AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1373100


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1373100 MtrunA17_Chr4g0072411 100.000 103 0 0 1 103 59 161 5.39e-69 203
Msa1373100 MtrunA17_Chr5g0425951 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1373100 MtrunA17_Chr4g0030431 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1373100 MtrunA17_Chr3g0100121 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1373100 MtrunA17_Chr3g0113681 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1373100 MtrunA17_Chr2g0327641 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1373100 MtrunA17_Chr3g0103351 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1373100 MtrunA17_Chr8g0352791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1373100 MtrunA17_Chr3g0103821 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1373100 MtrunA17_Chr3g0104031 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1373100 MtrunA17_Chr7g0225731 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1373100 MtrunA17_Chr3g0103801 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1373100 MtrunA17_Chr3g0103881 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1373100 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
Msa1373100 AT3G53730.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1373100 AT1G07820.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1373100 AT1G07820.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1373100 AT5G59690.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1373100 AT3G46320.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1373100 AT2G28740.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1373100 AT1G07660.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1373100 AT3G45930.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1373100 AT5G59970.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1373100 AT5G59970.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1373100 AT1G07660.2 83.495 103 0 1 1 103 1 86 4.52e-51 155

Find 33 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGCAGGGAAGGACTTTATA+TGG 0.314150 tig0019363:-16485 Msa1373100:CDS
GGAAGGACTTTATATGGTTT+CGG 0.362238 tig0019363:-16479 Msa1373100:CDS
GGAAAAGGAGGAAAGGGATT+AGG 0.403262 tig0019363:-16749 Msa1373100:CDS
AAAATGTCAGGCAGAGGAAA+AGG 0.476544 tig0019363:-16764 Msa1373100:CDS
GTGCTTCGTGACAACATTCA+AGG 0.477240 tig0019363:-16698 Msa1373100:CDS
GGCAGAGGAAAAGGAGGAAA+GGG 0.498699 tig0019363:-16755 Msa1373100:CDS
TCACTGCAAGCGAAAATGTC+AGG 0.502586 tig0019363:-16776 None:intergenic
CTGCGATTCGTCGTCTTGCA+AGG 0.502831 tig0019363:-16664 Msa1373100:CDS
TGTTTATGCTCTGAAGAGGC+AGG 0.507468 tig0019363:-16501 Msa1373100:CDS
AGGAGGAAAGGGATTAGGAA+AGG 0.515958 tig0019363:-16744 Msa1373100:CDS
GGAGGAAAGGGATTAGGAAA+GGG 0.527356 tig0019363:-16743 Msa1373100:CDS
GGAAAGGGATTAGGAAAGGG+AGG 0.538569 tig0019363:-16740 Msa1373100:CDS
AAGACGACGAATCGCAGGCT+TGG 0.548379 tig0019363:+16670 None:intergenic
CTTGCAAGACGACGAATCGC+AGG 0.552192 tig0019363:+16665 None:intergenic
AGGCAGAGGAAAAGGAGGAA+AGG 0.557567 tig0019363:-16756 Msa1373100:CDS
ATGCTCTGAAGAGGCAGGGA+AGG 0.564763 tig0019363:-16496 Msa1373100:CDS
GAGGAAGACTGTTACCGCCA+TGG 0.588179 tig0019363:-16528 Msa1373100:CDS
CAAGCGAAAATGTCAGGCAG+AGG 0.590069 tig0019363:-16770 None:intergenic
CATTCTCGAGGAAGATCTTG+AGG 0.597682 tig0019363:+16588 None:intergenic
AGGACTTTATATGGTTTCGG+TGG 0.600172 tig0019363:-16476 Msa1373100:CDS
TTACATACACTGAACACGCT+AGG 0.600176 tig0019363:-16550 Msa1373100:CDS
GTTTATGCTCTGAAGAGGCA+GGG 0.605263 tig0019363:-16500 Msa1373100:CDS
ATTCGTCGTCTTGCAAGGCG+TGG 0.611450 tig0019363:-16659 Msa1373100:CDS
GGCGGTGTTAAGAGAATCAG+TGG 0.619776 tig0019363:-16638 Msa1373100:CDS
CAGAGCATAAACAACATCCA+TGG 0.631933 tig0019363:+16511 None:intergenic
CATACACTGAACACGCTAGG+AGG 0.635713 tig0019363:-16547 Msa1373100:CDS
CGTCGTCTTGCAAGGCGTGG+CGG 0.636706 tig0019363:-16656 Msa1373100:CDS
ATGTCAGGCAGAGGAAAAGG+AGG 0.661131 tig0019363:-16761 Msa1373100:CDS
ATGTTGTTTATGCTCTGAAG+AGG 0.672733 tig0019363:-16505 Msa1373100:CDS
TAGGAAAGGGAGGAGCAAAG+AGG 0.691969 tig0019363:-16730 Msa1373100:CDS
CTCATATATGAAGAAACTCG+CGG 0.708309 tig0019363:-16614 Msa1373100:CDS
CATCACGAATCACATTCTCG+AGG 0.731876 tig0019363:+16576 None:intergenic
AGCATAAACAACATCCATGG+CGG 0.735882 tig0019363:+16514 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CTCATATATGAAGAAACTCG+CGG - tig0019363:16619-16638 Msa1373100:CDS 35.0%
!! ATGTTGTTTATGCTCTGAAG+AGG - tig0019363:16728-16747 Msa1373100:CDS 35.0%
GGAAGGACTTTATATGGTTT+CGG - tig0019363:16754-16773 Msa1373100:CDS 35.0%
TTACATACACTGAACACGCT+AGG - tig0019363:16683-16702 Msa1373100:CDS 40.0%
AGCATAAACAACATCCATGG+CGG + tig0019363:16722-16741 None:intergenic 40.0%
CAGAGCATAAACAACATCCA+TGG + tig0019363:16725-16744 None:intergenic 40.0%
AGGACTTTATATGGTTTCGG+TGG - tig0019363:16757-16776 Msa1373100:CDS 40.0%
GGAAAAGGAGGAAAGGGATT+AGG - tig0019363:16484-16503 Msa1373100:CDS 45.0%
AGGAGGAAAGGGATTAGGAA+AGG - tig0019363:16489-16508 Msa1373100:CDS 45.0%
GGAGGAAAGGGATTAGGAAA+GGG - tig0019363:16490-16509 Msa1373100:CDS 45.0%
GTGCTTCGTGACAACATTCA+AGG - tig0019363:16535-16554 Msa1373100:CDS 45.0%
CATTCTCGAGGAAGATCTTG+AGG + tig0019363:16648-16667 None:intergenic 45.0%
CATCACGAATCACATTCTCG+AGG + tig0019363:16660-16679 None:intergenic 45.0%
!! TGTTTATGCTCTGAAGAGGC+AGG - tig0019363:16732-16751 Msa1373100:CDS 45.0%
!! GTTTATGCTCTGAAGAGGCA+GGG - tig0019363:16733-16752 Msa1373100:CDS 45.0%
AGGCAGGGAAGGACTTTATA+TGG - tig0019363:16748-16767 Msa1373100:CDS 45.0%
ATGTCAGGCAGAGGAAAAGG+AGG - tig0019363:16472-16491 Msa1373100:CDS 50.0%
AGGCAGAGGAAAAGGAGGAA+AGG - tig0019363:16477-16496 Msa1373100:CDS 50.0%
GGCAGAGGAAAAGGAGGAAA+GGG - tig0019363:16478-16497 Msa1373100:CDS 50.0%
GGAAAGGGATTAGGAAAGGG+AGG - tig0019363:16493-16512 Msa1373100:CDS 50.0%
TAGGAAAGGGAGGAGCAAAG+AGG - tig0019363:16503-16522 Msa1373100:CDS 50.0%
! GGCGGTGTTAAGAGAATCAG+TGG - tig0019363:16595-16614 Msa1373100:CDS 50.0%
CATACACTGAACACGCTAGG+AGG - tig0019363:16686-16705 Msa1373100:CDS 50.0%
AAGACGACGAATCGCAGGCT+TGG + tig0019363:16566-16585 None:intergenic 55.0%
CTTGCAAGACGACGAATCGC+AGG + tig0019363:16571-16590 None:intergenic 55.0%
CTGCGATTCGTCGTCTTGCA+AGG - tig0019363:16569-16588 Msa1373100:CDS 55.0%
ATTCGTCGTCTTGCAAGGCG+TGG - tig0019363:16574-16593 Msa1373100:CDS 55.0%
GAGGAAGACTGTTACCGCCA+TGG - tig0019363:16705-16724 Msa1373100:CDS 55.0%
!! ATGCTCTGAAGAGGCAGGGA+AGG - tig0019363:16737-16756 Msa1373100:CDS 55.0%
CGTCGTCTTGCAAGGCGTGG+CGG - tig0019363:16577-16596 Msa1373100:CDS 65.0%
Chromosome Type Strat End Strand Name
tig0019363 gene 16472 16783 16472 ID=Msa1373100;Name=Msa1373100
tig0019363 mRNA 16472 16783 16472 ID=Msa1373100-mRNA-1;Parent=Msa1373100;Name=Msa1373100-mRNA-1;_AED=0.24;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|103
tig0019363 exon 16472 16783 16472 ID=Msa1373100-mRNA-1:exon:3156;Parent=Msa1373100-mRNA-1
tig0019363 CDS 16472 16783 16472 ID=Msa1373100-mRNA-1:cds;Parent=Msa1373100-mRNA-1
Gene Sequence

>Msa1373100

ATGTCAGGCAGAGGAAAAGGAGGAAAGGGATTAGGAAAGGGAGGAGCAAAGAGGCACAGAAAAGTGCTTCGTGACAACATTCAAGGAATAACCAAGCCTGCGATTCGTCGTCTTGCAAGGCGTGGCGGTGTTAAGAGAATCAGTGGTCTCATATATGAAGAAACTCGCGGTGTCCTCAAGATCTTCCTCGAGAATGTGATTCGTGATGCTGTTACATACACTGAACACGCTAGGAGGAAGACTGTTACCGCCATGGATGTTGTTTATGCTCTGAAGAGGCAGGGAAGGACTTTATATGGTTTCGGTGGTTGA

Protein sequence

>Msa1373100

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG*