AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0594240

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0594240 MtrunA17_Chr8g0351751 80.328 61 12 0 1 61 1 61 3.56e-30 105
Msa0594240 MtrunA17_Chr4g0014321 81.667 60 11 0 1 60 1 60 3.51e-29 102
Msa0594240 MtrunA17_Chr4g0013041 80.328 61 10 1 1 61 1 59 4.16e-27 96.7
Msa0594240 MtrunA17_Chr3g0107381 62.295 61 23 0 1 61 1 61 3.82e-23 87.0
Msa0594240 MtrunA17_Chr4g0014031 77.049 61 14 0 1 61 1 61 7.93e-22 83.6
Msa0594240 MtrunA17_Chr2g0296831 73.333 60 16 0 1 60 1 60 1.31e-21 80.5
Msa0594240 MtrunA17_Chr2g0283941 62.712 59 22 0 1 59 1 59 1.34e-21 83.6
Msa0594240 MtrunA17_Chr3g0107331 59.322 59 24 0 3 61 2 60 2.14e-21 80.9
Msa0594240 MtrunA17_Chr5g0420351 60.000 60 24 0 1 60 1 60 6.12e-21 79.7
Msa0594240 MtrunA17_Chr3g0107351 59.322 59 24 0 3 61 2 60 1.27e-20 79.0
Msa0594240 MtrunA17_Chr3g0110131 70.492 61 18 0 1 61 1 61 2.09e-20 80.1
Msa0594240 MtrunA17_Chr1g0197461 63.793 58 21 0 3 60 2 59 2.18e-20 78.2
Msa0594240 MtrunA17_Chr1g0188681 58.333 60 25 0 1 60 1 60 2.30e-20 78.2
Msa0594240 MtrunA17_Chr1g0197261 57.377 61 26 0 1 61 1 61 4.90e-20 77.4
Msa0594240 MtrunA17_Chr3g0107341 59.322 59 24 0 3 61 2 60 9.53e-20 76.6
Msa0594240 MtrunA17_Chr3g0107361 57.627 59 25 0 3 61 2 60 1.67e-19 76.3
Msa0594240 MtrunA17_Chr1g0197321 55.738 61 27 0 1 61 1 61 9.92e-19 73.9
Msa0594240 MtrunA17_Chr4g0014121 73.770 61 16 0 1 61 29 89 3.62e-18 73.2
Msa0594240 MtrunA17_Chr5g0432691 53.333 60 28 0 1 60 1 60 7.80e-18 72.0
Msa0594240 MtrunA17_Chr4g0014131 73.770 61 16 0 1 61 1 61 4.22e-17 71.2
Msa0594240 MtrunA17_Chr3g0107461 47.541 61 32 0 1 61 1 61 3.46e-16 67.8
Msa0594240 MtrunA17_Chr4g0008701 45.312 64 32 1 1 61 1 64 4.13e-14 64.3
Msa0594240 MtrunA17_Chr7g0218151 55.000 60 27 0 1 60 1 60 4.95e-14 62.0
Msa0594240 MtrunA17_Chr7g0267601 43.750 64 33 1 1 61 1 64 5.02e-14 64.3
Msa0594240 MtrunA17_Chr2g0296861 43.333 60 34 0 1 60 1 60 6.35e-14 61.6
Msa0594240 MtrunA17_Chr4g0012761 55.000 60 27 0 1 60 1 60 4.21e-13 59.7
Msa0594240 MtrunA17_Chr1g0193311 56.667 60 26 0 1 60 1 60 5.68e-13 59.3
Msa0594240 MtrunA17_Chr1g0188661 53.333 60 28 0 1 60 1 60 7.03e-13 58.9
Msa0594240 MtrunA17_Chr3g0128721 40.678 59 35 0 3 61 6 64 2.08e-12 59.7
Msa0594240 MtrunA17_Chr6g0457851 48.438 64 28 2 1 59 11 74 1.07e-11 57.8
Msa0594240 MtrunA17_Chr1g0212151 42.188 64 32 1 1 59 1 64 2.37e-11 56.6
Msa0594240 MtrunA17_Chr1g0188651 55.000 60 27 0 1 60 1 60 3.16e-11 54.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0594240 AT3G05860.2 56.667 60 26 0 1 60 1 60 1.06e-21 83.2
Msa0594240 AT3G05860.3 56.667 60 26 0 1 60 1 60 2.89e-20 80.5
Msa0594240 AT3G05860.1 56.667 60 26 0 1 60 1 60 4.82e-20 80.1
Msa0594240 AT5G48670.1 66.667 60 20 0 1 60 1 60 1.22e-16 71.6
Msa0594240 AT5G26650.1 57.895 57 24 0 4 60 2 58 1.25e-16 71.6
Msa0594240 AT5G27960.1 57.895 57 24 0 4 60 2 58 1.27e-16 71.6
Msa0594240 AT1G65300.1 55.172 58 26 0 3 60 2 59 4.32e-16 69.7
Msa0594240 AT5G26580.1 55.357 56 25 0 1 56 1 56 1.02e-14 66.2
Msa0594240 AT1G65330.1 55.172 58 26 0 3 60 2 59 1.33e-14 65.9
Msa0594240 AT1G22590.2 46.667 60 32 0 1 60 1 60 1.37e-14 63.9
Msa0594240 AT2G40210.1 55.738 61 27 0 1 61 1 61 2.40e-14 65.5
Msa0594240 AT2G28700.1 43.333 60 34 0 1 60 1 60 2.90e-13 62.4
Msa0594240 AT5G55690.1 49.231 65 27 1 1 59 1 65 3.93e-13 61.6
Msa0594240 AT5G55690.2 49.231 65 27 1 1 59 1 65 3.93e-13 61.6
Msa0594240 AT5G58890.1 50.769 65 26 1 1 59 1 65 9.86e-13 60.8
Msa0594240 AT1G31630.1 48.276 58 29 1 3 60 2 58 2.14e-12 60.1

Find 14 sgRNAs with CRISPR-Local

Find 12 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATGAACTAAGCACTCTATA+TGG 0.367902 4_2:-21470400 Msa0594240:CDS
ATCTCCGGTTGAGGTTCATT+TGG 0.373378 4_2:+21470349 None:intergenic
ATGAACCTCAACCGGAGATA+TGG 0.386324 4_2:-21470345 Msa0594240:CDS
GGAGTTGAAGCTTGTGTCAT+TGG 0.438322 4_2:-21470379 Msa0594240:CDS
TGGACCAAATGAACCTCAAC+CGG 0.469468 4_2:-21470353 Msa0594240:CDS
GCAGAAGGGTCTATTGAAGA+AGG 0.498190 4_2:-21470425 Msa0594240:CDS
TATGGTGATGGCCATATCTC+CGG 0.501277 4_2:+21470334 None:intergenic
GAAGCTTGTGTCATTGGCTA+TGG 0.502201 4_2:-21470373 Msa0594240:CDS
GGAGATATGGCCATCACCAT+AGG 0.505254 4_2:-21470332 None:intergenic
GTTTGGACTCCCTATGGTGA+TGG 0.546555 4_2:+21470322 None:intergenic
AACATACAATAAAAGGCAGA+AGG 0.548642 4_2:-21470440 Msa0594240:CDS
GATGGCCATATCTCCGGTTG+AGG 0.550489 4_2:+21470340 None:intergenic
GAGATATGGCCATCACCATA+GGG 0.586615 4_2:-21470331 None:intergenic
ACATACAATAAAAGGCAGAA+GGG 0.643547 4_2:-21470439 Msa0594240:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAAAACAACATACAATAAA+AGG - chr4_2:21470382-21470401 Msa0594240:CDS 20.0%
AACATACAATAAAAGGCAGA+AGG - chr4_2:21470389-21470408 Msa0594240:CDS 30.0%
ACATACAATAAAAGGCAGAA+GGG - chr4_2:21470390-21470409 Msa0594240:CDS 30.0%
TATGAACTAAGCACTCTATA+TGG - chr4_2:21470429-21470448 Msa0594240:CDS 30.0%
GCAGAAGGGTCTATTGAAGA+AGG - chr4_2:21470404-21470423 Msa0594240:CDS 45.0%
GGAGTTGAAGCTTGTGTCAT+TGG - chr4_2:21470450-21470469 Msa0594240:CDS 45.0%
! GAAGCTTGTGTCATTGGCTA+TGG - chr4_2:21470456-21470475 Msa0594240:CDS 45.0%
TGGACCAAATGAACCTCAAC+CGG - chr4_2:21470476-21470495 Msa0594240:CDS 45.0%
ATCTCCGGTTGAGGTTCATT+TGG + chr4_2:21470483-21470502 None:intergenic 45.0%
ATGAACCTCAACCGGAGATA+TGG - chr4_2:21470484-21470503 Msa0594240:CDS 45.0%
!! TATGGTGATGGCCATATCTC+CGG + chr4_2:21470498-21470517 None:intergenic 45.0%
GATGGCCATATCTCCGGTTG+AGG + chr4_2:21470492-21470511 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
chr4_2 gene 21470333 21470518 21470333 ID=Msa0594240;Name=Msa0594240
chr4_2 mRNA 21470333 21470518 21470333 ID=Msa0594240-mRNA-1;Parent=Msa0594240;Name=Msa0594240-mRNA-1;_AED=0.37;_eAED=0.37;_QI=0|-1|0|1|-1|1|1|0|61
chr4_2 exon 21470333 21470518 21470333 ID=Msa0594240-mRNA-1:exon:5976;Parent=Msa0594240-mRNA-1
chr4_2 CDS 21470333 21470518 21470333 ID=Msa0594240-mRNA-1:cds;Parent=Msa0594240-mRNA-1
Gene Sequence

>Msa0594240

ATGACTCGGAAAAAAGTGAAACTTGCTTTCATTGTCAATGATGCTTCTAGAAAAACAACATACAATAAAAGGCAGAAGGGTCTATTGAAGAAGGTTTATGAACTAAGCACTCTATATGGAGTTGAAGCTTGTGTCATTGGCTATGGACCAAATGAACCTCAACCGGAGATATGGCCATCACCATAG
Protein sequence

>Msa0594240

MTRKKVKLAFIVNDASRKTTYNKRQKGLLKKVYELSTLYGVEACVIGYGPNEPQPEIWPSP*