AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180004854.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004854.01.T01 MTR_1g088450 98.319 119 2 0 1 119 1 119 6.04e-83 238
MsG0180004854.01.T01 MTR_1g083430 89.076 119 12 1 2 119 7 125 1.75e-63 189
MsG0180004854.01.T01 MTR_7g112770 94.444 108 6 0 12 119 17 124 1.19e-61 184
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004854.01.T01 AT3G05560 87.931 116 14 0 4 119 9 124 6.06e-63 187
MsG0180004854.01.T01 AT3G05560 87.931 116 14 0 4 119 9 124 6.06e-63 187
MsG0180004854.01.T01 AT3G05560 87.931 116 14 0 4 119 9 124 6.06e-63 187
MsG0180004854.01.T01 AT5G27770 86.735 98 13 0 11 108 16 113 1.47e-49 154
MsG0180004854.01.T01 AT1G02830 75.229 109 27 0 2 110 9 117 9.76e-46 144

Find 26 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCCCTGGAGAAGTTTCTTC+AGG 0.314117 1:-83611803 MsG0180004854.01.T01:CDS
GCCAGTTGAGGATAAGATTA+TGG 0.328511 1:-83611833 MsG0180004854.01.T01:CDS
ATAGATATTGCGGTCCTTGT+TGG 0.377160 1:+83610696 None:intergenic
TCCATAATCTTATCCTCAAC+TGG 0.404476 1:+83611832 None:intergenic
CGGAGTGAAGGGTAAGAAGA+AGG 0.409364 1:-83611884 MsG0180004854.01.T01:CDS
ATCGGAGGTAACAGTGATCT+TGG 0.422181 1:+83611714 None:intergenic
GATTATGGACATCGCTTCCC+TGG 0.434039 1:-83611818 MsG0180004854.01.T01:CDS
TCTCCTGAAGAAACTTCTCC+AGG 0.463361 1:+83611800 None:intergenic
AAAAGCACAATGTGAGGGAT+TGG 0.474548 1:-83610735 MsG0180004854.01.T01:CDS
CTTCAACATTGCTGAGAATG+AGG 0.480373 1:-83610662 MsG0180004854.01.T01:CDS
CCGATAGCAATTTCTCCAAA+AGG 0.482446 1:-83611696 MsG0180004854.01.T01:intron
ATTAAAGTTGGTGGTAAAGC+TGG 0.482585 1:-83611775 MsG0180004854.01.T01:CDS
GGCGAAAATGAGCGGAGTGA+AGG 0.510385 1:-83611896 None:intergenic
CTTCAGGAGAGGATTAAAGT+TGG 0.530224 1:-83611787 MsG0180004854.01.T01:CDS
GCGAAAATGAGCGGAGTGAA+GGG 0.538109 1:-83611895 None:intergenic
CAGGAGAGGATTAAAGTTGG+TGG 0.545199 1:-83611784 MsG0180004854.01.T01:CDS
GGTGGTAAAGCTGGTGCTCT+CGG 0.555561 1:-83611766 MsG0180004854.01.T01:CDS
CGATTGCGCGAAGCCAGTTG+AGG 0.561050 1:-83611845 MsG0180004854.01.T01:CDS
TGGAGAAGTTTCTTCAGGAG+AGG 0.565476 1:-83611798 MsG0180004854.01.T01:CDS
GGAGTGAAGGGTAAGAAGAA+GGG 0.572006 1:-83611883 MsG0180004854.01.T01:CDS
ATCTCAACTCATAGATATTG+CGG 0.582807 1:+83610686 None:intergenic
TTTGGAGAAATTGCTATCGG+AGG 0.603460 1:+83611699 None:intergenic
TCGTGTTATTGCATCCAACA+AGG 0.613064 1:-83610710 MsG0180004854.01.T01:CDS
TTCAACATTGCTGAGAATGA+GGG 0.613248 1:-83610661 MsG0180004854.01.T01:CDS
CTCCTGAAGAAACTTCTCCA+GGG 0.621359 1:+83611801 None:intergenic
TTTGTCACGAGTAACAGTAA+CGG 0.687075 1:+83611738 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TCTTTATGTCTTAATTTTTT+TGG - Chr1:83611665-83611684 MsG0180004854.01.T01:intron 15.0%
!! AAAATTATGTTGTTAGTGAA+TGG - Chr1:83611090-83611109 MsG0180004854.01.T01:intron 20.0%
!! AAATTATGTTGTTAGTGAAT+GGG - Chr1:83611091-83611110 MsG0180004854.01.T01:intron 20.0%
!! ATTTGACATTATTATGATTC+TGG - Chr1:83611547-83611566 MsG0180004854.01.T01:intron 20.0%
!!! TATTTGTTGATTAATGTGTT+AGG - Chr1:83610877-83610896 MsG0180004854.01.T01:intron 20.0%
! ATATTTAGTGTATGTTTGGA+TGG - Chr1:83611141-83611160 MsG0180004854.01.T01:intron 25.0%
! TAAAAATAGTTAAACTGAGC+CGG + Chr1:83611599-83611618 None:intergenic 25.0%
! TATTTAGTGTATGTTTGGAT+GGG - Chr1:83611142-83611161 MsG0180004854.01.T01:intron 25.0%
! TCGTATATTTAGTGTATGTT+TGG - Chr1:83611137-83611156 MsG0180004854.01.T01:intron 25.0%
AAAAATAGTTAAACTGAGCC+GGG + Chr1:83611598-83611617 None:intergenic 30.0%
ATACAAGTCTTCTTCTTCTT+TGG - Chr1:83611688-83611707 MsG0180004854.01.T01:intron 30.0%
ATCTCAACTCATAGATATTG+CGG + Chr1:83611851-83611870 None:intergenic 30.0%
CATGTGAACATTTCATTTAC+AGG + Chr1:83610933-83610952 None:intergenic 30.0%
CATGTGTTTGAGTAATTATG+TGG - Chr1:83610949-83610968 MsG0180004854.01.T01:intron 30.0%
GTCAAATTCTATTCACATAC+AGG + Chr1:83611534-83611553 None:intergenic 30.0%
! AAGATGAAGAAGTTACCTTT+TGG + Chr1:83610856-83610875 None:intergenic 30.0%
! ACTGTAAGTCACCATAATTT+TGG + Chr1:83611216-83611235 None:intergenic 30.0%
! CTGTAAGTCACCATAATTTT+GGG + Chr1:83611215-83611234 None:intergenic 30.0%
!!! TTTTGTTATTTTCTACCGTG+AGG - Chr1:83611336-83611355 MsG0180004854.01.T01:intron 30.0%
ACAGGAATACTAGACAATAG+TGG + Chr1:83611516-83611535 None:intergenic 35.0%
ATTGAATATTGAGACAGTGC+TGG - Chr1:83610997-83611016 MsG0180004854.01.T01:intron 35.0%
CATCAATTGCAGGTTTCAAT+TGG + Chr1:83611257-83611276 None:intergenic 35.0%
GGACAAAAATAATCACACGA+AGG + Chr1:83611725-83611744 None:intergenic 35.0%
TCCATAATCTTATCCTCAAC+TGG + Chr1:83610705-83610724 None:intergenic 35.0%
TGTCATGAGAATCCTTAAGT+TGG + Chr1:83611445-83611464 None:intergenic 35.0%
TTCAACATTGCTGAGAATGA+GGG - Chr1:83611873-83611892 MsG0180004854.01.T01:CDS 35.0%
TTTGTCACGAGTAACAGTAA+CGG + Chr1:83610799-83610818 None:intergenic 35.0%
! ACTTGAAAAAGCACAATGTG+AGG - Chr1:83611793-83611812 MsG0180004854.01.T01:CDS 35.0%
! ATGATTTGTGTAAATGGTCC+TGG - Chr1:83611487-83611506 MsG0180004854.01.T01:intron 35.0%
! CGTAGGTTTTCCCAAAATTA+TGG - Chr1:83611202-83611221 MsG0180004854.01.T01:intron 35.0%
! CTTGAAAAAGCACAATGTGA+GGG - Chr1:83611794-83611813 MsG0180004854.01.T01:CDS 35.0%
! GCGAGTATGATTTGTGTAAA+TGG - Chr1:83611481-83611500 MsG0180004854.01.T01:intron 35.0%
!! ATGTGGCTTTGAAATGTTGA+TGG - Chr1:83610966-83610985 MsG0180004854.01.T01:intron 35.0%
!! ATTAAAGTTGGTGGTAAAGC+TGG - Chr1:83610759-83610778 MsG0180004854.01.T01:CDS 35.0%
!! CCTTTTGGAGAAATTGCTAT+CGG + Chr1:83610841-83610860 None:intergenic 35.0%
!!! GTGCTTTTTCAAGTACTTCT+TGG + Chr1:83611787-83611806 None:intergenic 35.0%
AGGTCTAGTTGTTGCTGTAT+GGG - Chr1:83611356-83611375 MsG0180004854.01.T01:intron 40.0%
ATAGATATTGCGGTCCTTGT+TGG + Chr1:83611841-83611860 None:intergenic 40.0%
CCGATAGCAATTTCTCCAAA+AGG - Chr1:83610838-83610857 MsG0180004854.01.T01:intron 40.0%
CTTCAACATTGCTGAGAATG+AGG - Chr1:83611872-83611891 MsG0180004854.01.T01:CDS 40.0%
CTTCAGGAGAGGATTAAAGT+TGG - Chr1:83610747-83610766 MsG0180004854.01.T01:CDS 40.0%
GAAAATGCCATTACCAGTCT+TGG - Chr1:83611392-83611411 MsG0180004854.01.T01:intron 40.0%
GCCAGTTGAGGATAAGATTA+TGG - Chr1:83610701-83610720 MsG0180004854.01.T01:CDS 40.0%
GGTCAAGTACTTCAAATACC+TGG + Chr1:83611766-83611785 None:intergenic 40.0%
GTACTTCAAATACCTGGCAA+AGG + Chr1:83611760-83611779 None:intergenic 40.0%
TAATCAACACTACCTTTGCC+AGG - Chr1:83611745-83611764 MsG0180004854.01.T01:CDS 40.0%
TGACTACACACATCAATTGC+AGG + Chr1:83611267-83611286 None:intergenic 40.0%
TGGGAAAACCTACGAATTCA+GGG + Chr1:83611196-83611215 None:intergenic 40.0%
TTAGTGTATGTTTGGATGGG+TGG - Chr1:83611145-83611164 MsG0180004854.01.T01:intron 40.0%
TTGGGAAAACCTACGAATTC+AGG + Chr1:83611197-83611216 None:intergenic 40.0%
TTTGGAGAAATTGCTATCGG+AGG + Chr1:83610838-83610857 None:intergenic 40.0%
! AAAAGCACAATGTGAGGGAT+TGG - Chr1:83611799-83611818 MsG0180004854.01.T01:CDS 40.0%
! TCGTGTTATTGCATCCAACA+AGG - Chr1:83611824-83611843 MsG0180004854.01.T01:CDS 40.0%
! TTCTGGTGCATTTTCTGAAC+TGG - Chr1:83611564-83611583 MsG0180004854.01.T01:intron 40.0%
!! TGAGAATCCTTAAGTTGGCA+CGG + Chr1:83611440-83611459 None:intergenic 40.0%
!! TGGCAAAGGTAGTGTTGATT+AGG + Chr1:83611746-83611765 None:intergenic 40.0%
ACAGCAACAACTAGACCTCA+CGG + Chr1:83611354-83611373 None:intergenic 45.0%
ATCGGAGGTAACAGTGATCT+TGG + Chr1:83610823-83610842 None:intergenic 45.0%
CAAACATCACAAGCCAAGAC+TGG + Chr1:83611408-83611427 None:intergenic 45.0%
CAGGAGAGGATTAAAGTTGG+TGG - Chr1:83610750-83610769 MsG0180004854.01.T01:CDS 45.0%
CTCCTGAAGAAACTTCTCCA+GGG + Chr1:83610736-83610755 None:intergenic 45.0%
GAGGTCTAGTTGTTGCTGTA+TGG - Chr1:83611355-83611374 MsG0180004854.01.T01:intron 45.0%
GGAGTGAAGGGTAAGAAGAA+GGG - Chr1:83610651-83610670 MsG0180004854.01.T01:CDS 45.0%
TCACAAGCCAAGACTGGTAA+TGG + Chr1:83611402-83611421 None:intergenic 45.0%
TCTCCTGAAGAAACTTCTCC+AGG + Chr1:83610737-83610756 None:intergenic 45.0%
TCTGAACTGGATTCTTGTCC+CGG - Chr1:83611577-83611596 MsG0180004854.01.T01:intron 45.0%
TGGAGAAGTTTCTTCAGGAG+AGG - Chr1:83610736-83610755 MsG0180004854.01.T01:CDS 45.0%
TTCCCTGGAGAAGTTTCTTC+AGG - Chr1:83610731-83610750 MsG0180004854.01.T01:CDS 45.0%
!! ACTAGACAATAGTGGACACC+AGG + Chr1:83611508-83611527 None:intergenic 45.0%
!! GAGAATCCTTAAGTTGGCAC+GGG + Chr1:83611439-83611458 None:intergenic 45.0%
CGGAGTGAAGGGTAAGAAGA+AGG - Chr1:83610650-83610669 MsG0180004854.01.T01:CDS 50.0%
CGTTAGCACCCTGAATTCGT+AGG - Chr1:83611185-83611204 MsG0180004854.01.T01:intron 50.0%
GATTATGGACATCGCTTCCC+TGG - Chr1:83610716-83610735 MsG0180004854.01.T01:CDS 50.0%
TGCATTCCCGTGCCAACTTA+AGG - Chr1:83611430-83611449 MsG0180004854.01.T01:intron 50.0%
GGTGGTAAAGCTGGTGCTCT+CGG - Chr1:83610768-83610787 MsG0180004854.01.T01:CDS 55.0%
CGATTGCGCGAAGCCAGTTG+AGG - Chr1:83610689-83610708 MsG0180004854.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 83610645 83611911 83610645 ID=MsG0180004854.01;Name=MsG0180004854.01
Chr1 mRNA 83610645 83611911 83610645 ID=MsG0180004854.01.T01;Parent=MsG0180004854.01;Name=MsG0180004854.01.T01;_AED=0.50;_eAED=0.51;_QI=0|0|0|1|1|1|2|0|119
Chr1 exon 83611697 83611911 83611697 ID=MsG0180004854.01.T01:exon:9028;Parent=MsG0180004854.01.T01
Chr1 exon 83610645 83610789 83610645 ID=MsG0180004854.01.T01:exon:9027;Parent=MsG0180004854.01.T01
Chr1 CDS 83611697 83611911 83611697 ID=MsG0180004854.01.T01:cds;Parent=MsG0180004854.01.T01
Chr1 CDS 83610645 83610789 83610645 ID=MsG0180004854.01.T01:cds;Parent=MsG0180004854.01.T01
Gene Sequence

>MsG0180004854.01.T01

ATGAGCGGAGTGAAGGGTAAGAAGAAGGGAACAAGCTTCGTGATCGATTGCGCGAAGCCAGTTGAGGATAAGATTATGGACATCGCTTCCCTGGAGAAGTTTCTTCAGGAGAGGATTAAAGTTGGTGGTAAAGCTGGTGCTCTCGGTGATTCCGTTACTGTTACTCGTGACAAATCCAAGATCACTGTTACCTCCGATAGCAATTTCTCCAAAAGGTATTTGAAGTACTTGACCAAGAAGTACTTGAAAAAGCACAATGTGAGGGATTGGCTTCGTGTTATTGCATCCAACAAGGACCGCAATATCTATGAGTTGAGATACTTCAACATTGCTGAGAATGAGGGTGAAGATGAAGACTAA

Protein sequence

>MsG0180004854.01.T01

MSGVKGKKKGTSFVIDCAKPVEDKIMDIASLEKFLQERIKVGGKAGALGDSVTVTRDKSKITVTSDSNFSKRYLKYLTKKYLKKHNVRDWLRVIASNKDRNIYELRYFNIAENEGEDED*