AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1193290

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1193290 MtrunA17_Chr4g0072411 100.000 103 0 0 1 103 59 161 5.39e-69 203
Msa1193290 MtrunA17_Chr5g0425951 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1193290 MtrunA17_Chr4g0030431 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1193290 MtrunA17_Chr3g0100121 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1193290 MtrunA17_Chr3g0113681 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1193290 MtrunA17_Chr2g0327641 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1193290 MtrunA17_Chr3g0103351 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1193290 MtrunA17_Chr8g0352791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1193290 MtrunA17_Chr3g0103821 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1193290 MtrunA17_Chr3g0104031 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1193290 MtrunA17_Chr7g0225731 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1193290 MtrunA17_Chr3g0103801 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1193290 MtrunA17_Chr3g0103881 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1193290 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
Msa1193290 AT3G53730.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1193290 AT1G07820.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1193290 AT1G07820.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1193290 AT5G59690.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1193290 AT3G46320.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1193290 AT2G28740.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1193290 AT1G07660.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1193290 AT3G45930.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1193290 AT5G59970.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1193290 AT5G59970.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1193290 AT1G07660.2 83.495 103 0 1 1 103 1 86 4.52e-51 155

Find 30 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGCCTGCGATTCGTCGTT+TGG 0.336158 8_1:+39477571 Msa1193290:CDS
GGGAGAACTCTTTACGGTTT+CGG 0.376970 8_1:+39477761 Msa1193290:CDS
TCGCAGGCTTTGTTATTCCT+TGG 0.407291 8_1:-39477559 None:intergenic
AAAATGTCAGGTCGCGGAAA+AGG 0.432832 8_1:+39477476 None:intergenic
AGACAGGGGAGAACTCTTTA+CGG 0.442868 8_1:+39477755 Msa1193290:CDS
GGAAAAGGAGGAAAAGGATT+AGG 0.458349 8_1:+39477491 Msa1193290:CDS
TGTTTATGCTTTGAAGAGAC+AGG 0.461410 8_1:+39477739 Msa1193290:CDS
GGAGGAAAAGGATTAGGAAA+AGG 0.486987 8_1:+39477497 Msa1193290:CDS
CGTCGTTTGGCTCGAAGAGG+TGG 0.509781 8_1:+39477584 Msa1193290:CDS
AGGAGCAAAGCGCCACAGAA+AGG 0.515503 8_1:+39477520 Msa1193290:CDS
AACAACATCCATGGCGGTAA+CGG 0.516175 8_1:-39477720 None:intergenic
TTACCTACACTGAGCATGCT+AGG 0.525533 8_1:+39477690 Msa1193290:CDS
GGTCGCGGAAAAGGAGGAAA+AGG 0.530282 8_1:+39477485 Msa1193290:CDS
GGAAAAGGATTAGGAAAAGG+AGG 0.541918 8_1:+39477500 Msa1193290:CDS
CGAGCCAAACGACGAATCGC+AGG 0.562444 8_1:-39477575 None:intergenic
GAGGAAAACCGTTACCGCCA+TGG 0.565591 8_1:+39477712 Msa1193290:CDS
ATGTCAGGTCGCGGAAAAGG+AGG 0.578066 8_1:+39477479 Msa1193290:CDS
CCTCCTAGCATGCTCAGTGT+AGG 0.581881 8_1:-39477693 None:intergenic
GTTTATGCTTTGAAGAGACA+GGG 0.590468 8_1:+39477740 Msa1193290:CDS
AGAACTCTTTACGGTTTCGG+TGG 0.599890 8_1:+39477764 Msa1193290:CDS
CAAAGCATAAACAACATCCA+TGG 0.612707 8_1:-39477729 None:intergenic
ATTCGTCGTTTGGCTCGAAG+AGG 0.616268 8_1:+39477581 Msa1193290:CDS
GTTCTTCGTGACAACATCCA+AGG 0.625870 8_1:+39477542 Msa1193290:CDS
GGTGGTGTGAAGAGAATCAG+TGG 0.651491 8_1:+39477602 Msa1193290:CDS
TTTATGCTTTGAAGAGACAG+GGG 0.664122 8_1:+39477741 Msa1193290:CDS
CTTATCTATGAAGAAACTCG+CGG 0.683519 8_1:+39477626 Msa1193290:CDS
TGTCACGAAGAACCTTTCTG+TGG 0.693218 8_1:-39477532 None:intergenic
CATCACGAATAACGTTCTCG+AGG 0.697048 8_1:-39477664 None:intergenic
CCTACACTGAGCATGCTAGG+AGG 0.705686 8_1:+39477693 Msa1193290:CDS
AGCATAAACAACATCCATGG+CGG 0.725411 8_1:-39477726 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CTTATCTATGAAGAAACTCG+CGG + chr8_1:39477626-39477645 Msa1193290:CDS 35.0%
CAAAGCATAAACAACATCCA+TGG - chr8_1:39477732-39477751 None:intergenic 35.0%
!! TGTTTATGCTTTGAAGAGAC+AGG + chr8_1:39477739-39477758 Msa1193290:CDS 35.0%
!! GTTTATGCTTTGAAGAGACA+GGG + chr8_1:39477740-39477759 Msa1193290:CDS 35.0%
!! TTTATGCTTTGAAGAGACAG+GGG + chr8_1:39477741-39477760 Msa1193290:CDS 35.0%
GGAAAAGGAGGAAAAGGATT+AGG + chr8_1:39477491-39477510 Msa1193290:CDS 40.0%
GGAGGAAAAGGATTAGGAAA+AGG + chr8_1:39477497-39477516 Msa1193290:CDS 40.0%
GGAAAAGGATTAGGAAAAGG+AGG + chr8_1:39477500-39477519 Msa1193290:CDS 40.0%
AGCATAAACAACATCCATGG+CGG - chr8_1:39477729-39477748 None:intergenic 40.0%
TGTCACGAAGAACCTTTCTG+TGG - chr8_1:39477535-39477554 None:intergenic 45.0%
GTTCTTCGTGACAACATCCA+AGG + chr8_1:39477542-39477561 Msa1193290:CDS 45.0%
!! TCGCAGGCTTTGTTATTCCT+TGG - chr8_1:39477562-39477581 None:intergenic 45.0%
CATCACGAATAACGTTCTCG+AGG - chr8_1:39477667-39477686 None:intergenic 45.0%
TTACCTACACTGAGCATGCT+AGG + chr8_1:39477690-39477709 Msa1193290:CDS 45.0%
AACAACATCCATGGCGGTAA+CGG - chr8_1:39477723-39477742 None:intergenic 45.0%
AGACAGGGGAGAACTCTTTA+CGG + chr8_1:39477755-39477774 Msa1193290:CDS 45.0%
GGGAGAACTCTTTACGGTTT+CGG + chr8_1:39477761-39477780 Msa1193290:CDS 45.0%
AGAACTCTTTACGGTTTCGG+TGG + chr8_1:39477764-39477783 Msa1193290:CDS 45.0%
AAAGCCTGCGATTCGTCGTT+TGG + chr8_1:39477571-39477590 Msa1193290:CDS 50.0%
! ATTCGTCGTTTGGCTCGAAG+AGG + chr8_1:39477581-39477600 Msa1193290:CDS 50.0%
GGTGGTGTGAAGAGAATCAG+TGG + chr8_1:39477602-39477621 Msa1193290:CDS 50.0%
ATGTCAGGTCGCGGAAAAGG+AGG + chr8_1:39477479-39477498 Msa1193290:CDS 55.0%
GGTCGCGGAAAAGGAGGAAA+AGG + chr8_1:39477485-39477504 Msa1193290:CDS 55.0%
! AGGAGCAAAGCGCCACAGAA+AGG + chr8_1:39477520-39477539 Msa1193290:CDS 55.0%
CCTCCTAGCATGCTCAGTGT+AGG - chr8_1:39477696-39477715 None:intergenic 55.0%
CCTACACTGAGCATGCTAGG+AGG + chr8_1:39477693-39477712 Msa1193290:CDS 55.0%
GAGGAAAACCGTTACCGCCA+TGG + chr8_1:39477712-39477731 Msa1193290:CDS 55.0%
CGAGCCAAACGACGAATCGC+AGG - chr8_1:39477578-39477597 None:intergenic 60.0%
! CGTCGTTTGGCTCGAAGAGG+TGG + chr8_1:39477584-39477603 Msa1193290:CDS 60.0%
Chromosome Type Strat End Strand Name
chr8_1 gene 39477479 39477790 39477479 ID=Msa1193290;Name=Msa1193290
chr8_1 mRNA 39477479 39477790 39477479 ID=Msa1193290-mRNA-1;Parent=Msa1193290;Name=Msa1193290-mRNA-1;_AED=0.38;_eAED=0.38;_QI=0|-1|0|1|-1|1|1|0|103
chr8_1 exon 39477479 39477790 39477479 ID=Msa1193290-mRNA-1:exon:12909;Parent=Msa1193290-mRNA-1
chr8_1 CDS 39477479 39477790 39477479 ID=Msa1193290-mRNA-1:cds;Parent=Msa1193290-mRNA-1
Gene Sequence

>Msa1193290

ATGTCAGGTCGCGGAAAAGGAGGAAAAGGATTAGGAAAAGGAGGAGCAAAGCGCCACAGAAAGGTTCTTCGTGACAACATCCAAGGAATAACAAAGCCTGCGATTCGTCGTTTGGCTCGAAGAGGTGGTGTGAAGAGAATCAGTGGTCTTATCTATGAAGAAACTCGCGGTGTTCTCAAGATCTTCCTCGAGAACGTTATTCGTGATGCTGTTACCTACACTGAGCATGCTAGGAGGAAAACCGTTACCGCCATGGATGTTGTTTATGCTTTGAAGAGACAGGGGAGAACTCTTTACGGTTTCGGTGGTTGA
Protein sequence

>Msa1193290

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG*