AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene31060

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene31060.t1 MTR_2g098560 96.269 134 5 0 1 134 1 134 3.84e-89 255
MS.gene31060.t1 MTR_7g092970 57.246 138 53 4 1 134 1 136 1.08e-38 127
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene31060.t1 AT3G57930 53.147 143 52 5 1 133 1 138 2.76e-29 103
MS.gene31060.t1 AT3G57930 53.147 143 52 5 1 133 1 138 2.76e-29 103
MS.gene31060.t1 AT2G42190 48.201 139 65 3 1 133 1 138 1.62e-23 89.4
MS.gene31060.t1 AT2G42190 48.201 139 65 3 1 133 1 138 1.62e-23 89.4
MS.gene31060.t1 AT2G42190 48.201 139 65 3 1 133 1 138 1.62e-23 89.4

Find 28 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGTCAAAGTCGTCCTTTAC+CGG 0.288385 2.4:-5457557 None:intergenic
CAGCGAAATCCAATGGATTT+AGG 0.362932 2.4:+5457759 MS.gene31060:CDS
ATGGGTAGAGGTAGAGGAAA+GGG 0.421104 2.4:+5457443 MS.gene31060:CDS
GATTCAGCTGAGGAAGAAAA+TGG 0.422625 2.4:+5457707 MS.gene31060:CDS
TCCGTTATGCCTAAATCCAT+TGG 0.436331 2.4:-5457768 None:intergenic
CAGCAGAACTTGCAAGGAAA+AGG 0.444441 2.4:+5457654 MS.gene31060:CDS
CTCCGCTTACAGTGTCGTCT+TGG 0.444924 2.4:-5457487 None:intergenic
AAGAGGGAGACCACAGAAAC+CGG 0.451752 2.4:+5457538 MS.gene31060:CDS
CTTGCAAGTTCTGCTGCTGT+AGG 0.470856 2.4:-5457647 None:intergenic
AATATCATGGGTAGAGGTAG+AGG 0.478296 2.4:+5457437 None:intergenic
CCTCGTAGAGCTGCTGAAGC+TGG 0.484805 2.4:+5457809 MS.gene31060:CDS
GACAGTGAGAATGTTAAGAA+TGG 0.485544 2.4:+5457599 MS.gene31060:CDS
GTTCCAATACAGAAGAAAAG+AGG 0.492864 2.4:+5457521 MS.gene31060:CDS
CTGACTCCTCTGTGCTTGAT+CGG 0.502660 2.4:-5457739 None:intergenic
TCCAATGGATTTAGGCATAA+CGG 0.518583 2.4:+5457767 MS.gene31060:CDS
TCGTCCTTTACCGGTTTCTG+TGG 0.538924 2.4:-5457548 None:intergenic
GAGGAGTCAGCGAAATCCAA+TGG 0.541722 2.4:+5457752 MS.gene31060:CDS
TTCCAATACAGAAGAAAAGA+GGG 0.543516 2.4:+5457522 MS.gene31060:CDS
CATGGGTAGAGGTAGAGGAA+AGG 0.551133 2.4:+5457442 None:intergenic
TGTAAGCGGAGAAGATGAAA+AGG 0.565907 2.4:+5457499 MS.gene31060:CDS
GAAAAGGAAAAGAAACTCAC+AGG 0.566451 2.4:+5457670 MS.gene31060:CDS
GCTGAGGAAGAAAATGGCGT+TGG 0.572860 2.4:+5457713 MS.gene31060:CDS
GAGACCACAGAAACCGGTAA+AGG 0.577992 2.4:+5457544 MS.gene31060:CDS
CTACAGCAGCAGAACTTGCA+AGG 0.583011 2.4:+5457648 MS.gene31060:CDS
AACCAAGACGACACTGTAAG+CGG 0.632408 2.4:+5457485 MS.gene31060:CDS
AGAGAAGTTAGATTCAGCTG+AGG 0.635071 2.4:+5457697 MS.gene31060:CDS
CCAGCTTCAGCAGCTCTACG+AGG 0.704470 2.4:-5457809 None:intergenic
TGGAAGCCGATCAAGCACAG+AGG 0.757729 2.4:+5457733 MS.gene31060:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTCCAATACAGAAGAAAAGA+GGG + chr2.4:5457522-5457541 MS.gene31060:CDS 30.0%
GAAAAGGAAAAGAAACTCAC+AGG + chr2.4:5457670-5457689 MS.gene31060:CDS 35.0%
GACAGTGAGAATGTTAAGAA+TGG + chr2.4:5457599-5457618 MS.gene31060:CDS 35.0%
GTTCCAATACAGAAGAAAAG+AGG + chr2.4:5457521-5457540 MS.gene31060:CDS 35.0%
! TCCAATGGATTTAGGCATAA+CGG + chr2.4:5457767-5457786 MS.gene31060:CDS 35.0%
AGAGAAGTTAGATTCAGCTG+AGG + chr2.4:5457697-5457716 MS.gene31060:CDS 40.0%
GATTCAGCTGAGGAAGAAAA+TGG + chr2.4:5457707-5457726 MS.gene31060:CDS 40.0%
TCCGTTATGCCTAAATCCAT+TGG - chr2.4:5457771-5457790 None:intergenic 40.0%
TGTAAGCGGAGAAGATGAAA+AGG + chr2.4:5457499-5457518 MS.gene31060:CDS 40.0%
! CAGCGAAATCCAATGGATTT+AGG + chr2.4:5457759-5457778 MS.gene31060:CDS 40.0%
! CTCCCTCTTTTCTTCTGTAT+TGG - chr2.4:5457527-5457546 None:intergenic 40.0%
AACCAAGACGACACTGTAAG+CGG + chr2.4:5457485-5457504 MS.gene31060:CDS 45.0%
ATGGGTAGAGGTAGAGGAAA+GGG + chr2.4:5457443-5457462 MS.gene31060:CDS 45.0%
CAGCAGAACTTGCAAGGAAA+AGG + chr2.4:5457654-5457673 MS.gene31060:CDS 45.0%
TCGTCAAAGTCGTCCTTTAC+CGG - chr2.4:5457560-5457579 None:intergenic 45.0%
AAGAGGGAGACCACAGAAAC+CGG + chr2.4:5457538-5457557 MS.gene31060:CDS 50.0%
CTACAGCAGCAGAACTTGCA+AGG + chr2.4:5457648-5457667 MS.gene31060:CDS 50.0%
CTGACTCCTCTGTGCTTGAT+CGG - chr2.4:5457742-5457761 None:intergenic 50.0%
CTTGCAAGTTCTGCTGCTGT+AGG - chr2.4:5457650-5457669 None:intergenic 50.0%
GAGACCACAGAAACCGGTAA+AGG + chr2.4:5457544-5457563 MS.gene31060:CDS 50.0%
GAGGAGTCAGCGAAATCCAA+TGG + chr2.4:5457752-5457771 MS.gene31060:CDS 50.0%
GCTGAGGAAGAAAATGGCGT+TGG + chr2.4:5457713-5457732 MS.gene31060:CDS 50.0%
!! TCGTCCTTTACCGGTTTCTG+TGG - chr2.4:5457551-5457570 None:intergenic 50.0%
CTCCGCTTACAGTGTCGTCT+TGG - chr2.4:5457490-5457509 None:intergenic 55.0%
TGGAAGCCGATCAAGCACAG+AGG + chr2.4:5457733-5457752 MS.gene31060:CDS 55.0%
CCAGCTTCAGCAGCTCTACG+AGG - chr2.4:5457812-5457831 None:intergenic 60.0%
CCTCGTAGAGCTGCTGAAGC+TGG + chr2.4:5457809-5457828 MS.gene31060:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 5457443 5457847 5457443 ID=MS.gene31060
chr2.4 mRNA 5457443 5457847 5457443 ID=MS.gene31060.t1;Parent=MS.gene31060
chr2.4 exon 5457443 5457847 5457443 ID=MS.gene31060.t1.exon1;Parent=MS.gene31060.t1
chr2.4 CDS 5457443 5457847 5457443 ID=cds.MS.gene31060.t1;Parent=MS.gene31060.t1
Gene Sequence

>MS.gene31060

ATGGGTAGAGGTAGAGGAAAGGGTAAAAAGCTAACTGTTACTAACCAAGACGACACTGTAAGCGGAGAAGATGAAAAGGTTCCAATACAGAAGAAAAGAGGGAGACCACAGAAACCGGTAAAGGACGACTTTGACGAAGAAGTTGAGAAAATAGTTGACAGTGAGAATGTTAAGAATGGAGTAACTCACAGAGAGATGAAAAGTCCTACAGCAGCAGAACTTGCAAGGAAAAGGAAAAGAAACTCACAGGTAAAAGAGAAGTTAGATTCAGCTGAGGAAGAAAATGGCGTTGGAAGCCGATCAAGCACAGAGGAGTCAGCGAAATCCAATGGATTTAGGCATAACGGAAGCAGACGCAAAAGCACGCCTCGTAGAGCTGCTGAAGCTGGTGTGCAGTGCCAGTAA
Protein sequence

>MS.gene31060.t1

MGRGRGKGKKLTVTNQDDTVSGEDEKVPIQKKRGRPQKPVKDDFDEEVEKIVDSENVKNGVTHREMKSPTAAELARKRKRNSQVKEKLDSAEEENGVGSRSSTEESAKSNGFRHNGSRRKSTPRRAAEAGVQCQ