AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76275

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76275.t1 MTR_1g111300 93.893 131 7 1 1 130 1 131 1.15e-87 251
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 25 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACAAATTTGTTAGCCAAAT+TGG 0.116747 1.1:-78583617 None:intergenic
ATCAATGTGTTTGAAACTAT+TGG 0.284145 1.1:-78583492 None:intergenic
GCTCTGGTTCGCCACCAATT+TGG 0.311905 1.1:+78583603 MS.gene76275:CDS
TGGTTTCAACTAAATCTTCA+TGG 0.350113 1.1:-78583472 None:intergenic
CACATTGATGTTACAAATGA+TGG 0.350128 1.1:+78583506 MS.gene76275:CDS
TGAATTCAAATCCTAGTGTT+TGG 0.353031 1.1:+78583375 MS.gene76275:CDS
TTGCAGCAAGAATGAACAAT+AGG 0.400328 1.1:+78583834 MS.gene76275:intron
CTTCATTTCTTATTCACCAC+TGG 0.403164 1.1:-78583875 None:intergenic
CTTTCTATGCTGAGATTAAG+AGG 0.404596 1.1:+78583423 MS.gene76275:CDS
CAATTTGGCTAACAAATTTG+TGG 0.424710 1.1:+78583618 MS.gene76275:CDS
TACAAGAAAATTCTATTTGT+GGG 0.427304 1.1:+78583571 MS.gene76275:CDS
TGGAGGAATGGTAAAGGTAC+TGG 0.427886 1.1:+78583638 MS.gene76275:CDS
TTGTGGGAAACAGATAGCTC+TGG 0.484793 1.1:+78583587 MS.gene76275:CDS
CTACAAGAAAATTCTATTTG+TGG 0.487604 1.1:+78583570 MS.gene76275:CDS
CTAACAAATTTGTGGAGGAA+TGG 0.499619 1.1:+78583626 MS.gene76275:CDS
TTACAAATGATGGTTCAAAC+AGG 0.502417 1.1:+78583516 MS.gene76275:CDS
CATTCCTCAAGTTTCATGCA+AGG 0.516692 1.1:+78583667 MS.gene76275:CDS
AAATTTGTTAGCCAAATTGG+TGG 0.529763 1.1:-78583614 None:intergenic
TCTGTCTCAAACCAAACACT+AGG 0.561762 1.1:-78583386 None:intergenic
GGTCTTCAGATGTTAACTGC+AGG 0.570063 1.1:-78583451 None:intergenic
TTTGGCTAACAAATTTGTGG+AGG 0.585860 1.1:+78583621 MS.gene76275:CDS
CAAGAATGAACAATAGGACG+AGG 0.601849 1.1:+78583840 MS.gene76275:CDS
AATTTGTGGAGGAATGGTAA+AGG 0.605795 1.1:+78583632 MS.gene76275:CDS
TGCAAGGAAAATCAAAGACC+AGG 0.622181 1.1:+78583683 MS.gene76275:CDS
GAGGAAAATATATAGACCAG+TGG 0.692967 1.1:+78583859 MS.gene76275:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TACAAGAAAATTCTATTTGT+GGG + chr1.1:78583571-78583590 MS.gene76275:CDS 20.0%
!! TTCACAAATTTGTAAATTAG+TGG + chr1.1:78583745-78583764 MS.gene76275:intron 20.0%
! CTACAAGAAAATTCTATTTG+TGG + chr1.1:78583570-78583589 MS.gene76275:CDS 25.0%
!! ATCAATGTGTTTGAAACTAT+TGG - chr1.1:78583495-78583514 None:intergenic 25.0%
!! CACAAATAGAATTTTCTTGT+AGG - chr1.1:78583572-78583591 None:intergenic 25.0%
CAATTTGGCTAACAAATTTG+TGG + chr1.1:78583618-78583637 MS.gene76275:CDS 30.0%
CACATTGATGTTACAAATGA+TGG + chr1.1:78583506-78583525 MS.gene76275:CDS 30.0%
TAAGAGATCAAAATTGTACC+TGG - chr1.1:78583704-78583723 None:intergenic 30.0%
TGAATTCAAATCCTAGTGTT+TGG + chr1.1:78583375-78583394 MS.gene76275:CDS 30.0%
TGGTTTCAACTAAATCTTCA+TGG - chr1.1:78583475-78583494 None:intergenic 30.0%
TTACAAATGATGGTTCAAAC+AGG + chr1.1:78583516-78583535 MS.gene76275:CDS 30.0%
!! AAATTTGTTAGCCAAATTGG+TGG - chr1.1:78583617-78583636 None:intergenic 30.0%
!! CACAAATTTGTTAGCCAAAT+TGG - chr1.1:78583620-78583639 None:intergenic 30.0%
AATTTGTGGAGGAATGGTAA+AGG + chr1.1:78583632-78583651 MS.gene76275:CDS 35.0%
CTAACAAATTTGTGGAGGAA+TGG + chr1.1:78583626-78583645 MS.gene76275:CDS 35.0%
CTTTCTATGCTGAGATTAAG+AGG + chr1.1:78583423-78583442 MS.gene76275:CDS 35.0%
GAGGAAAATATATAGACCAG+TGG + chr1.1:78583859-78583878 MS.gene76275:CDS 35.0%
TTGCAGCAAGAATGAACAAT+AGG + chr1.1:78583834-78583853 MS.gene76275:intron 35.0%
TTTGGCTAACAAATTTGTGG+AGG + chr1.1:78583621-78583640 MS.gene76275:CDS 35.0%
! TTTTCCTTGCATGAAACTTG+AGG - chr1.1:78583674-78583693 None:intergenic 35.0%
CAAGAATGAACAATAGGACG+AGG + chr1.1:78583840-78583859 MS.gene76275:CDS 40.0%
CATTCCTCAAGTTTCATGCA+AGG + chr1.1:78583667-78583686 MS.gene76275:CDS 40.0%
TCTGTCTCAAACCAAACACT+AGG - chr1.1:78583389-78583408 None:intergenic 40.0%
TGCAAGGAAAATCAAAGACC+AGG + chr1.1:78583683-78583702 MS.gene76275:CDS 40.0%
GGTCTTCAGATGTTAACTGC+AGG - chr1.1:78583454-78583473 None:intergenic 45.0%
TTGTGGGAAACAGATAGCTC+TGG + chr1.1:78583587-78583606 MS.gene76275:CDS 45.0%
! TGGAGGAATGGTAAAGGTAC+TGG + chr1.1:78583638-78583657 MS.gene76275:CDS 45.0%
! GCTCTGGTTCGCCACCAATT+TGG + chr1.1:78583603-78583622 MS.gene76275:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 78583368 78583895 78583368 ID=MS.gene76275
chr1.1 mRNA 78583368 78583895 78583368 ID=MS.gene76275.t1;Parent=MS.gene76275
chr1.1 exon 78583368 78583704 78583368 ID=MS.gene76275.t1.exon1;Parent=MS.gene76275.t1
chr1.1 CDS 78583368 78583704 78583368 ID=cds.MS.gene76275.t1;Parent=MS.gene76275.t1
chr1.1 exon 78583840 78583895 78583840 ID=MS.gene76275.t1.exon2;Parent=MS.gene76275.t1
chr1.1 CDS 78583840 78583895 78583840 ID=cds.MS.gene76275.t1;Parent=MS.gene76275.t1
Gene Sequence

>MS.gene76275

ATGGAAATGAATTCAAATCCTAGTGTTTGGTTTGAGACAGAAAATGAAGATGATACTTTCTATGCTGAGATTAAGAGGCAGATCCTGCAGTTAACATCTGAAGACCATGAAGATTTAGTTGAAACCAATAGTTTCAAACACATTGATGTTACAAATGATGGTTCAAACAGGTCAATTTACAATTATAACAATGCAACAAAACCTACAAGAAAATTCTATTTGTGGGAAACAGATAGCTCTGGTTCGCCACCAATTTGGCTAACAAATTTGTGGAGGAATGGTAAAGGTACTGGAGTGTTCATTCCTCAAGTTTCATGCAAGGAAAATCAAAGACCAGGTACAATTTTGATCTCTTATTCATTAGTTTATTTTTTAAATTCACAAATTTGTAAATTAGTGGTTATGTTAGTTTTTGACAGTTCGAACTACTACGATAATTGTTACTTTGCTCACTGTTGTGATTCTTTTGCAGCAAGAATGAACAATAGGACGAGGAAAATATATAGACCAGTGGTGAATAAGAAATGA
Protein sequence

>MS.gene76275.t1

MEMNSNPSVWFETENEDDTFYAEIKRQILQLTSEDHEDLVETNSFKHIDVTNDGSNRSIYNYNNATKPTRKFYLWETDSSGSPPIWLTNLWRNGKGTGVFIPQVSCKENQRPARMNNRTRKIYRPVVNKK