AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001443

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001443 MtrunA17_Chr1g0208771 44.492 236 110 6 1 217 226 459 1.98e-55 182
MsaG001443 MtrunA17_Chr8g0390841 38.846 260 109 11 1 217 267 519 5.27e-41 145
MsaG001443 MtrunA17_Chr1g0163071 84.000 75 4 1 1 67 224 298 1.37e-36 130
MsaG001443 MtrunA17_Chr3g0103161 39.640 111 64 2 109 218 18 126 3.66e-21 85.1
MsaG001443 MtrunA17_Chr3g0103171 34.848 132 83 2 85 215 136 265 8.63e-20 84.7
MsaG001443 MtrunA17_Chr3g0103181 30.579 242 130 10 8 215 42 279 3.82e-19 83.6
MsaG001443 MtrunA17_Chr3g0103201 38.281 128 72 5 90 215 98 220 1.69e-16 75.1
MsaG001443 MtrunA17_Chr1g0163111 27.586 203 92 6 21 214 71 227 1.73e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001443 AT1G49480.3 36.607 112 66 3 109 218 115 223 8.78e-16 73.6
MsaG001443 AT1G49480.1 36.607 112 66 3 109 218 115 223 8.78e-16 73.6
MsaG001443 AT1G49480.2 36.607 112 66 3 109 218 115 223 8.78e-16 73.6
MsaG001443 AT3G18990.1 36.607 112 66 3 109 218 230 338 8.15e-15 72.4
MsaG001443 AT3G18990.2 36.607 112 66 3 109 218 230 338 1.05e-14 72.4

Find 46 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTAGAGGTTGGAAGCTATTT+TGG 0.155141 1:+20191134 MsaT001443.1:CDS
AAAGGTGGATGGAAGAAATT+TGG 0.177491 1:+20190276 MsaT001443.1:CDS
AACTCTTGGATGGGAGAGTT+TGG 0.242668 1:+20190226 MsaT001443.1:CDS
TAATTTGTAATGAAGGAATT+TGG 0.257343 1:-20191013 None:intergenic
GAATAACAATGCAACTTTAC+AGG 0.277076 1:-20191088 None:intergenic
CAAGGTAAGGTATTGGCTTT+TGG 0.281423 1:-20190322 None:intergenic
CAGATGGTGATGTTAAAGTT+TGG 0.294860 1:+20191052 MsaT001443.1:CDS
CTAGAATGCCCTCGTTGATT+TGG 0.297882 1:-20190863 None:intergenic
AAGGTGGATGGAAGAAATTT+GGG 0.337057 1:+20190277 MsaT001443.1:CDS
TGGGATGCTAAATATTGTTC+TGG 0.351348 1:+20190246 MsaT001443.1:CDS
TGACATTCTTCTTCAACTCT+TGG 0.360124 1:+20190212 MsaT001443.1:CDS
GAAACTATTATGACAAATAA+AGG 0.361575 1:+20190532 MsaT001443.1:CDS
TAAAGAATTCAGCCTTTGTC+TGG 0.365467 1:-20190772 None:intergenic
AGATGGTGATGTTAAAGTTT+GGG 0.372056 1:+20191053 MsaT001443.1:CDS
TGTTATTCCAACATGAAATC+AGG 0.384360 1:+20191103 MsaT001443.1:CDS
TTCCTTCATTACAAATTACT+TGG 0.385639 1:+20191018 MsaT001443.1:CDS
ACTCTTGGATGGGAGAGTTT+GGG 0.388176 1:+20190227 MsaT001443.1:CDS
TCTAAATATCAGTACTTTCA+AGG 0.390400 1:-20190340 None:intergenic
ATCCAAGTAATTTGTAATGA+AGG 0.391002 1:-20191020 None:intergenic
GTACTTTCAAGGTAAGGTAT+TGG 0.397373 1:-20190329 None:intergenic
GCTTCCAACCTCTACAAAAC+TGG 0.416735 1:-20191126 None:intergenic
TCAAAGAGACAAAGACTTCT+CGG 0.423887 1:+20190498 MsaT001443.1:CDS
GAATTTATCAGCTTGATTCT+CGG 0.433923 1:-20190804 None:intergenic
ATTCTTCTTCAACTCTTGGA+TGG 0.449374 1:+20190216 MsaT001443.1:CDS
TCAACGAGGGCATTCTAGAT+TGG 0.465952 1:+20190868 MsaT001443.1:CDS
TTCTTCTTCAACTCTTGGAT+GGG 0.471949 1:+20190217 MsaT001443.1:CDS
TGGGAAGAAAATAAATTGAA+AGG 0.492702 1:+20191154 MsaT001443.1:CDS
TAAAGTTTGGGAAGAAATTG+TGG 0.501503 1:+20191065 MsaT001443.1:CDS
GTTGGATTACCTTGAGGCGG+AGG 0.523262 1:-20190384 None:intergenic
ATATCAGTACTTTCAAGGTA+AGG 0.525859 1:-20190335 None:intergenic
CCTTGAGGCGGAGGGGAGTG+TGG 0.539544 1:-20190375 None:intergenic
TTGGATTACCTTGAGGCGGA+GGG 0.553600 1:-20190383 None:intergenic
TCGCATTATGACAGGAGAGA+AGG 0.560064 1:+20190730 MsaT001443.1:intron
AGTACTGATATTTAGACTTG+AGG 0.563054 1:+20190347 MsaT001443.1:CDS
CTTGGATAACAAGGAACAGA+TGG 0.569177 1:+20191036 MsaT001443.1:CDS
CCACACTCCCCTCCGCCTCA+AGG 0.574610 1:+20190375 MsaT001443.1:CDS
AAACTGGCCTGATTTCATGT+TGG 0.576131 1:-20191110 None:intergenic
TACAAATTACTTGGATAACA+AGG 0.576875 1:+20191027 MsaT001443.1:CDS
GAAGAAAATAAATTGAAAGG+TGG 0.594266 1:+20191157 MsaT001443.1:CDS
AGGTGGATGGAAGAAATTTG+GGG 0.623586 1:+20190278 MsaT001443.1:CDS
CAAGTTGGATTACCTTGAGG+CGG 0.627004 1:-20190387 None:intergenic
GTGTCTTTGAGCTCATCAAG+AGG 0.634652 1:+20191188 MsaT001443.1:CDS
TGTCTTTGAGCTCATCAAGA+GGG 0.639150 1:+20191189 MsaT001443.1:CDS
TGGATTACCTTGAGGCGGAG+GGG 0.674279 1:-20190382 None:intergenic
AATATTATGCCAAATCAACG+AGG 0.719522 1:+20190854 MsaT001443.1:CDS
ATATTATGCCAAATCAACGA+GGG 0.724045 1:+20190855 MsaT001443.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 20190195 20191252 20190195 ID=MsaG001443
Chr1 mRNA 20190195 20191252 20190195 ID=MsaT001443.1;Parent=MsaG001443
Chr1 exon 20190195 20190396 20190195 ID=MsaT001443.1.exon1;Parent=MsaT001443.1
Chr1 CDS 20190195 20190396 20190195 ID=cds.MsaT001443.1;Parent=MsaT001443.1
Chr1 exon 20190491 20190553 20190491 ID=MsaT001443.1.exon2;Parent=MsaT001443.1
Chr1 CDS 20190491 20190553 20190491 ID=cds.MsaT001443.1;Parent=MsaT001443.1
Chr1 exon 20190744 20190889 20190744 ID=MsaT001443.1.exon3;Parent=MsaT001443.1
Chr1 CDS 20190744 20190889 20190744 ID=cds.MsaT001443.1;Parent=MsaT001443.1
Chr1 exon 20191007 20191252 20191007 ID=MsaT001443.1.exon4;Parent=MsaT001443.1
Chr1 CDS 20191007 20191252 20191007 ID=cds.MsaT001443.1;Parent=MsaT001443.1
Gene Sequence

>MsaT001443.1

ATGAAGAAAGAGCAAAGTGACATTCTTCTTCAACTCTTGGATGGGAGAGTTTGGGATGCTAAATATTGTTCTGGAAAAATTAAAGGTGGATGGAAGAAATTTGGGGATGTGTGTATTTTTGAACTAACCAAAAGCCAATACCTTACCTTGAAAGTACTGATATTTAGACTTGAGGAAGATCCACACTCCCCTCCGCCTCAAGAATCAGTTCAAAGAGACAAAGACTTCTCGGATGTTGAAAGTGAAACTATTATGACAAATAAAGGAGAGAAGGCAACCCAAAAAACTTCATTCCAGACAAAGGCTGAATTCTTTACGAATGAAGCCGAGAATCAAGCTGATAAATTCAACTCCAAATATCCATTTTTCAAGGTCAATATTATGCCAAATCAACGAGGGCATTCTAGATTGCATGTACCAAATTCCTTCATTACAAATTACTTGGATAACAAGGAACAGATGGTGATGTTAAAGTTTGGGAAGAAATTGTGGCCTGTAAAGTTGCATTGTTATTCCAACATGAAATCAGGCCAGTTTTGTAGAGGTTGGAAGCTATTTTGGGAAGAAAATAAATTGAAAGGTGGAGATGCATGTGTCTTTGAGCTCATCAAGAGGGAAGATGTTGTGCTTAATGTTCATATTTTCAGAGGCAATTGA
Protein sequence

>MsaT001443.1

MKKEQSDILLQLLDGRVWDAKYCSGKIKGGWKKFGDVCIFELTKSQYLTLKVLIFRLEEDPHSPPPQESVQRDKDFSDVESETIMTNKGEKATQKTSFQTKAEFFTNEAENQADKFNSKYPFFKVNIMPNQRGHSRLHVPNSFITNYLDNKEQMVMLKFGKKLWPVKLHCYSNMKSGQFCRGWKLFWEENKLKGGDACVFELIKREDVVLNVHIFRGN*