AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene09873


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene09873.t1 MTR_7g029510 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene09873.t1 MTR_7g099610 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene09873.t1 MTR_5g063620 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene09873.t1 MTR_4g061827 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene09873.t1 MTR_4g061920 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene09873.t1 MTR_3g462400 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene09873.t1 MTR_3g054380 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene09873.t1 MTR_3g462730 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene09873.t1 MTR_3g462510 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene09873.t1 MTR_3g070920 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene09873.t1 MTR_3g061440 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene09873.t1 MTR_3g462410 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene09873.t1 MTR_2g096100 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene09873.t1 MTR_8g038460 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene09873.t1 MTR_4g128150 100.000 102 0 0 1 102 1 102 1.67e-66 204
MS.gene09873.t1 MTR_7g029520 84.000 50 8 0 27 76 1 50 2.15e-21 87.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene09873.t1 AT5G59970 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene09873.t1 AT5G59690 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene09873.t1 AT5G59970 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene09873.t1 AT3G46320 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene09873.t1 AT3G45930 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene09873.t1 AT3G53730 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene09873.t1 AT2G28740 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene09873.t1 AT1G07660 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene09873.t1 AT1G07820 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene09873.t1 AT1G07820 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene09873.t1 AT1G07660 83.495 103 0 1 1 103 1 86 4.34e-51 155

Find 33 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGTGTTCTCAAGATCTTCT+TGG 0.300875 7.3:+12910474 MS.gene09873:CDS
GGAAGGACCCTTTACGGTTT+CGG 0.307868 7.3:+12910589 MS.gene09873:CDS
TGGAAAAGGTGGAAAAGGTT+TGG 0.419608 7.3:+12910318 MS.gene09873:CDS
GGAAAAGGTGGAAAAGGTTT+GGG 0.432725 7.3:+12910319 MS.gene09873:CDS
AGGCAGGGAAGGACCCTTTA+CGG 0.435749 7.3:+12910583 MS.gene09873:CDS
TCGCAGGCTTTGTTATGCCT+TGG 0.436279 7.3:-12910387 None:intergenic
GGTGGAAAAGGTTTGGGAAA+GGG 0.442921 7.3:+12910325 MS.gene09873:CDS
TCAACCACCGAAACCGTAAA+GGG 0.488164 7.3:-12910596 None:intergenic
CTGCGATTCGTCGTCTTGCA+AGG 0.502831 7.3:+12910404 MS.gene09873:CDS
TCAGTGCAAGCGAAAATGTC+AGG 0.509801 7.3:+12910292 None:intergenic
TGTCTATGCTCTCAAGAGGC+AGG 0.510611 7.3:+12910567 MS.gene09873:CDS
AAAATGTCAGGTCGTGGAAA+AGG 0.512942 7.3:+12910304 None:intergenic
GGAAAAGGTTTGGGAAAGGG+AGG 0.514769 7.3:+12910328 MS.gene09873:CDS
ATCAACCACCGAAACCGTAA+AGG 0.525393 7.3:-12910597 None:intergenic
GGTCGTGGAAAAGGTGGAAA+AGG 0.536368 7.3:+12910313 MS.gene09873:CDS
TTACTTACACTGAGCACGCT+AGG 0.551062 7.3:+12910518 MS.gene09873:CDS
CAAGCGAAAATGTCAGGTCG+TGG 0.551935 7.3:+12910298 None:intergenic
CTTGCAAGACGACGAATCGC+AGG 0.552192 7.3:-12910403 None:intergenic
ATGCTCTCAAGAGGCAGGGA+AGG 0.564763 7.3:+12910572 MS.gene09873:CDS
AGGTGGAAAAGGTTTGGGAA+AGG 0.583555 7.3:+12910324 MS.gene09873:CDS
GTCTATGCTCTCAAGAGGCA+GGG 0.585715 7.3:+12910568 MS.gene09873:CDS
GAGAAAGACTGTTACCGCCA+TGG 0.588179 7.3:+12910540 MS.gene09873:CDS
ATGTCAGGTCGTGGAAAAGG+TGG 0.588325 7.3:+12910307 MS.gene09873:CDS
AGGAGCAAAGAGACACAGAA+AGG 0.597296 7.3:+12910348 MS.gene09873:CDS
AGGACCCTTTACGGTTTCGG+TGG 0.602372 7.3:+12910592 MS.gene09873:CDS
CGTCGTCTTGCAAGGCGTGG+TGG 0.615268 7.3:+12910412 MS.gene09873:CDS
ATTCGTCGTCTTGCAAGGCG+TGG 0.619919 7.3:+12910409 MS.gene09873:CDS
GTTCTTCGCGATAACATCCA+AGG 0.633409 7.3:+12910370 MS.gene09873:CDS
GAGAGCATAGACAACATCCA+TGG 0.645428 7.3:-12910557 None:intergenic
ATGTTGTCTATGCTCTCAAG+AGG 0.677658 7.3:+12910563 MS.gene09873:CDS
GGTGGTGTGAAGAGAATCAG+CGG 0.689951 7.3:+12910430 MS.gene09873:CDS
CTCATCTATGAAGAGACTCG+CGG 0.713431 7.3:+12910454 MS.gene09873:CDS
AGCATAGACAACATCCATGG+CGG 0.735882 7.3:-12910554 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATGTTGTCTATGCTCTCAAG+AGG + chr7.3:12910563-12910582 MS.gene09873:CDS 40.0%
GGAAAAGGTGGAAAAGGTTT+GGG + chr7.3:12910319-12910338 MS.gene09873:CDS 40.0%
TGGAAAAGGTGGAAAAGGTT+TGG + chr7.3:12910318-12910337 MS.gene09873:CDS 40.0%
AGCATAGACAACATCCATGG+CGG - chr7.3:12910557-12910576 None:intergenic 45.0%
AGGAGCAAAGAGACACAGAA+AGG + chr7.3:12910348-12910367 MS.gene09873:CDS 45.0%
AGGTGGAAAAGGTTTGGGAA+AGG + chr7.3:12910324-12910343 MS.gene09873:CDS 45.0%
CGGTGTTCTCAAGATCTTCT+TGG + chr7.3:12910474-12910493 MS.gene09873:CDS 45.0%
CTCATCTATGAAGAGACTCG+CGG + chr7.3:12910454-12910473 MS.gene09873:CDS 45.0%
GGTGGAAAAGGTTTGGGAAA+GGG + chr7.3:12910325-12910344 MS.gene09873:CDS 45.0%
GTTCTTCGCGATAACATCCA+AGG + chr7.3:12910370-12910389 MS.gene09873:CDS 45.0%
TCAACCACCGAAACCGTAAA+GGG - chr7.3:12910599-12910618 None:intergenic 45.0%
TTACTTACACTGAGCACGCT+AGG + chr7.3:12910518-12910537 MS.gene09873:CDS 45.0%
! GAGAGCATAGACAACATCCA+TGG - chr7.3:12910560-12910579 None:intergenic 45.0%
ATGTCAGGTCGTGGAAAAGG+TGG + chr7.3:12910307-12910326 MS.gene09873:CDS 50.0%
GAGAAAGACTGTTACCGCCA+TGG + chr7.3:12910540-12910559 MS.gene09873:CDS 50.0%
GGAAAAGGTTTGGGAAAGGG+AGG + chr7.3:12910328-12910347 MS.gene09873:CDS 50.0%
GGAAGGACCCTTTACGGTTT+CGG + chr7.3:12910589-12910608 MS.gene09873:CDS 50.0%
GGTCGTGGAAAAGGTGGAAA+AGG + chr7.3:12910313-12910332 MS.gene09873:CDS 50.0%
GGTGGTGTGAAGAGAATCAG+CGG + chr7.3:12910430-12910449 MS.gene09873:CDS 50.0%
GTCTATGCTCTCAAGAGGCA+GGG + chr7.3:12910568-12910587 MS.gene09873:CDS 50.0%
TGTCTATGCTCTCAAGAGGC+AGG + chr7.3:12910567-12910586 MS.gene09873:CDS 50.0%
!! TCGCAGGCTTTGTTATGCCT+TGG - chr7.3:12910390-12910409 None:intergenic 50.0%
AGGACCCTTTACGGTTTCGG+TGG + chr7.3:12910592-12910611 MS.gene09873:CDS 55.0%
AGGCAGGGAAGGACCCTTTA+CGG + chr7.3:12910583-12910602 MS.gene09873:CDS 55.0%
ATGCTCTCAAGAGGCAGGGA+AGG + chr7.3:12910572-12910591 MS.gene09873:CDS 55.0%
ATTCGTCGTCTTGCAAGGCG+TGG + chr7.3:12910409-12910428 MS.gene09873:CDS 55.0%
CTGCGATTCGTCGTCTTGCA+AGG + chr7.3:12910404-12910423 MS.gene09873:CDS 55.0%
CTTGCAAGACGACGAATCGC+AGG - chr7.3:12910406-12910425 None:intergenic 55.0%
CGTCGTCTTGCAAGGCGTGG+TGG + chr7.3:12910412-12910431 MS.gene09873:CDS 65.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 12910307 12910618 12910307 ID=MS.gene09873
chr7.3 mRNA 12910307 12910618 12910307 ID=MS.gene09873.t1;Parent=MS.gene09873
chr7.3 exon 12910307 12910618 12910307 ID=MS.gene09873.t1.exon1;Parent=MS.gene09873.t1
chr7.3 CDS 12910307 12910618 12910307 ID=cds.MS.gene09873.t1;Parent=MS.gene09873.t1
Gene Sequence

>MS.gene09873

ATGTCAGGTCGTGGAAAAGGTGGAAAAGGTTTGGGAAAGGGAGGAGCAAAGAGACACAGAAAGGTTCTTCGCGATAACATCCAAGGCATAACAAAGCCTGCGATTCGTCGTCTTGCAAGGCGTGGTGGTGTGAAGAGAATCAGCGGTCTCATCTATGAAGAGACTCGCGGTGTTCTCAAGATCTTCTTGGAAAACGTGATTCGCGATGCTGTTACTTACACTGAGCACGCTAGGAGAAAGACTGTTACCGCCATGGATGTTGTCTATGCTCTCAAGAGGCAGGGAAGGACCCTTTACGGTTTCGGTGGTTGA

Protein sequence

>MS.gene09873.t1

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG