AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780040756.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040756.01.T01 MTR_7g097110 100.000 64 0 0 1 64 1 64 2.36e-43 134
MsG0780040756.01.T01 MTR_8g069770 85.938 64 9 0 1 64 1 64 8.03e-36 115
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040756.01.T01 AT2G20490 79.688 64 13 0 1 64 1 64 9.30e-33 107
MsG0780040756.01.T01 AT2G20490 79.688 64 13 0 1 64 1 64 9.30e-33 107
MsG0780040756.01.T01 AT2G20490 78.125 64 13 1 1 64 1 63 2.56e-30 101

Find 29 sgRNAs with CRISPR-Local

Find 121 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGTTCTTCGCCTCCATCTT+AGG 0.248614 7:-82019049 None:intergenic
TGCCACTTAGGTCTAACATT+TGG 0.292262 7:+82017084 None:intergenic
AATACTTTGGAGCTGGATGC+TGG 0.333958 7:+82017241 None:intergenic
GCCACTTAGGTCTAACATTT+GGG 0.336600 7:+82017085 None:intergenic
GTTAAACTGAAGAAGCGATT+TGG 0.348976 7:-82017276 MsG0780040756.01.T01:CDS
TATAAAATCATCCATTCATC+AGG 0.356008 7:+82017048 None:intergenic
CTATTATAGTGATTCTCCTT+AGG 0.397971 7:-82017198 MsG0780040756.01.T01:three_prime_UTR
TGCTCTGAAAATTTGTCATC+AGG 0.402146 7:+82017303 None:intergenic
ATTTGTCATCAGGTGAAAAC+CGG 0.402459 7:+82017313 None:intergenic
AAGTTCAACATTTGCCACTT+AGG 0.422991 7:+82017072 None:intergenic
CTTTCTTCTGTTTCTCAACA+AGG 0.424831 7:-82019022 MsG0780040756.01.T01:intron
TTGAATATAGCTCAATACTT+TGG 0.457998 7:+82017228 None:intergenic
AGAAGAAAGAAAACCTAAGA+TGG 0.492783 7:+82019036 None:intergenic
TGCAGAAAGAGTCACCGCTT+GGG 0.506313 7:-82018708 MsG0780040756.01.T01:intron
TGTTGAACTTCCCTGATGAA+TGG 0.510889 7:-82017059 MsG0780040756.01.T01:three_prime_UTR
ATAGCTCAATACTTTGGAGC+TGG 0.511390 7:+82017234 None:intergenic
AAAAGACTGCTAAGCACCTA+AGG 0.514935 7:+82017182 None:intergenic
TTGCAGAAAGAGTCACCGCT+TGG 0.526675 7:-82018709 MsG0780040756.01.T01:intron
TCCCAAATGTTAGACCTAAG+TGG 0.527548 7:-82017086 MsG0780040756.01.T01:three_prime_UTR
GCTACTCAATCTGCTCATCC+AGG 0.527880 7:-82018682 MsG0780040756.01.T01:intron
TTTGGAGCTGGATGCTGGGT+CGG 0.555768 7:+82017246 None:intergenic
ATACTTTGGAGCTGGATGCT+GGG 0.560513 7:+82017242 None:intergenic
TTTGTCATCAGGTGAAAACC+GGG 0.561589 7:+82017314 None:intergenic
CATCAACGACAACGGTGACA+AGG 0.610955 7:-82018859 MsG0780040756.01.T01:CDS
GATGTAAAACTGAAGATACA+TGG 0.619474 7:+82018878 None:intergenic
TGACAAGGTCTACACCACTA+AGG 0.622254 7:-82018844 MsG0780040756.01.T01:intron
ATAAAATCATCCATTCATCA+GGG 0.642605 7:+82017049 None:intergenic
AGAAAGAAAACCTAAGATGG+AGG 0.654281 7:+82019039 None:intergenic
GATTGAGTAGCTAACCCAAG+CGG 0.699776 7:+82018694 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATAATTATTTTTTTTTAAAA+AGG - Chr7:82018231-82018250 MsG0780040756.01.T01:intron 0.0%
!! TTTAAGAAATTGTAAACAAA+AGG + Chr7:82017136-82017155 None:intergenic 15.0%
!!! AAAAAATTGATACGTTTTTT+TGG - Chr7:82017328-82017347 MsG0780040756.01.T01:intron 15.0%
!!! AAAAGTTTTCAAAACAAAAA+AGG + Chr7:82018696-82018715 None:intergenic 15.0%
!!! AAAGTTTTCAAAACAAAAAA+GGG + Chr7:82018695-82018714 None:intergenic 15.0%
!!! AGATAAAAAGTTTGTTAAAA+TGG - Chr7:82017703-82017722 MsG0780040756.01.T01:intron 15.0%
!!! ATAAAAAGTTTGTTAAAATG+GGG - Chr7:82017705-82017724 MsG0780040756.01.T01:intron 15.0%
!!! GATAAAAAGTTTGTTAAAAT+GGG - Chr7:82017704-82017723 MsG0780040756.01.T01:intron 15.0%
!!! TTTTAACATTCACTTAAAAT+TGG + Chr7:82017799-82017818 None:intergenic 15.0%
!! TAAAGAAAAATGACTTGATT+TGG - Chr7:82018490-82018509 MsG0780040756.01.T01:intron 20.0%
!! TCAAATATTAAAGCACAAAA+TGG + Chr7:82017447-82017466 None:intergenic 20.0%
! AACAACAAAAGAATTAGATG+AGG + Chr7:82018464-82018483 None:intergenic 25.0%
! ACAACAAAAGAATTAGATGA+GGG + Chr7:82018463-82018482 None:intergenic 25.0%
! ACTAAAAGATACCTTAAACA+CGG + Chr7:82018029-82018048 None:intergenic 25.0%
! ATAAAATCATCCATTCATCA+GGG + Chr7:82019027-82019046 None:intergenic 25.0%
! TATAAAATCATCCATTCATC+AGG + Chr7:82019028-82019047 None:intergenic 25.0%
! TATGTGTCATGTCAAAATTT+AGG - Chr7:82017918-82017937 MsG0780040756.01.T01:intron 25.0%
! TTGAATATAGCTCAATACTT+TGG + Chr7:82018848-82018867 None:intergenic 25.0%
!! GTGCTTTAATATTTGAAACA+TGG - Chr7:82017451-82017470 MsG0780040756.01.T01:intron 25.0%
!!! AAATGACTTGATTTGGAATT+TGG - Chr7:82018497-82018516 MsG0780040756.01.T01:intron 25.0%
!!! ATGTTTTGAATTGTGAAGTA+AGG - Chr7:82018583-82018602 MsG0780040756.01.T01:intron 25.0%
!!! CCTAAGTTAAATTGTTTTAG+CGG + Chr7:82018400-82018419 None:intergenic 25.0%
!!! TGTTTTGAATTGTGAAGTAA+GGG - Chr7:82018584-82018603 MsG0780040756.01.T01:intron 25.0%
AAAAGGGCAGTATTAATTAG+TGG + Chr7:82018679-82018698 None:intergenic 30.0%
AACTACAATAAGTCGTTGAT+TGG + Chr7:82018208-82018227 None:intergenic 30.0%
AATTCATCTCTTTCAAACCT+TGG - Chr7:82017255-82017274 MsG0780040756.01.T01:CDS 30.0%
ACAAAATGGCAGTAAAACTA+TGG + Chr7:82017433-82017452 None:intergenic 30.0%
ACACTCTGATACATAAGTAT+TGG + Chr7:82018260-82018279 None:intergenic 30.0%
AGAAACTTTGGATTTGCAAT+AGG + Chr7:82018131-82018150 None:intergenic 30.0%
AGAAGAAAGAAAACCTAAGA+TGG + Chr7:82017040-82017059 None:intergenic 30.0%
AGTGGATCATGAAAAAGAAT+AGG + Chr7:82017945-82017964 None:intergenic 30.0%
ATTGGATTTGGATTTGGATT+TGG - Chr7:82017765-82017784 MsG0780040756.01.T01:intron 30.0%
CAATTCGTATTTACTGCAAT+TGG - Chr7:82017747-82017766 MsG0780040756.01.T01:intron 30.0%
CTATTATAGTGATTCTCCTT+AGG - Chr7:82018875-82018894 MsG0780040756.01.T01:CDS 30.0%
GATGTAAAACTGAAGATACA+TGG + Chr7:82017198-82017217 None:intergenic 30.0%
GCTATTAAAAAATGAGACCA+AGG - Chr7:82018550-82018569 MsG0780040756.01.T01:intron 30.0%
GGTAAAATGTTGAAACTGAT+AGG - Chr7:82017619-82017638 MsG0780040756.01.T01:intron 30.0%
GTATTTACTGCAATTGGATT+TGG - Chr7:82017753-82017772 MsG0780040756.01.T01:intron 30.0%
GTTGAATTTGGATTTGCAAT+TGG - Chr7:82017654-82017673 MsG0780040756.01.T01:intron 30.0%
TATTACAATCCTTTGATCCA+AGG + Chr7:82017275-82017294 None:intergenic 30.0%
TTGGATTTGCAATTGGTTAT+AGG - Chr7:82017661-82017680 MsG0780040756.01.T01:intron 30.0%
! ACATTTGGGAAAGATTTTCA+CGG + Chr7:82018977-82018996 None:intergenic 30.0%
! AGAGATGAATTTTACCTTAG+TGG + Chr7:82017246-82017265 None:intergenic 30.0%
! CAACATTTTACCTCGAAAAT+TGG + Chr7:82017611-82017630 None:intergenic 30.0%
! CCGCTAAAACAATTTAACTT+AGG - Chr7:82018397-82018416 MsG0780040756.01.T01:intron 30.0%
!! AAAAGTTTGTTAAAATGGGG+AGG - Chr7:82017708-82017727 MsG0780040756.01.T01:intron 30.0%
!! GTGGTTTTGCAATTAGAATT+GGG - Chr7:82017862-82017881 MsG0780040756.01.T01:intron 30.0%
!!! AACTTTTTTCTACAGTGACA+AGG - Chr7:82017154-82017173 MsG0780040756.01.T01:three_prime_UTR 30.0%
!!! GTGATTTTGGTTACAACATT+AGG - Chr7:82018336-82018355 MsG0780040756.01.T01:intron 30.0%
AAAACATTTGCATCACACCT+TGG + Chr7:82018570-82018589 None:intergenic 35.0%
AATAGCAAAGAAAGAGAGAG+AGG + Chr7:82018536-82018555 None:intergenic 35.0%
ACTGCAATTGGATTTGGATT+TGG - Chr7:82017759-82017778 MsG0780040756.01.T01:intron 35.0%
AGAAAGAAAACCTAAGATGG+AGG + Chr7:82017037-82017056 None:intergenic 35.0%
AGACAAAGAGACTTCAAACA+TGG - Chr7:82017833-82017852 MsG0780040756.01.T01:intron 35.0%
AGGCAAAGTAAGCAAATTGA+TGG + Chr7:82018162-82018181 None:intergenic 35.0%
ATGGGTAGTGATAGAAACTT+TGG + Chr7:82018143-82018162 None:intergenic 35.0%
ATTTGTCATCAGGTGAAAAC+CGG + Chr7:82018763-82018782 None:intergenic 35.0%
GCAATGAGAATTAAGAGTGA+CGG + Chr7:82017985-82018004 None:intergenic 35.0%
GGATTTGCAATAGGAAACAA+GGG + Chr7:82018122-82018141 None:intergenic 35.0%
GGCAAAGTAAGCAAATTGAT+GGG + Chr7:82018161-82018180 None:intergenic 35.0%
GTTAAACTGAAGAAGCGATT+TGG - Chr7:82018797-82018816 MsG0780040756.01.T01:intron 35.0%
TCAGCTAGAAACGTTGAATT+TGG - Chr7:82017642-82017661 MsG0780040756.01.T01:intron 35.0%
TCGAAAATTGGATGTGTCAT+TGG + Chr7:82017599-82017618 None:intergenic 35.0%
TCTTTCAAACCTTGGATCAA+AGG - Chr7:82017263-82017282 MsG0780040756.01.T01:CDS 35.0%
TGGATTTGCAATAGGAAACA+AGG + Chr7:82018123-82018142 None:intergenic 35.0%
TGTAACCAAAATCACTGTGT+GGG + Chr7:82018331-82018350 None:intergenic 35.0%
TTGTAACCAAAATCACTGTG+TGG + Chr7:82018332-82018351 None:intergenic 35.0%
TTTGCAATTAGAATTGGGAG+TGG - Chr7:82017867-82017886 MsG0780040756.01.T01:intron 35.0%
TTTGCAATTGGTTATAGGAG+AGG - Chr7:82017666-82017685 MsG0780040756.01.T01:intron 35.0%
! AAGTTCAACATTTGCCACTT+AGG + Chr7:82019004-82019023 None:intergenic 35.0%
! AATGACACATCCAATTTTCG+AGG - Chr7:82017598-82017617 MsG0780040756.01.T01:intron 35.0%
! ATCTGATGCATTTTCCGTAT+TGG - Chr7:82018425-82018444 MsG0780040756.01.T01:intron 35.0%
! CAGTTTTACATCAACGACAA+CGG - Chr7:82017206-82017225 MsG0780040756.01.T01:three_prime_UTR 35.0%
! CTTTCTTCTGTTTCTCAACA+AGG - Chr7:82017051-82017070 MsG0780040756.01.T01:three_prime_UTR 35.0%
! TCAATTTGCTTACTTTGCCT+TGG - Chr7:82018162-82018181 MsG0780040756.01.T01:intron 35.0%
! TCTGATGCATTTTCCGTATT+GGG - Chr7:82018426-82018445 MsG0780040756.01.T01:intron 35.0%
! TTTTTCTACAGTGACAAGGT+TGG - Chr7:82017158-82017177 MsG0780040756.01.T01:three_prime_UTR 35.0%
!! CGTGGTTTTGCAATTAGAAT+TGG - Chr7:82017861-82017880 MsG0780040756.01.T01:intron 35.0%
!! GGTGATTTTAGCAAAATACC+TGG + Chr7:82017412-82017431 None:intergenic 35.0%
!! TGCTCTGAAAATTTGTCATC+AGG + Chr7:82018773-82018792 None:intergenic 35.0%
AAAAGACTGCTAAGCACCTA+AGG + Chr7:82018894-82018913 None:intergenic 40.0%
AAGAGACTTCAAACATGGAG+AGG - Chr7:82017838-82017857 MsG0780040756.01.T01:intron 40.0%
AAGATACCTTAAACACGGAG+AGG + Chr7:82018024-82018043 None:intergenic 40.0%
AATAGGAAACAAGGGATGGT+AGG + Chr7:82018114-82018133 None:intergenic 40.0%
GCACATTTGAGAATTGAGAG+TGG + Chr7:82017963-82017982 None:intergenic 40.0%
GCCACTTAGGTCTAACATTT+GGG + Chr7:82018991-82019010 None:intergenic 40.0%
GTAACCAAAATCACTGTGTG+GGG + Chr7:82018330-82018349 None:intergenic 40.0%
TAACCAAAATCACTGTGTGG+GGG + Chr7:82018329-82018348 None:intergenic 40.0%
TCCCAAATGTTAGACCTAAG+TGG - Chr7:82018987-82019006 MsG0780040756.01.T01:intron 40.0%
TGTTGAACTTCCCTGATGAA+TGG - Chr7:82019014-82019033 MsG0780040756.01.T01:intron 40.0%
TTAATGCCTCTCCGTGTTTA+AGG - Chr7:82018015-82018034 MsG0780040756.01.T01:intron 40.0%
TTGCAATAGGAAACAAGGGA+TGG + Chr7:82018118-82018137 None:intergenic 40.0%
TTTGTCATCAGGTGAAAACC+GGG + Chr7:82018762-82018781 None:intergenic 40.0%
! AGCAATGGACACATGAGTTT+TGG + Chr7:82018293-82018312 None:intergenic 40.0%
! CTGATGCATTTTCCGTATTG+GGG - Chr7:82018427-82018446 MsG0780040756.01.T01:intron 40.0%
! GGGAAAGATTTTCACGGAAT+GGG + Chr7:82018971-82018990 None:intergenic 40.0%
! TGCCACTTAGGTCTAACATT+TGG + Chr7:82018992-82019011 None:intergenic 40.0%
! TGGGAAAGATTTTCACGGAA+TGG + Chr7:82018972-82018991 None:intergenic 40.0%
!! ATAGCTCAATACTTTGGAGC+TGG + Chr7:82018842-82018861 None:intergenic 40.0%
!! GCACTCTTTTGATTCTGCAT+TGG - Chr7:82018642-82018661 MsG0780040756.01.T01:intron 40.0%
!! GGAAAAGGTCTTTGAAGCAA+TGG + Chr7:82018308-82018327 None:intergenic 40.0%
AAATCACTGTGTGGGGGAAA+AGG + Chr7:82018323-82018342 None:intergenic 45.0%
GATTGAGTAGCTAACCCAAG+CGG + Chr7:82017382-82017401 None:intergenic 45.0%
GCAATTAGAATTGGGAGTGG+CGG - Chr7:82017870-82017889 MsG0780040756.01.T01:intron 45.0%
TCAACACACGTCAATCTCCA+AGG + Chr7:82018182-82018201 None:intergenic 45.0%
TGACAAGGTCTACACCACTA+AGG - Chr7:82017229-82017248 MsG0780040756.01.T01:exon 45.0%
TGGAGATTGACGTGTGTTGA+TGG - Chr7:82018182-82018201 MsG0780040756.01.T01:intron 45.0%
! AGGTGCTTAGCAGTCTTTTG+TGG - Chr7:82018895-82018914 MsG0780040756.01.T01:exon 45.0%
! TTTCCCCCACACAGTGATTT+TGG - Chr7:82018323-82018342 MsG0780040756.01.T01:intron 45.0%
!! AATACTTTGGAGCTGGATGC+TGG + Chr7:82018835-82018854 None:intergenic 45.0%
!! ATACTTTGGAGCTGGATGCT+GGG + Chr7:82018834-82018853 None:intergenic 45.0%
!! TTAATTATTTAAAAAATGTA+TGG + Chr7:82017542-82017561 None:intergenic 5.0%
ACTTCAAACATGGAGAGGCG+TGG - Chr7:82017843-82017862 MsG0780040756.01.T01:intron 50.0%
CATCAACGACAACGGTGACA+AGG - Chr7:82017214-82017233 MsG0780040756.01.T01:three_prime_UTR 50.0%
GCTACTCAATCTGCTCATCC+AGG - Chr7:82017391-82017410 MsG0780040756.01.T01:intron 50.0%
GGTCTAGAGAAGCCCCAATA+CGG + Chr7:82018442-82018461 None:intergenic 50.0%
TGAAAACCGGGCTGCAGTTT+CGG + Chr7:82018750-82018769 None:intergenic 50.0%
TGCAGAAAGAGTCACCGCTT+GGG - Chr7:82017365-82017384 MsG0780040756.01.T01:intron 50.0%
TTGCAGAAAGAGTCACCGCT+TGG - Chr7:82017364-82017383 MsG0780040756.01.T01:intron 50.0%
! TGTTTTCCGAAACTGCAGCC+CGG - Chr7:82018741-82018760 MsG0780040756.01.T01:intron 50.0%
! TTTGGAGCTGGATGCTGGGT+CGG + Chr7:82018830-82018849 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 82017033 82019062 82017033 ID=MsG0780040756.01;Name=MsG0780040756.01
Chr7 mRNA 82017033 82019062 82017033 ID=MsG0780040756.01.T01;Parent=MsG0780040756.01;Name=MsG0780040756.01.T01;_AED=0.39;_eAED=0.39;_QI=68|1|1|1|0|0|4|206|64
Chr7 exon 82017033 82017336 82017033 ID=MsG0780040756.01.T01:exon:19099;Parent=MsG0780040756.01.T01
Chr7 exon 82018683 82018725 82018683 ID=MsG0780040756.01.T01:exon:19098;Parent=MsG0780040756.01.T01
Chr7 exon 82018845 82018926 82018845 ID=MsG0780040756.01.T01:exon:19097;Parent=MsG0780040756.01.T01
Chr7 exon 82019023 82019062 82019023 ID=MsG0780040756.01.T01:exon:19096;Parent=MsG0780040756.01.T01
Chr7 five_prime_UTR 82019023 82019062 82019023 ID=MsG0780040756.01.T01:five_prime_utr;Parent=MsG0780040756.01.T01
Chr7 five_prime_UTR 82018899 82018926 82018899 ID=MsG0780040756.01.T01:five_prime_utr;Parent=MsG0780040756.01.T01
Chr7 CDS 82018845 82018898 82018845 ID=MsG0780040756.01.T01:cds;Parent=MsG0780040756.01.T01
Chr7 CDS 82018683 82018725 82018683 ID=MsG0780040756.01.T01:cds;Parent=MsG0780040756.01.T01
Chr7 CDS 82017239 82017336 82017239 ID=MsG0780040756.01.T01:cds;Parent=MsG0780040756.01.T01
Chr7 three_prime_UTR 82017033 82017238 82017033 ID=MsG0780040756.01.T01:three_prime_utr;Parent=MsG0780040756.01.T01
Gene Sequence

>MsG0780040756.01.T01

ATGTATCTTCAGTTTTACATCAACGACAACGGTGACAAGGTCTACACCACTAAGAAAGAGTCACCGCTTGGGTTAGCTACTCAATCTGCTCATCCAGCCCGGTTTTCACCTGATGACAAATTTTCAGAGCAGAGAGTTAAACTGAAGAAGCGATTTGGACTGTTACCGACCCAGCATCCAGCTCCAAAGTATTGA
Protein sequence

>MsG0780040756.01.T01

MYLQFYINDNGDKVYTTKKESPLGLATQSAHPARFSPDDKFSEQRVKLKKRFGLLPTQHPAPKY*