AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580025014.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580025014.01.T01 MTR_7g062720 39.286 140 78 2 2 140 9 142 6.43e-31 114
MsG0580025014.01.T01 MTR_5g061150 33.036 112 75 0 33 144 25 136 2.12e-18 80.5
MsG0580025014.01.T01 MTR_4g112730 57.971 69 28 1 137 205 2 69 3.21e-18 78.6
MsG0580025014.01.T01 MTR_4g037355 38.333 120 52 3 149 250 1 116 6.08e-18 79.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 50 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTATTATTGCCCTCATTAA+TGG 0.192737 5:+12824880 MsG0580025014.01.T01:CDS
TGGATCAATGGAACAAATTA+AGG 0.196151 5:+12824900 MsG0580025014.01.T01:CDS
AAAGTTGTGGCGTTTATTTC+AGG 0.203868 5:-12825196 None:intergenic
CAAAAGATCCAAAGATCTTA+TGG 0.233209 5:+12824822 MsG0580025014.01.T01:CDS
GACAAAATTAAAGCAAGATT+TGG 0.252197 5:+12824845 MsG0580025014.01.T01:CDS
GATTCTTGAGGGAGACGATT+TGG 0.271296 5:+12824703 MsG0580025014.01.T01:CDS
CTCAATTAAGTTGTTGTTCC+AGG 0.274617 5:-12824654 None:intergenic
ATTTGCTGAATACTCTGATT+TGG 0.332518 5:+12825090 MsG0580025014.01.T01:CDS
AGACAGGTAGTGTCATTCTT+TGG 0.344985 5:-12825566 None:intergenic
ATTCTTGAGGGAGACGATTT+GGG 0.354692 5:+12824704 MsG0580025014.01.T01:CDS
GATTTCTAGAGGGACCTTCC+TGG 0.373636 5:-12825409 None:intergenic
CATAGCCACCACGTCCTCTT+TGG 0.374275 5:-12825245 None:intergenic
CGTGGTGGCTATGCTCGTTT+TGG 0.395091 5:+12825255 MsG0580025014.01.T01:CDS
ACAAAATTAAAGCAAGATTT+GGG 0.407053 5:+12824846 MsG0580025014.01.T01:CDS
CAAAGAATCTGTGGATGAAA+AGG 0.424603 5:+12825514 MsG0580025014.01.T01:CDS
TGCCCTCATTAATGGATCAA+TGG 0.432677 5:+12824888 MsG0580025014.01.T01:CDS
AAAAGATCCAAAGATCTTAT+GGG 0.436250 5:+12824823 MsG0580025014.01.T01:CDS
TATAACTGAAGTGGAAAAGT+TGG 0.441180 5:+12825003 MsG0580025014.01.T01:CDS
AACCATCAGCTGCGTCCTAC+AGG 0.465355 5:+12825160 MsG0580025014.01.T01:CDS
AACAAGAATCATCAGGGAAA+AGG 0.472157 5:+12825377 MsG0580025014.01.T01:intron
ATCAAGCACCACATTGATGA+TGG 0.492315 5:+12824776 MsG0580025014.01.T01:CDS
CTGGCGACAACTACATAACC+TGG 0.502097 5:+12824636 MsG0580025014.01.T01:CDS
GATGCGGAAAGAAAGGTCAT+TGG 0.503149 5:+12825450 MsG0580025014.01.T01:CDS
ATGCGGAAAGAAAGGTCATT+GGG 0.509313 5:+12825451 MsG0580025014.01.T01:CDS
GTTCCATTGATCCATTAATG+AGG 0.509644 5:-12824891 None:intergenic
TGTTATAGATGCGGAAAGAA+AGG 0.513070 5:+12825443 MsG0580025014.01.T01:CDS
GGACTAGACAAGATTCTTGA+GGG 0.521095 5:+12824692 MsG0580025014.01.T01:CDS
TGCAACAACAATATAGAATG+AGG 0.523271 5:+12825065 MsG0580025014.01.T01:CDS
TTCCATTGATCCATTAATGA+GGG 0.533283 5:-12824890 None:intergenic
TTCCTGTAGGACGCAGCTGA+TGG 0.535010 5:-12825162 None:intergenic
AAAATCAGCAGCTTCAAGAC+AGG 0.547335 5:-12825582 None:intergenic
TGGCAAAACTATAACTGAAG+TGG 0.552382 5:+12824994 MsG0580025014.01.T01:CDS
GTCATTGGGCTAAAACATGC+AGG 0.564978 5:+12825465 MsG0580025014.01.T01:CDS
AATTGAGTATCTTGCATGTG+AGG 0.565013 5:+12824670 MsG0580025014.01.T01:CDS
ATTGAGTATCTTGCATGTGA+GGG 0.575966 5:+12824671 MsG0580025014.01.T01:CDS
GGATATGCCATTGTTCCTGT+AGG 0.578642 5:-12825175 None:intergenic
TTTGGTTGCAGCTCTTCTAG+TGG 0.579996 5:+12825108 MsG0580025014.01.T01:CDS
GCAACAACAATATAGAATGA+GGG 0.604762 5:+12825066 MsG0580025014.01.T01:CDS
ACGCCCTTGATTAAAAGTTG+TGG 0.608515 5:-12825209 None:intergenic
ACTATCATCATGATTTCTAG+AGG 0.612820 5:-12825420 None:intergenic
GGGACTAGACAAGATTCTTG+AGG 0.613207 5:+12824691 MsG0580025014.01.T01:CDS
TTTAATCGCCAAAGAGGACG+TGG 0.613596 5:+12825237 MsG0580025014.01.T01:CDS
GATGATAGTTGTTATAGATG+CGG 0.625079 5:+12825434 MsG0580025014.01.T01:CDS
TAAAAGATACAAAGAATCTG+TGG 0.628320 5:+12825505 MsG0580025014.01.T01:CDS
TGGTGGTTTAATCGCCAAAG+AGG 0.644382 5:+12825231 MsG0580025014.01.T01:CDS
GCTGCGTCCTACAGGAACAA+TGG 0.649882 5:+12825168 MsG0580025014.01.T01:CDS
CTATCATCATGATTTCTAGA+GGG 0.659075 5:-12825419 None:intergenic
AATCGCCAAAGAGGACGTGG+TGG 0.710207 5:+12825240 MsG0580025014.01.T01:CDS
TTTGTAATCCATCATCAATG+TGG 0.715751 5:-12824784 None:intergenic
CGATTTGGGAGATGTCCCAG+CGG 0.719258 5:+12824718 MsG0580025014.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACAAAATTAAAGCAAGATTT+GGG + Chr5:12824846-12824865 MsG0580025014.01.T01:CDS 20.0%
!!! ATTCAAATTTTAAGCATAAC+TGG + Chr5:12824617-12824636 MsG0580025014.01.T01:CDS 20.0%
! AAAAGATCCAAAGATCTTAT+GGG + Chr5:12824823-12824842 MsG0580025014.01.T01:CDS 25.0%
! GAAGAGGTTATATGAATTAT+AGG + Chr5:12825333-12825352 MsG0580025014.01.T01:intron 25.0%
! GACAAAATTAAAGCAAGATT+TGG + Chr5:12824845-12824864 MsG0580025014.01.T01:CDS 25.0%
! TAAAAGATACAAAGAATCTG+TGG + Chr5:12825505-12825524 MsG0580025014.01.T01:CDS 25.0%
!! ATTGCACAATTAGAATTTTG+TGG + Chr5:12824974-12824993 MsG0580025014.01.T01:CDS 25.0%
!!! CAACAACAGTTTTATAATCT+TGG - Chr5:12824928-12824947 None:intergenic 25.0%
!!! TGTTGAAGGAGATTTTAATA+TGG + Chr5:12825604-12825623 MsG0580025014.01.T01:CDS 25.0%
AGTATTATTGCCCTCATTAA+TGG + Chr5:12824880-12824899 MsG0580025014.01.T01:CDS 30.0%
CAAAAGATCCAAAGATCTTA+TGG + Chr5:12824822-12824841 MsG0580025014.01.T01:CDS 30.0%
CAATCAAACAAGAATCATCA+GGG + Chr5:12825371-12825390 MsG0580025014.01.T01:intron 30.0%
GATGATAGTTGTTATAGATG+CGG + Chr5:12825434-12825453 MsG0580025014.01.T01:CDS 30.0%
GCAACAACAATATAGAATGA+GGG + Chr5:12825066-12825085 MsG0580025014.01.T01:CDS 30.0%
TATAACTGAAGTGGAAAAGT+TGG + Chr5:12825003-12825022 MsG0580025014.01.T01:CDS 30.0%
TGCAACAACAATATAGAATG+AGG + Chr5:12825065-12825084 MsG0580025014.01.T01:CDS 30.0%
TGGATCAATGGAACAAATTA+AGG + Chr5:12824900-12824919 MsG0580025014.01.T01:CDS 30.0%
TTCCATTGATCCATTAATGA+GGG - Chr5:12824893-12824912 None:intergenic 30.0%
TTTGTAATCCATCATCAATG+TGG - Chr5:12824787-12824806 None:intergenic 30.0%
! ACTATCATCATGATTTCTAG+AGG - Chr5:12825423-12825442 None:intergenic 30.0%
! ATTTGCTGAATACTCTGATT+TGG + Chr5:12825090-12825109 MsG0580025014.01.T01:CDS 30.0%
! ATTTTGTCCCATAAGATCTT+TGG - Chr5:12824833-12824852 None:intergenic 30.0%
! CTATCATCATGATTTCTAGA+GGG - Chr5:12825422-12825441 None:intergenic 30.0%
! TATCTTTTACACAGATACTC+TGG - Chr5:12825494-12825513 None:intergenic 30.0%
! TTTGATTGGTCATATTTGAG+AGG - Chr5:12825359-12825378 None:intergenic 30.0%
AAAGGTAAAAACATCCAGGA+AGG + Chr5:12825395-12825414 MsG0580025014.01.T01:CDS 35.0%
AAAGTTGTGGCGTTTATTTC+AGG - Chr5:12825199-12825218 None:intergenic 35.0%
AACAAGAATCATCAGGGAAA+AGG + Chr5:12825377-12825396 MsG0580025014.01.T01:intron 35.0%
AATTGAGTATCTTGCATGTG+AGG + Chr5:12824670-12824689 MsG0580025014.01.T01:CDS 35.0%
ATTGAGTATCTTGCATGTGA+GGG + Chr5:12824671-12824690 MsG0580025014.01.T01:CDS 35.0%
CAAAGAATCTGTGGATGAAA+AGG + Chr5:12825514-12825533 MsG0580025014.01.T01:CDS 35.0%
CCAATCAAACAAGAATCATC+AGG + Chr5:12825370-12825389 MsG0580025014.01.T01:intron 35.0%
GTTCCATTGATCCATTAATG+AGG - Chr5:12824894-12824913 None:intergenic 35.0%
TGGCAAAACTATAACTGAAG+TGG + Chr5:12824994-12825013 MsG0580025014.01.T01:CDS 35.0%
TGTTATAGATGCGGAAAGAA+AGG + Chr5:12825443-12825462 MsG0580025014.01.T01:CDS 35.0%
! AACGCCACAACTTTTAATCA+AGG + Chr5:12825205-12825224 MsG0580025014.01.T01:CDS 35.0%
! ACGCCACAACTTTTAATCAA+GGG + Chr5:12825206-12825225 MsG0580025014.01.T01:CDS 35.0%
! CCTGATGATTCTTGTTTGAT+TGG - Chr5:12825373-12825392 None:intergenic 35.0%
! CTCAATTAAGTTGTTGTTCC+AGG - Chr5:12824657-12824676 None:intergenic 35.0%
! TTTTCTTTGCTAATTCCGCT+GGG - Chr5:12824736-12824755 None:intergenic 35.0%
! TTTTTCTTTGCTAATTCCGC+TGG - Chr5:12824737-12824756 None:intergenic 35.0%
AAAATCAGCAGCTTCAAGAC+AGG - Chr5:12825585-12825604 None:intergenic 40.0%
ACGCCCTTGATTAAAAGTTG+TGG - Chr5:12825212-12825231 None:intergenic 40.0%
ATCAAGCACCACATTGATGA+TGG + Chr5:12824776-12824795 MsG0580025014.01.T01:CDS 40.0%
ATGCGGAAAGAAAGGTCATT+GGG + Chr5:12825451-12825470 MsG0580025014.01.T01:CDS 40.0%
ATTCTTGAGGGAGACGATTT+GGG + Chr5:12824704-12824723 MsG0580025014.01.T01:CDS 40.0%
GGACTAGACAAGATTCTTGA+GGG + Chr5:12824692-12824711 MsG0580025014.01.T01:CDS 40.0%
GGGAAAAGGTAAAAACATCC+AGG + Chr5:12825391-12825410 MsG0580025014.01.T01:intron 40.0%
! AACTTTTCATGCATCTCAGG+TGG + Chr5:12825039-12825058 MsG0580025014.01.T01:CDS 40.0%
! ACAACTTTTAATCAAGGGCG+TGG + Chr5:12825211-12825230 MsG0580025014.01.T01:CDS 40.0%
! AGACAGGTAGTGTCATTCTT+TGG - Chr5:12825569-12825588 None:intergenic 40.0%
! CTCAACTTTTCATGCATCTC+AGG + Chr5:12825036-12825055 MsG0580025014.01.T01:CDS 40.0%
! TGCCCTCATTAATGGATCAA+TGG + Chr5:12824888-12824907 MsG0580025014.01.T01:CDS 40.0%
!!! GAAGCTGCTGATTTTGTTGA+AGG + Chr5:12825590-12825609 MsG0580025014.01.T01:CDS 40.0%
GATGCGGAAAGAAAGGTCAT+TGG + Chr5:12825450-12825469 MsG0580025014.01.T01:CDS 45.0%
GATTCTTGAGGGAGACGATT+TGG + Chr5:12824703-12824722 MsG0580025014.01.T01:CDS 45.0%
GGATATGCCATTGTTCCTGT+AGG - Chr5:12825178-12825197 None:intergenic 45.0%
GGGACTAGACAAGATTCTTG+AGG + Chr5:12824691-12824710 MsG0580025014.01.T01:CDS 45.0%
GTCATTGGGCTAAAACATGC+AGG + Chr5:12825465-12825484 MsG0580025014.01.T01:CDS 45.0%
TCATGGTCGAAACCATTTCG+TGG + Chr5:12825299-12825318 MsG0580025014.01.T01:intron 45.0%
TCGAAACCATTTCGTGGTAG+AGG + Chr5:12825305-12825324 MsG0580025014.01.T01:intron 45.0%
TGGTGGTTTAATCGCCAAAG+AGG + Chr5:12825231-12825250 MsG0580025014.01.T01:CDS 45.0%
TTTAATCGCCAAAGAGGACG+TGG + Chr5:12825237-12825256 MsG0580025014.01.T01:CDS 45.0%
TTTGGTTGCAGCTCTTCTAG+TGG + Chr5:12825108-12825127 MsG0580025014.01.T01:CDS 45.0%
!! ACTTTTAATCAAGGGCGTGG+TGG + Chr5:12825214-12825233 MsG0580025014.01.T01:CDS 45.0%
CGTGGACGAGGTAGAAATCA+TGG + Chr5:12825282-12825301 MsG0580025014.01.T01:intron 50.0%
CTGGCGACAACTACATAACC+TGG + Chr5:12824636-12824655 MsG0580025014.01.T01:CDS 50.0%
! GATTTCTAGAGGGACCTTCC+TGG - Chr5:12825412-12825431 None:intergenic 50.0%
!! TATGCTCGTTTTGGTGGTCG+TGG + Chr5:12825264-12825283 MsG0580025014.01.T01:CDS 50.0%
AACCATCAGCTGCGTCCTAC+AGG + Chr5:12825160-12825179 MsG0580025014.01.T01:CDS 55.0%
AATCGCCAAAGAGGACGTGG+TGG + Chr5:12825240-12825259 MsG0580025014.01.T01:CDS 55.0%
CATAGCCACCACGTCCTCTT+TGG - Chr5:12825248-12825267 None:intergenic 55.0%
CCACGACCTCTACCACGAAA+TGG - Chr5:12825314-12825333 None:intergenic 55.0%
CCATTTCGTGGTAGAGGTCG+TGG + Chr5:12825311-12825330 MsG0580025014.01.T01:intron 55.0%
GCTGCGTCCTACAGGAACAA+TGG + Chr5:12825168-12825187 MsG0580025014.01.T01:CDS 55.0%
TTCCTGTAGGACGCAGCTGA+TGG - Chr5:12825165-12825184 None:intergenic 55.0%
! CGATTTGGGAGATGTCCCAG+CGG + Chr5:12824718-12824737 MsG0580025014.01.T01:CDS 55.0%
! CGTGGTGGCTATGCTCGTTT+TGG + Chr5:12825255-12825274 MsG0580025014.01.T01:CDS 55.0%
! GGTGGCTATGCTCGTTTTGG+TGG + Chr5:12825258-12825277 MsG0580025014.01.T01:CDS 55.0%
CGTGGTAGAGGTCGTGGAAG+AGG + Chr5:12825317-12825336 MsG0580025014.01.T01:intron 60.0%
!! CGTTTTGGTGGTCGTGGACG+AGG + Chr5:12825270-12825289 MsG0580025014.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr5 gene 12824614 12825631 12824614 ID=MsG0580025014.01;Name=MsG0580025014.01
Chr5 mRNA 12824614 12825631 12824614 ID=MsG0580025014.01.T01;Parent=MsG0580025014.01;Name=MsG0580025014.01.T01;_AED=0.50;_eAED=0.59;_QI=0|0|0|1|1|1|2|0|305
Chr5 exon 12824614 12825291 12824614 ID=MsG0580025014.01.T01:exon:3302;Parent=MsG0580025014.01.T01
Chr5 exon 12825392 12825631 12825392 ID=MsG0580025014.01.T01:exon:3303;Parent=MsG0580025014.01.T01
Chr5 CDS 12824614 12825291 12824614 ID=MsG0580025014.01.T01:cds;Parent=MsG0580025014.01.T01
Chr5 CDS 12825392 12825631 12825392 ID=MsG0580025014.01.T01:cds;Parent=MsG0580025014.01.T01
Gene Sequence

>MsG0580025014.01.T01

TCAATTCAAATTTTAAGCATAACTGGCGACAACTACATAACCTGGAACAACAACTTAATTGAGTATCTTGCATGTGAGGGACTAGACAAGATTCTTGAGGGAGACGATTTGGGAGATGTCCCAGCGGAATTAGCAAAGAAAAAATCAAAAGTAAATCGTATAATCAAGCACCACATTGATGATGGATTACAAACAGAGTATTCAAATGCAAAAGATCCAAAGATCTTATGGGACAAAATTAAAGCAAGATTTGGGCATCAGAAGAAAGTATTATTGCCCTCATTAATGGATCAATGGAACAAATTAAGGTTCCAAGATTATAAAACTGTTGTTGCATATAACTCTGCTATGCATCAAATTATTGCACAATTAGAATTTTGTGGCAAAACTATAACTGAAGTGGAAAAGTTGGAGAAAACATTCTCAACTTTTCATGCATCTCAGGTGGTGTTGCAACAACAATATAGAATGAGGGAATTTGCTGAATACTCTGATTTGGTTGCAGCTCTTCTAGTGGCTGAACAAAATAACGAGCTGCTCATTAAAAACCATCAGCTGCGTCCTACAGGAACAATGGCATATCCTGAAATAAACGCCACAACTTTTAATCAAGGGCGTGGTGGTTTAATCGCCAAAGAGGACGTGGTGGCTATGCTCGTTTTGGTGGTCGTGGACGAGGGAAAAGGTAAAAACATCCAGGAAGGTCCCTCTAGAAATCATGATGATAGTTGTTATAGATGCGGAAAGAAAGGTCATTGGGCTAAAACATGCAGGACACCAGAGTATCTGTGTAAAAGATACAAAGAATCTGTGGATGAAAAGGAAAGAGAAGTTAATTTTAATGAAATTGAACCAAAGAATGACACTACCTGTCTTGAAGCTGCTGATTTTGTTGAAGGAGATTTTAATATGGATTAA
Protein sequence

>MsG0580025014.01.T01

SIQILSITGDNYITWNNNLIEYLACEGLDKILEGDDLGDVPAELAKKKSKVNRIIKHHIDDGLQTEYSNAKDPKILWDKIKARFGHQKKVLLPSLMDQWNKLRFQDYKTVVAYNSAMHQIIAQLEFCGKTITEVEKLEKTFSTFHASQVVLQQQYRMREFAEYSDLVAALLVAEQNNELLIKNHQLRPTGTMAYPEINATTFNQGRGGLIAKEDVVAMLVLVVVDEGKGKNIQEGPSRNHDDSCYRCGKKGHWAKTCRTPEYLCKRYKESVDEKEREVNFNEIEPKNDTTCLEAADFVEGDFNMD*