AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene66428


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene66428.t1 MTR_6g088745 97.156 211 5 1 1 211 1 210 1.04e-147 409
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene66428.t1 AT2G37410 60.887 248 55 3 1 211 1 243 1.46e-97 283
MS.gene66428.t1 AT2G37410 60.887 248 55 3 1 211 1 243 1.46e-97 283
MS.gene66428.t1 AT1G20350 57.798 218 85 2 1 211 1 218 3.93e-84 249
MS.gene66428.t1 AT5G11690 58.268 127 53 0 1 127 1 127 8.64e-48 153

Find 70 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGTGGTAGTTTCGCTGTTT+GGG 0.213111 6.3:+82367620 MS.gene66428:CDS
GGAGAATTCGAATACAAATT+TGG 0.247876 6.3:+82367899 MS.gene66428:CDS
CAAGGCTCGCGTGAGGTTTC+CGG 0.263330 6.3:-82367444 None:intergenic
CCGGTGAAACGTGCTCCTTT+AGG 0.286831 6.3:-82367561 None:intergenic
CGGTGAAACGTGCTCCTTTA+GGG 0.297343 6.3:-82367560 None:intergenic
AAGCCGTGGTTTGGTGGATT+TGG 0.323797 6.3:+82367939 MS.gene66428:CDS
TCGGTGGTAGTTTCGCTGTT+TGG 0.324015 6.3:+82367619 MS.gene66428:CDS
TGGAAGTGAGGTGAAGGTTT+TGG 0.352131 6.3:+82368004 MS.gene66428:CDS
TCGGCGCGTTCAGCGGCGTT+TGG 0.371917 6.3:+82367768 MS.gene66428:CDS
ATTGTTGCTGGTGCTGCTAC+TGG 0.376461 6.3:+82367711 MS.gene66428:CDS
GACGACATCGGCGGTGCGTT+TGG 0.387738 6.3:+82367483 MS.gene66428:CDS
CATCGGCGGTGCGTTTGGTA+TGG 0.397202 6.3:+82367488 MS.gene66428:CDS
TGTAGAGACCTTTGAGGAAG+TGG 0.408598 6.3:-82367533 None:intergenic
AATCACTTATACTCAAAATT+CGG 0.421867 6.3:-82368050 None:intergenic
CGACTCAACGCGCCTCGAAT+CGG 0.422021 6.3:+82367600 MS.gene66428:CDS
CCGTGGAATTCTATTGTTGC+TGG 0.424117 6.3:+82367699 MS.gene66428:CDS
CCGTGGTTTGGTGGATTTGG+TGG 0.430833 6.3:+82367942 MS.gene66428:CDS
CAGAAGGAGGAAGAGAAGAT+TGG 0.449106 6.3:+82367975 MS.gene66428:CDS
GCGCGTTCAGCGGCGTTTGG+TGG 0.452428 6.3:+82367771 MS.gene66428:CDS
AGCTGCTTCGGCGCGTTCAG+CGG 0.457202 6.3:+82367761 MS.gene66428:CDS
GAAGAGAAGATTGGTGGTGG+TGG 0.462489 6.3:+82367984 MS.gene66428:CDS
TTCGAATTCTCCTGTGCCCC+CGG 0.470441 6.3:-82367888 None:intergenic
GCGTCAGGGTTTAGCTGCTT+CGG 0.485574 6.3:+82367749 MS.gene66428:CDS
AAAGGTGGGAAGCCGTGGTT+TGG 0.489022 6.3:+82367930 MS.gene66428:CDS
GGTGGGAAGCCGTGGTTTGG+TGG 0.493009 6.3:+82367933 MS.gene66428:CDS
AAGGAGGAAGAGAAGATTGG+TGG 0.495445 6.3:+82367978 MS.gene66428:CDS
TCCGCTTTCCACTTCCTCAA+AGG 0.500336 6.3:+82367525 MS.gene66428:CDS
TGGTGGTGGAAGTGAGGTGA+AGG 0.505868 6.3:+82367998 MS.gene66428:CDS
GGTCTCTACAATTCCCCTAA+AGG 0.507760 6.3:+82367546 MS.gene66428:CDS
GCCTTTGCCGATGATGATTG+AGG 0.510168 6.3:+82367857 MS.gene66428:CDS
ATCGGCGGTGCGTTTGGTAT+GGG 0.511722 6.3:+82367489 MS.gene66428:CDS
CCTAAAGGAGCACGTTTCAC+CGG 0.521130 6.3:+82367561 MS.gene66428:CDS
GAGGAAGAGAAGATTGGTGG+TGG 0.528373 6.3:+82367981 MS.gene66428:CDS
ATGATTGAGGATATGCCACC+GGG 0.529612 6.3:+82367870 MS.gene66428:CDS
TATGGTTTATGTGAGACAAA+AGG 0.530843 6.3:+82367671 MS.gene66428:CDS
GGGAATTGTAGAGACCTTTG+AGG 0.542928 6.3:-82367539 None:intergenic
GATGTCGTCGAGGATGCGAT+CGG 0.550261 6.3:-82367469 None:intergenic
ATGTCGTCGAGGATGCGATC+GGG 0.552232 6.3:-82367468 None:intergenic
GCGAAACTACCACCGATTCG+AGG 0.553488 6.3:-82367612 None:intergenic
TCGAGGATGCGATCGGGACA+AGG 0.558352 6.3:-82367462 None:intergenic
TCCTCAATCATCATCGGCAA+AGG 0.567838 6.3:-82367858 None:intergenic
GATCGCATCCTCGACGACAT+CGG 0.568551 6.3:+82367471 MS.gene66428:CDS
GTTGCTGGTGCTGCTACTGG+TGG 0.571703 6.3:+82367714 MS.gene66428:CDS
TACTCAAAATTCGGCACAGG+AGG 0.572818 6.3:-82368041 None:intergenic
GATGATTGAGGATATGCCAC+CGG 0.573026 6.3:+82367869 MS.gene66428:CDS
GGTAGTTTCGCTGTTTGGGG+TGG 0.580485 6.3:+82367624 MS.gene66428:CDS
GGTGGTAGTTTCGCTGTTTG+GGG 0.580757 6.3:+82367621 MS.gene66428:CDS
TTTGGTATGGGAGCCGTCGG+TGG 0.584337 6.3:+82367501 MS.gene66428:CDS
GGCATATCCTCAATCATCAT+CGG 0.585759 6.3:-82367864 None:intergenic
ATTTGGAGGAAAACAAAGGT+GGG 0.593590 6.3:+82367916 MS.gene66428:CDS
GAATTCGAATACAAATTTGG+AGG 0.594202 6.3:+82367902 MS.gene66428:CDS
CTCAACGCGCCTCGAATCGG+TGG 0.594285 6.3:+82367603 MS.gene66428:CDS
GTGGAAAGCGGAGCCACCGA+CGG 0.594868 6.3:-82367514 None:intergenic
GCGTTTGGTATGGGAGCCGT+CGG 0.599391 6.3:+82367498 MS.gene66428:CDS
TCGAACAGCTTGTGTTGCGC+CGG 0.607726 6.3:-82367580 None:intergenic
GATTGGTGGTGGTGGAAGTG+AGG 0.608458 6.3:+82367992 MS.gene66428:CDS
TTATACTCAAAATTCGGCAC+AGG 0.608930 6.3:-82368044 None:intergenic
ACCTTTGAGGAAGTGGAAAG+CGG 0.610627 6.3:-82367526 None:intergenic
AAAACAAAGGTGGGAAGCCG+TGG 0.612739 6.3:+82367925 MS.gene66428:CDS
ATCGGGACAAGGCTCGCGTG+AGG 0.616293 6.3:-82367451 None:intergenic
CGCATCCTCGACGACATCGG+CGG 0.629489 6.3:+82367474 MS.gene66428:CDS
ACAAATTTGGAGGAAAACAA+AGG 0.636082 6.3:+82367912 MS.gene66428:CDS
AATTTGGAGGAAAACAAAGG+TGG 0.638947 6.3:+82367915 MS.gene66428:CDS
TGAGACAAAAGGAAGATCCG+TGG 0.646748 6.3:+82367682 MS.gene66428:CDS
GGTGAAACGTGCTCCTTTAG+GGG 0.651062 6.3:-82367559 None:intergenic
CCACCAAATCCACCAAACCA+CGG 0.665947 6.3:-82367942 None:intergenic
ACGCACCGCCGATGTCGTCG+AGG 0.669526 6.3:-82367479 None:intergenic
CCAGCAACAATAGAATTCCA+CGG 0.674217 6.3:-82367699 None:intergenic
GATTGAGGATATGCCACCGG+GGG 0.691949 6.3:+82367872 MS.gene66428:CDS
TGATTGAGGATATGCCACCG+GGG 0.779991 6.3:+82367871 MS.gene66428:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTCAACTTTTGATTGTACTA+TGG + chr6.3:82367653-82367672 MS.gene66428:CDS 25.0%
ACAAATTTGGAGGAAAACAA+AGG + chr6.3:82367912-82367931 MS.gene66428:CDS 30.0%
GAATTCGAATACAAATTTGG+AGG + chr6.3:82367902-82367921 MS.gene66428:CDS 30.0%
GGAGAATTCGAATACAAATT+TGG + chr6.3:82367899-82367918 MS.gene66428:CDS 30.0%
TATGGTTTATGTGAGACAAA+AGG + chr6.3:82367671-82367690 MS.gene66428:CDS 30.0%
AATTTGGAGGAAAACAAAGG+TGG + chr6.3:82367915-82367934 MS.gene66428:CDS 35.0%
ATTTGGAGGAAAACAAAGGT+GGG + chr6.3:82367916-82367935 MS.gene66428:CDS 35.0%
TTATACTCAAAATTCGGCAC+AGG - chr6.3:82368047-82368066 None:intergenic 35.0%
CCAGCAACAATAGAATTCCA+CGG - chr6.3:82367702-82367721 None:intergenic 40.0%
GGCATATCCTCAATCATCAT+CGG - chr6.3:82367867-82367886 None:intergenic 40.0%
!! TGGAATTTTTGGACAGAAGG+AGG + chr6.3:82367962-82367981 MS.gene66428:CDS 40.0%
!! TGGTGGAATTTTTGGACAGA+AGG + chr6.3:82367959-82367978 MS.gene66428:CDS 40.0%
!!! GGTGGATTTGGTGGAATTTT+TGG + chr6.3:82367951-82367970 MS.gene66428:CDS 40.0%
!!! GTGCTTTTAGCGTTGATTGA+GGG + chr6.3:82367795-82367814 MS.gene66428:CDS 40.0%
!!! TGCTTTTAGCGTTGATTGAG+GGG + chr6.3:82367796-82367815 MS.gene66428:CDS 40.0%
!!! TGTGCTTTTAGCGTTGATTG+AGG + chr6.3:82367794-82367813 MS.gene66428:CDS 40.0%
AAGGAGGAAGAGAAGATTGG+TGG + chr6.3:82367978-82367997 MS.gene66428:CDS 45.0%
ATGATTGAGGATATGCCACC+GGG + chr6.3:82367870-82367889 MS.gene66428:CDS 45.0%
CAGAAGGAGGAAGAGAAGAT+TGG + chr6.3:82367975-82367994 MS.gene66428:CDS 45.0%
CCGTGGAATTCTATTGTTGC+TGG + chr6.3:82367699-82367718 MS.gene66428:CDS 45.0%
GATGATTGAGGATATGCCAC+CGG + chr6.3:82367869-82367888 MS.gene66428:CDS 45.0%
GGGAATTGTAGAGACCTTTG+AGG - chr6.3:82367542-82367561 None:intergenic 45.0%
GGTCTCTACAATTCCCCTAA+AGG + chr6.3:82367546-82367565 MS.gene66428:CDS 45.0%
TACTCAAAATTCGGCACAGG+AGG - chr6.3:82368044-82368063 None:intergenic 45.0%
TCCTCAATCATCATCGGCAA+AGG - chr6.3:82367861-82367880 None:intergenic 45.0%
TGAGACAAAAGGAAGATCCG+TGG + chr6.3:82367682-82367701 MS.gene66428:CDS 45.0%
! ACCTTTGAGGAAGTGGAAAG+CGG - chr6.3:82367529-82367548 None:intergenic 45.0%
! TGGAAGTGAGGTGAAGGTTT+TGG + chr6.3:82368004-82368023 MS.gene66428:CDS 45.0%
! TGTAGAGACCTTTGAGGAAG+TGG - chr6.3:82367536-82367555 None:intergenic 45.0%
!! GGTTTTCTTGCTATGCGTCA+GGG + chr6.3:82367735-82367754 MS.gene66428:CDS 45.0%
!! TGGTTTTCTTGCTATGCGTC+AGG + chr6.3:82367734-82367753 MS.gene66428:CDS 45.0%
!!! GCTTTTAGCGTTGATTGAGG+GGG + chr6.3:82367797-82367816 MS.gene66428:CDS 45.0%
AAAACAAAGGTGGGAAGCCG+TGG + chr6.3:82367925-82367944 MS.gene66428:CDS 50.0%
CCACCAAATCCACCAAACCA+CGG - chr6.3:82367945-82367964 None:intergenic 50.0%
CGGTGAAACGTGCTCCTTTA+GGG - chr6.3:82367563-82367582 None:intergenic 50.0%
CGGTGGTAGTTTCGCTGTTT+GGG + chr6.3:82367620-82367639 MS.gene66428:CDS 50.0%
GAGGAAGAGAAGATTGGTGG+TGG + chr6.3:82367981-82368000 MS.gene66428:CDS 50.0%
GCCTTTGCCGATGATGATTG+AGG + chr6.3:82367857-82367876 MS.gene66428:CDS 50.0%
GGTGAAACGTGCTCCTTTAG+GGG - chr6.3:82367562-82367581 None:intergenic 50.0%
GGTGGTAGTTTCGCTGTTTG+GGG + chr6.3:82367621-82367640 MS.gene66428:CDS 50.0%
TCCGCTTTCCACTTCCTCAA+AGG + chr6.3:82367525-82367544 MS.gene66428:CDS 50.0%
TCGGTGGTAGTTTCGCTGTT+TGG + chr6.3:82367619-82367638 MS.gene66428:CDS 50.0%
TGATTGAGGATATGCCACCG+GGG + chr6.3:82367871-82367890 MS.gene66428:CDS 50.0%
! CCTAAAGGAGCACGTTTCAC+CGG + chr6.3:82367561-82367580 MS.gene66428:CDS 50.0%
!! AAGCCGTGGTTTGGTGGATT+TGG + chr6.3:82367939-82367958 MS.gene66428:CDS 50.0%
!! ATTGTTGCTGGTGCTGCTAC+TGG + chr6.3:82367711-82367730 MS.gene66428:CDS 50.0%
!! GAAGAGAAGATTGGTGGTGG+TGG + chr6.3:82367984-82368003 MS.gene66428:CDS 50.0%
AAAGGTGGGAAGCCGTGGTT+TGG + chr6.3:82367930-82367949 MS.gene66428:CDS 55.0%
ATCGGCGGTGCGTTTGGTAT+GGG + chr6.3:82367489-82367508 MS.gene66428:CDS 55.0%
ATGTCGTCGAGGATGCGATC+GGG - chr6.3:82367471-82367490 None:intergenic 55.0%
CCGGTGAAACGTGCTCCTTT+AGG - chr6.3:82367564-82367583 None:intergenic 55.0%
GATCGCATCCTCGACGACAT+CGG + chr6.3:82367471-82367490 MS.gene66428:CDS 55.0%
GATGTCGTCGAGGATGCGAT+CGG - chr6.3:82367472-82367491 None:intergenic 55.0%
GATTGAGGATATGCCACCGG+GGG + chr6.3:82367872-82367891 MS.gene66428:CDS 55.0%
GCGTCAGGGTTTAGCTGCTT+CGG + chr6.3:82367749-82367768 MS.gene66428:CDS 55.0%
GGTAGTTTCGCTGTTTGGGG+TGG + chr6.3:82367624-82367643 MS.gene66428:CDS 55.0%
TCGAACAGCTTGTGTTGCGC+CGG - chr6.3:82367583-82367602 None:intergenic 55.0%
TTCGAATTCTCCTGTGCCCC+CGG - chr6.3:82367891-82367910 None:intergenic 55.0%
!! CCGTGGTTTGGTGGATTTGG+TGG + chr6.3:82367942-82367961 MS.gene66428:CDS 55.0%
!! GATTGGTGGTGGTGGAAGTG+AGG + chr6.3:82367992-82368011 MS.gene66428:CDS 55.0%
!! GCGAAACTACCACCGATTCG+AGG - chr6.3:82367615-82367634 None:intergenic 55.0%
!! TGGTGGTGGAAGTGAGGTGA+AGG + chr6.3:82367998-82368017 MS.gene66428:CDS 55.0%
!! TTAGCGTTGATTGAGGGGGC+TGG + chr6.3:82367801-82367820 MS.gene66428:CDS 55.0%
CAAGGCTCGCGTGAGGTTTC+CGG - chr6.3:82367447-82367466 None:intergenic 60.0%
CATCGGCGGTGCGTTTGGTA+TGG + chr6.3:82367488-82367507 MS.gene66428:CDS 60.0%
CGACTCAACGCGCCTCGAAT+CGG + chr6.3:82367600-82367619 MS.gene66428:CDS 60.0%
GCGTTTGGTATGGGAGCCGT+CGG + chr6.3:82367498-82367517 MS.gene66428:CDS 60.0%
TCGAGGATGCGATCGGGACA+AGG - chr6.3:82367465-82367484 None:intergenic 60.0%
TTTGGTATGGGAGCCGTCGG+TGG + chr6.3:82367501-82367520 MS.gene66428:CDS 60.0%
!! GTTGCTGGTGCTGCTACTGG+TGG + chr6.3:82367714-82367733 MS.gene66428:CDS 60.0%
AGCTGCTTCGGCGCGTTCAG+CGG + chr6.3:82367761-82367780 MS.gene66428:CDS 65.0%
ATCGGGACAAGGCTCGCGTG+AGG - chr6.3:82367454-82367473 None:intergenic 65.0%
CGCATCCTCGACGACATCGG+CGG + chr6.3:82367474-82367493 MS.gene66428:CDS 65.0%
CTCAACGCGCCTCGAATCGG+TGG + chr6.3:82367603-82367622 MS.gene66428:CDS 65.0%
GAATTCTCCTGTGCCCCCGG+TGG - chr6.3:82367888-82367907 None:intergenic 65.0%
GACGACATCGGCGGTGCGTT+TGG + chr6.3:82367483-82367502 MS.gene66428:CDS 65.0%
GTGGAAAGCGGAGCCACCGA+CGG - chr6.3:82367517-82367536 None:intergenic 65.0%
! GGTGGGAAGCCGTGGTTTGG+TGG + chr6.3:82367933-82367952 MS.gene66428:CDS 65.0%
ACGCACCGCCGATGTCGTCG+AGG - chr6.3:82367482-82367501 None:intergenic 70.0%
GCGCGTTCAGCGGCGTTTGG+TGG + chr6.3:82367771-82367790 MS.gene66428:CDS 70.0%
TCGGCGCGTTCAGCGGCGTT+TGG + chr6.3:82367768-82367787 MS.gene66428:CDS 70.0%
! GGATATGCCACCGGGGGCAC+AGG + chr6.3:82367878-82367897 MS.gene66428:CDS 70.0%


Chromosome Type Strat End Strand Name
chr6.3 gene 82367435 82368070 82367435 ID=MS.gene66428
chr6.3 mRNA 82367435 82368070 82367435 ID=MS.gene66428.t1;Parent=MS.gene66428
chr6.3 exon 82367435 82368070 82367435 ID=MS.gene66428.t1.exon1;Parent=MS.gene66428.t1
chr6.3 CDS 82367435 82368070 82367435 ID=cds.MS.gene66428.t1;Parent=MS.gene66428.t1
Gene Sequence

>MS.gene66428

ATGGGAACACCGGAAACCTCACGCGAGCCTTGTCCCGATCGCATCCTCGACGACATCGGCGGTGCGTTTGGTATGGGAGCCGTCGGTGGCTCCGCTTTCCACTTCCTCAAAGGTCTCTACAATTCCCCTAAAGGAGCACGTTTCACCGGCGCAACACAAGCTGTTCGACTCAACGCGCCTCGAATCGGTGGTAGTTTCGCTGTTTGGGGTGGTTTGTTTTCAACTTTTGATTGTACTATGGTTTATGTGAGACAAAAGGAAGATCCGTGGAATTCTATTGTTGCTGGTGCTGCTACTGGTGGTTTTCTTGCTATGCGTCAGGGTTTAGCTGCTTCGGCGCGTTCAGCGGCGTTTGGTGGTGTGCTTTTAGCGTTGATTGAGGGGGCTGGTATTGCTTTGAATAAGTTTTTGAGTGCTCAACAGCCTTTGCCGATGATGATTGAGGATATGCCACCGGGGGCACAGGAGAATTCGAATACAAATTTGGAGGAAAACAAAGGTGGGAAGCCGTGGTTTGGTGGATTTGGTGGAATTTTTGGACAGAAGGAGGAAGAGAAGATTGGTGGTGGTGGAAGTGAGGTGAAGGTTTTGGAGAGTTTTGACGCGCCTCCTGTGCCGAATTTTGAGTATAAGTGA

Protein sequence

>MS.gene66428.t1

MGTPETSREPCPDRILDDIGGAFGMGAVGGSAFHFLKGLYNSPKGARFTGATQAVRLNAPRIGGSFAVWGGLFSTFDCTMVYVRQKEDPWNSIVAGAATGGFLAMRQGLAASARSAAFGGVLLALIEGAGIALNKFLSAQQPLPMMIEDMPPGAQENSNTNLEENKGGKPWFGGFGGIFGQKEEEKIGGGGSEVKVLESFDAPPVPNFEYK