AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1078170


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1078170 MtrunA17_Chr4g0072411 100.000 103 0 0 1 103 59 161 5.39e-69 203
Msa1078170 MtrunA17_Chr5g0425951 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1078170 MtrunA17_Chr4g0030431 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1078170 MtrunA17_Chr3g0100121 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1078170 MtrunA17_Chr3g0113681 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1078170 MtrunA17_Chr2g0327641 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1078170 MtrunA17_Chr3g0103351 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1078170 MtrunA17_Chr8g0352791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1078170 MtrunA17_Chr3g0103821 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1078170 MtrunA17_Chr3g0104031 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1078170 MtrunA17_Chr7g0225731 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1078170 MtrunA17_Chr3g0103801 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1078170 MtrunA17_Chr3g0103881 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1078170 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
Msa1078170 AT3G53730.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1078170 AT1G07820.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1078170 AT1G07820.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1078170 AT5G59690.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1078170 AT3G46320.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1078170 AT2G28740.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1078170 AT1G07660.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1078170 AT3G45930.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1078170 AT5G59970.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1078170 AT5G59970.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1078170 AT1G07660.2 83.495 103 0 1 1 103 1 86 4.52e-51 155

Find 33 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGTGTTCTCAAGATCTTCT+TGG 0.300875 7_2:+77053688 Msa1078170:CDS
GGAAGGACCCTTTACGGTTT+CGG 0.307868 7_2:+77053803 Msa1078170:CDS
TGGAAAAGGTGGAAAAGGTT+TGG 0.419608 7_2:+77053532 Msa1078170:CDS
GGAAAAGGTGGAAAAGGTTT+GGG 0.432725 7_2:+77053533 Msa1078170:CDS
AGGCAGGGAAGGACCCTTTA+CGG 0.435749 7_2:+77053797 Msa1078170:CDS
TCGCAGGCTTTGTTATGCCT+TGG 0.436279 7_2:-77053601 None:intergenic
GGTGGAAAAGGTTTGGGAAA+GGG 0.442921 7_2:+77053539 Msa1078170:CDS
TCAACCACCGAAACCGTAAA+GGG 0.488164 7_2:-77053810 None:intergenic
CTGCGATTCGTCGTCTTGCA+AGG 0.502831 7_2:+77053618 Msa1078170:CDS
TCAGTGCAAGCGAAAATGTC+AGG 0.509801 7_2:+77053506 None:intergenic
TGTCTATGCTCTCAAGAGGC+AGG 0.510611 7_2:+77053781 Msa1078170:CDS
AAAATGTCAGGTCGTGGAAA+AGG 0.512942 7_2:+77053518 None:intergenic
GGAAAAGGTTTGGGAAAGGG+AGG 0.514769 7_2:+77053542 Msa1078170:CDS
ATCAACCACCGAAACCGTAA+AGG 0.525393 7_2:-77053811 None:intergenic
GGTCGTGGAAAAGGTGGAAA+AGG 0.536368 7_2:+77053527 Msa1078170:CDS
TTACTTACACTGAGCACGCT+AGG 0.551062 7_2:+77053732 Msa1078170:CDS
CAAGCGAAAATGTCAGGTCG+TGG 0.551935 7_2:+77053512 None:intergenic
CTTGCAAGACGACGAATCGC+AGG 0.552192 7_2:-77053617 None:intergenic
ATGCTCTCAAGAGGCAGGGA+AGG 0.564763 7_2:+77053786 Msa1078170:CDS
AGGTGGAAAAGGTTTGGGAA+AGG 0.583555 7_2:+77053538 Msa1078170:CDS
GTCTATGCTCTCAAGAGGCA+GGG 0.585715 7_2:+77053782 Msa1078170:CDS
GAGAAAGACTGTTACCGCCA+TGG 0.588179 7_2:+77053754 Msa1078170:CDS
ATGTCAGGTCGTGGAAAAGG+TGG 0.588325 7_2:+77053521 Msa1078170:CDS
AGGAGCAAAGAGACACAGAA+AGG 0.597296 7_2:+77053562 Msa1078170:CDS
AGGACCCTTTACGGTTTCGG+TGG 0.602372 7_2:+77053806 Msa1078170:CDS
CGTCGTCTTGCAAGGCGTGG+TGG 0.615268 7_2:+77053626 Msa1078170:CDS
ATTCGTCGTCTTGCAAGGCG+TGG 0.619919 7_2:+77053623 Msa1078170:CDS
GTTCTTCGCGATAACATCCA+AGG 0.633409 7_2:+77053584 Msa1078170:CDS
GAGAGCATAGACAACATCCA+TGG 0.645428 7_2:-77053771 None:intergenic
ATGTTGTCTATGCTCTCAAG+AGG 0.677658 7_2:+77053777 Msa1078170:CDS
GGTGGTGTGAAGAGAATCAG+CGG 0.689951 7_2:+77053644 Msa1078170:CDS
CTCATCTATGAAGAGACTCG+CGG 0.713431 7_2:+77053668 Msa1078170:CDS
AGCATAGACAACATCCATGG+CGG 0.735882 7_2:-77053768 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TGGAAAAGGTGGAAAAGGTT+TGG + chr7_2:77053532-77053551 Msa1078170:CDS 40.0%
GGAAAAGGTGGAAAAGGTTT+GGG + chr7_2:77053533-77053552 Msa1078170:CDS 40.0%
ATGTTGTCTATGCTCTCAAG+AGG + chr7_2:77053777-77053796 Msa1078170:CDS 40.0%
AGGTGGAAAAGGTTTGGGAA+AGG + chr7_2:77053538-77053557 Msa1078170:CDS 45.0%
GGTGGAAAAGGTTTGGGAAA+GGG + chr7_2:77053539-77053558 Msa1078170:CDS 45.0%
AGGAGCAAAGAGACACAGAA+AGG + chr7_2:77053562-77053581 Msa1078170:CDS 45.0%
GTTCTTCGCGATAACATCCA+AGG + chr7_2:77053584-77053603 Msa1078170:CDS 45.0%
CTCATCTATGAAGAGACTCG+CGG + chr7_2:77053668-77053687 Msa1078170:CDS 45.0%
CGGTGTTCTCAAGATCTTCT+TGG + chr7_2:77053688-77053707 Msa1078170:CDS 45.0%
TTACTTACACTGAGCACGCT+AGG + chr7_2:77053732-77053751 Msa1078170:CDS 45.0%
AGCATAGACAACATCCATGG+CGG - chr7_2:77053771-77053790 None:intergenic 45.0%
! GAGAGCATAGACAACATCCA+TGG - chr7_2:77053774-77053793 None:intergenic 45.0%
TCAACCACCGAAACCGTAAA+GGG - chr7_2:77053813-77053832 None:intergenic 45.0%
ATGTCAGGTCGTGGAAAAGG+TGG + chr7_2:77053521-77053540 Msa1078170:CDS 50.0%
GGTCGTGGAAAAGGTGGAAA+AGG + chr7_2:77053527-77053546 Msa1078170:CDS 50.0%
GGAAAAGGTTTGGGAAAGGG+AGG + chr7_2:77053542-77053561 Msa1078170:CDS 50.0%
!! TCGCAGGCTTTGTTATGCCT+TGG - chr7_2:77053604-77053623 None:intergenic 50.0%
GGTGGTGTGAAGAGAATCAG+CGG + chr7_2:77053644-77053663 Msa1078170:CDS 50.0%
GAGAAAGACTGTTACCGCCA+TGG + chr7_2:77053754-77053773 Msa1078170:CDS 50.0%
TGTCTATGCTCTCAAGAGGC+AGG + chr7_2:77053781-77053800 Msa1078170:CDS 50.0%
GTCTATGCTCTCAAGAGGCA+GGG + chr7_2:77053782-77053801 Msa1078170:CDS 50.0%
GGAAGGACCCTTTACGGTTT+CGG + chr7_2:77053803-77053822 Msa1078170:CDS 50.0%
CTTGCAAGACGACGAATCGC+AGG - chr7_2:77053620-77053639 None:intergenic 55.0%
CTGCGATTCGTCGTCTTGCA+AGG + chr7_2:77053618-77053637 Msa1078170:CDS 55.0%
ATTCGTCGTCTTGCAAGGCG+TGG + chr7_2:77053623-77053642 Msa1078170:CDS 55.0%
ATGCTCTCAAGAGGCAGGGA+AGG + chr7_2:77053786-77053805 Msa1078170:CDS 55.0%
AGGCAGGGAAGGACCCTTTA+CGG + chr7_2:77053797-77053816 Msa1078170:CDS 55.0%
AGGACCCTTTACGGTTTCGG+TGG + chr7_2:77053806-77053825 Msa1078170:CDS 55.0%
CGTCGTCTTGCAAGGCGTGG+TGG + chr7_2:77053626-77053645 Msa1078170:CDS 65.0%
Chromosome Type Strat End Strand Name
chr7_2 gene 77053521 77053832 77053521 ID=Msa1078170;Name=Msa1078170
chr7_2 mRNA 77053521 77053832 77053521 ID=Msa1078170-mRNA-1;Parent=Msa1078170;Name=Msa1078170-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|103
chr7_2 exon 77053521 77053832 77053521 ID=Msa1078170-mRNA-1:exon:18825;Parent=Msa1078170-mRNA-1
chr7_2 CDS 77053521 77053832 77053521 ID=Msa1078170-mRNA-1:cds;Parent=Msa1078170-mRNA-1
Gene Sequence

>Msa1078170

ATGTCAGGTCGTGGAAAAGGTGGAAAAGGTTTGGGAAAGGGAGGAGCAAAGAGACACAGAAAGGTTCTTCGCGATAACATCCAAGGCATAACAAAGCCTGCGATTCGTCGTCTTGCAAGGCGTGGTGGTGTGAAGAGAATCAGCGGTCTCATCTATGAAGAGACTCGCGGTGTTCTCAAGATCTTCTTGGAAAACGTGATTCGCGATGCTGTTACTTACACTGAGCACGCTAGGAGAAAGACTGTTACCGCCATGGATGTTGTCTATGCTCTCAAGAGGCAGGGAAGGACCCTTTACGGTTTCGGTGGTTGA

Protein sequence

>Msa1078170

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG*