AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1422950


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1422950 MtrunA17_Chr4g0072411 100.000 103 0 0 1 103 59 161 5.39e-69 203
Msa1422950 MtrunA17_Chr5g0425951 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1422950 MtrunA17_Chr4g0030431 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1422950 MtrunA17_Chr3g0100121 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1422950 MtrunA17_Chr3g0113681 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1422950 MtrunA17_Chr2g0327641 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1422950 MtrunA17_Chr3g0103351 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1422950 MtrunA17_Chr8g0352791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1422950 MtrunA17_Chr3g0103821 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1422950 MtrunA17_Chr3g0104031 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1422950 MtrunA17_Chr7g0225731 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1422950 MtrunA17_Chr3g0103801 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1422950 MtrunA17_Chr3g0103881 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1422950 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
Msa1422950 AT3G53730.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1422950 AT1G07820.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1422950 AT1G07820.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1422950 AT5G59690.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1422950 AT3G46320.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1422950 AT2G28740.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1422950 AT1G07660.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1422950 AT3G45930.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1422950 AT5G59970.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1422950 AT5G59970.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1422950 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 tig0025496:-11460 Msa1422950:CDS
GGAAGGACTTTATATGGTTT+CGG 0.362238 tig0025496:-11454 Msa1422950:CDS
GGAAAAGGAGGAAAGGGATT+AGG 0.403262 tig0025496:-11724 Msa1422950:CDS
AAAATGTCAGGCAGAGGAAA+AGG 0.476544 tig0025496:-11739 Msa1422950:CDS
GTGCTTCGTGACAACATTCA+AGG 0.477240 tig0025496:-11673 Msa1422950:CDS
GGCAGAGGAAAAGGAGGAAA+GGG 0.498699 tig0025496:-11730 Msa1422950:CDS
TCACTGCAAGCGAAAATGTC+AGG 0.502586 tig0025496:-11751 None:intergenic
CTGCGATTCGTCGTCTTGCA+AGG 0.502831 tig0025496:-11639 Msa1422950:CDS
TGTTTATGCTCTGAAGAGGC+AGG 0.507468 tig0025496:-11476 Msa1422950:CDS
AGGAGGAAAGGGATTAGGAA+AGG 0.515958 tig0025496:-11719 Msa1422950:CDS
GGAGGAAAGGGATTAGGAAA+GGG 0.527356 tig0025496:-11718 Msa1422950:CDS
GGAAAGGGATTAGGAAAGGG+AGG 0.538569 tig0025496:-11715 Msa1422950:CDS
AAGACGACGAATCGCAGGCT+TGG 0.548379 tig0025496:+11645 None:intergenic
CTTGCAAGACGACGAATCGC+AGG 0.552192 tig0025496:+11640 None:intergenic
AGGCAGAGGAAAAGGAGGAA+AGG 0.557567 tig0025496:-11731 Msa1422950:CDS
ATGCTCTGAAGAGGCAGGGA+AGG 0.564763 tig0025496:-11471 Msa1422950:CDS
GAGGAAGACTGTTACCGCCA+TGG 0.588179 tig0025496:-11503 Msa1422950:CDS
CAAGCGAAAATGTCAGGCAG+AGG 0.590069 tig0025496:-11745 None:intergenic
CATTCTCGAGGAAGATCTTG+AGG 0.597682 tig0025496:+11563 None:intergenic
AGGACTTTATATGGTTTCGG+TGG 0.600172 tig0025496:-11451 Msa1422950:CDS
TTACATACACTGAACACGCT+AGG 0.600176 tig0025496:-11525 Msa1422950:CDS
GTTTATGCTCTGAAGAGGCA+GGG 0.605263 tig0025496:-11475 Msa1422950:CDS
ATTCGTCGTCTTGCAAGGCG+TGG 0.611450 tig0025496:-11634 Msa1422950:CDS
GGCGGTGTTAAGAGAATCAG+TGG 0.619776 tig0025496:-11613 Msa1422950:CDS
CAGAGCATAAACAACATCCA+TGG 0.631933 tig0025496:+11486 None:intergenic
CATACACTGAACACGCTAGG+AGG 0.635713 tig0025496:-11522 Msa1422950:CDS
CGTCGTCTTGCAAGGCGTGG+CGG 0.636706 tig0025496:-11631 Msa1422950:CDS
ATGTCAGGCAGAGGAAAAGG+AGG 0.661131 tig0025496:-11736 Msa1422950:CDS
ATGTTGTTTATGCTCTGAAG+AGG 0.672733 tig0025496:-11480 Msa1422950:CDS
TAGGAAAGGGAGGAGCAAAG+AGG 0.691969 tig0025496:-11705 Msa1422950:CDS
CTCATATATGAAGAAACTCG+CGG 0.708309 tig0025496:-11589 Msa1422950:CDS
CATCACGAATCACATTCTCG+AGG 0.731876 tig0025496:+11551 None:intergenic
AGCATAAACAACATCCATGG+CGG 0.735882 tig0025496:+11489 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CTCATATATGAAGAAACTCG+CGG - tig0025496:11594-11613 Msa1422950:CDS 35.0%
!! ATGTTGTTTATGCTCTGAAG+AGG - tig0025496:11703-11722 Msa1422950:CDS 35.0%
GGAAGGACTTTATATGGTTT+CGG - tig0025496:11729-11748 Msa1422950:CDS 35.0%
TTACATACACTGAACACGCT+AGG - tig0025496:11658-11677 Msa1422950:CDS 40.0%
AGCATAAACAACATCCATGG+CGG + tig0025496:11697-11716 None:intergenic 40.0%
CAGAGCATAAACAACATCCA+TGG + tig0025496:11700-11719 None:intergenic 40.0%
AGGACTTTATATGGTTTCGG+TGG - tig0025496:11732-11751 Msa1422950:CDS 40.0%
GGAAAAGGAGGAAAGGGATT+AGG - tig0025496:11459-11478 Msa1422950:CDS 45.0%
AGGAGGAAAGGGATTAGGAA+AGG - tig0025496:11464-11483 Msa1422950:CDS 45.0%
GGAGGAAAGGGATTAGGAAA+GGG - tig0025496:11465-11484 Msa1422950:CDS 45.0%
GTGCTTCGTGACAACATTCA+AGG - tig0025496:11510-11529 Msa1422950:CDS 45.0%
CATTCTCGAGGAAGATCTTG+AGG + tig0025496:11623-11642 None:intergenic 45.0%
CATCACGAATCACATTCTCG+AGG + tig0025496:11635-11654 None:intergenic 45.0%
!! TGTTTATGCTCTGAAGAGGC+AGG - tig0025496:11707-11726 Msa1422950:CDS 45.0%
!! GTTTATGCTCTGAAGAGGCA+GGG - tig0025496:11708-11727 Msa1422950:CDS 45.0%
AGGCAGGGAAGGACTTTATA+TGG - tig0025496:11723-11742 Msa1422950:CDS 45.0%
ATGTCAGGCAGAGGAAAAGG+AGG - tig0025496:11447-11466 Msa1422950:CDS 50.0%
AGGCAGAGGAAAAGGAGGAA+AGG - tig0025496:11452-11471 Msa1422950:CDS 50.0%
GGCAGAGGAAAAGGAGGAAA+GGG - tig0025496:11453-11472 Msa1422950:CDS 50.0%
GGAAAGGGATTAGGAAAGGG+AGG - tig0025496:11468-11487 Msa1422950:CDS 50.0%
TAGGAAAGGGAGGAGCAAAG+AGG - tig0025496:11478-11497 Msa1422950:CDS 50.0%
! GGCGGTGTTAAGAGAATCAG+TGG - tig0025496:11570-11589 Msa1422950:CDS 50.0%
CATACACTGAACACGCTAGG+AGG - tig0025496:11661-11680 Msa1422950:CDS 50.0%
AAGACGACGAATCGCAGGCT+TGG + tig0025496:11541-11560 None:intergenic 55.0%
CTTGCAAGACGACGAATCGC+AGG + tig0025496:11546-11565 None:intergenic 55.0%
CTGCGATTCGTCGTCTTGCA+AGG - tig0025496:11544-11563 Msa1422950:CDS 55.0%
ATTCGTCGTCTTGCAAGGCG+TGG - tig0025496:11549-11568 Msa1422950:CDS 55.0%
GAGGAAGACTGTTACCGCCA+TGG - tig0025496:11680-11699 Msa1422950:CDS 55.0%
!! ATGCTCTGAAGAGGCAGGGA+AGG - tig0025496:11712-11731 Msa1422950:CDS 55.0%
CGTCGTCTTGCAAGGCGTGG+CGG - tig0025496:11552-11571 Msa1422950:CDS 65.0%
Chromosome Type Strat End Strand Name
tig0025496 gene 11447 11758 11447 ID=Msa1422950;Name=Msa1422950
tig0025496 mRNA 11447 11758 11447 ID=Msa1422950-mRNA-1;Parent=Msa1422950;Name=Msa1422950-mRNA-1;_AED=0.24;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|103
tig0025496 exon 11447 11758 11447 ID=Msa1422950-mRNA-1:exon:2984;Parent=Msa1422950-mRNA-1
tig0025496 CDS 11447 11758 11447 ID=Msa1422950-mRNA-1:cds;Parent=Msa1422950-mRNA-1
Gene Sequence

>Msa1422950

ATGTCAGGCAGAGGAAAAGGAGGAAAGGGATTAGGAAAGGGAGGAGCAAAGAGGCACAGAAAAGTGCTTCGTGACAACATTCAAGGAATAACCAAGCCTGCGATTCGTCGTCTTGCAAGGCGTGGCGGTGTTAAGAGAATCAGTGGTCTCATATATGAAGAAACTCGCGGTGTCCTCAAGATCTTCCTCGAGAATGTGATTCGTGATGCTGTTACATACACTGAACACGCTAGGAGGAAGACTGTTACCGCCATGGATGTTGTTTATGCTCTGAAGAGGCAGGGAAGGACTTTATATGGTTTCGGTGGTTGA

Protein sequence

>Msa1422950

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG*