AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007418.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007418.01.T01 MTR_2g024980 80.252 238 43 4 1 235 1 237 2.27e-123 354
MsG0280007418.01.T01 MTR_4g132690 58.296 223 59 5 15 236 20 209 5.11e-68 212
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007418.01.T01 AT4G22190 54.894 235 91 8 8 234 61 288 6.80e-59 191

Find 64 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTCACCCGAATTTGAATTT+TGG 0.155313 2:-15139954 MsG0280007418.01.T01:CDS
CAATTAGAATTAGTTCTATT+TGG 0.219303 2:+15139979 None:intergenic
GCAGACCTGCTTCGTGAAAA+TGG 0.261675 2:+15139523 None:intergenic
GGGTCGGGTTGTCGTGTTTC+CGG 0.264262 2:+15139501 None:intergenic
GGTTGAGAAGAATCGGGTTC+TGG 0.282681 2:+15139760 None:intergenic
GAGCATCCAAAATTCAAATT+CGG 0.304556 2:+15139948 None:intergenic
TAGTGGTGGGGAGGAGGTGG+AGG 0.319105 2:+15139854 None:intergenic
AAGGTGCACTGTTAACTTTC+CGG 0.333102 2:+15139452 None:intergenic
GAGAGTCAAAGTCGAGAAAA+TGG 0.339110 2:-15139408 MsG0280007418.01.T01:CDS
TCTGGGACTGATTCAGTAAC+CGG 0.360550 2:+15139778 None:intergenic
AGGTGCACTGTTAACTTTCC+GGG 0.368465 2:+15139453 None:intergenic
GAGAAAATGGCCAAGTAGTC+CGG 0.370264 2:-15139395 MsG0280007418.01.T01:CDS
TATTAGTGGTGGGGAGGAGG+TGG 0.372565 2:+15139851 None:intergenic
CTGTTAACTTTCCGGGTAAC+CGG 0.374939 2:+15139460 None:intergenic
TGGGTTTGAGTTTAGCGTTT+GGG 0.379993 2:+15139813 None:intergenic
TGTTATAGCAGGTGAAGATT+CGG 0.382646 2:+15139738 None:intergenic
TCGTCGGCGGTGTGAAGATT+TGG 0.386133 2:+15139904 None:intergenic
CAGAGTTGAATATCAATATA+TGG 0.386208 2:-15139546 MsG0280007418.01.T01:CDS
GAGTTTAGCGTTTGGGGTGG+TGG 0.390160 2:+15139820 None:intergenic
GTTATAGCAGGTGAAGATTC+GGG 0.392918 2:+15139739 None:intergenic
AGCATCCAAAATTCAAATTC+GGG 0.399281 2:+15139949 None:intergenic
CCGGCACGACCCGGACTACT+TGG 0.404390 2:+15139385 None:intergenic
GTTGAGAAGAATCGGGTTCT+GGG 0.418879 2:+15139761 None:intergenic
GTTGTGGAAAAGATGGATTT+CGG 0.438234 2:+15139926 None:intergenic
ATGGGTTTGAGTTTAGCGTT+TGG 0.443035 2:+15139812 None:intergenic
TGGCAGGTTCGTCGTGGTGG+TGG 0.447199 2:-15139337 MsG0280007418.01.T01:CDS
CTATTTGGTGATAAAGTTTG+AGG 0.451999 2:+15139994 None:intergenic
GTGGTGGGGAGGAGGTGGAG+GGG 0.458908 2:+15139856 None:intergenic
AGTTTAGCGTTTGGGGTGGT+GGG 0.460808 2:+15139821 None:intergenic
AGATTCGGGTTGAGAAGAAT+CGG 0.472898 2:+15139753 None:intergenic
TAGCGTTTGGGGTGGTGGGT+CGG 0.473038 2:+15139825 None:intergenic
GATTCAGTAACCGGGTTATG+AGG 0.473763 2:+15139787 None:intergenic
TCACCGGATCTCCGGTTACC+CGG 0.473812 2:-15139471 MsG0280007418.01.T01:CDS
AGATTTGGTTGTGGAAAAGA+TGG 0.473850 2:+15139919 None:intergenic
CTTTCTCAGCTTCAAAACGT+TGG 0.490505 2:-15139696 MsG0280007418.01.T01:CDS
TTTCCGGGTAACCGGAGATC+CGG 0.503838 2:+15139468 None:intergenic
CCAAGTAGTCCGGGTCGTGC+CGG 0.507337 2:-15139385 MsG0280007418.01.T01:CDS
GAAGAAGATTCTGTTATAGC+AGG 0.526422 2:+15139727 None:intergenic
AGAAAATGGCCAAGTAGTCC+GGG 0.536858 2:-15139394 MsG0280007418.01.T01:CDS
GGGTTTGAGTTTAGCGTTTG+GGG 0.539250 2:+15139814 None:intergenic
AGTGGTGGGGAGGAGGTGGA+GGG 0.543048 2:+15139855 None:intergenic
AGAGAAAGAAAAGAAGAACA+AGG 0.547468 2:-15139614 MsG0280007418.01.T01:CDS
ACATGAACACCGGCACGACC+CGG 0.550885 2:+15139376 None:intergenic
ATGTCGGTCGGAATAGCCTA+TGG 0.551987 2:-15139357 MsG0280007418.01.T01:CDS
TTTGAGTTTAGCGTTTGGGG+TGG 0.554252 2:+15139817 None:intergenic
GATTCGGGTTGAGAAGAATC+GGG 0.554470 2:+15139754 None:intergenic
CGGTCGGAATAGCCTATGGC+AGG 0.558527 2:-15139353 MsG0280007418.01.T01:CDS
GTGCCGGTGTTCATGTCGGT+CGG 0.562023 2:-15139369 MsG0280007418.01.T01:CDS
GTAACCGGGTTATGAGGTGA+TGG 0.569503 2:+15139793 None:intergenic
CTGGGACTGATTCAGTAACC+GGG 0.591037 2:+15139779 None:intergenic
TAACCGGGTTATGAGGTGAT+GGG 0.591241 2:+15139794 None:intergenic
GGTCGTGCCGGTGTTCATGT+CGG 0.593131 2:-15139373 MsG0280007418.01.T01:CDS
GCGGAGTTGCTACGAGAACA+AGG 0.601840 2:+15139433 None:intergenic
CTATGGCAGGTTCGTCGTGG+TGG 0.603046 2:-15139340 MsG0280007418.01.T01:CDS
AAACCCATCACCTCATAACC+CGG 0.607262 2:-15139797 MsG0280007418.01.T01:CDS
ATTCCGACCGACATGAACAC+CGG 0.626898 2:+15139366 None:intergenic
TCAGAGCAACAAACGCAACA+AGG 0.643482 2:-15139308 MsG0280007418.01.T01:CDS
AGCCTATGGCAGGTTCGTCG+TGG 0.649412 2:-15139343 MsG0280007418.01.T01:CDS
CACCACGACGAACCTGCCAT+AGG 0.649998 2:+15139341 None:intergenic
TGTTCTCGTAGCAACTCCGC+CGG 0.659178 2:-15139430 MsG0280007418.01.T01:CDS
ACCGTCGACGAAAAGTTCGT+CGG 0.668584 2:+15139888 None:intergenic
TCTCGACTTTGACTCTCCGG+CGG 0.671127 2:+15139414 None:intergenic
GCGGTGTGAAGATTTGGTTG+TGG 0.676329 2:+15139910 None:intergenic
GTCGACGAAAAGTTCGTCGG+CGG 0.706404 2:+15139891 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CAATTAGAATTAGTTCTATT+TGG + Chr2:15139336-15139355 None:intergenic 20.0%
! AAGAAGAAAGAGAGAAAAAA+CGG - Chr2:15139723-15139742 MsG0280007418.01.T01:CDS 25.0%
! CAGAGTTGAATATCAATATA+TGG - Chr2:15139766-15139785 MsG0280007418.01.T01:CDS 25.0%
!! TGGAAAGATATTTTCAGAAA+AGG - Chr2:15139636-15139655 MsG0280007418.01.T01:CDS 25.0%
AAAGAGAGAAAAAACGGTAA+CGG - Chr2:15139729-15139748 MsG0280007418.01.T01:CDS 30.0%
AGAGAAAGAAAAGAAGAACA+AGG - Chr2:15139698-15139717 MsG0280007418.01.T01:CDS 30.0%
AGCATCCAAAATTCAAATTC+GGG + Chr2:15139366-15139385 None:intergenic 30.0%
GAGCATCCAAAATTCAAATT+CGG + Chr2:15139367-15139386 None:intergenic 30.0%
! ATTCACCCGAATTTGAATTT+TGG - Chr2:15139358-15139377 MsG0280007418.01.T01:CDS 30.0%
! CTATTTGGTGATAAAGTTTG+AGG + Chr2:15139321-15139340 None:intergenic 30.0%
GAAGAAGATTCTGTTATAGC+AGG + Chr2:15139588-15139607 None:intergenic 35.0%
TGTTATAGCAGGTGAAGATT+CGG + Chr2:15139577-15139596 None:intergenic 35.0%
! AGATTTGGTTGTGGAAAAGA+TGG + Chr2:15139396-15139415 None:intergenic 35.0%
! GTTGTGGAAAAGATGGATTT+CGG + Chr2:15139389-15139408 None:intergenic 35.0%
AAGGTGCACTGTTAACTTTC+CGG + Chr2:15139863-15139882 None:intergenic 40.0%
ATCCGGTGAAAAATTTGGGT+CGG + Chr2:15139830-15139849 None:intergenic 40.0%
CTTTCTCAGCTTCAAAACGT+TGG - Chr2:15139616-15139635 MsG0280007418.01.T01:CDS 40.0%
GAGAGTCAAAGTCGAGAAAA+TGG - Chr2:15139904-15139923 MsG0280007418.01.T01:CDS 40.0%
GGAGATCCGGTGAAAAATTT+GGG + Chr2:15139834-15139853 None:intergenic 40.0%
GTTATAGCAGGTGAAGATTC+GGG + Chr2:15139576-15139595 None:intergenic 40.0%
! ATGGGTTTGAGTTTAGCGTT+TGG + Chr2:15139503-15139522 None:intergenic 40.0%
! CAAATTTTTCACCGGATCTC+CGG - Chr2:15139833-15139852 MsG0280007418.01.T01:CDS 40.0%
! TGGGTTTGAGTTTAGCGTTT+GGG + Chr2:15139502-15139521 None:intergenic 40.0%
! TTTTCTCGACTTTGACTCTC+CGG + Chr2:15139904-15139923 None:intergenic 40.0%
!! AGATTCGGGTTGAGAAGAAT+CGG + Chr2:15139562-15139581 None:intergenic 40.0%
AAACCCATCACCTCATAACC+CGG - Chr2:15139515-15139534 MsG0280007418.01.T01:CDS 45.0%
AGAAAATGGCCAAGTAGTCC+GGG - Chr2:15139918-15139937 MsG0280007418.01.T01:CDS 45.0%
AGGTGCACTGTTAACTTTCC+GGG + Chr2:15139862-15139881 None:intergenic 45.0%
CGGAGATCCGGTGAAAAATT+TGG + Chr2:15139835-15139854 None:intergenic 45.0%
CTGTTAACTTTCCGGGTAAC+CGG + Chr2:15139855-15139874 None:intergenic 45.0%
GAGAAAATGGCCAAGTAGTC+CGG - Chr2:15139917-15139936 MsG0280007418.01.T01:CDS 45.0%
GATTCAGTAACCGGGTTATG+AGG + Chr2:15139528-15139547 None:intergenic 45.0%
GTTGAGAAGAATCGGGTTCT+GGG + Chr2:15139554-15139573 None:intergenic 45.0%
TAACCGGGTTATGAGGTGAT+GGG + Chr2:15139521-15139540 None:intergenic 45.0%
TCAGAGCAACAAACGCAACA+AGG - Chr2:15140004-15140023 MsG0280007418.01.T01:CDS 45.0%
TCCGGTGAAAAATTTGGGTC+GGG + Chr2:15139829-15139848 None:intergenic 45.0%
! ACCCGACCCAAATTTTTCAC+CGG - Chr2:15139825-15139844 MsG0280007418.01.T01:CDS 45.0%
! GGGTTTGAGTTTAGCGTTTG+GGG + Chr2:15139501-15139520 None:intergenic 45.0%
! TCTGGGACTGATTCAGTAAC+CGG + Chr2:15139537-15139556 None:intergenic 45.0%
! TTTGAGTTTAGCGTTTGGGG+TGG + Chr2:15139498-15139517 None:intergenic 45.0%
!! GATTCGGGTTGAGAAGAATC+GGG + Chr2:15139561-15139580 None:intergenic 45.0%
!! TATGGCCATTTTCACGAAGC+AGG - Chr2:15139784-15139803 MsG0280007418.01.T01:CDS 45.0%
!! TTTTATTAGTGGTGGGGAGG+AGG + Chr2:15139467-15139486 None:intergenic 45.0%
!!! GGGTCGGTTTTATTAGTGGT+GGG + Chr2:15139474-15139493 None:intergenic 45.0%
!!! GGTCGGTTTTATTAGTGGTG+GGG + Chr2:15139473-15139492 None:intergenic 45.0%
!!! TGGGTCGGTTTTATTAGTGG+TGG + Chr2:15139475-15139494 None:intergenic 45.0%
!!! TGGTGGGTCGGTTTTATTAG+TGG + Chr2:15139478-15139497 None:intergenic 45.0%
ACCGTCGACGAAAAGTTCGT+CGG + Chr2:15139427-15139446 None:intergenic 50.0%
ATGTCGGTCGGAATAGCCTA+TGG - Chr2:15139955-15139974 MsG0280007418.01.T01:CDS 50.0%
ATTCCGACCGACATGAACAC+CGG + Chr2:15139949-15139968 None:intergenic 50.0%
GCAGACCTGCTTCGTGAAAA+TGG + Chr2:15139792-15139811 None:intergenic 50.0%
GGTTGAGAAGAATCGGGTTC+TGG + Chr2:15139555-15139574 None:intergenic 50.0%
GTAACCGGGTTATGAGGTGA+TGG + Chr2:15139522-15139541 None:intergenic 50.0%
! AGTTTAGCGTTTGGGGTGGT+GGG + Chr2:15139494-15139513 None:intergenic 50.0%
! CTGGGACTGATTCAGTAACC+GGG + Chr2:15139536-15139555 None:intergenic 50.0%
! GCGGTGTGAAGATTTGGTTG+TGG + Chr2:15139405-15139424 None:intergenic 50.0%
! TTTTCACGAAGCAGGTCTGC+CGG - Chr2:15139792-15139811 MsG0280007418.01.T01:CDS 50.0%
!!! CGGTTTTATTAGTGGTGGGG+AGG + Chr2:15139470-15139489 None:intergenic 50.0%
GCGGAGTTGCTACGAGAACA+AGG + Chr2:15139882-15139901 None:intergenic 55.0%
GTCGACGAAAAGTTCGTCGG+CGG + Chr2:15139424-15139443 None:intergenic 55.0%
TCGTCGGCGGTGTGAAGATT+TGG + Chr2:15139411-15139430 None:intergenic 55.0%
TCTCGACTTTGACTCTCCGG+CGG + Chr2:15139901-15139920 None:intergenic 55.0%
TGTTCTCGTAGCAACTCCGC+CGG - Chr2:15139882-15139901 MsG0280007418.01.T01:CDS 55.0%
TTTCCGGGTAACCGGAGATC+CGG + Chr2:15139847-15139866 None:intergenic 55.0%
! GAGTTTAGCGTTTGGGGTGG+TGG + Chr2:15139495-15139514 None:intergenic 55.0%
! GCCGACGAACTTTTCGTCGA+CGG - Chr2:15139423-15139442 MsG0280007418.01.T01:CDS 55.0%
! TATTAGTGGTGGGGAGGAGG+TGG + Chr2:15139464-15139483 None:intergenic 55.0%
ACATGAACACCGGCACGACC+CGG + Chr2:15139939-15139958 None:intergenic 60.0%
AGCCTATGGCAGGTTCGTCG+TGG - Chr2:15139969-15139988 MsG0280007418.01.T01:CDS 60.0%
CACCACGACGAACCTGCCAT+AGG + Chr2:15139974-15139993 None:intergenic 60.0%
CGGTCGGAATAGCCTATGGC+AGG - Chr2:15139959-15139978 MsG0280007418.01.T01:CDS 60.0%
CTATGGCAGGTTCGTCGTGG+TGG - Chr2:15139972-15139991 MsG0280007418.01.T01:CDS 60.0%
TCACCGGATCTCCGGTTACC+CGG - Chr2:15139841-15139860 MsG0280007418.01.T01:CDS 60.0%
! GGGTCGGGTTGTCGTGTTTC+CGG + Chr2:15139814-15139833 None:intergenic 60.0%
! GGTCGTGCCGGTGTTCATGT+CGG - Chr2:15139939-15139958 MsG0280007418.01.T01:CDS 60.0%
! GTGCCGGTGTTCATGTCGGT+CGG - Chr2:15139943-15139962 MsG0280007418.01.T01:CDS 60.0%
!! TAGCGTTTGGGGTGGTGGGT+CGG + Chr2:15139490-15139509 None:intergenic 60.0%
CCAAGTAGTCCGGGTCGTGC+CGG - Chr2:15139927-15139946 MsG0280007418.01.T01:CDS 65.0%
TGGCAGGTTCGTCGTGGTGG+TGG - Chr2:15139975-15139994 MsG0280007418.01.T01:CDS 65.0%
! AGTGGTGGGGAGGAGGTGGA+GGG + Chr2:15139460-15139479 None:intergenic 65.0%
! TAGTGGTGGGGAGGAGGTGG+AGG + Chr2:15139461-15139480 None:intergenic 65.0%
CCGGCACGACCCGGACTACT+TGG + Chr2:15139930-15139949 None:intergenic 70.0%
! GTGGTGGGGAGGAGGTGGAG+GGG + Chr2:15139459-15139478 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr2 gene 15139297 15140037 15139297 ID=MsG0280007418.01;Name=MsG0280007418.01
Chr2 mRNA 15139297 15140037 15139297 ID=MsG0280007418.01.T01;Parent=MsG0280007418.01;Name=MsG0280007418.01.T01;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|246
Chr2 exon 15139297 15140037 15139297 ID=MsG0280007418.01.T01:exon:958;Parent=MsG0280007418.01.T01
Chr2 CDS 15139297 15140037 15139297 ID=MsG0280007418.01.T01:cds;Parent=MsG0280007418.01.T01
Gene Sequence

>MsG0280007418.01.T01

ATGGACACAAATCAAAAAAAGCCTCAAACTTTATCACCAAATAGAACTAATTCTAATTGTAATTCACCCGAATTTGAATTTTGGATGCTCCGAAATCCATCTTTTCCACAACCAAATCTTCACACCGCCGACGAACTTTTCGTCGACGGTGTTATTCTTCCCCTCCACCTCCTCCCCACCACTAATAAAACCGACCCACCACCCCAAACGCTAAACTCAAACCCATCACCTCATAACCCGGTTACTGAATCAGTCCCAGAACCCGATTCTTCTCAACCCGAATCTTCACCTGCTATAACAGAATCTTCTTCTTCAACAACTTTCTCAGCTTCAAAACGTTGGAAAGATATTTTCAGAAAAGGAGAGAAAAACAACAACACAGAAGATAAAGAGAAAGAGAAAGAGAAAGAAAAGAAGAACAAGGAGAAGAAGAAAGAGAGAAAAAACGGTAACGGTGCAAATTCTGCTGCAGAGTTGAATATCAATATATGGCCATTTTCACGAAGCAGGTCTGCCGGAAACACGACAACCCGACCCAAATTTTTCACCGGATCTCCGGTTACCCGGAAAGTTAACAGTGCACCTTGTTCTCGTAGCAACTCCGCCGGAGAGTCAAAGTCGAGAAAATGGCCAAGTAGTCCGGGTCGTGCCGGTGTTCATGTCGGTCGGAATAGCCTATGGCAGGTTCGTCGTGGTGGTGGAAAAACTCAGAGCAACAAACGCAACAAGGTTCTAACATAG

Protein sequence

>MsG0280007418.01.T01

MDTNQKKPQTLSPNRTNSNCNSPEFEFWMLRNPSFPQPNLHTADELFVDGVILPLHLLPTTNKTDPPPQTLNSNPSPHNPVTESVPEPDSSQPESSPAITESSSSTTFSASKRWKDIFRKGEKNNNTEDKEKEKEKEKKNKEKKKERKNGNGANSAAELNINIWPFSRSRSAGNTTTRPKFFTGSPVTRKVNSAPCSRSNSAGESKSRKWPSSPGRAGVHVGRNSLWQVRRGGGKTQSNKRNKVLT*