AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene059892


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059892.t1 MTR_2g080260 96.947 131 4 0 1 131 211 341 1.17e-90 266
MS.gene059892.t1 MTR_2g080230 93.893 131 8 0 1 131 211 341 1.30e-87 258
MS.gene059892.t1 MTR_8g464300 78.862 123 26 0 9 131 219 341 1.16e-66 205
MS.gene059892.t1 MTR_2g021580 45.802 131 57 3 9 131 207 331 1.78e-31 114
MS.gene059892.t1 MTR_4g059670 46.847 111 57 1 2 112 287 395 2.73e-31 115
MS.gene059892.t1 MTR_2g030835 45.038 131 58 3 9 131 206 330 6.08e-31 112
MS.gene059892.t1 MTR_4g059630 45.946 111 58 1 2 112 278 386 6.37e-31 114
MS.gene059892.t1 MTR_2g030825 46.032 126 64 2 9 131 471 595 3.09e-30 114
MS.gene059892.t1 MTR_2g030845 46.032 126 64 2 9 131 472 596 2.06e-29 111
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059892.t1 AT5G54370 67.164 134 39 2 1 131 206 337 1.66e-61 192
MS.gene059892.t1 AT1G54890 63.158 133 47 1 1 131 215 347 2.19e-55 176
MS.gene059892.t1 AT4G27400 62.963 135 44 2 1 131 209 341 1.71e-54 174
MS.gene059892.t1 AT5G60530 52.427 103 49 0 2 104 333 435 1.05e-33 122
MS.gene059892.t1 AT5G60520 54.167 96 44 0 2 97 232 327 1.50e-32 117
MS.gene059892.t1 AT3G19430 44.615 130 71 1 2 131 454 582 1.31e-30 114
MS.gene059892.t1 AT3G19430 44.615 130 71 1 2 131 431 559 1.56e-30 114

Find 34 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAGATATTTCAGCAACTTC+TGG 0.256973 2.2:-15124479 None:intergenic
ATTGCCACGCCTGGCTTTGC+CGG 0.261338 2.2:-15124662 None:intergenic
CATCAGGAATCTGATAATTA+TGG 0.264771 2.2:-15124538 None:intergenic
TCCAAGAACTCCTTCAACTT+TGG 0.319801 2.2:-15124612 None:intergenic
GATGTGCAGTTCAAATTCTA+TGG 0.321248 2.2:+15124581 MS.gene059892:CDS
TCCAAAGTTGAAGGAGTTCT+TGG 0.337116 2.2:+15124611 MS.gene059892:CDS
CAGATATTTCAGCAACTTCT+GGG 0.400574 2.2:-15124478 None:intergenic
GAAGGCATGGATATTGAGTA+TGG 0.445718 2.2:+15124782 MS.gene059892:CDS
ACTACTGGCATTGCCACGCC+TGG 0.455683 2.2:-15124671 None:intergenic
ATGGATTCTACTGTCCTCCT+TGG 0.475359 2.2:-15124519 None:intergenic
TTGTCTTCCCCTCCAACTAC+TGG 0.482550 2.2:-15124686 None:intergenic
TGAGCAAAACAATCATCATC+AGG 0.483129 2.2:-15124554 None:intergenic
GGCGTGGCAATGCCAGTAGT+TGG 0.486470 2.2:+15124674 MS.gene059892:CDS
TTTCAAAATCCGGCAAAGCC+AGG 0.488564 2.2:+15124653 MS.gene059892:CDS
CTACTGTCCTCCTTGGTGAC+AGG 0.494181 2.2:-15124512 None:intergenic
GGATATTGAGTATGGTATGA+TGG 0.518205 2.2:+15124790 MS.gene059892:CDS
AGATTCAGTGCAGGAAGGCA+TGG 0.525207 2.2:+15124769 MS.gene059892:CDS
ATCTGAAGATGCAAGGGATG+TGG 0.533450 2.2:-15124717 None:intergenic
GGTGGTGCTAGCAGTGGTAA+TGG 0.538430 2.2:+15124821 MS.gene059892:CDS
GGTTTATCGTCCAAAGTTGA+AGG 0.540641 2.2:+15124602 MS.gene059892:CDS
TTCTGCTAAAGATTCAGTGC+AGG 0.549391 2.2:+15124760 MS.gene059892:CDS
GTGGCAATGCCAGTAGTTGG+AGG 0.551168 2.2:+15124677 MS.gene059892:CDS
CAAGACAATCTGAAGATGCA+AGG 0.565565 2.2:-15124724 None:intergenic
GGTATGATGGATTGCACTGG+TGG 0.568752 2.2:+15124803 MS.gene059892:CDS
TGGCAATGCCAGTAGTTGGA+GGG 0.574377 2.2:+15124678 MS.gene059892:CDS
GGCAATGCCAGTAGTTGGAG+GGG 0.593366 2.2:+15124679 MS.gene059892:CDS
AAGACAATCTGAAGATGCAA+GGG 0.603290 2.2:-15124723 None:intergenic
CAATGTGGTGCCTGTCACCA+AGG 0.622527 2.2:+15124502 MS.gene059892:CDS
TGCACTGGTGGTGCTAGCAG+TGG 0.626595 2.2:+15124815 MS.gene059892:CDS
GCTAAAGATTCAGTGCAGGA+AGG 0.646657 2.2:+15124764 MS.gene059892:CDS
AAATCCGGCAAAGCCAGGCG+TGG 0.649193 2.2:+15124658 MS.gene059892:CDS
TATGGTATGATGGATTGCAC+TGG 0.652916 2.2:+15124800 MS.gene059892:CDS
TGCTGAAATATCTGTCAATG+TGG 0.712131 2.2:+15124487 MS.gene059892:CDS
TGTGGTGCCTGTCACCAAGG+AGG 0.732407 2.2:+15124505 MS.gene059892:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CATCAGGAATCTGATAATTA+TGG - chr2.2:15124541-15124560 None:intergenic 30.0%
!! TGATGATTGTTTTGCTCATT+TGG + chr2.2:15124559-15124578 MS.gene059892:CDS 30.0%
AAGACAATCTGAAGATGCAA+GGG - chr2.2:15124726-15124745 None:intergenic 35.0%
ACAGATATTTCAGCAACTTC+TGG - chr2.2:15124482-15124501 None:intergenic 35.0%
CAGATATTTCAGCAACTTCT+GGG - chr2.2:15124481-15124500 None:intergenic 35.0%
GATGTGCAGTTCAAATTCTA+TGG + chr2.2:15124581-15124600 MS.gene059892:CDS 35.0%
GGATATTGAGTATGGTATGA+TGG + chr2.2:15124790-15124809 MS.gene059892:CDS 35.0%
TGAGCAAAACAATCATCATC+AGG - chr2.2:15124557-15124576 None:intergenic 35.0%
TGCTGAAATATCTGTCAATG+TGG + chr2.2:15124487-15124506 MS.gene059892:CDS 35.0%
! TCAGCCAGATTTTCAAAATC+CGG + chr2.2:15124643-15124662 MS.gene059892:CDS 35.0%
!! TTTGCCGGATTTTGAAAATC+TGG - chr2.2:15124650-15124669 None:intergenic 35.0%
CAAGACAATCTGAAGATGCA+AGG - chr2.2:15124727-15124746 None:intergenic 40.0%
GGTTTATCGTCCAAAGTTGA+AGG + chr2.2:15124602-15124621 MS.gene059892:CDS 40.0%
TCCAAAGTTGAAGGAGTTCT+TGG + chr2.2:15124611-15124630 MS.gene059892:CDS 40.0%
TCCAAGAACTCCTTCAACTT+TGG - chr2.2:15124615-15124634 None:intergenic 40.0%
TTCTGCTAAAGATTCAGTGC+AGG + chr2.2:15124760-15124779 MS.gene059892:CDS 40.0%
! GAAGGCATGGATATTGAGTA+TGG + chr2.2:15124782-15124801 MS.gene059892:CDS 40.0%
!! TATGGTATGATGGATTGCAC+TGG + chr2.2:15124800-15124819 MS.gene059892:CDS 40.0%
ATCTGAAGATGCAAGGGATG+TGG - chr2.2:15124720-15124739 None:intergenic 45.0%
ATGGATTCTACTGTCCTCCT+TGG - chr2.2:15124522-15124541 None:intergenic 45.0%
GCTAAAGATTCAGTGCAGGA+AGG + chr2.2:15124764-15124783 MS.gene059892:CDS 45.0%
TTTCAAAATCCGGCAAAGCC+AGG + chr2.2:15124653-15124672 MS.gene059892:CDS 45.0%
AGATTCAGTGCAGGAAGGCA+TGG + chr2.2:15124769-15124788 MS.gene059892:CDS 50.0%
TGGCAATGCCAGTAGTTGGA+GGG + chr2.2:15124678-15124697 MS.gene059892:CDS 50.0%
TTGTCTTCCCCTCCAACTAC+TGG - chr2.2:15124689-15124708 None:intergenic 50.0%
!! GGTATGATGGATTGCACTGG+TGG + chr2.2:15124803-15124822 MS.gene059892:CDS 50.0%
CAATGTGGTGCCTGTCACCA+AGG + chr2.2:15124502-15124521 MS.gene059892:CDS 55.0%
GGCAATGCCAGTAGTTGGAG+GGG + chr2.2:15124679-15124698 MS.gene059892:CDS 55.0%
GTGGCAATGCCAGTAGTTGG+AGG + chr2.2:15124677-15124696 MS.gene059892:CDS 55.0%
! CTACTGTCCTCCTTGGTGAC+AGG - chr2.2:15124515-15124534 None:intergenic 55.0%
! GGTGGTGCTAGCAGTGGTAA+TGG + chr2.2:15124821-15124840 MS.gene059892:CDS 55.0%
AAATCCGGCAAAGCCAGGCG+TGG + chr2.2:15124658-15124677 MS.gene059892:CDS 60.0%
ACTACTGGCATTGCCACGCC+TGG - chr2.2:15124674-15124693 None:intergenic 60.0%
GGCGTGGCAATGCCAGTAGT+TGG + chr2.2:15124674-15124693 MS.gene059892:CDS 60.0%
TGTGGTGCCTGTCACCAAGG+AGG + chr2.2:15124505-15124524 MS.gene059892:CDS 60.0%
! TGCACTGGTGGTGCTAGCAG+TGG + chr2.2:15124815-15124834 MS.gene059892:CDS 60.0%
!! ATTGCCACGCCTGGCTTTGC+CGG - chr2.2:15124665-15124684 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 15124467 15124862 15124467 ID=MS.gene059892
chr2.2 mRNA 15124467 15124862 15124467 ID=MS.gene059892.t1;Parent=MS.gene059892
chr2.2 exon 15124467 15124862 15124467 ID=MS.gene059892.t1.exon1;Parent=MS.gene059892.t1
chr2.2 CDS 15124467 15124862 15124467 ID=cds.MS.gene059892.t1;Parent=MS.gene059892.t1
Gene Sequence

>MS.gene059892

ATGGTTACAATCCCAGAAGTTGCTGAAATATCTGTCAATGTGGTGCCTGTCACCAAGGAGGACAGTAGAATCCATAATTATCAGATTCCTGATGATGATTGTTTTGCTCATTTGGATGTGCAGTTCAAATTCTATGGTTTATCGTCCAAAGTTGAAGGAGTTCTTGGAAGAACTTATCAGCCAGATTTTCAAAATCCGGCAAAGCCAGGCGTGGCAATGCCAGTAGTTGGAGGGGAAGACAAGTATAGAACCACATCCCTTGCATCTTCAGATTGTCTTGCTTGTATATTCTCTTCTGCTAAAGATTCAGTGCAGGAAGGCATGGATATTGAGTATGGTATGATGGATTGCACTGGTGGTGCTAGCAGTGGTAATGGTATAGTTTGCAGAAGATAA

Protein sequence

>MS.gene059892.t1

MVTIPEVAEISVNVVPVTKEDSRIHNYQIPDDDCFAHLDVQFKFYGLSSKVEGVLGRTYQPDFQNPAKPGVAMPVVGGEDKYRTTSLASSDCLACIFSSAKDSVQEGMDIEYGMMDCTGGASSGNGIVCRR