AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1182650

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1182650 MtrunA17_Chr8g0335881 81.034 58 10 1 1 57 1 58 2.80e-28 100
Msa1182650 MtrunA17_Chr8g0337471 84.906 53 8 0 1 53 1 53 1.10e-27 100
Msa1182650 MtrunA17_Chr8g0337491 86.792 53 7 0 1 53 1 53 1.29e-27 101
Msa1182650 MtrunA17_Chr8g0337491 83.019 53 9 0 1 53 367 419 3.67e-26 97.8
Msa1182650 MtrunA17_Chr8g0337371 83.051 59 9 1 1 58 49 107 1.30e-27 102
Msa1182650 MtrunA17_Chr8g0337371 86.792 53 7 0 1 53 496 548 1.01e-26 100
Msa1182650 MtrunA17_Chr8g0337451 88.679 53 5 1 1 53 1 52 7.73e-27 98.6
Msa1182650 MtrunA17_Chr8g0337361 81.034 58 10 1 1 57 60 117 3.21e-26 97.8
Msa1182650 MtrunA17_Chr4g0043061 60.000 50 19 1 4 53 10 58 1.04e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1182650 AT3G03080.1 63.793 58 19 2 2 58 7 63 9.17e-18 74.7
Msa1182650 AT5G17000.2 68.519 54 15 2 6 58 5 57 9.99e-18 73.6
Msa1182650 AT5G17000.1 68.519 54 15 2 6 58 5 57 2.43e-17 73.6
Msa1182650 AT5G16970.1 64.815 54 17 2 6 58 5 57 1.00e-16 71.6
Msa1182650 AT1G26320.2 62.000 50 18 1 4 53 9 57 8.63e-16 69.3
Msa1182650 AT1G26320.1 62.000 50 18 1 4 53 9 57 8.79e-16 69.3
Msa1182650 AT5G16990.1 66.667 48 15 1 6 53 4 50 1.15e-15 68.9
Msa1182650 AT5G37980.1 64.815 54 17 2 6 58 12 64 3.61e-15 67.4
Msa1182650 AT5G38000.2 64.583 48 16 1 6 53 12 58 2.87e-14 65.1
Msa1182650 AT5G38000.3 64.583 48 16 1 6 53 12 58 3.02e-14 65.1
Msa1182650 AT5G38000.1 64.583 48 16 1 6 53 12 58 3.03e-14 65.1
Msa1182650 AT5G37940.1 62.500 48 17 1 6 53 12 58 5.56e-14 64.3
Msa1182650 AT5G16960.2 54.717 53 23 1 1 53 1 52 7.05e-12 58.2
Msa1182650 AT5G16960.1 54.717 53 23 1 1 53 1 52 7.05e-12 58.2
Msa1182650 AT1G65560.1 56.863 51 20 2 4 53 7 56 1.04e-11 57.8
Msa1182650 AT3G59845.1 57.692 52 19 2 4 53 5 55 1.71e-11 57.4

Find 6 sgRNAs with CRISPR-Local

Find 6 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGTTCATGTCTGATTCTTT+AGG 0.265462 8_1:+17777385 None:intergenic
TTGCGGAAGCTTGAGAGTTA+CGG 0.493478 8_1:+17777351 None:intergenic
ATTCTGAAACACTATGTGTC+TGG 0.502828 8_1:-17777412 Msa1182650:CDS
ACTTGTCTTGTGATCTGTTG+CGG 0.544592 8_1:-17777294 Msa1182650:CDS
ACAATATCATTTGAACCTTG+CGG 0.605343 8_1:+17777334 None:intergenic
GTAACTCTCAAGCTTCCGCA+AGG 0.644285 8_1:-17777349 Msa1182650:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATGTTCATGTCTGATTCTTT+AGG + chr8_1:17777342-17777361 None:intergenic 30.0%
ACAATATCATTTGAACCTTG+CGG + chr8_1:17777393-17777412 None:intergenic 30.0%
!! ATTCTGAAACACTATGTGTC+TGG - chr8_1:17777312-17777331 Msa1182650:CDS 35.0%
ACTTGTCTTGTGATCTGTTG+CGG - chr8_1:17777430-17777449 Msa1182650:CDS 40.0%
TTGCGGAAGCTTGAGAGTTA+CGG + chr8_1:17777376-17777395 None:intergenic 45.0%
GTAACTCTCAAGCTTCCGCA+AGG - chr8_1:17777375-17777394 Msa1182650:CDS 50.0%
Chromosome Type Strat End Strand Name
chr8_1 gene 17777285 17777461 17777285 ID=Msa1182650;Name=Msa1182650
chr8_1 mRNA 17777285 17777461 17777285 ID=Msa1182650-mRNA-1;Parent=Msa1182650;Name=Msa1182650-mRNA-1;_AED=0.61;_eAED=0.61;_QI=0|-1|0|1|-1|1|1|0|58
chr8_1 exon 17777285 17777461 17777285 ID=Msa1182650-mRNA-1:exon:6722;Parent=Msa1182650-mRNA-1
chr8_1 CDS 17777285 17777461 17777285 ID=Msa1182650-mRNA-1:cds;Parent=Msa1182650-mRNA-1
Gene Sequence

>Msa1182650

ATGGCGCAAGTAAAGAACAAACAAGTGATTCTGAAACACTATGTGTCTGGTTTTCCTAAAGAATCAGACATGAACATTGTTGAAAGTACCGTAACTCTCAAGCTTCCGCAAGGTTCAAATGATATTGTTCTGCTCAAAAATCTCTACTTGTCTTGTGATCTGTTGCGGATTCGATGA
Protein sequence

>Msa1182650

MAQVKNKQVILKHYVSGFPKESDMNIVESTVTLKLPQGSNDIVLLKNLYLSCDLLRIR*