AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG007028

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007028 MtrunA17_Chr2g0288361 89.610 77 8 0 1 77 1 77 8.72e-48 145
MsaG007028 MtrunA17_Chr4g0024181 50.667 75 34 2 1 74 1 73 3.78e-21 78.6
MsaG007028 MtrunA17_Chr2g0322831 56.863 51 22 0 25 75 30 80 5.64e-18 70.9
MsaG007028 MtrunA17_Chr5g0396771 58.537 41 17 0 27 67 37 77 1.39e-14 62.4
MsaG007028 MtrunA17_Chr3g0121241 51.111 45 22 0 28 72 99 143 3.62e-12 59.7
MsaG007028 MtrunA17_Chr4g0055981 51.163 43 21 0 29 71 113 155 8.08e-12 58.2
MsaG007028 MtrunA17_Chr7g0275911 51.163 43 21 0 30 72 71 113 1.74e-11 57.4
MsaG007028 MtrunA17_Chr7g0240821 47.727 44 23 0 29 72 59 102 1.76e-11 57.0
MsaG007028 MtrunA17_Chr4g0070641 44.444 45 25 0 28 72 69 113 1.86e-11 56.2
MsaG007028 MtrunA17_Chr8g0360111 47.727 44 23 0 29 72 83 126 2.65e-11 57.0
MsaG007028 MtrunA17_Chr7g0229101 45.455 44 24 0 28 71 29 72 2.66e-11 56.6
MsaG007028 MtrunA17_Chr5g0435101 48.837 43 22 0 29 71 69 111 3.74e-11 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007028 AT2G46410.1 63.636 44 16 0 27 70 36 79 1.18e-17 70.9
MsaG007028 AT5G53200.1 44.000 75 33 2 5 76 12 80 7.30e-16 66.6
MsaG007028 AT1G01380.1 56.818 44 19 0 27 70 32 75 2.23e-15 64.7
MsaG007028 AT4G01060.2 59.091 44 18 0 27 70 30 73 1.05e-14 62.8
MsaG007028 AT4G01060.1 59.091 44 18 0 27 70 33 76 1.06e-14 62.8
MsaG007028 AT4G01060.3 59.091 44 18 0 27 70 31 74 1.38e-14 62.4
MsaG007028 AT2G30420.1 47.826 46 24 0 27 72 38 83 1.34e-12 58.2
MsaG007028 AT2G30424.1 50.000 44 22 0 27 70 34 77 5.38e-12 56.6
MsaG007028 AT5G52600.1 45.455 44 24 0 29 72 70 113 1.11e-11 57.8
MsaG007028 AT5G14750.4 43.182 44 25 0 29 72 13 56 2.21e-11 55.8
MsaG007028 AT5G14750.2 43.182 44 25 0 29 72 13 56 2.21e-11 55.8
MsaG007028 AT2G30432.1 45.455 44 24 0 27 70 33 76 5.33e-11 53.5
MsaG007028 AT2G47460.1 50.000 44 22 0 29 72 70 113 6.65e-11 56.6

Find 13 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATATCTTCTGGGGTTCTTCC+TGG 0.250868 2:+12813553 None:intergenic
TGTTTAGATTGGTTGGAAAA+AGG 0.291636 2:-12813758 MsaT007028.1:intron
GCAACGATATCTTCCTCTTC+TGG 0.298430 2:+12813786 None:intergenic
CTCATTGCTGGAAGAATTCC+AGG 0.344017 2:-12813571 MsaT007028.1:CDS
GATGAAACGTGAGGCTGAAT+TGG 0.367460 2:-12813817 MsaT007028.1:CDS
TGTAGATGGCATCTCATTGC+TGG 0.394303 2:-12813583 MsaT007028.1:intron
CGTTGCGAAAATGTTTAGAT+TGG 0.408347 2:-12813769 MsaT007028.1:CDS
GCGAAAATGTTTAGATTGGT+TGG 0.408611 2:-12813765 MsaT007028.1:CDS
CAGAAGATATTGAAAAGTAT+TGG 0.446559 2:-12813540 MsaT007028.1:CDS
AACGACCAGTGTGTATCTGC+AGG 0.565195 2:-12813972 MsaT007028.1:intron
ACACTGGTCGTTGTTTGCAG+CGG 0.624404 2:+12813983 None:intergenic
TTCAGATCAGATGAAACGTG+AGG 0.676121 2:-12813826 MsaT007028.1:intron
GGGTACCTGCAGATACACAC+TGG 0.694181 2:+12813967 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 12813507 12814027 12813507 ID=MsaG007028
Chr2 mRNA 12813507 12814027 12813507 ID=MsaT007028.1;Parent=MsaG007028
Chr2 exon 12813507 12813600 12813507 ID=MsaT007028.1.exon3;Parent=MsaT007028.1
Chr2 CDS 12813507 12813600 12813507 ID=cds.MsaT007028.1;Parent=MsaT007028.1
Chr2 exon 12813759 12813843 12813759 ID=MsaT007028.1.exon2;Parent=MsaT007028.1
Chr2 CDS 12813759 12813843 12813759 ID=cds.MsaT007028.1;Parent=MsaT007028.1
Chr2 exon 12813973 12814027 12813973 ID=MsaT007028.1.exon1;Parent=MsaT007028.1
Chr2 CDS 12813973 12814027 12813973 ID=cds.MsaT007028.1;Parent=MsaT007028.1
Gene Sequence

>MsaT007028.1

ATGAGTGATTCAAAGCATGCAACCGCTGCAAACAACGACCAGTGTGTATCTGCAGATCAGATGAAACGTGAGGCTGAATTGGAATTTTCACCAGAAGAGGAAGATATCGTTGCGAAAATGTTTAGATTGGTTGGAAAAAGATGGCATCTCATTGCTGGAAGAATTCCAGGAAGAACCCCAGAAGATATTGAAAAGTATTGGACATCAAAATTCTCTTCATCAACTGCATGTTAA
Protein sequence

>MsaT007028.1

MSDSKHATAANNDQCVSADQMKREAELEFSPEEEDIVAKMFRLVGKRWHLIAGRIPGRTPEDIEKYWTSKFSSSTAC*