDS
TGCTTGCACCGCTACTACCG+AGG 0.570706 7:-46643916 MsaT036893.1:CDS
GGAGGAAAGGAACGCCACAT+AGG 0.574415 7:-46643797 MsaT036893.1:CDS
GGTAGTAGCGGTGCAAGCAA+GGG 0.580460 7:+46643920 None:intergenic
AGTCTGATGAATAGGAGGAA+AGG 0.580615 7:-46643810 MsaT036893.1:CDS
ATGCAGGCCGACACGGTGGT+CGG 0.595664 7:+46643859 None:intergenic
GAAGTTCGGTTTGAACCGGA+TGG 0.598179 7:+46643984 None:intergenic
GGTTCTGCAGATATTGCTTG+AGG 0.599864 7:+46644709 None:intergenic
AGAATCAGATAATGGTGGCA+TGG 0.607517 7:+46644049 None:intergenic
GGCGAGCATGCAGGCCGACA+CGG 0.612985 7:+46643852 None:intergenic
TCTGATTCTGGACTAGATGA+CGG 0.614207 7:-46644035 MsaT036893.1:CDS
CTCTCCGAAATTTCCAACAC+GGG 0.615333 7:+46643831 None:intergenic
AGTAGCGGTGCAAGCAAGGG+CGG 0.618674 7:+46643923 None:intergenic
TCGGACAACCTCGGTAGTAG+CGG 0.624276 7:+46643908 None:intergenic
AGAGAGAGCAGAATTTGTAA+GGG 0.625118 7:+46644666 None:intergenic
TCACTTTCCGACCACCGTGT+CGG 0.647068 7:-46643866 MsaT036893.1:CDS
AGTCCAGAATCAGATAATGG+TGG 0.683117 7:+46644044 None:intergenic
ACTCTCCGAAATTTCCAACA+CGG 0.710823 7:+46643830 None:intergenic
GAGCATGCAGGCCGACACGG+TGG 0.741450 7:+46643855 None:intergenic
TGGTCGGAAAGTGATGACAC+CGG 0.742801 7:+46643875 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 46643782 46645041 46643782 ID=MsaG036893
Chr7 mRNA 46643782 46645041 46643782 ID=MsaT036893.1;Parent=MsaG036893
Chr7 exon 46643782 46644129 46643782 ID=MsaT036893.1.exon3;Parent=MsaT036893.1
Chr7 CDS 46643782 46644129 46643782 ID=cds.MsaT036893.1;Parent=MsaT036893.1
Chr7 exon 46644658 46644795 46644658 ID=MsaT036893.1.exon2;Parent=MsaT036893.1
Chr7 CDS 46644658 46644795 46644658 ID=cds.MsaT036893.1;Parent=MsaT036893.1
Chr7 exon 46645000 46645041 46645000 ID=MsaT036893.1.exon1;Parent=MsaT036893.1
Chr7 CDS 46645000 46645041 46645000 ID=cds.MsaT036893.1;Parent=MsaT036893.1
Gene Sequence

>MsaT036893.1

ATGGGTGATGCTGCAAAATTAATTGACTGTTCTTCTATTCAATTCTACAGAACAAACGGTGCAAAAGTGATTTTTATAAATCAAAGACCAATTCCAAAGAGATGCTCCTCAAGCAATATCTGCAGAACCTGTGCCAGAAGTCTTCAAGACCCTTACAAATTCTGCTCTCTCTCTTGCAAGGTGAGTCACTTGGTGAAAACATTTGGTTCACTATCTGGTTACTTACTCGAGTGCAACACCATGCCACCATTATCTGATTCTGGACTAGATGACGGTCTAATGACACCTGACTCGGTTCTCGAACCATCCGGTTCAAACCGAACTTCATCCGGTTCCGGTGGATACATCCCCATTGATTGCAAAACCGCCCTTGCTTGCACCGCTACTACCGAGGTTGTCCGAAAGAAAAGAACCGGTGTCATCACTTTCCGACCACCGTGTCGGCCTGCATGCTCGCCCGTGTTGGAAATTTCGGAGAGTCTGATGAATAGGAGGAAAGGAACGCCACATAGGGCCCCGTTATATTGA
Protein sequence

>MsaT036893.1

MGDAAKLIDCSSIQFYRTNGAKVIFINQRPIPKRCSSSNICRTCARSLQDPYKFCSLSCKVSHLVKTFGSLSGYLLECNTMPPLSDSGLDDGLMTPDSVLEPSGSNRTSSGSGGYIPIDCKTALACTATTEVVRKKRTGVITFRPPCRPACSPVLEISESLMNRRKGTPHRAPLY*