AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880046283.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046283.01.T01 MTR_4g104770 61.798 178 21 2 22 152 25 202 7.01e-67 202
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 39 sgRNAs with CRISPR-Local

Find 107 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAGAAATTCATGATGCTAAA+AGG 0.301646 8:-71525656 MsG0880046283.01.T01:intron
TGAATTTCAAAGTCACAAAA+AGG 0.312163 8:+71526255 None:intergenic
TCTGAATGCGGCGACAATTA+TGG 0.314338 8:-71524547 MsG0880046283.01.T01:three_prime_UTR
ACGACTACCAATCTGATTTC+CGG 0.328121 8:-71526281 MsG0880046283.01.T01:CDS
TTATTGCGGTGCATCGGTTT+AGG 0.329946 8:-71524794 MsG0880046283.01.T01:three_prime_UTR
TATATCCTTGTTGCTGAGGC+TGG 0.334023 8:+71525677 None:intergenic
GGATGGTTACTGTTATAGTT+AGG 0.393466 8:+71525711 None:intergenic
CAATAAAACCCAGTGCCTCT+TGG 0.395260 8:+71524811 None:intergenic
CGATTCTTGTTTGTTTCCCC+TGG 0.400748 8:+71525777 None:intergenic
TAGCCTATGTATTCTGATAC+TGG 0.401247 8:-71524846 MsG0880046283.01.T01:three_prime_UTR
AATACATATGAAATACATAT+TGG 0.418315 8:+71524738 None:intergenic
CTCTGCAGGTCTGGGACTGA+TGG 0.422328 8:-71525026 MsG0880046283.01.T01:intron
AGATCAACTTTAATTAATAG+AGG 0.437678 8:+71524710 None:intergenic
TGGGACTGATGGTGTTGATC+AGG 0.442872 8:-71525015 MsG0880046283.01.T01:CDS
TTTATGAGAAACTCTAAGAA+TGG 0.443810 8:+71524585 None:intergenic
ATTACTGTGTAATCTTAAGT+TGG 0.461051 8:-71524614 MsG0880046283.01.T01:three_prime_UTR
GATGCTGGTCCAAGAGGCAC+TGG 0.477869 8:-71524820 MsG0880046283.01.T01:three_prime_UTR
TTCTGATACTGGTATGATGC+TGG 0.486394 8:-71524835 MsG0880046283.01.T01:three_prime_UTR
TTGGCAAGAAATTAGCTGCC+AGG 0.499528 8:-71525795 MsG0880046283.01.T01:intron
TTTCTATATCCTTGTTGCTG+AGG 0.501840 8:+71525673 None:intergenic
TAGAGTTTCTCATAAAACTC+AGG 0.505687 8:-71524578 MsG0880046283.01.T01:three_prime_UTR
TTACTGTTATAGTTAGGAAT+CGG 0.515367 8:+71525717 None:intergenic
TGAATGGTGACAAAGCGATC+AGG 0.526134 8:+71525751 None:intergenic
TGGCAAGAAATTAGCTGCCA+GGG 0.528561 8:-71525794 MsG0880046283.01.T01:intron
AAGGACACCGGAAATCAGAT+TGG 0.531075 8:+71526274 None:intergenic
CGTAATTCGTTACGCAGATG+TGG 0.536179 8:-71526307 MsG0880046283.01.T01:CDS
ATCGGCACATTGCAGATGAA+TGG 0.536749 8:+71525735 None:intergenic
TCGACAAGAACAAGAGTTGA+GGG 0.554010 8:-71524991 MsG0880046283.01.T01:CDS
ATTCAAGTTCCTCTCTGCAG+TGG 0.558492 8:-71526237 MsG0880046283.01.T01:CDS
TTGCGGTGCATCGGTTTAGG+AGG 0.566992 8:-71524791 MsG0880046283.01.T01:three_prime_UTR
ATCGACAAGAACAAGAGTTG+AGG 0.587076 8:-71524992 MsG0880046283.01.T01:CDS
ATACCAGTATCAGAATACAT+AGG 0.624585 8:+71524843 None:intergenic
ATGCTGGTCCAAGAGGCACT+GGG 0.630608 8:-71524819 MsG0880046283.01.T01:three_prime_UTR
AAACTCCAGCCTCAGCAACA+AGG 0.631763 8:-71525682 MsG0880046283.01.T01:CDS
CAGGAAAACCACTCTGAATG+CGG 0.634818 8:-71524559 MsG0880046283.01.T01:three_prime_UTR
TGGTATGATGCTGGTCCAAG+AGG 0.643384 8:-71524826 MsG0880046283.01.T01:three_prime_UTR
GGCAAGAAATTAGCTGCCAG+GGG 0.643511 8:-71525793 MsG0880046283.01.T01:intron
AATTGTCGCCGCATTCAGAG+TGG 0.680908 8:+71524551 None:intergenic
TCTTCAAAACCACTGCAGAG+AGG 0.704871 8:+71526228 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTATTTTTATATAAAGTG+GGG - Chr8:71524998-71525017 MsG0880046283.01.T01:CDS 10.0%
!! AATACATATGAAATACATAT+TGG + Chr8:71526128-71526147 None:intergenic 15.0%
!! TAATTATAATTGAAGTTTGA+AGG - Chr8:71525450-71525469 MsG0880046283.01.T01:intron 15.0%
!! TATTTAATAGACTCTATTTA+AGG + Chr8:71525590-71525609 None:intergenic 15.0%
!!! CTATTAAATATTCTTTTGAA+AGG - Chr8:71525600-71525619 MsG0880046283.01.T01:intron 15.0%
!!! TAGTTTTTCTTAGTTATTTT+AGG - Chr8:71525485-71525504 MsG0880046283.01.T01:intron 15.0%
!!! TATAACTATTTTCAATTCTT+TGG - Chr8:71526351-71526370 MsG0880046283.01.T01:CDS 15.0%
!!! TTTATTTTTATATAAAGTGG+GGG - Chr8:71524999-71525018 MsG0880046283.01.T01:CDS 15.0%
!! AATGTAAAAAACTTAAACAC+AGG + Chr8:71525773-71525792 None:intergenic 20.0%
!! AGATCAACTTTAATTAATAG+AGG + Chr8:71526156-71526175 None:intergenic 20.0%
!! ATTATAATTACCATCATCAT+AGG + Chr8:71525440-71525459 None:intergenic 20.0%
!!! AAATATGTGATCCTATTTTT+TGG - Chr8:71524786-71524805 MsG0880046283.01.T01:three_prime_UTR 20.0%
! AATTTAAGGAAACGGAAAAA+AGG + Chr8:71524695-71524714 None:intergenic 25.0%
! ATTACTGTGTAATCTTAAGT+TGG - Chr8:71526249-71526268 MsG0880046283.01.T01:CDS 25.0%
! TAGAAATTCATGATGCTAAA+AGG - Chr8:71525207-71525226 MsG0880046283.01.T01:intron 25.0%
! TATACAATATAAGCTTCTCA+AGG + Chr8:71525287-71525306 None:intergenic 25.0%
! TATTGTATAATGCATCACAT+AGG - Chr8:71525298-71525317 MsG0880046283.01.T01:intron 25.0%
! TGAATTTCAAAGTCACAAAA+AGG + Chr8:71524611-71524630 None:intergenic 25.0%
! TTACTGTTATAGTTAGGAAT+CGG + Chr8:71525149-71525168 None:intergenic 25.0%
!! AATTACGAAGTAATTTTCTG+TGG + Chr8:71524543-71524562 None:intergenic 25.0%
!! GATTTTATCAACCATATTTG+AGG - Chr8:71525914-71525933 MsG0880046283.01.T01:intron 25.0%
!! TGAACAATTTTCCTCAAATA+TGG + Chr8:71525928-71525947 None:intergenic 25.0%
!! TTTATGAGAAACTCTAAGAA+TGG + Chr8:71526281-71526300 None:intergenic 25.0%
!! TTTTCCGTTTCCTTAAATTT+TGG - Chr8:71524696-71524715 MsG0880046283.01.T01:three_prime_UTR 25.0%
!!! AAAGGTTATACCACATTTTT+TGG + Chr8:71524677-71524696 None:intergenic 25.0%
!!! AAGGTTATACCACATTTTTT+GGG + Chr8:71524676-71524695 None:intergenic 25.0%
ATACCAGTATCAGAATACAT+AGG + Chr8:71526023-71526042 None:intergenic 30.0%
ATTCCTCTTATCAGAATTAC+TGG - Chr8:71525513-71525532 MsG0880046283.01.T01:intron 30.0%
CAGACCAAAATTTAAGGAAA+CGG + Chr8:71524703-71524722 None:intergenic 30.0%
CATAAAGTCAAAACATATGC+AGG + Chr8:71524935-71524954 None:intergenic 30.0%
GTTTACTTGCATAAAACGTA+TGG + Chr8:71524758-71524777 None:intergenic 30.0%
TAGACTCTATTTAAGGATGA+TGG + Chr8:71525583-71525602 None:intergenic 30.0%
TAGAGTTTCTCATAAAACTC+AGG - Chr8:71526285-71526304 MsG0880046283.01.T01:CDS 30.0%
TCAATACAATGTATTGAGTC+AGG + Chr8:71524972-71524991 None:intergenic 30.0%
TTTCTCTGAGTTTATAGTTG+TGG - Chr8:71525239-71525258 MsG0880046283.01.T01:intron 30.0%
! ATTTTTATATAAAGTGGGGG+TGG - Chr8:71525002-71525021 MsG0880046283.01.T01:CDS 30.0%
! TGAGTCTAAAACTTCTTACT+TGG + Chr8:71525697-71525716 None:intergenic 30.0%
!!! AGGTTATACCACATTTTTTG+GGG + Chr8:71524675-71524694 None:intergenic 30.0%
!!! CTGCATATGTTTTGACTTTA+TGG - Chr8:71524933-71524952 MsG0880046283.01.T01:exon 30.0%
AGTTTATAGTTGTGGTGAGT+TGG - Chr8:71525247-71525266 MsG0880046283.01.T01:intron 35.0%
ATGTAGAGAAAAAGATACGC+AGG - Chr8:71526205-71526224 MsG0880046283.01.T01:CDS 35.0%
CCTGTGTGTGAAGAAATTTA+GGG - Chr8:71524823-71524842 MsG0880046283.01.T01:three_prime_UTR 35.0%
GGATGGTTACTGTTATAGTT+AGG + Chr8:71525155-71525174 None:intergenic 35.0%
GTTTGATTCTGATGGTTTCT+TGG - Chr8:71525386-71525405 MsG0880046283.01.T01:intron 35.0%
TAATCTGCAAGGCTGTAAAT+AGG + Chr8:71525656-71525675 None:intergenic 35.0%
TACCATCATCATAGGTTAGT+TGG + Chr8:71525432-71525451 None:intergenic 35.0%
TACTGCCAGACCAAAATTTA+AGG + Chr8:71524709-71524728 None:intergenic 35.0%
TAGCCAGTAATTCTGATAAG+AGG + Chr8:71525519-71525538 None:intergenic 35.0%
TAGCCTATGTATTCTGATAC+TGG - Chr8:71526017-71526036 MsG0880046283.01.T01:intron 35.0%
TCCTGTGTGTGAAGAAATTT+AGG - Chr8:71524822-71524841 MsG0880046283.01.T01:three_prime_UTR 35.0%
TCTATGAGGTTTGATTCTGA+TGG - Chr8:71525378-71525397 MsG0880046283.01.T01:intron 35.0%
TTTCTATATCCTTGTTGCTG+AGG + Chr8:71525193-71525212 None:intergenic 35.0%
! AAACTTCTTACTTGGTGGTT+CGG + Chr8:71525689-71525708 None:intergenic 35.0%
! AACCTGAGGTACCAAAAAAT+AGG + Chr8:71524800-71524819 None:intergenic 35.0%
! GTCTAAAACTTCTTACTTGG+TGG + Chr8:71525694-71525713 None:intergenic 35.0%
! TTTTAATCATGACAGCGTCA+GGG + Chr8:71525742-71525761 None:intergenic 35.0%
! TTTTTAATCATGACAGCGTC+AGG + Chr8:71525743-71525762 None:intergenic 35.0%
!! CGTTTCCTTAAATTTTGGTC+TGG - Chr8:71524701-71524720 MsG0880046283.01.T01:three_prime_UTR 35.0%
!! GCTAGCTTGTATTTTCTATG+AGG - Chr8:71525364-71525383 MsG0880046283.01.T01:intron 35.0%
!!! ATCCTATTTTTTGGTACCTC+AGG - Chr8:71524795-71524814 MsG0880046283.01.T01:three_prime_UTR 35.0%
ACGACTACCAATCTGATTTC+CGG - Chr8:71524582-71524601 MsG0880046283.01.T01:three_prime_UTR 40.0%
AGACTGAGAAATCTAGCATC+TGG - Chr8:71525026-71525045 MsG0880046283.01.T01:intron 40.0%
ATCGACAAGAACAAGAGTTG+AGG - Chr8:71525871-71525890 MsG0880046283.01.T01:intron 40.0%
CAAAGTCACAAAAAGGACAC+CGG + Chr8:71524604-71524623 None:intergenic 40.0%
CCCTAAATTTCTTCACACAC+AGG + Chr8:71524826-71524845 None:intergenic 40.0%
GCACTTGACTATAATCTGCA+AGG + Chr8:71525667-71525686 None:intergenic 40.0%
TCGACAAGAACAAGAGTTGA+GGG - Chr8:71525872-71525891 MsG0880046283.01.T01:intron 40.0%
TCTGGTAACTCAGCAATGTT+TGG - Chr8:71525049-71525068 MsG0880046283.01.T01:intron 40.0%
TGCCAACTAACCTATGATGA+TGG - Chr8:71525427-71525446 MsG0880046283.01.T01:intron 40.0%
TTCTGATACTGGTATGATGC+TGG - Chr8:71526028-71526047 MsG0880046283.01.T01:intron 40.0%
TTGCTCTTCCCCAAAAAATG+TGG - Chr8:71524664-71524683 MsG0880046283.01.T01:three_prime_UTR 40.0%
!!! TATGCTGATTTTGTCTCTGC+AGG - Chr8:71525823-71525842 MsG0880046283.01.T01:intron 40.0%
AAGGACACCGGAAATCAGAT+TGG + Chr8:71524592-71524611 None:intergenic 45.0%
ATCGGCACATTGCAGATGAA+TGG + Chr8:71525131-71525150 None:intergenic 45.0%
CAATAAAACCCAGTGCCTCT+TGG + Chr8:71526055-71526074 None:intergenic 45.0%
CAGGAAAACCACTCTGAATG+CGG - Chr8:71526304-71526323 MsG0880046283.01.T01:CDS 45.0%
CGTAATTCGTTACGCAGATG+TGG - Chr8:71524556-71524575 MsG0880046283.01.T01:three_prime_UTR 45.0%
GAGAAATCTAGCATCTGGTC+TGG - Chr8:71525031-71525050 MsG0880046283.01.T01:intron 45.0%
TACACATTCAAGCTCGCGAA+AGG - Chr8:71524866-71524885 MsG0880046283.01.T01:three_prime_UTR 45.0%
TATATCCTTGTTGCTGAGGC+TGG + Chr8:71525189-71525208 None:intergenic 45.0%
TCTGAATGCGGCGACAATTA+TGG - Chr8:71526316-71526335 MsG0880046283.01.T01:CDS 45.0%
TCTTCAAAACCACTGCAGAG+AGG + Chr8:71524638-71524657 None:intergenic 45.0%
TGAATGGTGACAAAGCGATC+AGG + Chr8:71525115-71525134 None:intergenic 45.0%
TGGCAAGAAATTAGCTGCCA+GGG - Chr8:71525069-71525088 MsG0880046283.01.T01:intron 45.0%
TTGGCAAGAAATTAGCTGCC+AGG - Chr8:71525068-71525087 MsG0880046283.01.T01:intron 45.0%
! ATTCAAGTTCCTCTCTGCAG+TGG - Chr8:71524626-71524645 MsG0880046283.01.T01:three_prime_UTR 45.0%
! CGATTCTTGTTTGTTTCCCC+TGG + Chr8:71525089-71525108 None:intergenic 45.0%
! GATTTTGTCTCTGCAGGTCT+GGG - Chr8:71525829-71525848 MsG0880046283.01.T01:intron 45.0%
! TGATTTTGTCTCTGCAGGTC+TGG - Chr8:71525828-71525847 MsG0880046283.01.T01:intron 45.0%
!! TTATTGCGGTGCATCGGTTT+AGG - Chr8:71526069-71526088 MsG0880046283.01.T01:intron 45.0%
!!! AGAGGCACTGGGTTTTATTG+CGG - Chr8:71526055-71526074 MsG0880046283.01.T01:intron 45.0%
!!! TCTCTGCAGTGGTTTTGAAG+AGG - Chr8:71524637-71524656 MsG0880046283.01.T01:three_prime_UTR 45.0%
!!! TGGGTTTTATTGCGGTGCAT+CGG - Chr8:71526063-71526082 MsG0880046283.01.T01:intron 45.0%
!!! TATTTATTTTTATATAAAGT+GGG - Chr8:71524997-71525016 MsG0880046283.01.T01:CDS 5.0%
!!! TTATTTATTTTTATATAAAG+TGG - Chr8:71524996-71525015 MsG0880046283.01.T01:CDS 5.0%
AAACTCCAGCCTCAGCAACA+AGG - Chr8:71525181-71525200 MsG0880046283.01.T01:intron 50.0%
AATTGTCGCCGCATTCAGAG+TGG + Chr8:71526315-71526334 None:intergenic 50.0%
GGCAAGAAATTAGCTGCCAG+GGG - Chr8:71525070-71525089 MsG0880046283.01.T01:intron 50.0%
TCACACACAGGACAAACCTG+AGG + Chr8:71524814-71524833 None:intergenic 50.0%
TGGTATGATGCTGGTCCAAG+AGG - Chr8:71526037-71526056 MsG0880046283.01.T01:intron 50.0%
! CTGAGGCTGGAGTTTTCATC+TGG + Chr8:71525176-71525195 None:intergenic 50.0%
! GGCTGGAGTTTTCATCTGGA+TGG + Chr8:71525172-71525191 None:intergenic 50.0%
!! TGGGACTGATGGTGTTGATC+AGG - Chr8:71525848-71525867 MsG0880046283.01.T01:intron 50.0%
!! ATGCTGGTCCAAGAGGCACT+GGG - Chr8:71526044-71526063 MsG0880046283.01.T01:intron 55.0%
!! TTGCGGTGCATCGGTTTAGG+AGG - Chr8:71526072-71526091 MsG0880046283.01.T01:intron 55.0%
! CTCTGCAGGTCTGGGACTGA+TGG - Chr8:71525837-71525856 MsG0880046283.01.T01:intron 60.0%
! GATGCTGGTCCAAGAGGCAC+TGG - Chr8:71526043-71526062 MsG0880046283.01.T01:intron 60.0%
Chromosome Type Strat End Strand Name
Chr8 gene 71524479 71526406 71524479 ID=MsG0880046283.01;Name=MsG0880046283.01
Chr8 mRNA 71524479 71526406 71524479 ID=MsG0880046283.01.T01;Parent=MsG0880046283.01;Name=MsG0880046283.01.T01;_AED=0.37;_eAED=0.41;_QI=0|0.5|0.33|1|1|1|3|456|152
Chr8 exon 71524479 71525040 71524479 ID=MsG0880046283.01.T01:exon:27857;Parent=MsG0880046283.01.T01
Chr8 exon 71525657 71525802 71525657 ID=MsG0880046283.01.T01:exon:27856;Parent=MsG0880046283.01.T01
Chr8 exon 71526200 71526406 71526200 ID=MsG0880046283.01.T01:exon:27855;Parent=MsG0880046283.01.T01
Chr8 CDS 71526200 71526406 71526200 ID=MsG0880046283.01.T01:cds;Parent=MsG0880046283.01.T01
Chr8 CDS 71525657 71525802 71525657 ID=MsG0880046283.01.T01:cds;Parent=MsG0880046283.01.T01
Chr8 CDS 71524935 71525040 71524935 ID=MsG0880046283.01.T01:cds;Parent=MsG0880046283.01.T01
Chr8 three_prime_UTR 71524479 71524934 71524479 ID=MsG0880046283.01.T01:three_prime_utr;Parent=MsG0880046283.01.T01
Gene Sequence

>MsG0880046283.01.T01

ATGCTATATAGAATCATTGTGCTTGTGCTACAAAAGCTTTCTAACAATGATCATATTCATACCACAGAAAATTACTTCGTAATTCGTTACGCAGATGTGGATGACGACTACCAATCTGATTTCCGGTGTCCTTTTTGTGACTTTGAAATTCAAGTTCCTCTCTGCAGTGGTTTTGAAGAGGAGTATTGCTCTTCCCCAAAAAATGTGCTGCCAGGGGAAACAAACAAGAATCGATACCTGATCGCTTTGTCACCATTCATCTGCAATGTGCCGATTCCTAACTATAACAGTAACCATCCAGATGAAAACTCCAGCCTCAGCAACAAGGATATAGAAATTCATGATGCTAAAAGGTCTGGGACTGATGGTGTTGATCAGGATCGACAAGAACAAGAGTTGAGGGCAACTTTTGTTCAAAAGTTGATTTTATCAACCATATTTGAGGAAAATTGTTCATAG
Protein sequence

>MsG0880046283.01.T01

MLYRIIVLVLQKLSNNDHIHTTENYFVIRYADVDDDYQSDFRCPFCDFEIQVPLCSGFEEEYCSSPKNVLPGETNKNRYLIALSPFICNVPIPNYNSNHPDENSSLSNKDIEIHDAKRSGTDGVDQDRQEQELRATFVQKLILSTIFEENCS*