AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880043644.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880043644.01.T01 MTR_8g039140 91.111 45 4 0 42 86 1 45 6.68e-23 87.0
MsG0880043644.01.T01 MTR_8g039140 53.731 67 0 1 20 86 1 36 1.48e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 22 sgRNAs with CRISPR-Local

Find 96 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGTTTCTTTGGAACGTATC+TGG 0.128232 8:-28313705 None:intergenic
TCAAGAAGTTTATCCTTATT+AGG 0.271875 8:+28313629 MsG0880043644.01.T01:CDS
ACGCTTCTTGTCTGTTTCTT+TGG 0.277466 8:-28313716 None:intergenic
GTCTAAAGCAACGCCTAATA+AGG 0.286432 8:-28313642 None:intergenic
TCTCCGTTCAATGATTGATA+TGG 0.316558 8:+28312303 None:intergenic
TGTTTCTTTGGAACGTATCT+GGG 0.410800 8:-28313704 None:intergenic
CATAATTTGACGAGCAAGAC+CGG 0.429125 8:-28314403 None:intergenic
GACAATGGAGGAGCTGAAGC+AGG 0.474978 8:+28313747 MsG0880043644.01.T01:CDS
GATGCAACATACAAATATCA+AGG 0.479893 8:-28313608 None:intergenic
ACAGAGCTCAAAAGAATACT+TGG 0.492644 8:+28314328 MsG0880043644.01.T01:intron
TAGGCTTTCGTTGAAAATCA+AGG 0.498601 8:+28312453 MsG0880043644.01.T01:intron
TATATTATCCCATTGCATGC+AGG 0.526959 8:+28313675 MsG0880043644.01.T01:CDS
AACTACAAGGAAATTAAAGC+AGG 0.535671 8:+28312488 MsG0880043644.01.T01:CDS
TTTGTAGACATTAGTATCGT+CGG 0.545041 8:-28313772 None:intergenic
GGGTTTGCACCTGCATGCAA+TGG 0.551049 8:-28313684 None:intergenic
ACTAATGTCTACAAATCCAT+TGG 0.553731 8:+28313780 MsG0880043644.01.T01:CDS
GGTTTGCACCTGCATGCAAT+GGG 0.557636 8:-28313683 None:intergenic
TGGAGAGCAGATTGCAGAGG+TGG 0.563665 8:+28314348 MsG0880043644.01.T01:CDS
GTCGTATGATAGAAACTACA+AGG 0.618512 8:+28312475 MsG0880043644.01.T01:CDS
ATAATTTGACGAGCAAGACC+GGG 0.620149 8:-28314402 None:intergenic
GAGCTGTTACAACAAGATCC+CGG 0.623013 8:+28314384 MsG0880043644.01.T01:CDS
ACTTGGAGAGCAGATTGCAG+AGG 0.701764 8:+28314345 MsG0880043644.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATAATTAATCAGTTTATT+TGG + Chr8:28313889-28313908 MsG0880043644.01.T01:intron 10.0%
!!! AAAAAAAAAAGTATAAAAGT+AGG + Chr8:28313099-28313118 MsG0880043644.01.T01:intron 10.0%
!! AAAAATTAGAGCAATAAAAA+AGG - Chr8:28312409-28312428 None:intergenic 15.0%
!! AAAATTAGAGCAATAAAAAA+GGG - Chr8:28312408-28312427 None:intergenic 15.0%
!! AATAATTTGAGAAAATGAAA+GGG + Chr8:28312825-28312844 MsG0880043644.01.T01:intron 15.0%
!! AGTTATATAAAAACCAATTA+AGG + Chr8:28313582-28313601 MsG0880043644.01.T01:intron 15.0%
!! TAATAATTTGAGAAAATGAA+AGG + Chr8:28312824-28312843 MsG0880043644.01.T01:intron 15.0%
!!! AATTTGAGTTTTTTTTATCA+AGG + Chr8:28312984-28313003 MsG0880043644.01.T01:intron 15.0%
!!! ATTATATTTCTGAAGAAAAA+TGG - Chr8:28313876-28313895 None:intergenic 15.0%
!!! TTATATTTCTGAAGAAAAAT+GGG - Chr8:28313875-28313894 None:intergenic 15.0%
!! ATTGAAATTGTAGAAGAAAA+AGG - Chr8:28312364-28312383 None:intergenic 20.0%
!! TCTAATACAATCTTAAATTG+TGG + Chr8:28314014-28314033 MsG0880043644.01.T01:intron 20.0%
!! TTGAAATTGTAGAAGAAAAA+GGG - Chr8:28312363-28312382 None:intergenic 20.0%
!!! ATGAATAATTGAACTTGTTT+TGG + Chr8:28312602-28312621 MsG0880043644.01.T01:intron 20.0%
!!! TGAATAATTGAACTTGTTTT+GGG + Chr8:28312603-28312622 MsG0880043644.01.T01:intron 20.0%
! AATATCAAGGTTTCCTTAAT+TGG - Chr8:28313598-28313617 None:intergenic 25.0%
! ACAGTGTCATAATTTATGAA+AGG - Chr8:28313249-28313268 None:intergenic 25.0%
! TCAAGAAGTTTATCCTTATT+AGG + Chr8:28313629-28313648 MsG0880043644.01.T01:CDS 25.0%
! TGAAATTGTAGAAGAAAAAG+GGG - Chr8:28312362-28312381 None:intergenic 25.0%
! TGGTATGTAAAAGATATCTT+AGG + Chr8:28313800-28313819 MsG0880043644.01.T01:intron 25.0%
! TGTTTGATGCATAAAAATGT+AGG + Chr8:28312434-28312453 MsG0880043644.01.T01:intron 25.0%
! TTCTACATGGTAAAAAGTAA+AGG + Chr8:28312935-28312954 MsG0880043644.01.T01:intron 25.0%
! TTTGTAGTAATAGACTAAGT+TGG + Chr8:28312661-28312680 MsG0880043644.01.T01:intron 25.0%
!! AGATATCTTTTACATACCAA+TGG - Chr8:28313799-28313818 None:intergenic 25.0%
!! ATATTCTTGCTGATTATACA+TGG + Chr8:28313138-28313157 MsG0880043644.01.T01:intron 25.0%
!! CTATTTTGTAGCATGTTAAT+AGG - Chr8:28313945-28313964 None:intergenic 25.0%
!! TATTCTTGCTGATTATACAT+GGG + Chr8:28313139-28313158 MsG0880043644.01.T01:intron 25.0%
!! TTTTTATCAAGGTTGAGTTT+GGG + Chr8:28312995-28313014 MsG0880043644.01.T01:intron 25.0%
!!! GAATAATTGAACTTGTTTTG+GGG + Chr8:28312604-28312623 MsG0880043644.01.T01:intron 25.0%
!!! TTTTTTATCAAGGTTGAGTT+TGG + Chr8:28312994-28313013 MsG0880043644.01.T01:intron 25.0%
AACTACAAGGAAATTAAAGC+AGG + Chr8:28312488-28312507 MsG0880043644.01.T01:CDS 30.0%
AAGGACATTTACTTGTAATG+CGG - Chr8:28314118-28314137 None:intergenic 30.0%
AATACCCTCACAAAAACAAA+AGG - Chr8:28312643-28312662 None:intergenic 30.0%
ACTAATGTCTACAAATCCAT+TGG + Chr8:28313780-28313799 MsG0880043644.01.T01:CDS 30.0%
AGAACAAAAGCTTCATTGTT+GGG + Chr8:28313965-28313984 MsG0880043644.01.T01:intron 30.0%
AGAAGTTTCCATAAAAGTGA+AGG - Chr8:28314141-28314160 None:intergenic 30.0%
AGTGAACAATAATATGGCTT+TGG + Chr8:28314305-28314324 MsG0880043644.01.T01:intron 30.0%
GATCTGAGTGAACAATAATA+TGG + Chr8:28314299-28314318 MsG0880043644.01.T01:intron 30.0%
GATGCAACATACAAATATCA+AGG - Chr8:28313611-28313630 None:intergenic 30.0%
GTCTTTATGCAAAAATAACC+AGG - Chr8:28313276-28313295 None:intergenic 30.0%
TGCTCTTTATGAAACTACTT+GGG - Chr8:28313045-28313064 None:intergenic 30.0%
TGTGTTACATGATACTACAT+TGG + Chr8:28313178-28313197 MsG0880043644.01.T01:intron 30.0%
TTGCTCTTTATGAAACTACT+TGG - Chr8:28313046-28313065 None:intergenic 30.0%
TTTGTAGACATTAGTATCGT+CGG - Chr8:28313775-28313794 None:intergenic 30.0%
! TAAGTTCTGATTTCTGAAAG+AGG + Chr8:28313534-28313553 MsG0880043644.01.T01:intron 30.0%
!! AATTATGACACTGTTTTTCC+TGG + Chr8:28313255-28313274 MsG0880043644.01.T01:intron 30.0%
!! AGTAAAGGTTAAAGTACTGA+AGG + Chr8:28312950-28312969 MsG0880043644.01.T01:intron 30.0%
!! GTAAAGGTTAAAGTACTGAA+GGG + Chr8:28312951-28312970 MsG0880043644.01.T01:intron 30.0%
!!! ACTTGTTTTGGGGATTATTA+TGG + Chr8:28312614-28312633 MsG0880043644.01.T01:intron 30.0%
!!! CAGTTTATTTGGTTTTTGCA+GGG + Chr8:28313900-28313919 MsG0880043644.01.T01:intron 30.0%
!!! CTTGTTTTGGGGATTATTAT+GGG + Chr8:28312615-28312634 MsG0880043644.01.T01:intron 30.0%
!!! TCAGTTTATTTGGTTTTTGC+AGG + Chr8:28313899-28313918 MsG0880043644.01.T01:intron 30.0%
AACCAACACTTCAGATTGAA+GGG - Chr8:28312917-28312936 None:intergenic 35.0%
AATTGTGGCCAGATTTGTAT+TGG + Chr8:28314029-28314048 MsG0880043644.01.T01:intron 35.0%
ACAGAGCTCAAAAGAATACT+TGG + Chr8:28314328-28314347 MsG0880043644.01.T01:intron 35.0%
AGTATAAGCACAGTACAGAT+AGG - Chr8:28313392-28313411 None:intergenic 35.0%
ATACTAGAATTGTGCTCTTC+TGG + Chr8:28313407-28313426 MsG0880043644.01.T01:intron 35.0%
GAGAACAAAAGCTTCATTGT+TGG + Chr8:28313964-28313983 MsG0880043644.01.T01:intron 35.0%
GTCGTATGATAGAAACTACA+AGG + Chr8:28312475-28312494 MsG0880043644.01.T01:CDS 35.0%
GTTTCCATAAAAGTGAAGGA+AGG - Chr8:28314137-28314156 None:intergenic 35.0%
TAGGCTTTCGTTGAAAATCA+AGG + Chr8:28312453-28312472 MsG0880043644.01.T01:intron 35.0%
TATATTATCCCATTGCATGC+AGG + Chr8:28313675-28313694 MsG0880043644.01.T01:CDS 35.0%
TATTACTACTTGTGTGTGCT+AGG + Chr8:28313469-28313488 MsG0880043644.01.T01:intron 35.0%
! AAAAGGGGATTGAGTTGTTA+CGG - Chr8:28312347-28312366 None:intergenic 35.0%
!! ATGTCCTTCCTTCACTTTTA+TGG + Chr8:28314130-28314149 MsG0880043644.01.T01:intron 35.0%
!! TGTTTCTTTGGAACGTATCT+GGG - Chr8:28313707-28313726 None:intergenic 35.0%
!!! GGTACCTTTTGTTTTTGTGA+GGG + Chr8:28312636-28312655 MsG0880043644.01.T01:intron 35.0%
ATAATTTGACGAGCAAGACC+GGG - Chr8:28314405-28314424 None:intergenic 40.0%
ATTGAAGGGTTGTCTAGTGT+CGG - Chr8:28312903-28312922 None:intergenic 40.0%
CAGATTTGTATTGGAGACGA+AGG + Chr8:28314038-28314057 MsG0880043644.01.T01:intron 40.0%
CATAATTTGACGAGCAAGAC+CGG - Chr8:28314406-28314425 None:intergenic 40.0%
CTTCGTCTCCAATACAAATC+TGG - Chr8:28314040-28314059 None:intergenic 40.0%
GAACCAACACTTCAGATTGA+AGG - Chr8:28312918-28312937 None:intergenic 40.0%
! AACCCTTCAATCTGAAGTGT+TGG + Chr8:28312912-28312931 MsG0880043644.01.T01:intron 40.0%
! ACGCTTCTTGTCTGTTTCTT+TGG - Chr8:28313719-28313738 None:intergenic 40.0%
! GTCTAAAGCAACGCCTAATA+AGG - Chr8:28313645-28313664 None:intergenic 40.0%
!! AAGGTTAAAGTACTGAAGGG+AGG + Chr8:28312954-28312973 MsG0880043644.01.T01:intron 40.0%
!! CTGTTTCTTTGGAACGTATC+TGG - Chr8:28313708-28313727 None:intergenic 40.0%
!! TCTGAAGTGTTGGTTCTACA+TGG + Chr8:28312922-28312941 MsG0880043644.01.T01:intron 40.0%
!!! GAAGCGTGCTTTTTTGACAA+TGG + Chr8:28313732-28313751 MsG0880043644.01.T01:CDS 40.0%
!!! GGGTACCTTTTGTTTTTGTG+AGG + Chr8:28312635-28312654 MsG0880043644.01.T01:intron 40.0%
CGAACAGGAGAACAAGTTCA+AGG + Chr8:28314074-28314093 MsG0880043644.01.T01:intron 45.0%
GAGCTGTTACAACAAGATCC+CGG + Chr8:28314384-28314403 MsG0880043644.01.T01:CDS 45.0%
GGCAACGTTAATGAACGAAC+AGG + Chr8:28314059-28314078 MsG0880043644.01.T01:intron 45.0%
GTGTCTGACATCGACAAATG+TGG - Chr8:28312870-28312889 None:intergenic 45.0%
TACTTGTGTGTGCTAGGATG+TGG + Chr8:28313475-28313494 MsG0880043644.01.T01:intron 45.0%
!!! GCGTGCTTTTTTGACAATGG+AGG + Chr8:28313735-28313754 MsG0880043644.01.T01:CDS 45.0%
ACTTGGAGAGCAGATTGCAG+AGG + Chr8:28314345-28314364 MsG0880043644.01.T01:CDS 50.0%
GATTATACATGGGCGAGTGG+TGG + Chr8:28313149-28313168 MsG0880043644.01.T01:intron 50.0%
GCTGATTATACATGGGCGAG+TGG + Chr8:28313146-28313165 MsG0880043644.01.T01:intron 50.0%
GGTTTGCACCTGCATGCAAT+GGG - Chr8:28313686-28313705 None:intergenic 50.0%
TGCAGGGAAAACGTAAGTCG+TGG + Chr8:28313916-28313935 MsG0880043644.01.T01:intron 50.0%
! GTCTAGTGTCGGACACGTAA+TGG - Chr8:28312892-28312911 None:intergenic 50.0%
GACAATGGAGGAGCTGAAGC+AGG + Chr8:28313747-28313766 MsG0880043644.01.T01:CDS 55.0%
GGGTTTGCACCTGCATGCAA+TGG - Chr8:28313687-28313706 None:intergenic 55.0%
TGGAGAGCAGATTGCAGAGG+TGG + Chr8:28314348-28314367 MsG0880043644.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr8 gene 28312313 28314445 28312313 ID=MsG0880043644.01;Name=MsG0880043644.01
Chr8 mRNA 28312313 28314445 28312313 ID=MsG0880043644.01.T01;Parent=MsG0880043644.01;Name=MsG0880043644.01.T01;_AED=0.50;_eAED=0.63;_QI=0|0|0|1|0|0|4|0|132
Chr8 exon 28312313 28312345 28312313 ID=MsG0880043644.01.T01:exon:37925;Parent=MsG0880043644.01.T01
Chr8 exon 28312456 28312509 28312456 ID=MsG0880043644.01.T01:exon:37926;Parent=MsG0880043644.01.T01
Chr8 exon 28313604 28313801 28313604 ID=MsG0880043644.01.T01:exon:37927;Parent=MsG0880043644.01.T01
Chr8 exon 28314332 28314445 28314332 ID=MsG0880043644.01.T01:exon:37928;Parent=MsG0880043644.01.T01
Chr8 CDS 28312313 28312345 28312313 ID=MsG0880043644.01.T01:cds;Parent=MsG0880043644.01.T01
Chr8 CDS 28312456 28312509 28312456 ID=MsG0880043644.01.T01:cds;Parent=MsG0880043644.01.T01
Chr8 CDS 28313604 28313801 28313604 ID=MsG0880043644.01.T01:cds;Parent=MsG0880043644.01.T01
Chr8 CDS 28314332 28314445 28314332 ID=MsG0880043644.01.T01:cds;Parent=MsG0880043644.01.T01
Gene Sequence

>MsG0880043644.01.T01

ATGATTGATATGGCAGACGAATCGATCAAAACCGCTTTCGTTGAAAATCAAGGTCGTATGATAGAAACTACAAGGAAATTAAAGCAGGAAACCTTGATATTTGTATGTTGCATCAAGAAGTTTATCCTTATTAGGCGTTGCTTTAGACTCTTTAAATTTATATTATCCCATTGCATGCAGGTGCAAACCCAGATACGTTCCAAAGAAACAGACAAGAAGCGTGCTTTTTTGACAATGGAGGAGCTGAAGCAGGTTCCGACGATACTAATGTCTACAAATCCATTGAGCTCAAAAGAATACTTGGAGAGCAGATTGCAGAGGTGGAAAACATTTGAGAGAGCTGTTACAACAAGATCCCGGTCTTGCTCGTCAAATTATGTCAATGAATGTGTAATGTAA
Protein sequence

>MsG0880043644.01.T01

MIDMADESIKTAFVENQGRMIETTRKLKQETLIFVCCIKKFILIRRCFRLFKFILSHCMQVQTQIRSKETDKKRAFLTMEELKQVPTILMSTNPLSSKEYLESRLQRWKTFERAVTTRSRSCSSNYVNECVM*