AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080048909.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048909.01.T01 MTR_3g118430 68.919 74 18 1 51 119 113 186 9.32e-27 103
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048909.01.T01 AT4G35250 65.789 76 21 1 51 121 115 190 1.22e-26 102

Find 51 sgRNAs with CRISPR-Local

Find 79 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTGACTTCCTTCGTGATT+GGG 0.252587 contig52end:+216683 MsG0080048909.01.T01:CDS
CAGCTGACTTCCTTCGTGAT+TGG 0.278974 contig52end:+216682 MsG0080048909.01.T01:CDS
TGGCTGTTGGTAACCTCATC+AGG 0.328407 contig52end:-216348 MsG0080048909.01.T01:intergenic
CTTTGGGAAGGCAGATTGTT+CGG 0.350602 contig52end:+216605 MsG0080048909.01.T01:intron
CAGGATGTTTGTCGCAGTTA+TGG 0.353588 contig52end:-216898 MsG0080048909.01.T01:intergenic
ACTATTCCTGCTACATTAGT+TGG 0.362432 contig52end:+216744 MsG0080048909.01.T01:CDS
TTCCCAATCAACTGTTTGAT+AGG 0.383632 contig52end:-216810 MsG0080048909.01.T01:intergenic
GAGCCTATCAAACAGTTGAT+TGG 0.415013 contig52end:+216807 MsG0080048909.01.T01:CDS
ACTGTTATTGATTGCGCCAC+TGG 0.416466 contig52end:+216774 MsG0080048909.01.T01:CDS
AGGATACGACGTCCGGTGTC+TGG 0.418347 contig52end:+216642 MsG0080048909.01.T01:CDS
AACTGTTTGATAGGCTCTTC+AGG 0.428122 contig52end:-216801 MsG0080048909.01.T01:intergenic
AGCCTATCAAACAGTTGATT+GGG 0.430242 contig52end:+216808 MsG0080048909.01.T01:CDS
GATCTCCATGAGGGGACCTC+AGG 0.466747 contig52end:-216917 MsG0080048909.01.T01:intergenic
GAGGGACTGGGATAAAGAAC+AGG 0.486085 contig52end:-216409 MsG0080048909.01.T01:intergenic
ATTCAATGTGCTAAAGCAAT+GGG 0.487829 contig52end:+216848 MsG0080048909.01.T01:CDS
TCCGGTGTCTGGTAAGGCCG+AGG 0.514731 contig52end:+216653 MsG0080048909.01.T01:CDS
TATTCAATGTGCTAAAGCAA+TGG 0.515599 contig52end:+216847 MsG0080048909.01.T01:CDS
ACGACGTCCGGTGTCTGGTA+AGG 0.516950 contig52end:+216647 MsG0080048909.01.T01:CDS
GCAGATTGTTCGGAGGGCAC+TGG 0.517013 contig52end:+216615 MsG0080048909.01.T01:intron
GTCCTCCTCACCACCCTACC+AGG 0.521131 contig52end:-216373 MsG0080048909.01.T01:intergenic
TGAACTCCAACTAATGTAGC+AGG 0.522361 contig52end:-216750 MsG0080048909.01.T01:intergenic
CCTCACCACCCTACCAGGTG+TGG 0.525876 contig52end:-216368 MsG0080048909.01.T01:intergenic
GCTGACTTCCTTCGTGATTG+GGG 0.529696 contig52end:+216684 MsG0080048909.01.T01:CDS
ATGTTTGTCGCAGTTATGGA+TGG 0.537280 contig52end:-216894 MsG0080048909.01.T01:intergenic
CAATCACGAAGGAAGTCAGC+TGG 0.537462 contig52end:-216681 MsG0080048909.01.T01:intergenic
AATGTAGCAGGAATAGTCTC+AGG 0.539300 contig52end:-216738 MsG0080048909.01.T01:intergenic
GAAGTCAGCTGGAGCAGCCT+CGG 0.542861 contig52end:-216670 MsG0080048909.01.T01:intergenic
CCACACCTGGTAGGGTGGTG+AGG 0.551319 contig52end:+216368 MsG0080048909.01.T01:CDS
AACATCCTGAGGTCCCCTCA+TGG 0.564244 contig52end:+216912 MsG0080048909.01.T01:CDS
AGGCTCTTCAGGACGGCCAG+TGG 0.567494 contig52end:-216790 MsG0080048909.01.T01:intergenic
ACCAACAGCCACACCTGGTA+GGG 0.570641 contig52end:+216360 MsG0080048909.01.T01:CDS
ACCCTACCAGGTGTGGCTGT+TGG 0.574945 contig52end:-216361 MsG0080048909.01.T01:intergenic
GGGAAGGCAGATTGTTCGGA+GGG 0.578906 contig52end:+216609 MsG0080048909.01.T01:intron
TGGACGAAGGATACGACGTC+CGG 0.585255 contig52end:+216635 MsG0080048909.01.T01:CDS
TGAAAATGGCGACCCTGATG+AGG 0.599647 contig52end:+216335 MsG0080048909.01.T01:CDS
AGGTTACCAACAGCCACACC+TGG 0.599991 contig52end:+216355 MsG0080048909.01.T01:CDS
GGTGGTGAGGAGGACGAGAG+AGG 0.604065 contig52end:+216381 MsG0080048909.01.T01:CDS
GCAATACTTGATCTCCATGA+GGG 0.610528 contig52end:-216926 MsG0080048909.01.T01:intergenic
AACAGCCACACCTGGTAGGG+TGG 0.616669 contig52end:+216363 MsG0080048909.01.T01:CDS
GTTTGATAGGCTCTTCAGGA+CGG 0.621141 contig52end:-216797 MsG0080048909.01.T01:intergenic
TACCAACAGCCACACCTGGT+AGG 0.624838 contig52end:+216359 MsG0080048909.01.T01:CDS
TATCAAACAGTTGATTGGGA+AGG 0.626209 contig52end:+216812 MsG0080048909.01.T01:CDS
TGGGAAGGCAGATTGTTCGG+AGG 0.630372 contig52end:+216608 MsG0080048909.01.T01:intron
GTTCGGAGGGCACTGGACGA+AGG 0.631129 contig52end:+216622 MsG0080048909.01.T01:CDS
GGCTGTTGGTAACCTCATCA+GGG 0.639067 contig52end:-216347 MsG0080048909.01.T01:intergenic
CACCTGGTAGGGTGGTGAGG+AGG 0.643631 contig52end:+216371 MsG0080048909.01.T01:CDS
GCCTCGGCCTTACCAGACAC+CGG 0.672646 contig52end:-216654 MsG0080048909.01.T01:intergenic
TGCAATACTTGATCTCCATG+AGG 0.679603 contig52end:-216927 MsG0080048909.01.T01:intergenic
CAATACTTGATCTCCATGAG+GGG 0.689220 contig52end:-216925 MsG0080048909.01.T01:intergenic
TAACTGCGACAAACATCCTG+AGG 0.699487 contig52end:+216901 MsG0080048909.01.T01:CDS
CAGTTGCTCCCCAATCACGA+AGG 0.720142 contig52end:-216692 MsG0080048908.01.T01:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATTCAATGTGCTAAAGCAAT+GGG + contig52end:216848-216867 MsG0080048909.01.T01:CDS 30.0%
TATTCAATGTGCTAAAGCAA+TGG + contig52end:216847-216866 MsG0080048909.01.T01:CDS 30.0%
TGCAAAACTCAACAAAATGA+GGG - contig52end:216430-216449 MsG0080048909.01.T01:intergenic 30.0%
TTGCAAAACTCAACAAAATG+AGG - contig52end:216431-216450 MsG0080048909.01.T01:intergenic 30.0%
! CATTTTGTTGAGTTTTGCAA+AGG + contig52end:216431-216450 MsG0080048909.01.T01:intron 30.0%
ACTATTCCTGCTACATTAGT+TGG + contig52end:216744-216763 MsG0080048909.01.T01:CDS 35.0%
AGCCTATCAAACAGTTGATT+GGG + contig52end:216808-216827 MsG0080048909.01.T01:CDS 35.0%
AGGAAGAAGGATTATTAGAG+TGG + contig52end:216463-216482 MsG0080048909.01.T01:intron 35.0%
ATAGCAATAGCAATTCAGAG+AGG + contig52end:216516-216535 MsG0080048909.01.T01:intron 35.0%
GGAAGAAGGATTATTAGAGT+GGG + contig52end:216464-216483 MsG0080048909.01.T01:intron 35.0%
TAGCAATAGCAATTCAGAGA+GGG + contig52end:216517-216536 MsG0080048909.01.T01:intron 35.0%
TATCAAACAGTTGATTGGGA+AGG + contig52end:216812-216831 MsG0080048909.01.T01:CDS 35.0%
TTAGCCAACAAGTATACTTG+TGG + contig52end:216567-216586 MsG0080048909.01.T01:intron 35.0%
TTCCCAATCAACTGTTTGAT+AGG - contig52end:216813-216832 MsG0080048909.01.T01:intergenic 35.0%
! AAGTATACTTGTTGGCTAAC+AGG - contig52end:216566-216585 MsG0080048909.01.T01:intergenic 35.0%
! TTTGTTGAGTTTTGCAAAGG+TGG + contig52end:216434-216453 MsG0080048909.01.T01:intron 35.0%
AACTCAACAAAATGAGGGAC+TGG - contig52end:216425-216444 MsG0080048909.01.T01:intergenic 40.0%
AACTGTTTGATAGGCTCTTC+AGG - contig52end:216804-216823 MsG0080048909.01.T01:intergenic 40.0%
AATGTAGCAGGAATAGTCTC+AGG - contig52end:216741-216760 MsG0080048909.01.T01:intergenic 40.0%
ACTCAACAAAATGAGGGACT+GGG - contig52end:216424-216443 MsG0080048909.01.T01:intergenic 40.0%
ATGTTTGTCGCAGTTATGGA+TGG - contig52end:216897-216916 MsG0080048909.01.T01:intergenic 40.0%
CAATACTTGATCTCCATGAG+GGG - contig52end:216928-216947 MsG0080048909.01.T01:intergenic 40.0%
CCAACAAGTATACTTGTGGT+TGG + contig52end:216571-216590 MsG0080048909.01.T01:intron 40.0%
CCAACCACAAGTATACTTGT+TGG - contig52end:216574-216593 MsG0080048909.01.T01:intergenic 40.0%
GAGCCTATCAAACAGTTGAT+TGG + contig52end:216807-216826 MsG0080048909.01.T01:CDS 40.0%
GCAATACTTGATCTCCATGA+GGG - contig52end:216929-216948 MsG0080048909.01.T01:intergenic 40.0%
TGAACTCCAACTAATGTAGC+AGG - contig52end:216753-216772 MsG0080048909.01.T01:intergenic 40.0%
TGCAATACTTGATCTCCATG+AGG - contig52end:216930-216949 MsG0080048909.01.T01:intergenic 40.0%
! TTTTGCAAAGGTGGAAGAAG+AGG + contig52end:216443-216462 MsG0080048909.01.T01:intron 40.0%
AAGGTGGAAGAAGAGGAAGA+AGG + contig52end:216450-216469 MsG0080048909.01.T01:intron 45.0%
CAATAGCAATTCAGAGAGGG+CGG + contig52end:216520-216539 MsG0080048909.01.T01:intron 45.0%
CAGGATGTTTGTCGCAGTTA+TGG - contig52end:216901-216920 MsG0080048909.01.T01:intergenic 45.0%
GTTTGATAGGCTCTTCAGGA+CGG - contig52end:216800-216819 MsG0080048909.01.T01:intergenic 45.0%
TAACTGCGACAAACATCCTG+AGG + contig52end:216901-216920 MsG0080048909.01.T01:CDS 45.0%
TATACTTGTGGTTGGAGCCA+CGG + contig52end:216579-216598 MsG0080048909.01.T01:intron 45.0%
! ACTGTTATTGATTGCGCCAC+TGG + contig52end:216774-216793 MsG0080048909.01.T01:CDS 45.0%
! AGCTGACTTCCTTCGTGATT+GGG + contig52end:216683-216702 MsG0080048909.01.T01:CDS 45.0%
! CTTTGGGAAGGCAGATTGTT+CGG + contig52end:216605-216624 MsG0080048909.01.T01:intron 45.0%
ATACTTGTGGTTGGAGCCAC+GGG + contig52end:216580-216599 MsG0080048909.01.T01:intron 50.0%
CAATCACGAAGGAAGTCAGC+TGG - contig52end:216684-216703 MsG0080048909.01.T01:intergenic 50.0%
GAGGGACTGGGATAAAGAAC+AGG - contig52end:216412-216431 MsG0080048909.01.T01:intergenic 50.0%
TGAAAATGGCGACCCTGATG+AGG + contig52end:216335-216354 MsG0080048909.01.T01:CDS 50.0%
! CAGCTGACTTCCTTCGTGAT+TGG + contig52end:216682-216701 MsG0080048909.01.T01:CDS 50.0%
! GCTGACTTCCTTCGTGATTG+GGG + contig52end:216684-216703 MsG0080048909.01.T01:CDS 50.0%
!! GGCTGTTGGTAACCTCATCA+GGG - contig52end:216350-216369 MsG0080048909.01.T01:intergenic 50.0%
!! TGGCTGTTGGTAACCTCATC+AGG - contig52end:216351-216370 MsG0080048909.01.T01:intergenic 50.0%
AACATCCTGAGGTCCCCTCA+TGG + contig52end:216912-216931 MsG0080048909.01.T01:CDS 55.0%
ACCAACAGCCACACCTGGTA+GGG + contig52end:216360-216379 MsG0080048909.01.T01:CDS 55.0%
AGGTTACCAACAGCCACACC+TGG + contig52end:216355-216374 MsG0080048909.01.T01:CDS 55.0%
CAGTTGCTCCCCAATCACGA+AGG - contig52end:216695-216714 MsG0080048909.01.T01:intergenic 55.0%
GGGAAGGCAGATTGTTCGGA+GGG + contig52end:216609-216628 MsG0080048909.01.T01:intron 55.0%
TACCAACAGCCACACCTGGT+AGG + contig52end:216359-216378 MsG0080048909.01.T01:CDS 55.0%
TACTTGTGGTTGGAGCCACG+GGG + contig52end:216581-216600 MsG0080048909.01.T01:intron 55.0%
TCAGAGAGGGCGGTGAATCT+TGG + contig52end:216530-216549 MsG0080048909.01.T01:intron 55.0%
TGGACGAAGGATACGACGTC+CGG + contig52end:216635-216654 MsG0080048909.01.T01:CDS 55.0%
TGGGAAGGCAGATTGTTCGG+AGG + contig52end:216608-216627 MsG0080048909.01.T01:intron 55.0%
! TGTTGGCTAACAGGTGTCCC+TGG - contig52end:216557-216576 MsG0080048909.01.T01:intergenic 55.0%
AACAGCCACACCTGGTAGGG+TGG + contig52end:216363-216382 MsG0080048909.01.T01:CDS 60.0%
ACCCTACCAGGTGTGGCTGT+TGG - contig52end:216364-216383 MsG0080048909.01.T01:intergenic 60.0%
ACGACGTCCGGTGTCTGGTA+AGG + contig52end:216647-216666 MsG0080048909.01.T01:CDS 60.0%
AGGATACGACGTCCGGTGTC+TGG + contig52end:216642-216661 MsG0080048909.01.T01:CDS 60.0%
AGGGCGGTGAATCTTGGACC+AGG + contig52end:216536-216555 MsG0080048909.01.T01:intron 60.0%
GAAGTCAGCTGGAGCAGCCT+CGG - contig52end:216673-216692 MsG0080048909.01.T01:intergenic 60.0%
GATCTCCATGAGGGGACCTC+AGG - contig52end:216920-216939 MsG0080048909.01.T01:intergenic 60.0%
GGGCGGTGAATCTTGGACCA+GGG + contig52end:216537-216556 MsG0080048909.01.T01:intron 60.0%
GTTGGAGCCACGGGGACTTT+GGG + contig52end:216589-216608 MsG0080048909.01.T01:intron 60.0%
! GCAGATTGTTCGGAGGGCAC+TGG + contig52end:216615-216634 MsG0080048909.01.T01:intron 60.0%
AGGCTCTTCAGGACGGCCAG+TGG - contig52end:216793-216812 MsG0080048909.01.T01:intergenic 65.0%
CACCTGGTAGGGTGGTGAGG+AGG + contig52end:216371-216390 MsG0080048909.01.T01:CDS 65.0%
CCACACCTGGTAGGGTGGTG+AGG + contig52end:216368-216387 MsG0080048909.01.T01:CDS 65.0%
CCTCACCACCCTACCAGGTG+TGG - contig52end:216371-216390 MsG0080048909.01.T01:intergenic 65.0%
CTGCCTTCCCAAAGTCCCCG+TGG - contig52end:216599-216618 MsG0080048909.01.T01:intergenic 65.0%
GCCTCGGCCTTACCAGACAC+CGG - contig52end:216657-216676 MsG0080048909.01.T01:intergenic 65.0%
GGTGGTGAGGAGGACGAGAG+AGG + contig52end:216381-216400 MsG0080048909.01.T01:CDS 65.0%
GGTTGGAGCCACGGGGACTT+TGG + contig52end:216588-216607 MsG0080048909.01.T01:intron 65.0%
GTCCTCCTCACCACCCTACC+AGG - contig52end:216376-216395 MsG0080048909.01.T01:intergenic 65.0%
TCCGGTGTCTGGTAAGGCCG+AGG + contig52end:216653-216672 MsG0080048909.01.T01:CDS 65.0%
! GAGCCACGGGGACTTTGGGA+AGG + contig52end:216593-216612 MsG0080048909.01.T01:intron 65.0%
!! GTTCGGAGGGCACTGGACGA+AGG + contig52end:216622-216641 MsG0080048909.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
contig52end gene 216334 216953 216334 ID=MsG0080048909.01;Name=MsG0080048909.01
contig52end mRNA 216334 216953 216334 ID=MsG0080048909.01.T01;Parent=MsG0080048909.01;Name=MsG0080048909.01.T01;_AED=0.29;_eAED=0.36;_QI=0|0|0|1|0|0|2|0|141
contig52end exon 216334 216424 216334 ID=MsG0080048909.01.T01:exon:25406;Parent=MsG0080048909.01.T01
contig52end exon 216619 216953 216619 ID=MsG0080048909.01.T01:exon:25405;Parent=MsG0080048909.01.T01
contig52end CDS 216334 216424 216334 ID=MsG0080048909.01.T01:cds;Parent=MsG0080048909.01.T01
contig52end CDS 216619 216953 216619 ID=MsG0080048909.01.T01:cds;Parent=MsG0080048909.01.T01
Gene Sequence

>MsG0080048909.01.T01

ATGAAAATGGCGACCCTGATGAGGTTACCAACAGCCACACCTGGTAGGGTGGTGAGGAGGACGAGAGAGGCATTTCCTGTTCTTTATCCCAATTGTTCGGAGGGCACTGGACGAAGGATACGACGTCCGGTGTCTGGTAAGGCCGAGGCTGCTCCAGCTGACTTCCTTCGTGATTGGGGAGCAACTGTTGTGAATGCTGATCTTAGTAAACCTGAGACTATTCCTGCTACATTAGTTGGAGTTCATACTGTTATTGATTGCGCCACTGGCCGTCCTGAAGAGCCTATCAAACAGTTGATTGGGAAGGTAAAGTTGCTCTTATTCAATGTGCTAAAGCAATGGGTATTCAGAAATATGTTTTCTATTCCATCCATAACTGCGACAAACATCCTGAGGTCCCCTCATGGAGATCAAGTATTGCACTGA

Protein sequence

>MsG0080048909.01.T01

MKMATLMRLPTATPGRVVRRTREAFPVLYPNCSEGTGRRIRRPVSGKAEAAPADFLRDWGATVVNADLSKPETIPATLVGVHTVIDCATGRPEEPIKQLIGKVKLLLFNVLKQWVFRNMFSIPSITATNILRSPHGDQVLH*