AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1221050


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1221050 MtrunA17_Chr4g0072411 100.000 103 0 0 1 103 59 161 5.39e-69 203
Msa1221050 MtrunA17_Chr5g0425951 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221050 MtrunA17_Chr4g0030431 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221050 MtrunA17_Chr3g0100121 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221050 MtrunA17_Chr3g0113681 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221050 MtrunA17_Chr2g0327641 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221050 MtrunA17_Chr3g0103351 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221050 MtrunA17_Chr8g0352791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221050 MtrunA17_Chr3g0103821 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221050 MtrunA17_Chr3g0104031 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221050 MtrunA17_Chr7g0225731 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221050 MtrunA17_Chr3g0103801 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221050 MtrunA17_Chr3g0103881 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1221050 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
Msa1221050 AT3G53730.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221050 AT1G07820.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221050 AT1G07820.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221050 AT5G59690.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221050 AT3G46320.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221050 AT2G28740.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221050 AT1G07660.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221050 AT3G45930.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221050 AT5G59970.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221050 AT5G59970.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1221050 AT1G07660.2 83.495 103 0 1 1 103 1 86 4.52e-51 155

Find 31 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGCAGGGGAGGACTCTTTA+TGG 0.255446 8_1:-84507395 Msa1221050:CDS
GGGAGGACTCTTTATGGATT+TGG 0.328696 8_1:-84507389 Msa1221050:CDS
GGCAAAGGAGGAAAGGGTTT+AGG 0.384869 8_1:-84507659 Msa1221050:CDS
GGAGGAAAGGGTTTAGGAAA+GGG 0.429069 8_1:-84507653 Msa1221050:CDS
TCTTTATGGATTTGGCGGTT+AGG 0.439485 8_1:-84507381 None:intergenic
TCGCAGGCTTTGTAATTCCC+TGG 0.486609 8_1:+84507591 None:intergenic
TGTTTACGCTCTCAAGAGGC+AGG 0.493747 8_1:-84507411 Msa1221050:CDS
AGGACTCTTTATGGATTTGG+CGG 0.515922 8_1:-84507386 Msa1221050:CDS
AGGAAGAGGCAAAGGAGGAA+AGG 0.518412 8_1:-84507666 Msa1221050:CDS
GGTTCTTCGTGATAACATCC+AGG 0.522451 8_1:-84507609 Msa1221050:CDS
GGAAGAGGCAAAGGAGGAAA+GGG 0.527098 8_1:-84507665 Msa1221050:CDS
AGGAGGAAAGGGTTTAGGAA+AGG 0.528235 8_1:-84507654 Msa1221050:CDS
GGAAAGGGTTTAGGAAAGGG+AGG 0.536831 8_1:-84507650 Msa1221050:CDS
CCATCGCAGTAACAGTCTTA+CGG 0.545551 8_1:+84507438 None:intergenic
GCGATGTCAGGAAGAGGCAA+AGG 0.557914 8_1:-84507674 Msa1221050:CDS
CCGTAAGACTGTTACTGCGA+TGG 0.561095 8_1:-84507438 Msa1221050:CDS
TGTTATCACGAAGAACCTTA+CGG 0.569497 8_1:+84507615 None:intergenic
TTCACAGCGATGTCAGGAAG+AGG 0.573275 8_1:-84507680 None:intergenic
AGGAGCAAAACGACACCGTA+AGG 0.575994 8_1:-84507630 Msa1221050:CDS
TTTACGCTCTCAAGAGGCAG+GGG 0.581284 8_1:-84507409 Msa1221050:CDS
CTTGCAAGACGACGAATCGC+AGG 0.588436 8_1:+84507575 None:intergenic
ACGGCGAGCATGCTCTGTGT+AGG 0.590446 8_1:+84507457 None:intergenic
GTTTACGCTCTCAAGAGGCA+GGG 0.591999 8_1:-84507410 Msa1221050:CDS
ATGTCAGGAAGAGGCAAAGG+AGG 0.592835 8_1:-84507671 Msa1221050:CDS
ACGCTCTCAAGAGGCAGGGG+AGG 0.605625 8_1:-84507406 Msa1221050:CDS
ATGTTGTTTACGCTCTCAAG+AGG 0.616421 8_1:-84507415 Msa1221050:CDS
GTTCTTCGTGATAACATCCA+GGG 0.626731 8_1:-84507608 Msa1221050:CDS
CGTCGTCTTGCAAGACGTGG+TGG 0.633046 8_1:-84507566 Msa1221050:CDS
ATTCGTCGTCTTGCAAGACG+TGG 0.646636 8_1:-84507569 Msa1221050:CDS
TTAATCTATGAAGAAACTCG+TGG 0.649567 8_1:-84507524 Msa1221050:CDS
GGTGGTGTGAAACGTATCAG+TGG 0.728069 8_1:-84507548 Msa1221050:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTAATCTATGAAGAAACTCG+TGG - chr8_1:84507529-84507548 Msa1221050:CDS 30.0%
TGTTATCACGAAGAACCTTA+CGG + chr8_1:84507441-84507460 None:intergenic 35.0%
GTTCTTCGTGATAACATCCA+GGG - chr8_1:84507445-84507464 Msa1221050:CDS 40.0%
! ATGTTGTTTACGCTCTCAAG+AGG - chr8_1:84507638-84507657 Msa1221050:CDS 40.0%
AGGACTCTTTATGGATTTGG+CGG - chr8_1:84507667-84507686 Msa1221050:CDS 40.0%
AGGAGGAAAGGGTTTAGGAA+AGG - chr8_1:84507399-84507418 Msa1221050:CDS 45.0%
GGAGGAAAGGGTTTAGGAAA+GGG - chr8_1:84507400-84507419 Msa1221050:CDS 45.0%
GGTTCTTCGTGATAACATCC+AGG - chr8_1:84507444-84507463 Msa1221050:CDS 45.0%
CCATCGCAGTAACAGTCTTA+CGG + chr8_1:84507618-84507637 None:intergenic 45.0%
GGGAGGACTCTTTATGGATT+TGG - chr8_1:84507664-84507683 Msa1221050:CDS 45.0%
ATGTCAGGAAGAGGCAAAGG+AGG - chr8_1:84507382-84507401 Msa1221050:CDS 50.0%
AGGAAGAGGCAAAGGAGGAA+AGG - chr8_1:84507387-84507406 Msa1221050:CDS 50.0%
GGAAGAGGCAAAGGAGGAAA+GGG - chr8_1:84507388-84507407 Msa1221050:CDS 50.0%
GGCAAAGGAGGAAAGGGTTT+AGG - chr8_1:84507394-84507413 Msa1221050:CDS 50.0%
GGAAAGGGTTTAGGAAAGGG+AGG - chr8_1:84507403-84507422 Msa1221050:CDS 50.0%
AGGAGCAAAACGACACCGTA+AGG - chr8_1:84507423-84507442 Msa1221050:CDS 50.0%
! TCGCAGGCTTTGTAATTCCC+TGG + chr8_1:84507465-84507484 None:intergenic 50.0%
ATTCGTCGTCTTGCAAGACG+TGG - chr8_1:84507484-84507503 Msa1221050:CDS 50.0%
GGTGGTGTGAAACGTATCAG+TGG - chr8_1:84507505-84507524 Msa1221050:CDS 50.0%
CCGTAAGACTGTTACTGCGA+TGG - chr8_1:84507615-84507634 Msa1221050:CDS 50.0%
TGTTTACGCTCTCAAGAGGC+AGG - chr8_1:84507642-84507661 Msa1221050:CDS 50.0%
GTTTACGCTCTCAAGAGGCA+GGG - chr8_1:84507643-84507662 Msa1221050:CDS 50.0%
TTTACGCTCTCAAGAGGCAG+GGG - chr8_1:84507644-84507663 Msa1221050:CDS 50.0%
CTTGCAAGACGACGAATCGC+AGG + chr8_1:84507481-84507500 None:intergenic 55.0%
AGGCAGGGGAGGACTCTTTA+TGG - chr8_1:84507658-84507677 Msa1221050:CDS 55.0%
CGTCGTCTTGCAAGACGTGG+TGG - chr8_1:84507487-84507506 Msa1221050:CDS 60.0%
ACGGCGAGCATGCTCTGTGT+AGG + chr8_1:84507599-84507618 None:intergenic 60.0%
ACGCTCTCAAGAGGCAGGGG+AGG - chr8_1:84507647-84507666 Msa1221050:CDS 65.0%
Chromosome Type Strat End Strand Name
chr8_1 gene 84507382 84507693 84507382 ID=Msa1221050;Name=Msa1221050
chr8_1 mRNA 84507382 84507693 84507382 ID=Msa1221050-mRNA-1;Parent=Msa1221050;Name=Msa1221050-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|103
chr8_1 exon 84507382 84507693 84507382 ID=Msa1221050-mRNA-1:exon:30362;Parent=Msa1221050-mRNA-1
chr8_1 CDS 84507382 84507693 84507382 ID=Msa1221050-mRNA-1:cds;Parent=Msa1221050-mRNA-1
Gene Sequence

>Msa1221050

ATGTCAGGAAGAGGCAAAGGAGGAAAGGGTTTAGGAAAGGGAGGAGCAAAACGACACCGTAAGGTTCTTCGTGATAACATCCAGGGAATTACAAAGCCTGCGATTCGTCGTCTTGCAAGACGTGGTGGTGTGAAACGTATCAGTGGTTTAATCTATGAAGAAACTCGTGGTGTTCTCAAAATCTTTCTTGAGAACGTGATTCGTGATGCTGTCACCTACACAGAGCATGCTCGCCGTAAGACTGTTACTGCGATGGATGTTGTTTACGCTCTCAAGAGGCAGGGGAGGACTCTTTATGGATTTGGCGGTTAG

Protein sequence

>Msa1221050

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG*