AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene24692


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene24692.t1 MTR_7g104930 100.000 80 0 0 1 80 1 80 1.30e-53 161
MS.gene24692.t1 MTR_6g066250 90.476 63 6 0 14 76 15 77 5.20e-35 114
MS.gene24692.t1 MTR_7g065100 38.028 71 35 1 9 70 10 80 9.19e-13 58.5
MS.gene24692.t1 MTR_8g036205 34.722 72 38 1 9 71 10 81 5.11e-11 54.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene24692.t1 AT2G23930 91.139 79 7 0 1 79 1 79 2.77e-49 150
MS.gene24692.t1 AT3G11500 91.139 79 7 0 1 79 1 79 4.56e-49 149
MS.gene24692.t1 AT3G11500 91.139 79 7 0 1 79 1 79 4.56e-49 149
MS.gene24692.t1 AT2G23930 88.679 53 6 0 27 79 1 53 1.63e-28 97.1
MS.gene24692.t1 AT2G03870 38.028 71 35 1 9 70 10 80 1.59e-12 57.8
MS.gene24692.t1 AT2G03870 38.028 71 35 1 9 70 10 80 1.59e-12 57.8

Find 18 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCGACCAATTTATGAATT+TGG 0.200064 7.3:-9670711 MS.gene24692:CDS
CAACAACCAAATTCATAAAT+TGG 0.293346 7.3:+9670705 None:intergenic
AATGCTTACTTCTTCAAATC+TGG 0.328903 7.3:+9671717 None:intergenic
TCTTTCACCATGAGTAGGTC+AGG 0.413563 7.3:-9671747 None:intergenic
AATTAGATGCTTCTGTTCAC+TGG 0.418853 7.3:+9670478 None:intergenic
AATGCAAATCGCATGATTGT+TGG 0.502115 7.3:-9670746 MS.gene24692:CDS
TCATAAATTGGTCGAAGCCA+CGG 0.529169 7.3:+9670717 None:intergenic
CGCTTTCTGCAGGTGATCAG+AGG 0.541314 7.3:-9670532 MS.gene24692:intron
TTTGTTCTTTCACCATGAGT+AGG 0.559149 7.3:-9671752 None:intergenic
GACAATACTGTGGAGGTGAA+TGG 0.565835 7.3:-9670683 MS.gene24692:CDS
TGGCTGCCCTGACCTACTCA+TGG 0.567702 7.3:+9671740 None:intergenic
AAATAGTGTGGTCACTGTAG+AGG 0.581425 7.3:-9670509 MS.gene24692:CDS
CTTTCACCATGAGTAGGTCA+GGG 0.590203 7.3:-9671746 None:intergenic
GCTTACTTCTTCAAATCTGG+TGG 0.598528 7.3:+9671720 None:intergenic
ATGATTGTTGGTACTCTCCG+TGG 0.628986 7.3:-9670734 MS.gene24692:CDS
TTTGGTTGTTGACAATACTG+TGG 0.664176 7.3:-9670693 MS.gene24692:CDS
GGTTGTTGACAATACTGTGG+AGG 0.683546 7.3:-9670690 MS.gene24692:CDS
GGTGATCAGAGGAAATAGTG+TGG 0.728293 7.3:-9670521 MS.gene24692:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AACCTTTTTTTTTTTTTTAA+TGG + chr7.3:9670775-9670794 None:intergenic 10.0%
!!! TAATTTTTTAACTGAATTTT+TGG - chr7.3:9670843-9670862 MS.gene24692:intron 10.0%
!! TATTCATATAAATCTTTCTA+CGG - chr7.3:9671269-9671288 MS.gene24692:intron 15.0%
!! TGCCATTAAAAAAAAAAAAA+AGG - chr7.3:9670770-9670789 MS.gene24692:intron 15.0%
!! ATATGGTAGCTTATATTATT+TGG - chr7.3:9671128-9671147 MS.gene24692:intron 20.0%
!! ATTCATAAAGGAATGAAAAA+CGG + chr7.3:9671216-9671235 None:intergenic 20.0%
!! ATTCATATAAATCTTTCTAC+GGG - chr7.3:9671270-9671289 MS.gene24692:intron 20.0%
!!! TATGCATTTTTTTTTTCGAT+AGG - chr7.3:9670601-9670620 MS.gene24692:intron 20.0%
!!! TTTTCATTCCTTTATGAATT+GGG - chr7.3:9671217-9671236 MS.gene24692:intron 20.0%
!!! TTTTTCATTCCTTTATGAAT+TGG - chr7.3:9671216-9671235 MS.gene24692:intron 20.0%
! ACATGTGTATAAATGGATAT+TGG - chr7.3:9671368-9671387 MS.gene24692:intron 25.0%
! ATATGTATCTATGTACATGT+GGG - chr7.3:9671341-9671360 MS.gene24692:intron 25.0%
! CAACAACCAAATTCATAAAT+TGG + chr7.3:9671516-9671535 None:intergenic 25.0%
! TAACCACTTCTTCTATTAAT+TGG + chr7.3:9670986-9671005 None:intergenic 25.0%
! TTTCATTCCTTTATGAATTG+GGG - chr7.3:9671218-9671237 MS.gene24692:intron 25.0%
!!! TTTTTTTTTCGATAGGTACA+TGG - chr7.3:9670608-9670627 MS.gene24692:intron 25.0%
AATGCTTACTTCTTCAAATC+TGG + chr7.3:9670504-9670523 None:intergenic 30.0%
AGGAATTATACTGAAGTATG+TGG - chr7.3:9671428-9671447 MS.gene24692:intron 30.0%
CATGTACATAGATACATATC+AGG + chr7.3:9671340-9671359 None:intergenic 30.0%
CTTCGACCAATTTATGAATT+TGG - chr7.3:9671507-9671526 MS.gene24692:intron 30.0%
GATATGTATCTATGTACATG+TGG - chr7.3:9671340-9671359 MS.gene24692:intron 30.0%
GATCCAATTAATAGAAGAAG+TGG - chr7.3:9670980-9670999 MS.gene24692:intron 30.0%
GCAATGAGAAAAATGACATA+GGG - chr7.3:9671557-9671576 MS.gene24692:intron 30.0%
GGGTTTAACATGTGTATAAA+TGG - chr7.3:9671361-9671380 MS.gene24692:intron 30.0%
TGTAATTTCTCTCGCTTATA+TGG - chr7.3:9671111-9671130 MS.gene24692:intron 30.0%
TTCATTCCTTTATGAATTGG+GGG - chr7.3:9671219-9671238 MS.gene24692:intron 30.0%
! TTTTGAATTTCTACTGCACT+TGG - chr7.3:9670568-9670587 MS.gene24692:intron 30.0%
!! ACTTGATAATGCATAGTATG+AGG + chr7.3:9671595-9671614 None:intergenic 30.0%
!! TTTTGTAGTTTGTGTGAAGA+TGG - chr7.3:9670795-9670814 MS.gene24692:intron 30.0%
AATGCAAATCGCATGATTGT+TGG - chr7.3:9671472-9671491 MS.gene24692:intron 35.0%
CATGTCTTATGATTTAGCTG+AGG - chr7.3:9671408-9671427 MS.gene24692:intron 35.0%
GCATTATAAAGTGAAGTTCG+AGG - chr7.3:9671150-9671169 MS.gene24692:intron 35.0%
GGCAATGAGAAAAATGACAT+AGG - chr7.3:9671556-9671575 MS.gene24692:intron 35.0%
TGAGAAAAATGACATAGGGA+TGG - chr7.3:9671561-9671580 MS.gene24692:intron 35.0%
TTCTAGGTACAAGATTGAGT+GGG - chr7.3:9670894-9670913 MS.gene24692:intron 35.0%
TTTCTAGGTACAAGATTGAG+TGG - chr7.3:9670893-9670912 MS.gene24692:intron 35.0%
TTTGGTTGTTGACAATACTG+TGG - chr7.3:9671525-9671544 MS.gene24692:intron 35.0%
AAATAGTGTGGTCACTGTAG+AGG - chr7.3:9671709-9671728 MS.gene24692:intron 40.0%
CACTATTGCTATGAGTTCAG+TGG - chr7.3:9670870-9670889 MS.gene24692:intron 40.0%
CATATCAGGAACAAACAGAC+AGG + chr7.3:9671326-9671345 None:intergenic 40.0%
CATCTTATAGAGCTTGAGCT+AGG - chr7.3:9671640-9671659 MS.gene24692:intron 40.0%
CGTAATCCCCCAATTCATAA+AGG + chr7.3:9671228-9671247 None:intergenic 40.0%
CTATGAGTTCAGTGGTTTCT+AGG - chr7.3:9670878-9670897 MS.gene24692:intron 40.0%
GAAAAATGACATAGGGATGG+TGG - chr7.3:9671564-9671583 MS.gene24692:intron 40.0%
GCTTACTTCTTCAAATCTGG+TGG + chr7.3:9670501-9670520 None:intergenic 40.0%
GGACAAACAGCTTCAAAGTA+AGG - chr7.3:9670629-9670648 MS.gene24692:intron 40.0%
TCATAAATTGGTCGAAGCCA+CGG + chr7.3:9671504-9671523 None:intergenic 40.0%
TGGATTGCAGAGAAAAAGTG+TGG - chr7.3:9671058-9671077 MS.gene24692:intron 40.0%
! AATTTTCACTCGCTTTCTGC+AGG - chr7.3:9671676-9671695 MS.gene24692:intron 40.0%
! CTGTATGTGAGAGCTTTTAC+TGG - chr7.3:9671021-9671040 MS.gene24692:intron 40.0%
ATGATTGTTGGTACTCTCCG+TGG - chr7.3:9671484-9671503 MS.gene24692:intron 45.0%
GACAATACTGTGGAGGTGAA+TGG - chr7.3:9671535-9671554 MS.gene24692:intron 45.0%
GGTGATCAGAGGAAATAGTG+TGG - chr7.3:9671697-9671716 MS.gene24692:intron 45.0%
GGTTGTTGACAATACTGTGG+AGG - chr7.3:9671528-9671547 MS.gene24692:intron 45.0%
! TACTGGCTGCGAACATTCTT+TGG - chr7.3:9671038-9671057 MS.gene24692:intron 45.0%
!! CTATATATATAAATATAAAA+AGG + chr7.3:9670748-9670767 None:intergenic 5.0%
!!! TTTTTTTTTTAAATCAAATT+TGG - chr7.3:9670699-9670718 MS.gene24692:CDS 5.0%
GTGTGGCATGTCTTTGCTAC+TGG - chr7.3:9671075-9671094 MS.gene24692:intron 50.0%
CGCTTTCTGCAGGTGATCAG+AGG - chr7.3:9671686-9671705 MS.gene24692:intron 55.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 9670480 9671760 9670480 ID=MS.gene24692
chr7.3 mRNA 9670480 9671760 9670480 ID=MS.gene24692.t1;Parent=MS.gene24692
chr7.3 exon 9671726 9671760 9671726 ID=MS.gene24692.t1.exon1;Parent=MS.gene24692.t1
chr7.3 CDS 9671726 9671760 9671726 ID=cds.MS.gene24692.t1;Parent=MS.gene24692.t1
chr7.3 exon 9671595 9671617 9671595 ID=MS.gene24692.t1.exon2;Parent=MS.gene24692.t1
chr7.3 CDS 9671595 9671617 9671595 ID=cds.MS.gene24692.t1;Parent=MS.gene24692.t1
chr7.3 exon 9670655 9670776 9670655 ID=MS.gene24692.t1.exon3;Parent=MS.gene24692.t1
chr7.3 CDS 9670655 9670776 9670655 ID=cds.MS.gene24692.t1;Parent=MS.gene24692.t1
chr7.3 exon 9670480 9670542 9670480 ID=MS.gene24692.t1.exon4;Parent=MS.gene24692.t1
chr7.3 CDS 9670480 9670542 9670480 ID=cds.MS.gene24692.t1;Parent=MS.gene24692.t1
Gene Sequence

>MS.gene24692

ATGAGTAGGTCAGGGCAGCCACCAGATTTGAAGAAGTAAGCATTCTTAACACTTTTCAATTCATTTTTTCATTACAATTTTTCGTTGATTTTGAATTTCTACTGCACTTGGTCGATACTGATATGCATTTTTTTTTTCGATAGGTACATGGACAAACAGCTTCAAAGTAAGGTTCTTTCTGCTAATTGTTCTTACTTCTTATCTTCTTTCTTTCTTTGTTTTTTTTTTTAAATCAAATTTGGTTTTTTGTAGTATTTGTTCAGTTCCTTTTTATATTTATATATATAGTTTGCCATTAAAAAAAAAAAAAAGGTTTTTTGTAGTTTGTGTGAAGATGGAGTGTTTAGTAGAATTGCAAAAATATAATTTTTTAACTGAATTTTTGGTTTTCACTATTGCTATGAGTTCAGTGGTTTCTAGGTACAAGATTGAGTGGGATTTTGATTTTTTATCAATGAATAGCTGAAGATTGTTATGTTCAACTTATAATATTTAAGCATGATCCAATTAATAGAAGAAGTGGTTAAGAATGTATGAGTGTCTGTATGTGAGAGCTTTTACTGGCTGCGAACATTCTTTGGATTGCAGAGAAAAAGTGTGGCATGTCTTTGCTACTGGTTGATACTTTGAATGTAATTTCTCTCGCTTATATGGTAGCTTATATTATTTGGCATTATAAAGTGAAGTTCGAGGAAGTCAATTACTCAATTACAGCTTAATCATTATTTTTTATCCGTTTTTCATTCCTTTATGAATTGGGGGATTACGCTTATTAGTGATTGTGTGAACTATTCATATAAATCTTTCTACGGGTTTGTTTAGTAGTTTTGAATTTTTAAACTGCCTGTCTGTTTGTTCCTGATATGTATCTATGTACATGTGGGTTTAACATGTGTATAAATGGATATTGGTGCTTCTTTGCTGAAAACATGTCTTATGATTTAGCTGAGGAATTATACTGAAGTATGTGGTATTATCTTGCAGTCAAGCTGAATGCAAATCGCATGATTGTTGGTACTCTCCGTGGCTTCGACCAATTTATGAATTTGGTTGTTGACAATACTGTGGAGGTGAATGGCAATGAGAAAAATGACATAGGGATGGTGGTAAGTCCTCATACTATGCATTATCAAGTTATAATATTAGTAGTTTATGTATAGCATCTTATAGAGCTTGAGCTAGGTTTTATATTTGTTAATTTTCACTCGCTTTCTGCAGGTGATCAGAGGAAATAGTGTGGTCACTGTAGAGGCGCTTGAACCAGTGAACAGAAGCATCTAA

Protein sequence

>MS.gene24692.t1

MSRSGQPPDLKKYMDKQLQIKLNANRMIVGTLRGFDQFMNLVVDNTVEVNGNEKNDIGMVVIRGNSVVTVEALEPVNRSI