AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1251160


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1251160 MtrunA17_Chr4g0072411 100.000 103 0 0 1 103 59 161 5.39e-69 203
Msa1251160 MtrunA17_Chr5g0425951 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1251160 MtrunA17_Chr4g0030431 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1251160 MtrunA17_Chr3g0100121 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1251160 MtrunA17_Chr3g0113681 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1251160 MtrunA17_Chr2g0327641 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1251160 MtrunA17_Chr3g0103351 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1251160 MtrunA17_Chr8g0352791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1251160 MtrunA17_Chr3g0103821 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1251160 MtrunA17_Chr3g0104031 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1251160 MtrunA17_Chr7g0225731 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1251160 MtrunA17_Chr3g0103801 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1251160 MtrunA17_Chr3g0103881 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1251160 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
Msa1251160 AT3G53730.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1251160 AT1G07820.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1251160 AT1G07820.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1251160 AT5G59690.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1251160 AT3G46320.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1251160 AT2G28740.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1251160 AT1G07660.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1251160 AT3G45930.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1251160 AT5G59970.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1251160 AT5G59970.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1251160 AT1G07660.2 83.495 103 0 1 1 103 1 86 4.52e-51 155

Find 29 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGCCTGCGATTCGTCGTT+TGG 0.336158 8_2:+46961482 Msa1251160:CDS
GGGAGAACTCTTTACGGTTT+CGG 0.376970 8_2:+46961672 Msa1251160:CDS
TCGCAGGCTTTGTTATTCCT+TGG 0.407291 8_2:-46961470 None:intergenic
AAAATGTCAGGTCGCGGAAA+AGG 0.432832 8_2:+46961387 None:intergenic
AGACAGGGGAGAACTCTTTA+CGG 0.442868 8_2:+46961666 Msa1251160:CDS
GGAAAAGGAGGAAAGGGATT+AGG 0.448451 8_2:+46961402 Msa1251160:CDS
TGTTTATGCTTTGAAGAGAC+AGG 0.461410 8_2:+46961650 Msa1251160:CDS
GAGGAAAACCGTTACGGCTA+TGG 0.462806 8_2:+46961623 Msa1251160:CDS
CGTCGTTTGGCTCGAAGAGG+AGG 0.516708 8_2:+46961495 Msa1251160:CDS
TTACTTACACTGAGCATGCT+AGG 0.518049 8_2:+46961601 Msa1251160:CDS
GGAGGAAAGGGATTAGGAAA+AGG 0.522854 8_2:+46961408 Msa1251160:CDS
TGCTAGGAGGAAAACCGTTA+CGG 0.546899 8_2:+46961617 Msa1251160:CDS
CGAGCCAAACGACGAATCGC+AGG 0.562444 8_2:-46961486 None:intergenic
GGAAAGGGATTAGGAAAAGG+AGG 0.569746 8_2:+46961411 Msa1251160:CDS
GGTCGCGGAAAAGGAGGAAA+GGG 0.574670 8_2:+46961396 Msa1251160:CDS
AGGAGCAAAGAGGCACAGAA+AGG 0.576895 8_2:+46961431 Msa1251160:CDS
ATGTCAGGTCGCGGAAAAGG+AGG 0.578066 8_2:+46961390 Msa1251160:CDS
GTTTATGCTTTGAAGAGACA+GGG 0.590468 8_2:+46961651 Msa1251160:CDS
GGAGGTGTGAAGAGAATCAG+TGG 0.594114 8_2:+46961513 Msa1251160:CDS
AGGTCGCGGAAAAGGAGGAA+AGG 0.594714 8_2:+46961395 Msa1251160:CDS
AACAACATCCATAGCCGTAA+CGG 0.596499 8_2:-46961631 None:intergenic
AGAACTCTTTACGGTTTCGG+TGG 0.599890 8_2:+46961675 Msa1251160:CDS
ATTCGTCGTTTGGCTCGAAG+AGG 0.614299 8_2:+46961492 Msa1251160:CDS
GTTCTTCGTGACAACATCCA+AGG 0.625870 8_2:+46961453 Msa1251160:CDS
TTTATGCTTTGAAGAGACAG+GGG 0.664122 8_2:+46961652 Msa1251160:CDS
CTTATCTATGAAGAAACTCG+CGG 0.683519 8_2:+46961537 Msa1251160:CDS
CATCACGAATAACGTTCTCG+AGG 0.697048 8_2:-46961575 None:intergenic
CTTACACTGAGCATGCTAGG+AGG 0.700541 8_2:+46961604 Msa1251160:CDS
TAGGAAAAGGAGGAGCAAAG+AGG 0.704600 8_2:+46961421 Msa1251160:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CTTATCTATGAAGAAACTCG+CGG + chr8_2:46961537-46961556 Msa1251160:CDS 35.0%
!! TGTTTATGCTTTGAAGAGAC+AGG + chr8_2:46961650-46961669 Msa1251160:CDS 35.0%
!! GTTTATGCTTTGAAGAGACA+GGG + chr8_2:46961651-46961670 Msa1251160:CDS 35.0%
!! TTTATGCTTTGAAGAGACAG+GGG + chr8_2:46961652-46961671 Msa1251160:CDS 35.0%
TTACTTACACTGAGCATGCT+AGG + chr8_2:46961601-46961620 Msa1251160:CDS 40.0%
AACAACATCCATAGCCGTAA+CGG - chr8_2:46961634-46961653 None:intergenic 40.0%
GGAAAAGGAGGAAAGGGATT+AGG + chr8_2:46961402-46961421 Msa1251160:CDS 45.0%
GGAGGAAAGGGATTAGGAAA+AGG + chr8_2:46961408-46961427 Msa1251160:CDS 45.0%
GGAAAGGGATTAGGAAAAGG+AGG + chr8_2:46961411-46961430 Msa1251160:CDS 45.0%
TAGGAAAAGGAGGAGCAAAG+AGG + chr8_2:46961421-46961440 Msa1251160:CDS 45.0%
GTTCTTCGTGACAACATCCA+AGG + chr8_2:46961453-46961472 Msa1251160:CDS 45.0%
!! TCGCAGGCTTTGTTATTCCT+TGG - chr8_2:46961473-46961492 None:intergenic 45.0%
CATCACGAATAACGTTCTCG+AGG - chr8_2:46961578-46961597 None:intergenic 45.0%
TGCTAGGAGGAAAACCGTTA+CGG + chr8_2:46961617-46961636 Msa1251160:CDS 45.0%
AGACAGGGGAGAACTCTTTA+CGG + chr8_2:46961666-46961685 Msa1251160:CDS 45.0%
GGGAGAACTCTTTACGGTTT+CGG + chr8_2:46961672-46961691 Msa1251160:CDS 45.0%
AGAACTCTTTACGGTTTCGG+TGG + chr8_2:46961675-46961694 Msa1251160:CDS 45.0%
! AGGAGCAAAGAGGCACAGAA+AGG + chr8_2:46961431-46961450 Msa1251160:CDS 50.0%
AAAGCCTGCGATTCGTCGTT+TGG + chr8_2:46961482-46961501 Msa1251160:CDS 50.0%
! ATTCGTCGTTTGGCTCGAAG+AGG + chr8_2:46961492-46961511 Msa1251160:CDS 50.0%
! GGAGGTGTGAAGAGAATCAG+TGG + chr8_2:46961513-46961532 Msa1251160:CDS 50.0%
CTTACACTGAGCATGCTAGG+AGG + chr8_2:46961604-46961623 Msa1251160:CDS 50.0%
GAGGAAAACCGTTACGGCTA+TGG + chr8_2:46961623-46961642 Msa1251160:CDS 50.0%
ATGTCAGGTCGCGGAAAAGG+AGG + chr8_2:46961390-46961409 Msa1251160:CDS 55.0%
AGGTCGCGGAAAAGGAGGAA+AGG + chr8_2:46961395-46961414 Msa1251160:CDS 55.0%
GGTCGCGGAAAAGGAGGAAA+GGG + chr8_2:46961396-46961415 Msa1251160:CDS 55.0%
CGAGCCAAACGACGAATCGC+AGG - chr8_2:46961489-46961508 None:intergenic 60.0%
! CGTCGTTTGGCTCGAAGAGG+AGG + chr8_2:46961495-46961514 Msa1251160:CDS 60.0%
Chromosome Type Strat End Strand Name
chr8_2 gene 46961390 46961701 46961390 ID=Msa1251160;Name=Msa1251160
chr8_2 mRNA 46961390 46961701 46961390 ID=Msa1251160-mRNA-1;Parent=Msa1251160;Name=Msa1251160-mRNA-1;_AED=0.38;_eAED=0.38;_QI=0|-1|0|1|-1|1|1|0|103
chr8_2 exon 46961390 46961701 46961390 ID=Msa1251160-mRNA-1:exon:14212;Parent=Msa1251160-mRNA-1
chr8_2 CDS 46961390 46961701 46961390 ID=Msa1251160-mRNA-1:cds;Parent=Msa1251160-mRNA-1
Gene Sequence

>Msa1251160

ATGTCAGGTCGCGGAAAAGGAGGAAAGGGATTAGGAAAAGGAGGAGCAAAGAGGCACAGAAAGGTTCTTCGTGACAACATCCAAGGAATAACAAAGCCTGCGATTCGTCGTTTGGCTCGAAGAGGAGGTGTGAAGAGAATCAGTGGTCTTATCTATGAAGAAACTCGCGGTGTTCTCAAGATCTTCCTCGAGAACGTTATTCGTGATGCTGTTACTTACACTGAGCATGCTAGGAGGAAAACCGTTACGGCTATGGATGTTGTTTATGCTTTGAAGAGACAGGGGAGAACTCTTTACGGTTTCGGTGGTTGA

Protein sequence

>Msa1251160

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG*