AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680030437.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680030437.01.T01 MTR_6g006930 80.769 312 34 4 1 312 14 299 5.72e-166 463
MsG0680030437.01.T01 MTR_6g006950 69.010 313 55 8 1 312 14 285 1.16e-130 373
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 68 sgRNAs with CRISPR-Local

Find 78 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAATTAACTCTTTCTTATA+AGG 0.191202 6:-2797798 None:intergenic
CCTTATAAGAAAGAGTTAAT+TGG 0.208265 6:+2797798 MsG0680030437.01.T01:CDS
CGGAGAATCAATCGGCGATT+TGG 0.284630 6:-2797457 None:intergenic
TTTGTTAATTCCTGCCAAAA+AGG 0.322837 6:+2797620 MsG0680030437.01.T01:CDS
CTTATAAGAAAGAGTTAATT+GGG 0.371538 6:+2797799 MsG0680030437.01.T01:CDS
CTCGGAGGTGGAAGACGATC+TGG 0.400436 6:+2797314 MsG0680030437.01.T01:CDS
AGACGATCTGGATTCGGTTC+CGG 0.411094 6:+2797326 MsG0680030437.01.T01:CDS
AAGGTGAATAGCGGTGGAAA+TGG 0.414806 6:+2797651 MsG0680030437.01.T01:CDS
CGGCGGAGACGTATTGTTTG+TGG 0.417197 6:+2797346 MsG0680030437.01.T01:CDS
TCGTTGAAGATATTGTTAAT+CGG 0.426279 6:+2797258 MsG0680030437.01.T01:CDS
GAATTCTCTGATCAAATTCA+AGG 0.428939 6:+2797413 MsG0680030437.01.T01:CDS
AATTTGATCAGAGAATTCAT+TGG 0.438876 6:-2797408 None:intergenic
TGCAAGAAAAGCAATTCAAC+TGG 0.465473 6:+2797510 MsG0680030437.01.T01:CDS
CAAATCGCCGATTGATTCTC+CGG 0.469765 6:+2797458 MsG0680030437.01.T01:CDS
GAAGAGTAAGTGCTGAAACT+TGG 0.473632 6:-2796955 None:intergenic
GAAGCAATCGGAGATGAATT+CGG 0.476412 6:-2797372 None:intergenic
TTTAATGCTAATGTTGGAAG+AGG 0.486791 6:+2797834 MsG0680030437.01.T01:CDS
GGTGGAAGACGATCTGGATT+CGG 0.486924 6:+2797320 MsG0680030437.01.T01:CDS
TCGTGTACCTTCCTCGGAGG+TGG 0.498801 6:+2797302 MsG0680030437.01.T01:CDS
AAATTACTGATCGGAGAGGA+TGG 0.507236 6:+2797171 MsG0680030437.01.T01:CDS
TCGCCGTCGCGGTTGAAGAT+CGG 0.514150 6:-2797102 None:intergenic
GAGTTAATTGGGTTTAGTGT+TGG 0.514765 6:+2797810 MsG0680030437.01.T01:CDS
TGGAAGAAAGAAAGAGACGA+GGG 0.528820 6:+2797761 MsG0680030437.01.T01:CDS
CAACGAAATCGTGACGGCGG+CGG 0.529445 6:+2797198 MsG0680030437.01.T01:CDS
AAAATTAATCAAACATGAAG+AGG 0.530368 6:-2797861 None:intergenic
TCGCGGTTGAAGATCGGAAA+AGG 0.532168 6:-2797096 None:intergenic
GAATTCATTGGAGAAGCCGC+TGG 0.546720 6:-2797396 None:intergenic
GAGGCCACCGGAGAATCAAT+CGG 0.547860 6:-2797465 None:intergenic
TACGGCGAAGGTGTCGGCGA+TGG 0.551272 6:+2797728 MsG0680030437.01.T01:CDS
GAATTCATCGGAGAGGCCAC+CGG 0.551329 6:-2797477 None:intergenic
GTTAATCGGAAATGAGAAAG+AGG 0.554967 6:+2797272 MsG0680030437.01.T01:CDS
ACGGAATCGTGTACCTTCCT+CGG 0.562028 6:+2797296 MsG0680030437.01.T01:CDS
GAAGCCGCTGGAGAAGCAAT+CGG 0.562247 6:-2797384 None:intergenic
TCGTCTTCCACCTCCGAGGA+AGG 0.571654 6:-2797309 None:intergenic
GGAAGTTTCTGAGCTTACTC+CGG 0.574954 6:+2797565 MsG0680030437.01.T01:CDS
ATCAGAAATCTCCGCCGCAT+CGG 0.584340 6:-2797235 None:intergenic
AATTACTGATCGGAGAGGAT+GGG 0.585534 6:+2797172 MsG0680030437.01.T01:CDS
GAAAACTACGGCGAAGGTGT+CGG 0.587972 6:+2797722 MsG0680030437.01.T01:CDS
ATTCTTCTTCATCTTCGCGA+TGG 0.591816 6:+2797544 MsG0680030437.01.T01:CDS
AATTTAAAGGTGAATAGCGG+TGG 0.595960 6:+2797645 MsG0680030437.01.T01:CDS
AATAGCGGTGGAAATGGAAG+CGG 0.605570 6:+2797657 MsG0680030437.01.T01:CDS
TTCTTCTCTCGTCGCCGTCG+CGG 0.609955 6:-2797113 None:intergenic
CACAAACAATACGTCTCCGC+CGG 0.611102 6:-2797345 None:intergenic
TTTCCGATCTTCAACCGCGA+CGG 0.614777 6:+2797099 MsG0680030437.01.T01:CDS
ATCTCCGATTGCTTCTCCAG+CGG 0.616161 6:+2797380 MsG0680030437.01.T01:CDS
ATGGAAGAAAGAAAGAGACG+AGG 0.616173 6:+2797760 MsG0680030437.01.T01:CDS
AAGAAGAAACTCCGATGCGG+CGG 0.622494 6:+2797224 MsG0680030437.01.T01:CDS
GATAATTTAAAGGTGAATAG+CGG 0.625394 6:+2797642 MsG0680030437.01.T01:CDS
ATTAGAAATCTCCGCCGCGT+CGG 0.633000 6:-2797139 None:intergenic
CTCCGGCGAAGCAAAAGCGA+CGG 0.638237 6:+2797582 MsG0680030437.01.T01:CDS
CACTTGCACAGAGAATTCAT+CGG 0.639353 6:-2797489 None:intergenic
TCGGAAATGAGAAAGAGGAA+CGG 0.643710 6:+2797277 MsG0680030437.01.T01:CDS
GGAGAAGAAAACTACGGCGA+AGG 0.644729 6:+2797716 MsG0680030437.01.T01:CDS
CGATCTGGATTCGGTTCCGG+CGG 0.650594 6:+2797329 MsG0680030437.01.T01:CDS
TCACTGAAGAAATTACTGAT+CGG 0.651756 6:+2797162 MsG0680030437.01.T01:CDS
GAGAAGAAACTCCGACGCGG+CGG 0.661695 6:+2797128 MsG0680030437.01.T01:CDS
GGTGAAGGAGAAGAAAACTA+CGG 0.669272 6:+2797710 MsG0680030437.01.T01:CDS
ATCGCCGATTGATTCTCCGG+TGG 0.681053 6:+2797461 MsG0680030437.01.T01:CDS
GAAAAGGAGTTACATTGCGG+CGG 0.682175 6:-2797080 None:intergenic
GAAGAAATTACTGATCGGAG+AGG 0.687089 6:+2797167 MsG0680030437.01.T01:CDS
GGGAATCAACGAAATCGTGA+CGG 0.687920 6:+2797192 MsG0680030437.01.T01:CDS
GCACAGAGAATTCATCGGAG+AGG 0.711845 6:-2797484 None:intergenic
CAGATCGTCTTCCACCTCCG+AGG 0.714694 6:-2797313 None:intergenic
CGAGAGAAGAAACTCCGACG+CGG 0.717226 6:+2797125 MsG0680030437.01.T01:CDS
TCGGAAAAGGAGTTACATTG+CGG 0.719871 6:-2797083 None:intergenic
CAGAAGAAGAAACTCCGATG+CGG 0.720560 6:+2797221 MsG0680030437.01.T01:CDS
AATCAACGAAATCGTGACGG+CGG 0.720968 6:+2797195 MsG0680030437.01.T01:CDS
GAATCGTGTACCTTCCTCGG+AGG 0.726214 6:+2797299 MsG0680030437.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CTTATAAGAAAGAGTTAATT+GGG + Chr6:2797799-2797818 MsG0680030437.01.T01:CDS 20.0%
! AATTTGATCAGAGAATTCAT+TGG - Chr6:2797411-2797430 None:intergenic 25.0%
! CCAATTAACTCTTTCTTATA+AGG - Chr6:2797801-2797820 None:intergenic 25.0%
! CCTTATAAGAAAGAGTTAAT+TGG + Chr6:2797798-2797817 MsG0680030437.01.T01:CDS 25.0%
! GATAATTTAAAGGTGAATAG+CGG + Chr6:2797642-2797661 MsG0680030437.01.T01:CDS 25.0%
! TCGTTGAAGATATTGTTAAT+CGG + Chr6:2797258-2797277 MsG0680030437.01.T01:CDS 25.0%
! TGCCAAAAAGGATAATTTAA+AGG + Chr6:2797632-2797651 MsG0680030437.01.T01:CDS 25.0%
!! CACCTTTAAATTATCCTTTT+TGG - Chr6:2797637-2797656 None:intergenic 25.0%
!!! TTTAAATTATCCTTTTTGGC+AGG - Chr6:2797633-2797652 None:intergenic 25.0%
GAATTCTCTGATCAAATTCA+AGG + Chr6:2797413-2797432 MsG0680030437.01.T01:CDS 30.0%
TCACTGAAGAAATTACTGAT+CGG + Chr6:2797162-2797181 MsG0680030437.01.T01:CDS 30.0%
TTTAATGCTAATGTTGGAAG+AGG + Chr6:2797834-2797853 MsG0680030437.01.T01:CDS 30.0%
TTTGTTAATTCCTGCCAAAA+AGG + Chr6:2797620-2797639 MsG0680030437.01.T01:CDS 30.0%
!!! GTTGGTTTTAATGCTAATGT+TGG + Chr6:2797828-2797847 MsG0680030437.01.T01:CDS 30.0%
AATTTAAAGGTGAATAGCGG+TGG + Chr6:2797645-2797664 MsG0680030437.01.T01:CDS 35.0%
GAGTTAATTGGGTTTAGTGT+TGG + Chr6:2797810-2797829 MsG0680030437.01.T01:CDS 35.0%
GTTAATCGGAAATGAGAAAG+AGG + Chr6:2797272-2797291 MsG0680030437.01.T01:CDS 35.0%
TGCAAGAAAAGCAATTCAAC+TGG + Chr6:2797510-2797529 MsG0680030437.01.T01:CDS 35.0%
AAATTACTGATCGGAGAGGA+TGG + Chr6:2797171-2797190 MsG0680030437.01.T01:CDS 40.0%
AATTACTGATCGGAGAGGAT+GGG + Chr6:2797172-2797191 MsG0680030437.01.T01:CDS 40.0%
ATGGAAGAAAGAAAGAGACG+AGG + Chr6:2797760-2797779 MsG0680030437.01.T01:CDS 40.0%
ATTCTTCTTCATCTTCGCGA+TGG + Chr6:2797544-2797563 MsG0680030437.01.T01:CDS 40.0%
CACTTGCACAGAGAATTCAT+CGG - Chr6:2797492-2797511 None:intergenic 40.0%
GAAGAAATTACTGATCGGAG+AGG + Chr6:2797167-2797186 MsG0680030437.01.T01:CDS 40.0%
GAAGCAATCGGAGATGAATT+CGG - Chr6:2797375-2797394 None:intergenic 40.0%
GGTGAAGGAGAAGAAAACTA+CGG + Chr6:2797710-2797729 MsG0680030437.01.T01:CDS 40.0%
TCGGAAAAGGAGTTACATTG+CGG - Chr6:2797086-2797105 None:intergenic 40.0%
TCGGAAATGAGAAAGAGGAA+CGG + Chr6:2797277-2797296 MsG0680030437.01.T01:CDS 40.0%
TGGAAGAAAGAAAGAGACGA+GGG + Chr6:2797761-2797780 MsG0680030437.01.T01:CDS 40.0%
! GTAGTTTTCTTCTCCTTCAC+CGG - Chr6:2797711-2797730 None:intergenic 40.0%
!! GAAGAGTAAGTGCTGAAACT+TGG - Chr6:2796958-2796977 None:intergenic 40.0%
!!! CTTCACCGGAATCTTTTTTC+CGG - Chr6:2797697-2797716 None:intergenic 40.0%
AAGGTGAATAGCGGTGGAAA+TGG + Chr6:2797651-2797670 MsG0680030437.01.T01:CDS 45.0%
AATAGCGGTGGAAATGGAAG+CGG + Chr6:2797657-2797676 MsG0680030437.01.T01:CDS 45.0%
AATCAACGAAATCGTGACGG+CGG + Chr6:2797195-2797214 MsG0680030437.01.T01:CDS 45.0%
AGCGGTGAAAAAAACGTTGC+CGG + Chr6:2797675-2797694 MsG0680030437.01.T01:CDS 45.0%
CAGAAGAAGAAACTCCGATG+CGG + Chr6:2797221-2797240 MsG0680030437.01.T01:CDS 45.0%
CGGAAAAAAGATTCCGGTGA+AGG + Chr6:2797695-2797714 MsG0680030437.01.T01:CDS 45.0%
CGTTGCCGGAAAAAAGATTC+CGG + Chr6:2797689-2797708 MsG0680030437.01.T01:CDS 45.0%
GAAAAGGAGTTACATTGCGG+CGG - Chr6:2797083-2797102 None:intergenic 45.0%
GGAAGTTTCTGAGCTTACTC+CGG + Chr6:2797565-2797584 MsG0680030437.01.T01:CDS 45.0%
GGGAATCAACGAAATCGTGA+CGG + Chr6:2797192-2797211 MsG0680030437.01.T01:CDS 45.0%
! CAAATCGCCGATTGATTCTC+CGG + Chr6:2797458-2797477 MsG0680030437.01.T01:CDS 45.0%
!!! TCGGCGATGGAAGTGTTTTA+TGG + Chr6:2797741-2797760 MsG0680030437.01.T01:CDS 45.0%
AAGAAGAAACTCCGATGCGG+CGG + Chr6:2797224-2797243 MsG0680030437.01.T01:CDS 50.0%
ACGGAATCGTGTACCTTCCT+CGG + Chr6:2797296-2797315 MsG0680030437.01.T01:CDS 50.0%
ATCAGAAATCTCCGCCGCAT+CGG - Chr6:2797238-2797257 None:intergenic 50.0%
ATCTCCGATTGCTTCTCCAG+CGG + Chr6:2797380-2797399 MsG0680030437.01.T01:CDS 50.0%
ATTAGAAATCTCCGCCGCGT+CGG - Chr6:2797142-2797161 None:intergenic 50.0%
CACAAACAATACGTCTCCGC+CGG - Chr6:2797348-2797367 None:intergenic 50.0%
CGGAGAATCAATCGGCGATT+TGG - Chr6:2797460-2797479 None:intergenic 50.0%
GAATTCATTGGAGAAGCCGC+TGG - Chr6:2797399-2797418 None:intergenic 50.0%
GCACAGAGAATTCATCGGAG+AGG - Chr6:2797487-2797506 None:intergenic 50.0%
GGAGAAGAAAACTACGGCGA+AGG + Chr6:2797716-2797735 MsG0680030437.01.T01:CDS 50.0%
GGTGGAAGACGATCTGGATT+CGG + Chr6:2797320-2797339 MsG0680030437.01.T01:CDS 50.0%
TCGCGGTTGAAGATCGGAAA+AGG - Chr6:2797099-2797118 None:intergenic 50.0%
TTTCCGATCTTCAACCGCGA+CGG + Chr6:2797099-2797118 MsG0680030437.01.T01:CDS 50.0%
! AGACGATCTGGATTCGGTTC+CGG + Chr6:2797326-2797345 MsG0680030437.01.T01:CDS 50.0%
! GAAAACTACGGCGAAGGTGT+CGG + Chr6:2797722-2797741 MsG0680030437.01.T01:CDS 50.0%
CGAGAGAAGAAACTCCGACG+CGG + Chr6:2797125-2797144 MsG0680030437.01.T01:CDS 55.0%
CGGCGGAGACGTATTGTTTG+TGG + Chr6:2797346-2797365 MsG0680030437.01.T01:CDS 55.0%
GAAGCCGCTGGAGAAGCAAT+CGG - Chr6:2797387-2797406 None:intergenic 55.0%
GAATCGTGTACCTTCCTCGG+AGG + Chr6:2797299-2797318 MsG0680030437.01.T01:CDS 55.0%
GAATTCATCGGAGAGGCCAC+CGG - Chr6:2797480-2797499 None:intergenic 55.0%
GAGGCCACCGGAGAATCAAT+CGG - Chr6:2797468-2797487 None:intergenic 55.0%
! ATCGCCGATTGATTCTCCGG+TGG + Chr6:2797461-2797480 MsG0680030437.01.T01:CDS 55.0%
!!! TTCCGTCGCTTTTGCTTCGC+CGG - Chr6:2797587-2797606 None:intergenic 55.0%
CAACGAAATCGTGACGGCGG+CGG + Chr6:2797198-2797217 MsG0680030437.01.T01:CDS 60.0%
CAGATCGTCTTCCACCTCCG+AGG - Chr6:2797316-2797335 None:intergenic 60.0%
CTCCGGCGAAGCAAAAGCGA+CGG + Chr6:2797582-2797601 MsG0680030437.01.T01:CDS 60.0%
CTCGGAGGTGGAAGACGATC+TGG + Chr6:2797314-2797333 MsG0680030437.01.T01:CDS 60.0%
GAGAAGAAACTCCGACGCGG+CGG + Chr6:2797128-2797147 MsG0680030437.01.T01:CDS 60.0%
TCGCCGTCGCGGTTGAAGAT+CGG - Chr6:2797105-2797124 None:intergenic 60.0%
TCGTCTTCCACCTCCGAGGA+AGG - Chr6:2797312-2797331 None:intergenic 60.0%
TCGTGTACCTTCCTCGGAGG+TGG + Chr6:2797302-2797321 MsG0680030437.01.T01:CDS 60.0%
TTCTTCTCTCGTCGCCGTCG+CGG - Chr6:2797116-2797135 None:intergenic 60.0%
! CGATCTGGATTCGGTTCCGG+CGG + Chr6:2797329-2797348 MsG0680030437.01.T01:CDS 60.0%
!! TACGGCGAAGGTGTCGGCGA+TGG + Chr6:2797728-2797747 MsG0680030437.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr6 gene 2796937 2797875 2796937 ID=MsG0680030437.01;Name=MsG0680030437.01
Chr6 mRNA 2796937 2797875 2796937 ID=MsG0680030437.01.T01;Parent=MsG0680030437.01;Name=MsG0680030437.01.T01;_AED=0.15;_eAED=0.15;_QI=0|-1|0|1|-1|1|1|0|312
Chr6 exon 2796937 2797875 2796937 ID=MsG0680030437.01.T01:exon:3027;Parent=MsG0680030437.01.T01
Chr6 CDS 2796937 2797875 2796937 ID=MsG0680030437.01.T01:cds;Parent=MsG0680030437.01.T01
Gene Sequence

>MsG0680030437.01.T01

ATGGACTCATTTTTGTGTCCAAGTTTCAGCACTTACTCTTCTAATAACGTAAACGACGTCGTTCAACAAGTCACTAATGAAAACGACATTTCAAACACTCGAAACGACAACGACGATTTTGAATTCGTCGCGTTTCGTAATCACCGCCGCAATGTAACTCCTTTTCCGATCTTCAACCGCGACGGCGACGAGAGAAGAAACTCCGACGCGGCGGAGATTTCTAATTCACTGAAGAAATTACTGATCGGAGAGGATGGGAATCAACGAAATCGTGACGGCGGCGGCAGAAGAAGAAACTCCGATGCGGCGGAGATTTCTGATTCGTTGAAGATATTGTTAATCGGAAATGAGAAAGAGGAACGGAATCGTGTACCTTCCTCGGAGGTGGAAGACGATCTGGATTCGGTTCCGGCGGAGACGTATTGTTTGTGGACACCGAATTCATCTCCGATTGCTTCTCCAGCGGCTTCTCCAATGAATTCTCTGATCAAATTCAAGGAAAGCAACTCAAATTGTTCTTCCAAATCGCCGATTGATTCTCCGGTGGCCTCTCCGATGAATTCTCTGTGCAAGTGCAAGAAAAGCAATTCAACTGGTTCATCTTCGAATTCTTCTTCATCTTCGCGATGGAAGTTTCTGAGCTTACTCCGGCGAAGCAAAAGCGACGGAAAAGAGTCATTGAATTTGTTAATTCCTGCCAAAAAGGATAATTTAAAGGTGAATAGCGGTGGAAATGGAAGCGGTGAAAAAAACGTTGCCGGAAAAAAGATTCCGGTGAAGGAGAAGAAAACTACGGCGAAGGTGTCGGCGATGGAAGTGTTTTATGGAAGAAAGAAAGAGACGAGGGTAAAATCGTATTTACCTTATAAGAAAGAGTTAATTGGGTTTAGTGTTGGTTTTAATGCTAATGTTGGAAGAGGTTTTCCTCTTCATGTTTGA

Protein sequence

>MsG0680030437.01.T01

MDSFLCPSFSTYSSNNVNDVVQQVTNENDISNTRNDNDDFEFVAFRNHRRNVTPFPIFNRDGDERRNSDAAEISNSLKKLLIGEDGNQRNRDGGGRRRNSDAAEISDSLKILLIGNEKEERNRVPSSEVEDDLDSVPAETYCLWTPNSSPIASPAASPMNSLIKFKESNSNCSSKSPIDSPVASPMNSLCKCKKSNSTGSSSNSSSSSRWKFLSLLRRSKSDGKESLNLLIPAKKDNLKVNSGGNGSGEKNVAGKKIPVKEKKTTAKVSAMEVFYGRKKETRVKSYLPYKKELIGFSVGFNANVGRGFPLHV*