AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene057705


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.gene057705.t1 AT2G17870 64.789 71 25 0 2 72 7 77 7.50e-29 105
MS.gene057705.t1 AT2G21060 61.644 73 28 0 3 75 12 84 4.51e-28 101
MS.gene057705.t1 AT4G36020 60.563 71 28 0 2 72 7 77 2.88e-25 95.5
MS.gene057705.t1 AT4G36020 60.563 71 28 0 2 72 7 77 5.15e-25 95.5
MS.gene057705.t1 AT4G36020 60.563 71 28 0 2 72 7 77 5.15e-25 95.5
MS.gene057705.t1 AT4G38680 60.274 73 29 0 3 75 8 80 2.12e-22 86.7

Find 31 sgRNAs with CRISPR-Local

Find 111 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGAGTGGGTCAAAATTAAC+TGG 0.306323 4.4:-35811813 MS.gene057705:CDS
TTCAATGATCAGAAGGGGTT+TGG 0.339445 4.4:-35811777 MS.gene057705:CDS
AACTCCTCACTTCCATCATC+AGG 0.391515 4.4:+35811744 None:intergenic
TGCTACAGCTGTGGTGAATC+TGG 0.396062 4.4:-35811270 MS.gene057705:intron
TTTGCAAGAGATTGTCCAAC+AGG 0.433866 4.4:-35811243 MS.gene057705:CDS
AATTAACTGGGAAGGTGAAA+TGG 0.440654 4.4:-35811800 MS.gene057705:CDS
TCCAAGGCTGTTAGTGTGAC+TGG 0.440806 4.4:-35811624 MS.gene057705:CDS
GGATTCATCACCCCTGATGA+TGG 0.483119 4.4:-35811756 MS.gene057705:CDS
CTTCAACGAGCGCTGCCTGT+TGG 0.500201 4.4:+35811228 None:intergenic
CATCAGTCTGGATCTGAGAT+TGG 0.500424 4.4:+35811712 None:intergenic
TCCAGTCACACTAACAGCCT+TGG 0.511590 4.4:+35811623 None:intergenic
GAGAACGGAATCCATCAGTC+TGG 0.513134 4.4:+35811700 None:intergenic
AAAATTCAATTCATCATGAG+TGG 0.553878 4.4:-35811828 None:intergenic
GTTAGTGTGACTGGACCTGA+TGG 0.557938 4.4:-35811615 MS.gene057705:intron
CAATCTCAGATCCAGACTGA+TGG 0.559889 4.4:-35811711 MS.gene057705:CDS
GGATTCCGTTCTCTTGCTGA+AGG 0.562087 4.4:-35811690 MS.gene057705:CDS
GAAATGGTTCAATGATCAGA+AGG 0.565831 4.4:-35811784 MS.gene057705:CDS
AGATCTGAGTAAAGTGGTGG+TGG 0.576919 4.4:-35811207 MS.gene057705:CDS
CGTTGAAGATCTGAGTAAAG+TGG 0.585840 4.4:-35811213 MS.gene057705:CDS
ACTCCTCACTTCCATCATCA+GGG 0.589005 4.4:+35811745 None:intergenic
ATTCACCTTCAGCAAGAGAA+CGG 0.616654 4.4:+35811685 None:intergenic
TGATAACGATGGAAGATCCA+AGG 0.617668 4.4:-35811640 MS.gene057705:CDS
AAATGGTTCAATGATCAGAA+GGG 0.619071 4.4:-35811783 MS.gene057705:CDS
CACCCCTGATGATGGAAGTG+AGG 0.619233 4.4:-35811748 MS.gene057705:CDS
AATGGTTCAATGATCAGAAG+GGG 0.619776 4.4:-35811782 MS.gene057705:CDS
TGGGTCAAAATTAACTGGGA+AGG 0.622767 4.4:-35811808 MS.gene057705:CDS
AAATTCAATTCATCATGAGT+GGG 0.626143 4.4:-35811827 None:intergenic
CAGATTGAGTCTGATAACGA+TGG 0.643460 4.4:-35811651 MS.gene057705:CDS
CTCCTCACTTCCATCATCAG+GGG 0.654781 4.4:+35811746 None:intergenic
TGAGTGGGTCAAAATTAACT+GGG 0.660344 4.4:-35811812 MS.gene057705:CDS
TGAAGATCTGAGTAAAGTGG+TGG 0.733020 4.4:-35811210 MS.gene057705:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAATGGTTCAATGATCAGAA+GGG - chr4.4:35811232-35811251 MS.gene057705:CDS 30.0%
AATGGTTCAATGATCAGAAG+GGG - chr4.4:35811233-35811252 MS.gene057705:CDS 35.0%
AATTAACTGGGAAGGTGAAA+TGG - chr4.4:35811215-35811234 MS.gene057705:CDS 35.0%
ATGAGTGGGTCAAAATTAAC+TGG - chr4.4:35811202-35811221 MS.gene057705:CDS 35.0%
GAAATGGTTCAATGATCAGA+AGG - chr4.4:35811231-35811250 MS.gene057705:CDS 35.0%
TGAGTGGGTCAAAATTAACT+GGG - chr4.4:35811203-35811222 MS.gene057705:CDS 35.0%
ATTCACCTTCAGCAAGAGAA+CGG + chr4.4:35811333-35811352 None:intergenic 40.0%
CGTTGAAGATCTGAGTAAAG+TGG - chr4.4:35811802-35811821 MS.gene057705:CDS 40.0%
TGAAGATCTGAGTAAAGTGG+TGG - chr4.4:35811805-35811824 MS.gene057705:CDS 40.0%
TGGGTCAAAATTAACTGGGA+AGG - chr4.4:35811207-35811226 MS.gene057705:CDS 40.0%
TGTTACAACTGTGGTGAATC+TGG - chr4.4:35811634-35811653 MS.gene057705:CDS 40.0%
TTCAATGATCAGAAGGGGTT+TGG - chr4.4:35811238-35811257 MS.gene057705:CDS 40.0%
TTTGCAAGAGATTGTCCAAC+AGG - chr4.4:35811772-35811791 MS.gene057705:CDS 40.0%
! CAGATTGAGTCTGATAACGA+TGG - chr4.4:35811364-35811383 MS.gene057705:intron 40.0%
! TGATAACGATGGAAGATCCA+AGG - chr4.4:35811375-35811394 MS.gene057705:intron 40.0%
AACTCCTCACTTCCATCATC+AGG + chr4.4:35811274-35811293 None:intergenic 45.0%
ACTCCTCACTTCCATCATCA+GGG + chr4.4:35811273-35811292 None:intergenic 45.0%
AGATCTGAGTAAAGTGGTGG+TGG - chr4.4:35811808-35811827 MS.gene057705:CDS 45.0%
CAATCTCAGATCCAGACTGA+TGG - chr4.4:35811304-35811323 MS.gene057705:intron 45.0%
! CATCAGTCTGGATCTGAGAT+TGG + chr4.4:35811306-35811325 None:intergenic 45.0%
CTCCTCACTTCCATCATCAG+GGG + chr4.4:35811272-35811291 None:intergenic 50.0%
GAGAACGGAATCCATCAGTC+TGG + chr4.4:35811318-35811337 None:intergenic 50.0%
GGATTCATCACCCCTGATGA+TGG - chr4.4:35811259-35811278 MS.gene057705:CDS 50.0%
GGATTCCGTTCTCTTGCTGA+AGG - chr4.4:35811325-35811344 MS.gene057705:intron 50.0%
GTTAGTGTGACTGGACCTGA+TGG - chr4.4:35811400-35811419 MS.gene057705:intron 50.0%
TCCAAGGCTGTTAGTGTGAC+TGG - chr4.4:35811391-35811410 MS.gene057705:intron 50.0%
TCCAGTCACACTAACAGCCT+TGG + chr4.4:35811395-35811414 None:intergenic 50.0%
TCTGTTCAAGGATCGAGACG+CGG - chr4.4:35811427-35811446 MS.gene057705:intron 50.0%
TGAATCTGGCCACATGGCAA+GGG - chr4.4:35811648-35811667 MS.gene057705:CDS 50.0%
TGCTACAGCTGTGGTGAATC+TGG - chr4.4:35811745-35811764 MS.gene057705:CDS 50.0%
! CCTGATGGTGCTTCTGTTCA+AGG - chr4.4:35811415-35811434 MS.gene057705:intron 50.0%
! TATGGAGGAGGTGGTGGTTA+TGG - chr4.4:35811568-35811587 MS.gene057705:intron 50.0%
! TATGGTGGAGGTGGTTATGG+AGG - chr4.4:35811553-35811572 MS.gene057705:intron 50.0%
!! CCTTGAACAGAAGCACCATC+AGG + chr4.4:35811418-35811437 None:intergenic 50.0%
!! GGTGGTGGATGTTACAACTG+TGG - chr4.4:35811625-35811644 MS.gene057705:CDS 50.0%
CTGTGGTGAATCTGGCCACA+TGG - chr4.4:35811642-35811661 MS.gene057705:CDS 55.0%
GGAGGTGGTTATGAACGTGG+TGG - chr4.4:35811463-35811482 MS.gene057705:intron 55.0%
GGTGGAGGTGGTTATGAACG+TGG - chr4.4:35811460-35811479 MS.gene057705:intron 55.0%
GGTGGTTATGAACGTGGTGG+TGG - chr4.4:35811466-35811485 MS.gene057705:intron 55.0%
GTGAATCTGGCCACATGGCA+AGG - chr4.4:35811647-35811666 MS.gene057705:CDS 55.0%
TGGTACACTCCCTTGCCATG+TGG + chr4.4:35811660-35811679 None:intergenic 55.0%
! ATGGCAAGGGAGTGTACCAG+CGG - chr4.4:35811661-35811680 MS.gene057705:CDS 55.0%
! GGCTATGGTGGAGGTGGTTA+TGG - chr4.4:35811550-35811569 MS.gene057705:intron 55.0%
! GGTGGTGGTTATGGTGGAAG+AGG - chr4.4:35811520-35811539 MS.gene057705:intron 55.0%
! GGTGGTTATGGTGGAAGAGG+AGG - chr4.4:35811523-35811542 MS.gene057705:intron 55.0%
! GGTTATGGTGGAAGAGGAGG+TGG - chr4.4:35811526-35811545 MS.gene057705:intron 55.0%
! TATGGTGGAAGAGGAGGTGG+TGG - chr4.4:35811529-35811548 MS.gene057705:intron 55.0%
!! ATGGTGGTGGTGGAAGAGGT+GGG - chr4.4:35811587-35811606 MS.gene057705:intron 55.0%
!! CACCCCTGATGATGGAAGTG+AGG - chr4.4:35811267-35811286 MS.gene057705:intron 55.0%
!! GAACGTGGTGGTGGTGGTTA+CGG - chr4.4:35811475-35811494 MS.gene057705:intron 55.0%
!! GGTTATGAACGTGGTGGTGG+TGG - chr4.4:35811469-35811488 MS.gene057705:intron 55.0%
!! GGTTATGGTGGTGGTGGAAG+AGG - chr4.4:35811583-35811602 MS.gene057705:intron 55.0%
!! TATGGTGGTGGTGGAAGAGG+TGG - chr4.4:35811586-35811605 MS.gene057705:intron 55.0%
GGAGGTGGTTATGGAGGAGG+TGG - chr4.4:35811559-35811578 MS.gene057705:intron 60.0%
GGTGGAAGCTGCTACAGCTG+TGG - chr4.4:35811736-35811755 MS.gene057705:CDS 60.0%
GGTGGAGGTGGTTATGGAGG+AGG - chr4.4:35811556-35811575 MS.gene057705:intron 60.0%
GGTGGTTATGGAGGAGGTGG+TGG - chr4.4:35811562-35811581 MS.gene057705:intron 60.0%
GTTCAAGGATCGAGACGCGG+AGG - chr4.4:35811430-35811449 MS.gene057705:intron 60.0%
! AGAGGAGGTGGTGGCTATGG+TGG - chr4.4:35811538-35811557 MS.gene057705:intron 60.0%
! CTTCAACGAGCGCTGCCTGT+TGG + chr4.4:35811790-35811809 None:intergenic 60.0%
! GGAAGAGGAGGTGGTGGCTA+TGG - chr4.4:35811535-35811554 MS.gene057705:intron 60.0%
! GGAAGGTATGGAGGTGGTGG+TGG - chr4.4:35811700-35811719 MS.gene057705:CDS 60.0%
! GGAGGAGGTGGTGGTTATGG+TGG - chr4.4:35811571-35811590 MS.gene057705:intron 60.0%
! GGAGGTGGTGGTTATGGTGG+TGG - chr4.4:35811517-35811536 MS.gene057705:intron 60.0%
! GGTGGAAGGTATGGAGGTGG+TGG - chr4.4:35811697-35811716 MS.gene057705:CDS 60.0%
! GGTGGAGGTGGTGGTTATGG+TGG - chr4.4:35811514-35811533 MS.gene057705:intron 60.0%
!! AGGTATGGAGGTGGTGGTGG+TGG - chr4.4:35811703-35811722 MS.gene057705:CDS 60.0%
!! GGTGGTGGAGGTGGTGGTTA+TGG - chr4.4:35811511-35811530 MS.gene057705:intron 60.0%
!! GGTGGTGGTTATGGTGGTGG+TGG - chr4.4:35811577-35811596 MS.gene057705:intron 60.0%
!! GGTTACGGTGGTGGCGGTTA+TGG - chr4.4:35811490-35811509 MS.gene057705:intron 60.0%
!! GGTTATGGTGGTGGAGGTGG+TGG - chr4.4:35811505-35811524 MS.gene057705:intron 60.0%
!! TACGGTGGTGGCGGTTATGG+TGG - chr4.4:35811493-35811512 MS.gene057705:intron 60.0%
!! TATGGAGGTGGTGGTGGTGG+AGG - chr4.4:35811706-35811725 MS.gene057705:CDS 60.0%
!! TGGTGGTGGTGGAAGAGGTG+GGG - chr4.4:35811588-35811607 MS.gene057705:intron 60.0%
ATCCACCACCGCCTCCTCCA+CGG + chr4.4:35811615-35811634 None:intergenic 65.0%
CAAGGATCGAGACGCGGAGG+CGG - chr4.4:35811433-35811452 MS.gene057705:intron 65.0%
GAGTGTACCAGCGGTGGAGG+TGG - chr4.4:35811670-35811689 MS.gene057705:CDS 65.0%
TGTACCAGCGGTGGAGGTGG+TGG - chr4.4:35811673-35811692 MS.gene057705:CDS 65.0%
! AGGGAGTGTACCAGCGGTGG+AGG - chr4.4:35811667-35811686 MS.gene057705:CDS 65.0%
! GCAAGGGAGTGTACCAGCGG+TGG - chr4.4:35811664-35811683 MS.gene057705:CDS 65.0%
! GGAGGTGGTGGCTATGGTGG+AGG - chr4.4:35811541-35811560 MS.gene057705:intron 65.0%
! GGCGGTGGAAGGTATGGAGG+TGG - chr4.4:35811694-35811713 MS.gene057705:CDS 65.0%
! GGTGGCGGTGGAAGGTATGG+AGG - chr4.4:35811691-35811710 MS.gene057705:CDS 65.0%
! GGTGGTGGCTATGGTGGAGG+TGG - chr4.4:35811544-35811563 MS.gene057705:intron 65.0%
! GGTGGTGGTTACGGTGGTGG+CGG - chr4.4:35811484-35811503 MS.gene057705:intron 65.0%
!! CGTGGTGGTGGTGGTTACGG+TGG - chr4.4:35811478-35811497 MS.gene057705:intron 65.0%
!! GGCGGTTATGGTGGTGGAGG+TGG - chr4.4:35811502-35811521 MS.gene057705:intron 65.0%
!! GGTGGCGGTTATGGTGGTGG+AGG - chr4.4:35811499-35811518 MS.gene057705:intron 65.0%
!! GGTGGTGGCGGTGGAAGGTA+TGG - chr4.4:35811688-35811707 MS.gene057705:CDS 65.0%
!! GGTGGTGGCGGTTATGGTGG+TGG - chr4.4:35811496-35811515 MS.gene057705:intron 65.0%
!! GGTGGTGGTGGAAGAGGTGG+GGG - chr4.4:35811589-35811608 MS.gene057705:intron 65.0%
!! GGTGGTGGTGGTTACGGTGG+TGG - chr4.4:35811481-35811500 MS.gene057705:intron 65.0%
! ACCAGCGGTGGAGGTGGTGG+CGG - chr4.4:35811676-35811695 MS.gene057705:CDS 70.0%
!! GGAGGTGGTGGTGGTGGAGG+CGG - chr4.4:35811709-35811728 MS.gene057705:CDS 70.0%
!! GTGGAGGTGGTGGCGGTGGA+AGG - chr4.4:35811683-35811702 MS.gene057705:CDS 70.0%
ACCGCCACCACCTCCACCGC+TGG + chr4.4:35811680-35811699 None:intergenic 75.0%
AGAGGTGGGGGCCGTGGAGG+AGG - chr4.4:35811601-35811620 MS.gene057705:intron 75.0%
GGAAGAGGTGGGGGCCGTGG+AGG - chr4.4:35811598-35811617 MS.gene057705:intron 75.0%
GGATCGAGACGCGGAGGCGG+TGG - chr4.4:35811436-35811455 MS.gene057705:intron 75.0%
GGTGGAAGAGGTGGGGGCCG+TGG - chr4.4:35811595-35811614 MS.gene057705:intron 75.0%
TCGAGACGCGGAGGCGGTGG+CGG - chr4.4:35811439-35811458 MS.gene057705:intron 75.0%
!! AGCGGTGGAGGTGGTGGCGG+TGG - chr4.4:35811679-35811698 MS.gene057705:CDS 75.0%
!! GGTGGTGGTGGAGGCGGTGG+CGG - chr4.4:35811715-35811734 MS.gene057705:CDS 75.0%
!! GGTGGTGGTGGTGGAGGCGG+TGG - chr4.4:35811712-35811731 MS.gene057705:CDS 75.0%
! GGCCGTGGAGGAGGCGGTGG+TGG - chr4.4:35811610-35811629 MS.gene057705:intron 80.0%
! GGTGGGGGCCGTGGAGGAGG+CGG - chr4.4:35811604-35811623 MS.gene057705:intron 80.0%
!! AGACGCGGAGGCGGTGGCGG+TGG - chr4.4:35811442-35811461 MS.gene057705:intron 80.0%
!! GGAGGCGGTGGCGGTGGAGG+TGG - chr4.4:35811448-35811467 MS.gene057705:intron 80.0%
!!! GGTGGTGGAGGCGGTGGCGG+TGG - chr4.4:35811718-35811737 MS.gene057705:CDS 80.0%
! GGGGGCCGTGGAGGAGGCGG+TGG - chr4.4:35811607-35811626 MS.gene057705:intron 85.0%
!! CGCGGAGGCGGTGGCGGTGG+AGG - chr4.4:35811445-35811464 MS.gene057705:intron 85.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 35811202 35811835 35811202 ID=MS.gene057705
chr4.4 mRNA 35811202 35811835 35811202 ID=MS.gene057705.t1;Parent=MS.gene057705
chr4.4 exon 35811616 35811835 35811616 ID=MS.gene057705.t1.exon1;Parent=MS.gene057705.t1
chr4.4 CDS 35811616 35811835 35811616 ID=cds.MS.gene057705.t1;Parent=MS.gene057705.t1
chr4.4 exon 35811202 35811284 35811202 ID=MS.gene057705.t1.exon2;Parent=MS.gene057705.t1
chr4.4 CDS 35811202 35811284 35811202 ID=cds.MS.gene057705.t1;Parent=MS.gene057705.t1
Gene Sequence

>MS.gene057705

ATGAGTGGGTCAAAATTAACTGGGAAGGTGAAATGGTTCAATGATCAGAAGGGGTTTGGATTCATCACCCCTGATGATGGAAGTGAGGAGTTGTTTGTTCACCAATCTCAGATCCAGACTGATGGATTCCGTTCTCTTGCTGAAGGTGAATCTGTTGAGTATCAGATTGAGTCTGATAACGATGGAAGATCCAAGGCTGTTAGTGTGACTGGACCTGATGGTGCTTCTGTTCAAGGATCGAGACGCGGAGGCGGTGGCGGTGGAGGTGGTTATGAACGTGGTGGTGGTGGTTACGGTGGTGGCGGTTATGGTGGTGGAGGTGGTGGTTATGGTGGAAGAGGAGGTGGTGGCTATGGTGGAGGTGGTTATGGAGGAGGTGGTGGTTATGGTGGTGGTGGAAGAGGTGGGGGCCGTGGAGGAGGCGGTGGTGGATGTTACAACTGTGGTGAATCTGGCCACATGGCAAGGGAGTGTACCAGCGGTGGAGGTGGTGGCGGTGGAAGGTATGGAGGTGGTGGTGGTGGAGGCGGTGGCGGTGGAAGCTGCTACAGCTGTGGTGAATCTGGTCATTTTGCAAGAGATTGTCCAACAGGCAGCGCTCGTTGAAGATCTGAGTAAAGTGGTGGTGGTTTAG

Protein sequence

>MS.gene057705.t1

MSGSKLTGKVKWFNDQKGFGFITPDDGSEELFVHQSQIQTDGFRSLAEGESVEYQIESDNDGRSKAVSVTGPDAVVNLVILQEIVQQAALVEDLSKVVVV