AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480023705.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023705.01.T01 MTR_8g099615 95.000 140 7 0 1 140 1 140 5.46e-98 279
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023705.01.T01 AT5G42070 78.571 70 15 0 65 134 69 138 7.26e-36 122

Find 10 sgRNAs with CRISPR-Local

Find 95 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTATGGAATTATATAATAAA+AGG 0.269287 4:-88788297 None:intergenic
CCCTTAGCCTACACACTTGT+AGG 0.378133 4:+88788274 MsG0480023704.01.T01:intron
CATAAAACACTGTGAATTAG+TGG 0.419319 4:+88788321 MsG0480023704.01.T01:intron
GGTGTTAGAGAGTGTGTTAT+CGG 0.430420 4:+88788390 MsG0480023704.01.T01:intron
AGGTGTTTCTTAAGCTAGAA+AGG 0.440643 4:-88788450 None:intergenic
TATCGGCACTCAAGCACTAT+TGG 0.451311 4:+88788407 MsG0480023704.01.T01:intron
AGGTGTTATTTAAGATAGAA+AGG 0.451647 4:-88788470 None:intergenic
GCCTACAAGTGTGTAGGCTA+AGG 0.481343 4:-88788275 None:intergenic
CCTACAAGTGTGTAGGCTAA+GGG 0.582488 4:-88788274 None:intergenic
TAAAAGGCCTACAAGTGTGT+AGG 0.588480 4:-88788281 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAATAAAAAATAAAAAATA+GGG - Chr4:88788012-88788031 None:intergenic 0.0%
!! AAGATTTATCTATAAATAAA+TGG - Chr4:88787863-88787882 None:intergenic 10.0%
!!! AAAGATTTTTATTTAATGAA+GGG - Chr4:88787521-88787540 None:intergenic 10.0%
!! CTATGGAATTATATAATAAA+AGG - Chr4:88788300-88788319 None:intergenic 15.0%
!! CTTCATTAAATAAAAATCTT+TGG + Chr4:88787520-88787539 MsG0480023704.01.T01:intron 15.0%
!!! AAGATTTTTATTTAATGAAG+GGG - Chr4:88787520-88787539 None:intergenic 15.0%
!!! CAAAGATTTTTATTTAATGA+AGG - Chr4:88787522-88787541 None:intergenic 15.0%
!!! CTTTTATTATATAATTCCAT+AGG + Chr4:88788298-88788317 MsG0480023704.01.T01:intron 15.0%
!! TCTATAAATAAATGGTAAAC+TGG - Chr4:88787855-88787874 None:intergenic 20.0%
!!! ATTTTGTTTATGTTGATAGA+AGG + Chr4:88787973-88787992 MsG0480023704.01.T01:intron 20.0%
!!! TTTTGTTTATGTTGATAGAA+GGG + Chr4:88787974-88787993 MsG0480023704.01.T01:intron 20.0%
! AAAGATAAGATCAAGAGTTA+AGG - Chr4:88788207-88788226 None:intergenic 25.0%
! TGTACAAACCAAAAAAATCA+TGG + Chr4:88787364-88787383 MsG0480023704.01.T01:three_prime_UTR 25.0%
! TTATTTAATGAAGGGGAAAA+TGG - Chr4:88787513-88787532 None:intergenic 25.0%
!! TTTGTTTATGTTGATAGAAG+GGG + Chr4:88787975-88787994 MsG0480023704.01.T01:intron 25.0%
!!! ATTTTTTATTTTGGTTCGCA+AGG + Chr4:88788020-88788039 MsG0480023704.01.T01:intron 25.0%
!!! CAAATGAGAAGGATTTTAAT+AGG + Chr4:88787941-88787960 MsG0480023704.01.T01:intron 25.0%
!!! TTTTTTATTTTGGTTCGCAA+GGG + Chr4:88788021-88788040 MsG0480023704.01.T01:intron 25.0%
CATAAAACACTGTGAATTAG+TGG + Chr4:88788321-88788340 MsG0480023704.01.T01:intron 30.0%
CTTGATTCTAAGTCTTTCTT+AGG + Chr4:88788093-88788112 MsG0480023704.01.T01:intron 30.0%
GATCAAGAGTTAAGGTAATT+TGG - Chr4:88788199-88788218 None:intergenic 30.0%
TATGACCAATCATTTAACAC+AGG + Chr4:88788231-88788250 MsG0480023704.01.T01:intron 30.0%
TCTAGTTAGTTCAAATGAGA+AGG + Chr4:88787930-88787949 MsG0480023704.01.T01:intron 30.0%
TGTCTCTTTCTCATGTATAT+GGG + Chr4:88787825-88787844 MsG0480023704.01.T01:intron 30.0%
TTGTCTCTTTCTCATGTATA+TGG + Chr4:88787824-88787843 MsG0480023704.01.T01:intron 30.0%
!! AAGAGTGTGTTTTGCAAATA+GGG + Chr4:88788369-88788388 MsG0480023704.01.T01:intron 30.0%
!!! TGTTTTAATTTTGCCACTAC+CGG - Chr4:88787771-88787790 None:intergenic 30.0%
!!! TTTTTATTTTGGTTCGCAAG+GGG + Chr4:88788022-88788041 MsG0480023704.01.T01:intron 30.0%
AGACAATAGATACCTTGACT+TGG - Chr4:88787810-88787829 None:intergenic 35.0%
AGGTGTTTCTTAAGCTAGAA+AGG - Chr4:88788453-88788472 None:intergenic 35.0%
ATTAAAGGGCTATGACTATG+AGG + Chr4:88788131-88788150 MsG0480023704.01.T01:intron 35.0%
CACCTCTACGTTCAATTAAA+GGG + Chr4:88788117-88788136 MsG0480023704.01.T01:intron 35.0%
GAAATTGAGAAAGGATGCAA+TGG + Chr4:88787605-88787624 MsG0480023704.01.T01:three_prime_UTR 35.0%
GGAAACGAAGAAATTGAGAA+AGG + Chr4:88787596-88787615 MsG0480023704.01.T01:three_prime_UTR 35.0%
GGAACAAATATCTTAGTAGC+TGG - Chr4:88787390-88787409 None:intergenic 35.0%
TCACCTCTACGTTCAATTAA+AGG + Chr4:88788116-88788135 MsG0480023704.01.T01:intron 35.0%
TGTTGCCTGTGTTAAATGAT+TGG - Chr4:88788239-88788258 None:intergenic 35.0%
TTAATGAAGGGGAAAATGGA+TGG - Chr4:88787509-88787528 None:intergenic 35.0%
! AAGCTGCATCAAGACTTTTA+AGG + Chr4:88787906-88787925 MsG0480023704.01.T01:intron 35.0%
! AGCTGCATCAAGACTTTTAA+GGG + Chr4:88787907-88787926 MsG0480023704.01.T01:intron 35.0%
! TGAACGTGATGATAATGTTG+AGG - Chr4:88787342-88787361 None:intergenic 35.0%
! TGATGATAATGTTGAGGTGT+TGG - Chr4:88787336-88787355 None:intergenic 35.0%
! TTCACAGTGTTTTATGCCTA+TGG - Chr4:88788317-88788336 None:intergenic 35.0%
!! GAAGAGTGTGTTTTGCAAAT+AGG + Chr4:88788368-88788387 MsG0480023704.01.T01:intron 35.0%
AGCCCTTTAATTGAACGTAG+AGG - Chr4:88788122-88788141 None:intergenic 40.0%
CAGAATTCTCCACTAAACAG+AGG + Chr4:88787481-88787500 MsG0480023704.01.T01:three_prime_UTR 40.0%
GAAACAGCAAGTTCATCATC+TGG - Chr4:88787453-88787472 None:intergenic 40.0%
GCAGAAGAAATGAGTGAAGT+TGG - Chr4:88787429-88787448 None:intergenic 40.0%
TAAAAGGCCTACAAGTGTGT+AGG - Chr4:88788284-88788303 None:intergenic 40.0%
TTTGAGTAGTTGCTGAACAG+CGG + Chr4:88787560-88787579 MsG0480023704.01.T01:intron 40.0%
! GGTGTTAGAGAGTGTGTTAT+CGG + Chr4:88788390-88788409 MsG0480023704.01.T01:intron 40.0%
!!! GTAGCTGGCCATGATTTTTT+TGG - Chr4:88787375-88787394 None:intergenic 40.0%
ATTGCAACAGTTCCTGGCTT+TGG + Chr4:88787650-88787669 MsG0480023704.01.T01:three_prime_UTR 45.0%
CATGGCCTGTATGCCTTTAT+AGG - Chr4:88787683-88787702 None:intergenic 45.0%
CCTACAAGTGTGTAGGCTAA+GGG - Chr4:88788277-88788296 None:intergenic 45.0%
GACTTGGAGTCAGTTACAGT+TGG - Chr4:88787794-88787813 None:intergenic 45.0%
GAGAAAGGATGCAATGGTGA+GGG + Chr4:88787611-88787630 MsG0480023704.01.T01:three_prime_UTR 45.0%
TATCGGCACTCAAGCACTAT+TGG + Chr4:88788407-88788426 MsG0480023704.01.T01:intron 45.0%
TGAGAAAGGATGCAATGGTG+AGG + Chr4:88787610-88787629 MsG0480023704.01.T01:three_prime_UTR 45.0%
TGGATGGTACCTCTGTTTAG+TGG - Chr4:88787493-88787512 None:intergenic 45.0%
! CTGTAACTGACTCCAAGTCA+AGG + Chr4:88787795-88787814 MsG0480023704.01.T01:three_prime_UTR 45.0%
! GAAGTTGGAGAGCATAGTGT+GGG - Chr4:88787414-88787433 None:intergenic 45.0%
! TGAAGTTGGAGAGCATAGTG+TGG - Chr4:88787415-88787434 None:intergenic 45.0%
!! CAAAATAAAAAATAAAAAAT+AGG - Chr4:88788013-88788032 None:intergenic 5.0%
!!! CTATTTTTTATTTTTTATTT+TGG + Chr4:88788011-88788030 MsG0480023704.01.T01:intron 5.0%
AACAGCGGTTGCAAAGCATG+TGG + Chr4:88787575-88787594 MsG0480023704.01.T01:intron 50.0%
AAGGATGCAATGGTGAGGGT+AGG + Chr4:88787615-88787634 MsG0480023704.01.T01:three_prime_UTR 50.0%
AATGGTGAGGGTAGGATGCA+GGG + Chr4:88787623-88787642 MsG0480023704.01.T01:three_prime_UTR 50.0%
CCCTTAGCCTACACACTTGT+AGG + Chr4:88788274-88788293 MsG0480023704.01.T01:intron 50.0%
CTCTCTCTCTCTCTCTCTCT+CGG - Chr4:88787267-88787286 None:intergenic 50.0%
CTTTGGCTGGTGGCCTATAA+AGG + Chr4:88787667-88787686 MsG0480023704.01.T01:three_prime_UTR 50.0%
GAAGCCACAAATCCAGGACA+TGG - Chr4:88787701-88787720 None:intergenic 50.0%
GATTTGTGGCTTCTGGTGGT+AGG + Chr4:88787708-88787727 MsG0480023704.01.T01:three_prime_UTR 50.0%
GCCTACAAGTGTGTAGGCTA+AGG - Chr4:88788278-88788297 None:intergenic 50.0%
GGTGGTATTGCAACAGTTCC+TGG + Chr4:88787644-88787663 MsG0480023704.01.T01:three_prime_UTR 50.0%
TCTCTCTCTCTCTCTCTCTC+GGG - Chr4:88787266-88787285 None:intergenic 50.0%
TGTCCTGGATTTGTGGCTTC+TGG + Chr4:88787701-88787720 MsG0480023704.01.T01:three_prime_UTR 50.0%
! GGTGGCCTATAAAGGCATAC+AGG + Chr4:88787675-88787694 MsG0480023704.01.T01:three_prime_UTR 50.0%
AAGGCATACAGGCCATGTCC+TGG + Chr4:88787686-88787705 MsG0480023704.01.T01:three_prime_UTR 55.0%
ACAGGGACAAAGCATGGACG+AGG + Chr4:88787739-88787758 MsG0480023704.01.T01:three_prime_UTR 55.0%
AGCATGGACGAGGTTGTCTC+CGG + Chr4:88787749-88787768 MsG0480023704.01.T01:three_prime_UTR 55.0%
CAATGGTGAGGGTAGGATGC+AGG + Chr4:88787622-88787641 MsG0480023704.01.T01:three_prime_UTR 55.0%
CAGACGACAGGGACAAAGCA+TGG + Chr4:88787733-88787752 MsG0480023704.01.T01:three_prime_UTR 55.0%
CAGGCCATGTCCTGGATTTG+TGG + Chr4:88787694-88787713 MsG0480023704.01.T01:three_prime_UTR 55.0%
CCACCAGAAGCCACAAATCC+AGG - Chr4:88787707-88787726 None:intergenic 55.0%
CCTGGATTTGTGGCTTCTGG+TGG + Chr4:88787704-88787723 MsG0480023704.01.T01:three_prime_UTR 55.0%
CTCTCTCTCTCTCTCTCTCG+GGG - Chr4:88787265-88787284 None:intergenic 55.0%
GGTGGTAGGTACAGACGACA+GGG + Chr4:88787722-88787741 MsG0480023704.01.T01:three_prime_UTR 55.0%
TGGTGGTAGGTACAGACGAC+AGG + Chr4:88787721-88787740 MsG0480023704.01.T01:three_prime_UTR 55.0%
! GTTGGAGAGCATAGTGTGGG+AGG - Chr4:88787411-88787430 None:intergenic 55.0%
!! CAACAGTTCCTGGCTTTGGC+TGG + Chr4:88787654-88787673 MsG0480023704.01.T01:three_prime_UTR 55.0%
ATAGGCCACCAGCCAAAGCC+AGG - Chr4:88787665-88787684 None:intergenic 60.0%
GACGAGGTTGTCTCCGGTAG+TGG + Chr4:88787755-88787774 MsG0480023704.01.T01:three_prime_UTR 60.0%
!! CAGTTCCTGGCTTTGGCTGG+TGG + Chr4:88787657-88787676 MsG0480023704.01.T01:three_prime_UTR 60.0%
GGTGAGGGTAGGATGCAGGG+TGG + Chr4:88787626-88787645 MsG0480023704.01.T01:three_prime_UTR 65.0%
Chromosome Type Strat End Strand Name
Chr4 gene 88787252 88788481 88787252 ID=MsG0480023705.01;
Chr4 mRNA 88787252 88788481 88787252 ID=MsG0480023705.01.T01;Parent=MsG0480023705.01
Chr4 exon 88787252 88787502 88787252 ID=MsG0480023705.01.T01.exon;Parent=MsG0480023705.01.T01
Chr4 CDS 88787309 88787502 88787309 ID=MsG0480023705.01.T01.cds;Parent=MsG0480023705.01.T01
Chr4 CDS 88787580 88787816 88787580 ID=MsG0480023705.01.T01.cds;Parent=MsG0480023705.01.T01
Chr4 exon 88787580 88787816 88787580 ID=MsG0480023705.01.T01.exon;Parent=MsG0480023705.01.T01
Chr4 CDS 88787909 88787962 88787909 ID=MsG0480023705.01.T01.cds;Parent=MsG0480023705.01.T01
Chr4 exon 88787909 88787962 88787909 ID=MsG0480023705.01.T01.exon;Parent=MsG0480023705.01.T01
Chr4 CDS 88788253 88788265 88788253 ID=MsG0480023705.01.T01.cds;Parent=MsG0480023705.01.T01
Chr4 exon 88788253 88788481 88788253 ID=MsG0480023705.01.T01.exon;Parent=MsG0480023705.01.T01
Gene Sequence

>MsG0480023705.01.T01

ATGACAACAGCTTTCTTCACAGTTCCAACACCTCAACATTATCATCACGTTCAATTGTACAAACCAAAAAAATCATGGCCAGCTACTAAGATATTTGTTCCTCCCACACTATGCTCTCCAACTTCACTCATTTCTTCTGCACCAGATGATGAACTTGCTGTTTCTGATCAATCAGAATTCTCCACTAAACAGAGCGGTTGCAAAGCATGTGGAAACGAAGAAATTGAGAAAGGATGCAATGGTGAGGGTAGGATGCAGGGTGGTATTGCAACAGTTCCTGGCTTTGGCTGGTGGCCTATAAAGGCATACAGGCCATGTCCTGGATTTGTGGCTTCTGGTGGTAGGTACAGACGACAGGGACAAAGCATGGACGAGGTTGTCTCCGGTAGTGGCAAAATTAAAACACCAACTGTAACTGACTCCAAGTCAAGCTGCATCAAGACTTTTAAGGGTCTAGTTAGTTCAAATGAGAAGGATTTTAATAGGCAACATGCTTAG

Protein sequence

>MsG0480023705.01.T01

MTTAFFTVPTPQHYHHVQLYKPKKSWPATKIFVPPTLCSPTSLISSAPDDELAVSDQSEFSTKQSGCKACGNEEIEKGCNGEGRMQGGIATVPGFGWWPIKAYRPCPGFVASGGRYRRQGQSMDEVVSGSGKIKTPTVTDSKSSCIKTFKGLVSSNEKDFNRQHA*