AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene003524


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene003524.t1 AT2G17870 64.789 71 25 0 2 72 7 77 7.50e-29 105
MS.gene003524.t1 AT2G21060 61.644 73 28 0 3 75 12 84 4.51e-28 101
MS.gene003524.t1 AT4G36020 60.563 71 28 0 2 72 7 77 2.88e-25 95.5
MS.gene003524.t1 AT4G36020 60.563 71 28 0 2 72 7 77 5.15e-25 95.5
MS.gene003524.t1 AT4G36020 60.563 71 28 0 2 72 7 77 5.15e-25 95.5
MS.gene003524.t1 AT4G38680 60.274 73 29 0 3 75 8 80 2.12e-22 86.7

Find 33 sgRNAs with CRISPR-Local

Find 114 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGAGTGGGTCAAAATTAAC+TGG 0.306323 4.3:+33158289 MS.gene003524:CDS
TTCAATGATCAGAAGGGGTT+TGG 0.339445 4.3:+33158325 MS.gene003524:CDS
AACTCCTCACTTCCATCATC+AGG 0.391515 4.3:-33158358 None:intergenic
TGCTACAGCTGTGGTGAATC+TGG 0.396062 4.3:+33158838 MS.gene003524:intron
CATCGGTTTGGATCTGAGAT+TGG 0.429198 4.3:-33158390 None:intergenic
TTTGCAAGAGATTGTCCAAC+AGG 0.433866 4.3:+33158865 MS.gene003524:CDS
AATTAACTGGGAAGGTGAAA+TGG 0.440654 4.3:+33158302 MS.gene003524:CDS
TCCAAGGCTGTTAGTGTGAC+TGG 0.440806 4.3:+33158478 MS.gene003524:CDS
GAGAGCGGAATCCATCGGTT+TGG 0.468363 4.3:-33158402 None:intergenic
GGATTCATCACCCCTGATGA+TGG 0.483119 4.3:+33158346 MS.gene003524:CDS
CTTCAACGAGCGCTGCCTGT+TGG 0.500201 4.3:-33158880 None:intergenic
TCCAGTCACACTAACAGCCT+TGG 0.511590 4.3:-33158479 None:intergenic
AGCAAGAGAGCGGAATCCAT+CGG 0.551382 4.3:-33158407 None:intergenic
AAAATTCAATTCATCATGAG+TGG 0.553878 4.3:+33158274 None:intergenic
GTTAGTGTGACTGGACCTGA+TGG 0.557938 4.3:+33158487 MS.gene003524:CDS
GAAATGGTTCAATGATCAGA+AGG 0.565831 4.3:+33158318 MS.gene003524:CDS
GGATTCCGCTCTCTTGCTGA+AGG 0.568654 4.3:+33158412 MS.gene003524:CDS
AGATCTGAGTAAAGTGGTGG+TGG 0.576919 4.3:+33158901 MS.gene003524:CDS
CGTTGAAGATCTGAGTAAAG+TGG 0.585840 4.3:+33158895 MS.gene003524:CDS
ACTCCTCACTTCCATCATCA+GGG 0.589005 4.3:-33158357 None:intergenic
CAATCTCAGATCCAAACCGA+TGG 0.617544 4.3:+33158391 MS.gene003524:CDS
TGATAACGATGGAAGATCCA+AGG 0.617668 4.3:+33158462 MS.gene003524:CDS
AAATGGTTCAATGATCAGAA+GGG 0.619071 4.3:+33158319 MS.gene003524:CDS
CACCCCTGATGATGGAAGTG+AGG 0.619233 4.3:+33158354 MS.gene003524:CDS
AATGGTTCAATGATCAGAAG+GGG 0.619776 4.3:+33158320 MS.gene003524:CDS
TGGGTCAAAATTAACTGGGA+AGG 0.622767 4.3:+33158294 MS.gene003524:CDS
AAATTCAATTCATCATGAGT+GGG 0.626143 4.3:+33158275 None:intergenic
CAGATTGAGTCTGATAACGA+TGG 0.643460 4.3:+33158451 MS.gene003524:CDS
AGACTCAATCTGATACTCAA+CGG 0.651138 4.3:-33158440 None:intergenic
CTCCTCACTTCCATCATCAG+GGG 0.654781 4.3:-33158356 None:intergenic
TGAGTGGGTCAAAATTAACT+GGG 0.660344 4.3:+33158290 MS.gene003524:CDS
ATTCACCTTCAGCAAGAGAG+CGG 0.661963 4.3:-33158417 None:intergenic
TGAAGATCTGAGTAAAGTGG+TGG 0.733020 4.3:+33158898 MS.gene003524:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAATGGTTCAATGATCAGAA+GGG + chr4.3:33158319-33158338 MS.gene003524:CDS 30.0%
AATGGTTCAATGATCAGAAG+GGG + chr4.3:33158320-33158339 MS.gene003524:CDS 35.0%
AATTAACTGGGAAGGTGAAA+TGG + chr4.3:33158302-33158321 MS.gene003524:CDS 35.0%
AGACTCAATCTGATACTCAA+CGG - chr4.3:33158443-33158462 None:intergenic 35.0%
ATGAGTGGGTCAAAATTAAC+TGG + chr4.3:33158289-33158308 MS.gene003524:CDS 35.0%
GAAATGGTTCAATGATCAGA+AGG + chr4.3:33158318-33158337 MS.gene003524:CDS 35.0%
TGAGTGGGTCAAAATTAACT+GGG + chr4.3:33158290-33158309 MS.gene003524:CDS 35.0%
CGTTGAAGATCTGAGTAAAG+TGG + chr4.3:33158895-33158914 MS.gene003524:CDS 40.0%
TGAAGATCTGAGTAAAGTGG+TGG + chr4.3:33158898-33158917 MS.gene003524:CDS 40.0%
TGGGTCAAAATTAACTGGGA+AGG + chr4.3:33158294-33158313 MS.gene003524:CDS 40.0%
TGTTACAACTGTGGTGAATC+TGG + chr4.3:33158727-33158746 MS.gene003524:intron 40.0%
TTCAATGATCAGAAGGGGTT+TGG + chr4.3:33158325-33158344 MS.gene003524:CDS 40.0%
TTTGCAAGAGATTGTCCAAC+AGG + chr4.3:33158865-33158884 MS.gene003524:CDS 40.0%
! CAGATTGAGTCTGATAACGA+TGG + chr4.3:33158451-33158470 MS.gene003524:CDS 40.0%
! TGATAACGATGGAAGATCCA+AGG + chr4.3:33158462-33158481 MS.gene003524:CDS 40.0%
AACTCCTCACTTCCATCATC+AGG - chr4.3:33158361-33158380 None:intergenic 45.0%
ACTCCTCACTTCCATCATCA+GGG - chr4.3:33158360-33158379 None:intergenic 45.0%
AGATCTGAGTAAAGTGGTGG+TGG + chr4.3:33158901-33158920 MS.gene003524:CDS 45.0%
ATTCACCTTCAGCAAGAGAG+CGG - chr4.3:33158420-33158439 None:intergenic 45.0%
CAATCTCAGATCCAAACCGA+TGG + chr4.3:33158391-33158410 MS.gene003524:CDS 45.0%
!! CATCGGTTTGGATCTGAGAT+TGG - chr4.3:33158393-33158412 None:intergenic 45.0%
AGCAAGAGAGCGGAATCCAT+CGG - chr4.3:33158410-33158429 None:intergenic 50.0%
CTCCTCACTTCCATCATCAG+GGG - chr4.3:33158359-33158378 None:intergenic 50.0%
GGATTCATCACCCCTGATGA+TGG + chr4.3:33158346-33158365 MS.gene003524:CDS 50.0%
GTTAGTGTGACTGGACCTGA+TGG + chr4.3:33158487-33158506 MS.gene003524:CDS 50.0%
TCCAAGGCTGTTAGTGTGAC+TGG + chr4.3:33158478-33158497 MS.gene003524:CDS 50.0%
TCCAGTCACACTAACAGCCT+TGG - chr4.3:33158482-33158501 None:intergenic 50.0%
TCTGTTCAAGGATCGAGACG+CGG + chr4.3:33158514-33158533 MS.gene003524:intron 50.0%
TGAATCTGGCCACATGGCAA+GGG + chr4.3:33158741-33158760 MS.gene003524:intron 50.0%
TGCTACAGCTGTGGTGAATC+TGG + chr4.3:33158838-33158857 MS.gene003524:intron 50.0%
! CCTGATGGTGCTTCTGTTCA+AGG + chr4.3:33158502-33158521 MS.gene003524:intron 50.0%
! TATGGAGGAGGTGGTGGTTA+TGG + chr4.3:33158661-33158680 MS.gene003524:intron 50.0%
!! CCTTGAACAGAAGCACCATC+AGG - chr4.3:33158505-33158524 None:intergenic 50.0%
!! GGTGGTGGATGTTACAACTG+TGG + chr4.3:33158718-33158737 MS.gene003524:intron 50.0%
CTGTGGTGAATCTGGCCACA+TGG + chr4.3:33158735-33158754 MS.gene003524:intron 55.0%
GGAGGTGGTTATGAACGTGG+TGG + chr4.3:33158550-33158569 MS.gene003524:intron 55.0%
GGATTCCGCTCTCTTGCTGA+AGG + chr4.3:33158412-33158431 MS.gene003524:CDS 55.0%
GGTGGAGGTGGTTATGAACG+TGG + chr4.3:33158547-33158566 MS.gene003524:intron 55.0%
GGTGGTTATGAACGTGGTGG+TGG + chr4.3:33158553-33158572 MS.gene003524:intron 55.0%
GTGAATCTGGCCACATGGCA+AGG + chr4.3:33158740-33158759 MS.gene003524:intron 55.0%
TGGTACACTCCCTTGCCATG+TGG - chr4.3:33158753-33158772 None:intergenic 55.0%
! ATGGCAAGGGAGTGTACCAG+CGG + chr4.3:33158754-33158773 MS.gene003524:intron 55.0%
! GAGAGCGGAATCCATCGGTT+TGG - chr4.3:33158405-33158424 None:intergenic 55.0%
! GGTGGTGGTTATGGTGGAAG+AGG + chr4.3:33158607-33158626 MS.gene003524:intron 55.0%
! GGTGGTTATGGTGGAAGAGG+AGG + chr4.3:33158610-33158629 MS.gene003524:intron 55.0%
! GGTTATGGTGGAAGAGGAGG+TGG + chr4.3:33158613-33158632 MS.gene003524:intron 55.0%
! TATGGTGGAAGAGGAGGTGG+TGG + chr4.3:33158616-33158635 MS.gene003524:intron 55.0%
!! ATGGTGGTGGTGGAAGAGGT+GGG + chr4.3:33158680-33158699 MS.gene003524:intron 55.0%
!! CACCCCTGATGATGGAAGTG+AGG + chr4.3:33158354-33158373 MS.gene003524:CDS 55.0%
!! GAACGTGGTGGTGGTGGTTA+CGG + chr4.3:33158562-33158581 MS.gene003524:intron 55.0%
!! GGTTATGAACGTGGTGGTGG+TGG + chr4.3:33158556-33158575 MS.gene003524:intron 55.0%
!! GGTTATGGTGGTGGTGGAAG+AGG + chr4.3:33158676-33158695 MS.gene003524:intron 55.0%
!! TATGGTGGTGGTGGAAGAGG+TGG + chr4.3:33158679-33158698 MS.gene003524:intron 55.0%
GGAGGTGGAGGTGGTTATGG+AGG + chr4.3:33158646-33158665 MS.gene003524:intron 60.0%
GGAGGTGGTTATGGAGGAGG+TGG + chr4.3:33158652-33158671 MS.gene003524:intron 60.0%
GGTGGAAGCTGCTACAGCTG+TGG + chr4.3:33158829-33158848 MS.gene003524:intron 60.0%
GGTGGAGGTGGAGGTGGTTA+TGG + chr4.3:33158643-33158662 MS.gene003524:intron 60.0%
GGTGGAGGTGGTTATGGAGG+AGG + chr4.3:33158649-33158668 MS.gene003524:intron 60.0%
GGTGGTTATGGAGGAGGTGG+TGG + chr4.3:33158655-33158674 MS.gene003524:intron 60.0%
GTTCAAGGATCGAGACGCGG+AGG + chr4.3:33158517-33158536 MS.gene003524:intron 60.0%
! AGAGGAGGTGGTGGCTATGG+TGG + chr4.3:33158625-33158644 MS.gene003524:intron 60.0%
! CTTCAACGAGCGCTGCCTGT+TGG - chr4.3:33158883-33158902 None:intergenic 60.0%
! GGAAGAGGAGGTGGTGGCTA+TGG + chr4.3:33158622-33158641 MS.gene003524:intron 60.0%
! GGAAGGTATGGAGGTGGTGG+TGG + chr4.3:33158793-33158812 MS.gene003524:intron 60.0%
! GGAGGAGGTGGTGGTTATGG+TGG + chr4.3:33158664-33158683 MS.gene003524:intron 60.0%
! GGAGGTGGTGGTTATGGTGG+TGG + chr4.3:33158604-33158623 MS.gene003524:intron 60.0%
! GGTGGAAGGTATGGAGGTGG+TGG + chr4.3:33158790-33158809 MS.gene003524:intron 60.0%
! GGTGGAGGTGGTGGTTATGG+TGG + chr4.3:33158601-33158620 MS.gene003524:intron 60.0%
!! AGGTATGGAGGTGGTGGTGG+TGG + chr4.3:33158796-33158815 MS.gene003524:intron 60.0%
!! GGTGGTGGAGGTGGTGGTTA+TGG + chr4.3:33158598-33158617 MS.gene003524:intron 60.0%
!! GGTGGTGGTTATGGTGGTGG+TGG + chr4.3:33158670-33158689 MS.gene003524:intron 60.0%
!! GGTTACGGTGGTGGCGGTTA+TGG + chr4.3:33158577-33158596 MS.gene003524:intron 60.0%
!! GGTTATGGTGGTGGAGGTGG+TGG + chr4.3:33158592-33158611 MS.gene003524:intron 60.0%
!! TACGGTGGTGGCGGTTATGG+TGG + chr4.3:33158580-33158599 MS.gene003524:intron 60.0%
!! TATGGAGGTGGTGGTGGTGG+AGG + chr4.3:33158799-33158818 MS.gene003524:intron 60.0%
!! TGGTGGTGGTGGAAGAGGTG+GGG + chr4.3:33158681-33158700 MS.gene003524:intron 60.0%
ATCCACCACCGCCTCCTCCA+CGG - chr4.3:33158708-33158727 None:intergenic 65.0%
CAAGGATCGAGACGCGGAGG+CGG + chr4.3:33158520-33158539 MS.gene003524:intron 65.0%
GAGTGTACCAGCGGTGGAGG+TGG + chr4.3:33158763-33158782 MS.gene003524:intron 65.0%
TGTACCAGCGGTGGAGGTGG+TGG + chr4.3:33158766-33158785 MS.gene003524:intron 65.0%
! AGGGAGTGTACCAGCGGTGG+AGG + chr4.3:33158760-33158779 MS.gene003524:intron 65.0%
! GCAAGGGAGTGTACCAGCGG+TGG + chr4.3:33158757-33158776 MS.gene003524:intron 65.0%
! GGAGGTGGTGGCTATGGTGG+AGG + chr4.3:33158628-33158647 MS.gene003524:intron 65.0%
! GGCGGTGGAAGGTATGGAGG+TGG + chr4.3:33158787-33158806 MS.gene003524:intron 65.0%
! GGCTATGGTGGAGGTGGAGG+TGG + chr4.3:33158637-33158656 MS.gene003524:intron 65.0%
! GGTGGCGGTGGAAGGTATGG+AGG + chr4.3:33158784-33158803 MS.gene003524:intron 65.0%
! GGTGGCTATGGTGGAGGTGG+AGG + chr4.3:33158634-33158653 MS.gene003524:intron 65.0%
! GGTGGTGGCTATGGTGGAGG+TGG + chr4.3:33158631-33158650 MS.gene003524:intron 65.0%
! GGTGGTGGTTACGGTGGTGG+CGG + chr4.3:33158571-33158590 MS.gene003524:intron 65.0%
!! CGTGGTGGTGGTGGTTACGG+TGG + chr4.3:33158565-33158584 MS.gene003524:intron 65.0%
!! GGCGGTTATGGTGGTGGAGG+TGG + chr4.3:33158589-33158608 MS.gene003524:intron 65.0%
!! GGTGGCGGTTATGGTGGTGG+AGG + chr4.3:33158586-33158605 MS.gene003524:intron 65.0%
!! GGTGGTGGCGGTGGAAGGTA+TGG + chr4.3:33158781-33158800 MS.gene003524:intron 65.0%
!! GGTGGTGGCGGTTATGGTGG+TGG + chr4.3:33158583-33158602 MS.gene003524:intron 65.0%
!! GGTGGTGGTGGAAGAGGTGG+GGG + chr4.3:33158682-33158701 MS.gene003524:intron 65.0%
!! GGTGGTGGTGGTTACGGTGG+TGG + chr4.3:33158568-33158587 MS.gene003524:intron 65.0%
! ACCAGCGGTGGAGGTGGTGG+CGG + chr4.3:33158769-33158788 MS.gene003524:intron 70.0%
!! GGTGGTGGTGGAGGCAGTGG+CGG + chr4.3:33158808-33158827 MS.gene003524:intron 70.0%
!! GGTGGTGGTGGTGGAGGCAG+TGG + chr4.3:33158805-33158824 MS.gene003524:intron 70.0%
!! GTGGAGGTGGTGGCGGTGGA+AGG + chr4.3:33158776-33158795 MS.gene003524:intron 70.0%
ACCGCCACCACCTCCACCGC+TGG - chr4.3:33158773-33158792 None:intergenic 75.0%
AGAGGTGGGGGCCGTGGAGG+AGG + chr4.3:33158694-33158713 MS.gene003524:intron 75.0%
GGAAGAGGTGGGGGCCGTGG+AGG + chr4.3:33158691-33158710 MS.gene003524:intron 75.0%
GGATCGAGACGCGGAGGCGG+TGG + chr4.3:33158523-33158542 MS.gene003524:intron 75.0%
GGTGGAAGAGGTGGGGGCCG+TGG + chr4.3:33158688-33158707 MS.gene003524:intron 75.0%
TCGAGACGCGGAGGCGGTGG+TGG + chr4.3:33158526-33158545 MS.gene003524:intron 75.0%
! AGACGCGGAGGCGGTGGTGG+TGG + chr4.3:33158529-33158548 MS.gene003524:intron 75.0%
!! AGCGGTGGAGGTGGTGGCGG+TGG + chr4.3:33158772-33158791 MS.gene003524:intron 75.0%
!! GGAGGCGGTGGTGGTGGAGG+TGG + chr4.3:33158535-33158554 MS.gene003524:intron 75.0%
!! GGTGGTGGAGGCAGTGGCGG+TGG + chr4.3:33158811-33158830 MS.gene003524:intron 75.0%
! GGCCGTGGAGGAGGCGGTGG+TGG + chr4.3:33158703-33158722 MS.gene003524:intron 80.0%
! GGTGGGGGCCGTGGAGGAGG+CGG + chr4.3:33158697-33158716 MS.gene003524:intron 80.0%
!!! CGCGGAGGCGGTGGTGGTGG+AGG + chr4.3:33158532-33158551 MS.gene003524:intron 80.0%
! GGGGGCCGTGGAGGAGGCGG+TGG + chr4.3:33158700-33158719 MS.gene003524:intron 85.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 33158289 33158928 33158289 ID=MS.gene003524
chr4.3 mRNA 33158289 33158928 33158289 ID=MS.gene003524.t1;Parent=MS.gene003524
chr4.3 exon 33158289 33158508 33158289 ID=MS.gene003524.t1.exon1;Parent=MS.gene003524.t1
chr4.3 CDS 33158289 33158508 33158289 ID=cds.MS.gene003524.t1;Parent=MS.gene003524.t1
chr4.3 exon 33158846 33158928 33158846 ID=MS.gene003524.t1.exon2;Parent=MS.gene003524.t1
chr4.3 CDS 33158846 33158928 33158846 ID=cds.MS.gene003524.t1;Parent=MS.gene003524.t1
Gene Sequence

>MS.gene003524

ATGAGTGGGTCAAAATTAACTGGGAAGGTGAAATGGTTCAATGATCAGAAGGGGTTTGGATTCATCACCCCTGATGATGGAAGTGAGGAGTTGTTTGTTCACCAATCTCAGATCCAAACCGATGGATTCCGCTCTCTTGCTGAAGGTGAATCCGTTGAGTATCAGATTGAGTCTGATAACGATGGAAGATCCAAGGCTGTTAGTGTGACTGGACCTGATGGTGCTTCTGTTCAAGGATCGAGACGCGGAGGCGGTGGTGGTGGAGGTGGTTATGAACGTGGTGGTGGTGGTTACGGTGGTGGCGGTTATGGTGGTGGAGGTGGTGGTTATGGTGGAAGAGGAGGTGGTGGCTATGGTGGAGGTGGAGGTGGTTATGGAGGAGGTGGTGGTTATGGTGGTGGTGGAAGAGGTGGGGGCCGTGGAGGAGGCGGTGGTGGATGTTACAACTGTGGTGAATCTGGCCACATGGCAAGGGAGTGTACCAGCGGTGGAGGTGGTGGCGGTGGAAGGTATGGAGGTGGTGGTGGTGGAGGCAGTGGCGGTGGAAGCTGCTACAGCTGTGGTGAATCTGGTCATTTTGCAAGAGATTGTCCAACAGGCAGCGCTCGTTGAAGATCTGAGTAAAGTGGTGGTGGTTTAG

Protein sequence

>MS.gene003524.t1

MSGSKLTGKVKWFNDQKGFGFITPDDGSEELFVHQSQIQTDGFRSLAEGESVEYQIESDNDGRSKAVSVTGPDAVVNLVILQEIVQQAALVEDLSKVVVV