AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1221060


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1221060 MtrunA17_Chr4g0072411 100.000 103 0 0 1 103 59 161 5.39e-69 203
Msa1221060 MtrunA17_Chr5g0425951 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221060 MtrunA17_Chr4g0030431 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221060 MtrunA17_Chr3g0100121 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221060 MtrunA17_Chr3g0113681 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221060 MtrunA17_Chr2g0327641 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221060 MtrunA17_Chr3g0103351 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221060 MtrunA17_Chr8g0352791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221060 MtrunA17_Chr3g0103821 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221060 MtrunA17_Chr3g0104031 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221060 MtrunA17_Chr7g0225731 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221060 MtrunA17_Chr3g0103801 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221060 MtrunA17_Chr3g0103881 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221060 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
Msa1221060 AT3G53730.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221060 AT1G07820.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221060 AT1G07820.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221060 AT5G59690.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221060 AT3G46320.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221060 AT2G28740.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221060 AT1G07660.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221060 AT3G45930.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221060 AT5G59970.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221060 AT5G59970.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221060 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_1:-84512526 Msa1221060:CDS
GGAAGGACTCTTTATGGATT+TGG 0.297351 8_1:-84512520 Msa1221060:CDS
TCCTTTGCCTCTTCCTGACA+TGG 0.418595 8_1:+84512804 None:intergenic
TCTTTATGGATTTGGCGGTT+AGG 0.439485 8_1:-84512512 None:intergenic
GGCAAAGGAGGAAAGGGTCT+TGG 0.446329 8_1:-84512790 Msa1221060:CDS
CAAGAATTCACAGCCATGTC+AGG 0.481900 8_1:-84512817 None:intergenic
CGTTTACGCTCTCAAGAGGC+AGG 0.488613 8_1:-84512542 Msa1221060:CDS
GGTTCTTCGCGATAACATCC+AGG 0.500175 8_1:-84512740 Msa1221060:CDS
AGGACTCTTTATGGATTTGG+CGG 0.509079 8_1:-84512517 Msa1221060:CDS
GGAGGAAAGGGTCTTGGAAA+GGG 0.511441 8_1:-84512784 Msa1221060:CDS
TCGCAGGCTTCGTGATTCCC+TGG 0.511861 8_1:+84512722 None:intergenic
AGGAAGAGGCAAAGGAGGAA+AGG 0.518412 8_1:-84512797 Msa1221060:CDS
GGAAGAGGCAAAGGAGGAAA+GGG 0.527098 8_1:-84512796 Msa1221060:CDS
CCATCGCAGTAACAGTCTTA+CGG 0.545551 8_1:+84512569 None:intergenic
GCCATGTCAGGAAGAGGCAA+AGG 0.547501 8_1:-84512805 Msa1221060:CDS
AGGAGGAAAGGGTCTTGGAA+AGG 0.553664 8_1:-84512785 Msa1221060:CDS
CCGTAAGACTGTTACTGCGA+TGG 0.561095 8_1:-84512569 Msa1221060:CDS
CTTGCGAGACGACGAATCGC+AGG 0.571080 8_1:+84512706 None:intergenic
TTCACAGCCATGTCAGGAAG+AGG 0.573281 8_1:-84512811 None:intergenic
AGGAGCAAAACGACACCGTA+AGG 0.575994 8_1:-84512761 Msa1221060:CDS
TGTTATCGCGAAGAACCTTA+CGG 0.576355 8_1:+84512746 None:intergenic
ATGTCAGGAAGAGGCAAAGG+AGG 0.581057 8_1:-84512802 Msa1221060:CDS
ACGCTCTCAAGAGGCAGGGA+AGG 0.583359 8_1:-84512537 Msa1221060:CDS
ACGGCGAGCATGCTCTGTGT+AGG 0.590446 8_1:+84512588 None:intergenic
GGAAAGGGTCTTGGAAAGGG+AGG 0.621886 8_1:-84512781 Msa1221060:CDS
ATTCGTCGTCTCGCAAGACG+TGG 0.624267 8_1:-84512700 Msa1221060:CDS
TTAATCTATGAAGAAACTCG+TGG 0.634992 8_1:-84512655 Msa1221060:CDS
ATGTCGTTTACGCTCTCAAG+AGG 0.636714 8_1:-84512546 Msa1221060:CDS
GTTCTTCGCGATAACATCCA+GGG 0.657095 8_1:-84512739 Msa1221060:CDS
GTTTACGCTCTCAAGAGGCA+GGG 0.663401 8_1:-84512541 Msa1221060:CDS
GGTGGTGTGAAGCGTATCAG+TGG 0.669421 8_1:-84512679 Msa1221060:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTAATCTATGAAGAAACTCG+TGG - chr8_1:84512660-84512679 Msa1221060:CDS 30.0%
TGTTATCGCGAAGAACCTTA+CGG + chr8_1:84512572-84512591 None:intergenic 40.0%
GGAAGGACTCTTTATGGATT+TGG - chr8_1:84512795-84512814 Msa1221060:CDS 40.0%
AGGACTCTTTATGGATTTGG+CGG - chr8_1:84512798-84512817 Msa1221060:CDS 40.0%
GTTCTTCGCGATAACATCCA+GGG - chr8_1:84512576-84512595 Msa1221060:CDS 45.0%
CCATCGCAGTAACAGTCTTA+CGG + chr8_1:84512749-84512768 None:intergenic 45.0%
! ATGTCGTTTACGCTCTCAAG+AGG - chr8_1:84512769-84512788 Msa1221060:CDS 45.0%
ATGTCAGGAAGAGGCAAAGG+AGG - chr8_1:84512513-84512532 Msa1221060:CDS 50.0%
AGGAAGAGGCAAAGGAGGAA+AGG - chr8_1:84512518-84512537 Msa1221060:CDS 50.0%
GGAAGAGGCAAAGGAGGAAA+GGG - chr8_1:84512519-84512538 Msa1221060:CDS 50.0%
AGGAGGAAAGGGTCTTGGAA+AGG - chr8_1:84512530-84512549 Msa1221060:CDS 50.0%
GGAGGAAAGGGTCTTGGAAA+GGG - chr8_1:84512531-84512550 Msa1221060:CDS 50.0%
AGGAGCAAAACGACACCGTA+AGG - chr8_1:84512554-84512573 Msa1221060:CDS 50.0%
GGTTCTTCGCGATAACATCC+AGG - chr8_1:84512575-84512594 Msa1221060:CDS 50.0%
CCGTAAGACTGTTACTGCGA+TGG - chr8_1:84512746-84512765 Msa1221060:CDS 50.0%
GTTTACGCTCTCAAGAGGCA+GGG - chr8_1:84512774-84512793 Msa1221060:CDS 50.0%
AGGCAGGGAAGGACTCTTTA+TGG - chr8_1:84512789-84512808 Msa1221060:CDS 50.0%
GGCAAAGGAGGAAAGGGTCT+TGG - chr8_1:84512525-84512544 Msa1221060:CDS 55.0%
GGAAAGGGTCTTGGAAAGGG+AGG - chr8_1:84512534-84512553 Msa1221060:CDS 55.0%
ATTCGTCGTCTCGCAAGACG+TGG - chr8_1:84512615-84512634 Msa1221060:CDS 55.0%
GGTGGTGTGAAGCGTATCAG+TGG - chr8_1:84512636-84512655 Msa1221060:CDS 55.0%
CGTTTACGCTCTCAAGAGGC+AGG - chr8_1:84512773-84512792 Msa1221060:CDS 55.0%
TCGCAGGCTTCGTGATTCCC+TGG + chr8_1:84512596-84512615 None:intergenic 60.0%
CTTGCGAGACGACGAATCGC+AGG + chr8_1:84512612-84512631 None:intergenic 60.0%
ACGGCGAGCATGCTCTGTGT+AGG + chr8_1:84512730-84512749 None:intergenic 60.0%
ACGCTCTCAAGAGGCAGGGA+AGG - chr8_1:84512778-84512797 Msa1221060:CDS 60.0%
CGTCGTCTCGCAAGACGTGG+TGG - chr8_1:84512618-84512637 Msa1221060:CDS 65.0%
Chromosome Type Strat End Strand Name
chr8_1 gene 84512513 84512824 84512513 ID=Msa1221060;Name=Msa1221060
chr8_1 mRNA 84512513 84512824 84512513 ID=Msa1221060-mRNA-1;Parent=Msa1221060;Name=Msa1221060-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|103
chr8_1 exon 84512513 84512824 84512513 ID=Msa1221060-mRNA-1:exon:30361;Parent=Msa1221060-mRNA-1
chr8_1 CDS 84512513 84512824 84512513 ID=Msa1221060-mRNA-1:cds;Parent=Msa1221060-mRNA-1
Gene Sequence

>Msa1221060

ATGTCAGGAAGAGGCAAAGGAGGAAAGGGTCTTGGAAAGGGAGGAGCAAAACGACACCGTAAGGTTCTTCGCGATAACATCCAGGGAATCACGAAGCCTGCGATTCGTCGTCTCGCAAGACGTGGTGGTGTGAAGCGTATCAGTGGCTTAATCTATGAAGAAACTCGTGGTGTTCTCAAAATCTTTCTTGAGAATGTGATTCGTGATGCTGTCACCTACACAGAGCATGCTCGCCGTAAGACTGTTACTGCGATGGATGTCGTTTACGCTCTCAAGAGGCAGGGAAGGACTCTTTATGGATTTGGCGGTTAG

Protein sequence

>Msa1221060

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG*