AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1303240


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1303240 MtrunA17_Chr4g0072411 100.000 103 0 0 1 103 59 161 5.39e-69 203
Msa1303240 MtrunA17_Chr5g0425951 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1303240 MtrunA17_Chr4g0030431 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1303240 MtrunA17_Chr3g0100121 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1303240 MtrunA17_Chr3g0113681 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1303240 MtrunA17_Chr2g0327641 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1303240 MtrunA17_Chr3g0103351 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1303240 MtrunA17_Chr8g0352791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1303240 MtrunA17_Chr3g0103821 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1303240 MtrunA17_Chr3g0104031 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1303240 MtrunA17_Chr7g0225731 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1303240 MtrunA17_Chr3g0103801 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1303240 MtrunA17_Chr3g0103881 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1303240 MtrunA17_Chr7g0262791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1303240 AT3G53730.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1303240 AT1G07820.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1303240 AT1G07820.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1303240 AT5G59690.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1303240 AT3G46320.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1303240 AT2G28740.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1303240 AT1G07660.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1303240 AT3G45930.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1303240 AT5G59970.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1303240 AT5G59970.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1303240 AT1G07660.2 83.495 103 0 1 1 103 1 86 4.52e-51 155

Find 31 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGCAGGGAAGGACTCTTTA+TGG 0.247348 8_3:+66230751 Msa1303240:CDS
GGAAGGACTCTTTATGGATT+TGG 0.297351 8_3:+66230757 Msa1303240:CDS
TCCTTTGCCTCTTCCTGACA+TGG 0.418595 8_3:-66230473 None:intergenic
TCTTTATGGATTTGGCGGTT+AGG 0.439485 8_3:+66230765 Msa1303240:CDS
GGCAAAGGAGGAAAGGGTCT+TGG 0.446329 8_3:+66230487 Msa1303240:CDS
CAAGAATTCACAGCCATGTC+AGG 0.481900 8_3:+66230460 None:intergenic
CGTTTACGCTCTCAAGAGGC+AGG 0.488613 8_3:+66230735 Msa1303240:CDS
GGTTCTTCGCGATAACATCC+AGG 0.500175 8_3:+66230537 Msa1303240:CDS
AGGACTCTTTATGGATTTGG+CGG 0.509079 8_3:+66230760 Msa1303240:CDS
GGAGGAAAGGGTCTTGGAAA+GGG 0.511441 8_3:+66230493 Msa1303240:CDS
TCGCAGGCTTCGTGATTCCC+TGG 0.511861 8_3:-66230555 None:intergenic
AGGAAGAGGCAAAGGAGGAA+AGG 0.518412 8_3:+66230480 Msa1303240:CDS
GGAAGAGGCAAAGGAGGAAA+GGG 0.527098 8_3:+66230481 Msa1303240:CDS
CCATCGCAGTAACAGTCTTA+CGG 0.545551 8_3:-66230708 None:intergenic
GCCATGTCAGGAAGAGGCAA+AGG 0.547501 8_3:+66230472 None:intergenic
AGGAGGAAAGGGTCTTGGAA+AGG 0.553664 8_3:+66230492 Msa1303240:CDS
CCGTAAGACTGTTACTGCGA+TGG 0.561095 8_3:+66230708 Msa1303240:CDS
CTTGCGAGACGACGAATCGC+AGG 0.571080 8_3:-66230571 None:intergenic
TTCACAGCCATGTCAGGAAG+AGG 0.573281 8_3:+66230466 None:intergenic
AGGAGCAAAACGACACCGTA+AGG 0.575994 8_3:+66230516 Msa1303240:CDS
TGTTATCGCGAAGAACCTTA+CGG 0.576355 8_3:-66230531 None:intergenic
ATGTCAGGAAGAGGCAAAGG+AGG 0.581057 8_3:+66230475 Msa1303240:CDS
ACGCTCTCAAGAGGCAGGGA+AGG 0.583359 8_3:+66230740 Msa1303240:CDS
ACGGCGAGCATGCTCTGTGT+AGG 0.590446 8_3:-66230689 None:intergenic
GGAAAGGGTCTTGGAAAGGG+AGG 0.621886 8_3:+66230496 Msa1303240:CDS
ATTCGTCGTCTCGCAAGACG+TGG 0.624267 8_3:+66230577 Msa1303240:CDS
TTAATCTATGAAGAAACTCG+TGG 0.634992 8_3:+66230622 Msa1303240:CDS
ATGTCGTTTACGCTCTCAAG+AGG 0.636714 8_3:+66230731 Msa1303240:CDS
GTTCTTCGCGATAACATCCA+GGG 0.657095 8_3:+66230538 Msa1303240:CDS
GTTTACGCTCTCAAGAGGCA+GGG 0.663401 8_3:+66230736 Msa1303240:CDS
GGTGGTGTGAAGCGTATCAG+TGG 0.669421 8_3:+66230598 Msa1303240:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTAATCTATGAAGAAACTCG+TGG + chr8_3:66230622-66230641 Msa1303240:CDS 30.0%
TGTTATCGCGAAGAACCTTA+CGG - chr8_3:66230534-66230553 None:intergenic 40.0%
GGAAGGACTCTTTATGGATT+TGG + chr8_3:66230757-66230776 Msa1303240:CDS 40.0%
AGGACTCTTTATGGATTTGG+CGG + chr8_3:66230760-66230779 Msa1303240:CDS 40.0%
GTTCTTCGCGATAACATCCA+GGG + chr8_3:66230538-66230557 Msa1303240:CDS 45.0%
CCATCGCAGTAACAGTCTTA+CGG - chr8_3:66230711-66230730 None:intergenic 45.0%
! ATGTCGTTTACGCTCTCAAG+AGG + chr8_3:66230731-66230750 Msa1303240:CDS 45.0%
ATGTCAGGAAGAGGCAAAGG+AGG + chr8_3:66230475-66230494 Msa1303240:CDS 50.0%
AGGAAGAGGCAAAGGAGGAA+AGG + chr8_3:66230480-66230499 Msa1303240:CDS 50.0%
GGAAGAGGCAAAGGAGGAAA+GGG + chr8_3:66230481-66230500 Msa1303240:CDS 50.0%
AGGAGGAAAGGGTCTTGGAA+AGG + chr8_3:66230492-66230511 Msa1303240:CDS 50.0%
GGAGGAAAGGGTCTTGGAAA+GGG + chr8_3:66230493-66230512 Msa1303240:CDS 50.0%
AGGAGCAAAACGACACCGTA+AGG + chr8_3:66230516-66230535 Msa1303240:CDS 50.0%
GGTTCTTCGCGATAACATCC+AGG + chr8_3:66230537-66230556 Msa1303240:CDS 50.0%
CCGTAAGACTGTTACTGCGA+TGG + chr8_3:66230708-66230727 Msa1303240:CDS 50.0%
GTTTACGCTCTCAAGAGGCA+GGG + chr8_3:66230736-66230755 Msa1303240:CDS 50.0%
AGGCAGGGAAGGACTCTTTA+TGG + chr8_3:66230751-66230770 Msa1303240:CDS 50.0%
GGCAAAGGAGGAAAGGGTCT+TGG + chr8_3:66230487-66230506 Msa1303240:CDS 55.0%
GGAAAGGGTCTTGGAAAGGG+AGG + chr8_3:66230496-66230515 Msa1303240:CDS 55.0%
ATTCGTCGTCTCGCAAGACG+TGG + chr8_3:66230577-66230596 Msa1303240:CDS 55.0%
GGTGGTGTGAAGCGTATCAG+TGG + chr8_3:66230598-66230617 Msa1303240:CDS 55.0%
CGTTTACGCTCTCAAGAGGC+AGG + chr8_3:66230735-66230754 Msa1303240:CDS 55.0%
TCGCAGGCTTCGTGATTCCC+TGG - chr8_3:66230558-66230577 None:intergenic 60.0%
CTTGCGAGACGACGAATCGC+AGG - chr8_3:66230574-66230593 None:intergenic 60.0%
ACGGCGAGCATGCTCTGTGT+AGG - chr8_3:66230692-66230711 None:intergenic 60.0%
ACGCTCTCAAGAGGCAGGGA+AGG + chr8_3:66230740-66230759 Msa1303240:CDS 60.0%
CGTCGTCTCGCAAGACGTGG+TGG + chr8_3:66230580-66230599 Msa1303240:CDS 65.0%
Chromosome Type Strat End Strand Name
chr8_3 gene 66230475 66230786 66230475 ID=Msa1303240;Name=Msa1303240
chr8_3 mRNA 66230475 66230786 66230475 ID=Msa1303240-mRNA-1;Parent=Msa1303240;Name=Msa1303240-mRNA-1;_AED=0.37;_eAED=0.38;_QI=0|-1|0|1|-1|1|1|0|103
chr8_3 exon 66230475 66230786 66230475 ID=Msa1303240-mRNA-1:exon:20140;Parent=Msa1303240-mRNA-1
chr8_3 CDS 66230475 66230786 66230475 ID=Msa1303240-mRNA-1:cds;Parent=Msa1303240-mRNA-1
Gene Sequence

>Msa1303240

ATGTCAGGAAGAGGCAAAGGAGGAAAGGGTCTTGGAAAGGGAGGAGCAAAACGACACCGTAAGGTTCTTCGCGATAACATCCAGGGAATCACGAAGCCTGCGATTCGTCGTCTCGCAAGACGTGGTGGTGTGAAGCGTATCAGTGGCTTAATCTATGAAGAAACTCGTGGTGTTCTCAAAATCTTTCTTGAGAATGTGATTCGTGATGCTGTCACCTACACAGAGCATGCTCGCCGTAAGACTGTTACTGCGATGGATGTCGTTTACGCTCTCAAGAGGCAGGGAAGGACTCTTTATGGATTTGGCGGTTAG

Protein sequence

>Msa1303240

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG*