AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780035958.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780035958.01.T01 MTR_7g006040 97.000 100 3 0 70 169 284 383 3.27e-65 204
MsG0780035958.01.T01 MTR_7g006040 92.857 42 3 0 28 69 174 215 2.93e-19 84.0
MsG0780035958.01.T01 MTR_8g064720 64.444 90 28 2 70 158 306 392 2.14e-26 103
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780035958.01.T01 AT1G18480 69.474 95 27 2 73 166 288 381 9.32e-36 128

Find 54 sgRNAs with CRISPR-Local

Find 97 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGCTAGGGTTGCGGCTTTA+AGG 0.182522 7:+537379 MsG0780035958.01.T01:CDS
AATCAAAATCCTCTACTTAT+TGG 0.186269 7:+536918 MsG0780035958.01.T01:CDS
AAGAGTTTCATGATGGGTTT+AGG 0.248900 7:+537358 MsG0780035958.01.T01:CDS
TGGTGTTAAGAGGATGATTA+TGG 0.249368 7:+537674 MsG0780035958.01.T01:CDS
ACGTGGCGTTTCGTGGTGTT+AGG 0.288942 7:+537334 MsG0780035958.01.T01:CDS
TTATTCATCTGACTATATAA+AGG 0.295993 7:-537843 None:intergenic
TGGTGGTTTGCCTGAGGTTT+TGG 0.307447 7:+537782 MsG0780035958.01.T01:CDS
TAATGGTGTCTGCGAAAATA+AGG 0.312538 7:+537722 MsG0780035958.01.T01:CDS
TTTATATAGTCAGATGAATA+AGG 0.353859 7:+537845 MsG0780035958.01.T01:CDS
CCGAATGGACGATTTCAAAA+AGG 0.355770 7:+537402 MsG0780035958.01.T01:CDS
GGGAAGGTGGAAGAAGGGTT+TGG 0.362537 7:+537882 MsG0780035958.01.T01:CDS
ATTCAGAAGGAAGGGATTAA+TGG 0.366442 7:+537705 MsG0780035958.01.T01:CDS
AGAGTTTCATGATGGGTTTA+GGG 0.373309 7:+537359 MsG0780035958.01.T01:CDS
TTCATGATGGGTTTAGGGCT+AGG 0.377495 7:+537364 MsG0780035958.01.T01:CDS
TCATGATGGGTTTAGGGCTA+GGG 0.424497 7:+537365 MsG0780035958.01.T01:CDS
CGACGATTCCTGGTGTTAAG+AGG 0.425093 7:+537664 MsG0780035958.01.T01:CDS
CGTGGCGTTTCGTGGTGTTA+GGG 0.450367 7:+537335 MsG0780035958.01.T01:CDS
AATGTTCACGTGGCGTTTCG+TGG 0.456234 7:+537327 MsG0780035958.01.T01:CDS
TCTGCGAAAATAAGGCGATT+AGG 0.459167 7:+537730 MsG0780035958.01.T01:CDS
GATGTTGGGAAGGTGGAAGA+AGG 0.466879 7:+537876 MsG0780035958.01.T01:CDS
CAAACGCCAAGCTGCGATCA+TGG 0.468463 7:+536948 MsG0780035958.01.T01:CDS
AATAAGGAAAATGTGGATGT+TGG 0.471510 7:+537861 MsG0780035958.01.T01:CDS
TGGGTTTAGGGCTAGGGTTG+CGG 0.472943 7:+537371 MsG0780035958.01.T01:CDS
GGTGTTAAGAGGATGATTAT+GGG 0.476200 7:+537675 MsG0780035958.01.T01:CDS
TATGTAAAGGTTGGAAGAAA+CGG 0.494851 7:+537287 MsG0780035958.01.T01:intron
TTTCATCGCCTCCGCGGTCG+AGG 0.498726 7:-536897 None:intergenic
AAATGTGGATGTTGGGAAGG+TGG 0.504316 7:+537869 MsG0780035958.01.T01:CDS
TCAGATGAATAAGGAAAATG+TGG 0.505988 7:+537854 MsG0780035958.01.T01:CDS
GTTAGGGAAGAGTTTCATGA+TGG 0.506126 7:+537351 MsG0780035958.01.T01:CDS
ATGTTGGGAAGGTGGAAGAA+GGG 0.512967 7:+537877 MsG0780035958.01.T01:CDS
AGATTGACCGTTATGGGGTG+AGG 0.524683 7:+537805 MsG0780035958.01.T01:CDS
ATGTCGAAAGGATGCGGTGG+TGG 0.533822 7:+537765 MsG0780035958.01.T01:CDS
CGGTCAATCTCCAAAACCTC+AGG 0.539656 7:-537792 None:intergenic
ATAAGGAAAATGTGGATGTT+GGG 0.548289 7:+537862 MsG0780035958.01.T01:CDS
TTAGGGAAGAGTTTCATGAT+GGG 0.558605 7:+537352 MsG0780035958.01.T01:CDS
ATCGATGTTGGTATGTCGAA+AGG 0.575221 7:+537753 MsG0780035958.01.T01:CDS
GGGCATACGATTCAGAAGGA+AGG 0.584494 7:+537696 MsG0780035958.01.T01:CDS
TCAATATCCTCACCCCATAA+CGG 0.588832 7:-537812 None:intergenic
GGCATACGATTCAGAAGGAA+GGG 0.601131 7:+537697 MsG0780035958.01.T01:CDS
AAGGCGATTAGGATCGATGT+TGG 0.608483 7:+537741 MsG0780035958.01.T01:CDS
GGAAAATGTGGATGTTGGGA+AGG 0.610345 7:+537866 MsG0780035958.01.T01:CDS
GTTGCGGCTTTAAGGCCGAA+TGG 0.619202 7:+537387 MsG0780035958.01.T01:CDS
ATAATCATCCTCTTAACACC+AGG 0.619952 7:-537672 None:intergenic
TTACCACCATGATCGCAGCT+TGG 0.620935 7:-536954 None:intergenic
TTTGGAGATTGACCGTTATG+GGG 0.621026 7:+537800 MsG0780035958.01.T01:CDS
GTCGGCGATGTCCTCGACCG+CGG 0.621064 7:+536886 None:intergenic
TATGGGGCATACGATTCAGA+AGG 0.628721 7:+537692 MsG0780035958.01.T01:CDS
GTGTTAAGAGGATGATTATG+GGG 0.631883 7:+537676 MsG0780035958.01.T01:CDS
GTTGGTATGTCGAAAGGATG+CGG 0.642403 7:+537759 MsG0780035958.01.T01:CDS
ATGCGGTGGTGGTTTGCCTG+AGG 0.644481 7:+537776 MsG0780035958.01.T01:CDS
GGCGATGTCCTCGACCGCGG+AGG 0.659166 7:+536889 None:intergenic
TCCGTTAGAAAATGTTCACG+TGG 0.680750 7:+537317 MsG0780035958.01.T01:CDS
ACGCCAAGCTGCGATCATGG+TGG 0.731637 7:+536951 MsG0780035958.01.T01:CDS
GGTATGTCGAAAGGATGCGG+TGG 0.743976 7:+537762 MsG0780035958.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAATGAAAAATCTATGTAA+AGG + Chr7:537274-537293 MsG0780035958.01.T01:intron 15.0%
!! TTATTCATCTGACTATATAA+AGG - Chr7:537846-537865 None:intergenic 20.0%
!! TTTATATAGTCAGATGAATA+AGG + Chr7:537845-537864 MsG0780035958.01.T01:CDS 20.0%
!!! ATTTTTTTGTTGTTTACACT+AGG + Chr7:537023-537042 MsG0780035958.01.T01:intron 20.0%
!!! TTACACAATTTTACTGTTTT+TGG + Chr7:537429-537448 MsG0780035958.01.T01:intron 20.0%
!!! TTAGTATTGAGTAATTTGAT+TGG - Chr7:537080-537099 None:intergenic 20.0%
! AATCAAAATCCTCTACTTAT+TGG + Chr7:536918-536937 MsG0780035958.01.T01:CDS 25.0%
! TGAAAAATCTATGTAAAGGT+TGG + Chr7:537278-537297 MsG0780035958.01.T01:intron 25.0%
!! TGAAGAAACATGTTGATTAT+GGG + Chr7:537488-537507 MsG0780035958.01.T01:intron 25.0%
!! TGCTTAGAAAATTTTCAGAT+GGG + Chr7:537607-537626 MsG0780035958.01.T01:intron 25.0%
!! TTGAAGAAACATGTTGATTA+TGG + Chr7:537487-537506 MsG0780035958.01.T01:intron 25.0%
!! TTGCTTAGAAAATTTTCAGA+TGG + Chr7:537606-537625 MsG0780035958.01.T01:intron 25.0%
!!! ATTTTACTGTTTTTGGTAGT+TGG + Chr7:537436-537455 MsG0780035958.01.T01:intron 25.0%
AATAAGGAAAATGTGGATGT+TGG + Chr7:537861-537880 MsG0780035958.01.T01:CDS 30.0%
AGATCAAACTTTGGTTAGAA+TGG + Chr7:537236-537255 MsG0780035958.01.T01:intron 30.0%
ATAAGGAAAATGTGGATGTT+GGG + Chr7:537862-537881 MsG0780035958.01.T01:CDS 30.0%
TATGTAAAGGTTGGAAGAAA+CGG + Chr7:537287-537306 MsG0780035958.01.T01:intron 30.0%
TCAGATGAATAAGGAAAATG+TGG + Chr7:537854-537873 MsG0780035958.01.T01:CDS 30.0%
! CTATTCTTTTTCTCTGTTGA+AGG + Chr7:537180-537199 MsG0780035958.01.T01:intron 30.0%
! GATTCAATTTTTGTTCATGG+TGG + Chr7:537460-537479 MsG0780035958.01.T01:intron 30.0%
! GGTGATTCAATTTTTGTTCA+TGG + Chr7:537457-537476 MsG0780035958.01.T01:intron 30.0%
ATAATCATCCTCTTAACACC+AGG - Chr7:537675-537694 None:intergenic 35.0%
ATTCAGAAGGAAGGGATTAA+TGG + Chr7:537705-537724 MsG0780035958.01.T01:CDS 35.0%
GAGGTTATGTGATGGTATAA+GGG + Chr7:537529-537548 MsG0780035958.01.T01:intron 35.0%
GGTAATTTCATCACCATGAA+TGG + Chr7:536972-536991 MsG0780035958.01.T01:intron 35.0%
GGTGTTAAGAGGATGATTAT+GGG + Chr7:537675-537694 MsG0780035958.01.T01:CDS 35.0%
GTGTTAAGAGGATGATTATG+GGG + Chr7:537676-537695 MsG0780035958.01.T01:CDS 35.0%
TAATGGTGTCTGCGAAAATA+AGG + Chr7:537722-537741 MsG0780035958.01.T01:CDS 35.0%
TGAGGTTATGTGATGGTATA+AGG + Chr7:537528-537547 MsG0780035958.01.T01:intron 35.0%
TTAATGGTGAGGTTATGTGA+TGG + Chr7:537521-537540 MsG0780035958.01.T01:intron 35.0%
TTAGGGAAGAGTTTCATGAT+GGG + Chr7:537352-537371 MsG0780035958.01.T01:CDS 35.0%
TTCCGTTTCGCTACAAAAAA+CGG + Chr7:537207-537226 MsG0780035958.01.T01:intron 35.0%
! ATAAGGGTTTGTTTGGTAAC+CGG + Chr7:537545-537564 MsG0780035958.01.T01:intron 35.0%
! GAAACATGTTGATTATGGGT+TGG + Chr7:537492-537511 MsG0780035958.01.T01:intron 35.0%
! GTAGACAAGTTTTACACTGT+TGG + Chr7:537143-537162 MsG0780035958.01.T01:intron 35.0%
! TGAGCTTTTCCAATAAGTAG+AGG - Chr7:536930-536949 None:intergenic 35.0%
! TGATGGTATAAGGGTTTGTT+TGG + Chr7:537538-537557 MsG0780035958.01.T01:intron 35.0%
! TGGTGTTAAGAGGATGATTA+TGG + Chr7:537674-537693 MsG0780035958.01.T01:CDS 35.0%
!! AAGAGTTTCATGATGGGTTT+AGG + Chr7:537358-537377 MsG0780035958.01.T01:CDS 35.0%
!! AGAGTTTCATGATGGGTTTA+GGG + Chr7:537359-537378 MsG0780035958.01.T01:CDS 35.0%
!! TATGGGTTGGAGAAGATTAA+TGG + Chr7:537505-537524 MsG0780035958.01.T01:intron 35.0%
!! TTTTGGAGATTGACCGTTAT+GGG + Chr7:537799-537818 MsG0780035958.01.T01:CDS 35.0%
!!! CCTTTTTGAAATCGTCCATT+CGG - Chr7:537405-537424 None:intergenic 35.0%
ATCGATGTTGGTATGTCGAA+AGG + Chr7:537753-537772 MsG0780035958.01.T01:CDS 40.0%
CCGAATGGACGATTTCAAAA+AGG + Chr7:537402-537421 MsG0780035958.01.T01:CDS 40.0%
GTTAGGGAAGAGTTTCATGA+TGG + Chr7:537351-537370 MsG0780035958.01.T01:CDS 40.0%
GTTGGAGAAGATTAATGGTG+AGG + Chr7:537510-537529 MsG0780035958.01.T01:intron 40.0%
TCAATATCCTCACCCCATAA+CGG - Chr7:537815-537834 None:intergenic 40.0%
TCCGTTAGAAAATGTTCACG+TGG + Chr7:537317-537336 MsG0780035958.01.T01:CDS 40.0%
TCTGCGAAAATAAGGCGATT+AGG + Chr7:537730-537749 MsG0780035958.01.T01:CDS 40.0%
TGGTTAGAATGGTTTCGTCA+AGG + Chr7:537247-537266 MsG0780035958.01.T01:intron 40.0%
TTTGGAGATTGACCGTTATG+GGG + Chr7:537800-537819 MsG0780035958.01.T01:CDS 40.0%
! CGGTGTTGAAGATCAAACTT+TGG + Chr7:537227-537246 MsG0780035958.01.T01:intron 40.0%
! GCCACGTGAACATTTTCTAA+CGG - Chr7:537321-537340 None:intergenic 40.0%
!!! CACCGTTTTTTGTAGCGAAA+CGG - Chr7:537212-537231 None:intergenic 40.0%
!!! GTTTTGGAGATTGACCGTTA+TGG + Chr7:537798-537817 MsG0780035958.01.T01:CDS 40.0%
AAATGTGGATGTTGGGAAGG+TGG + Chr7:537869-537888 MsG0780035958.01.T01:CDS 45.0%
AAGGCGATTAGGATCGATGT+TGG + Chr7:537741-537760 MsG0780035958.01.T01:CDS 45.0%
ATGTTGGGAAGGTGGAAGAA+GGG + Chr7:537877-537896 MsG0780035958.01.T01:CDS 45.0%
GATCTCGTGGTTACCATTCA+TGG - Chr7:536988-537007 None:intergenic 45.0%
GGAAAATGTGGATGTTGGGA+AGG + Chr7:537866-537885 MsG0780035958.01.T01:CDS 45.0%
GGCATACGATTCAGAAGGAA+GGG + Chr7:537697-537716 MsG0780035958.01.T01:CDS 45.0%
GTTGGTATGTCGAAAGGATG+CGG + Chr7:537759-537778 MsG0780035958.01.T01:CDS 45.0%
TATGGGGCATACGATTCAGA+AGG + Chr7:537692-537711 MsG0780035958.01.T01:CDS 45.0%
! CATGTTTTGTCGACGATTCC+TGG + Chr7:537654-537673 MsG0780035958.01.T01:CDS 45.0%
!! TCATGATGGGTTTAGGGCTA+GGG + Chr7:537365-537384 MsG0780035958.01.T01:CDS 45.0%
!! TTCATGATGGGTTTAGGGCT+AGG + Chr7:537364-537383 MsG0780035958.01.T01:CDS 45.0%
!!! TTTTGATTTCATCGCCTCCG+CGG - Chr7:536906-536925 None:intergenic 45.0%
AATGTTCACGTGGCGTTTCG+TGG + Chr7:537327-537346 MsG0780035958.01.T01:CDS 50.0%
AGATTGACCGTTATGGGGTG+AGG + Chr7:537805-537824 MsG0780035958.01.T01:CDS 50.0%
CGGTCAATCTCCAAAACCTC+AGG - Chr7:537795-537814 None:intergenic 50.0%
GACAATAAGGCGGCGAAAAC+CGG - Chr7:537567-537586 None:intergenic 50.0%
GATGTTGGGAAGGTGGAAGA+AGG + Chr7:537876-537895 MsG0780035958.01.T01:CDS 50.0%
GCATTCCTTCCCCGACAATA+AGG - Chr7:537580-537599 None:intergenic 50.0%
GGGCATACGATTCAGAAGGA+AGG + Chr7:537696-537715 MsG0780035958.01.T01:CDS 50.0%
TTACCACCATGATCGCAGCT+TGG - Chr7:536957-536976 None:intergenic 50.0%
TTCCTTCCCCGACAATAAGG+CGG - Chr7:537577-537596 None:intergenic 50.0%
! CGACGATTCCTGGTGTTAAG+AGG + Chr7:537664-537683 MsG0780035958.01.T01:CDS 50.0%
!! GGTTTTCGCCGCCTTATTGT+CGG + Chr7:537566-537585 MsG0780035958.01.T01:intron 50.0%
!! GTTTTCGCCGCCTTATTGTC+GGG + Chr7:537567-537586 MsG0780035958.01.T01:intron 50.0%
!! TGGTGGTTTGCCTGAGGTTT+TGG + Chr7:537782-537801 MsG0780035958.01.T01:CDS 50.0%
!! TTTTCGCCGCCTTATTGTCG+GGG + Chr7:537568-537587 MsG0780035958.01.T01:intron 50.0%
ACGTGGCGTTTCGTGGTGTT+AGG + Chr7:537334-537353 MsG0780035958.01.T01:CDS 55.0%
ATGTCGAAAGGATGCGGTGG+TGG + Chr7:537765-537784 MsG0780035958.01.T01:CDS 55.0%
CAAACGCCAAGCTGCGATCA+TGG + Chr7:536948-536967 MsG0780035958.01.T01:CDS 55.0%
CCACGAGATCATGACGCTGA+AGG + Chr7:536998-537017 MsG0780035958.01.T01:intron 55.0%
CCTTCAGCGTCATGATCTCG+TGG - Chr7:537001-537020 None:intergenic 55.0%
GGGAAGGTGGAAGAAGGGTT+TGG + Chr7:537882-537901 MsG0780035958.01.T01:CDS 55.0%
GGTATGTCGAAAGGATGCGG+TGG + Chr7:537762-537781 MsG0780035958.01.T01:CDS 55.0%
! CGTGGCGTTTCGTGGTGTTA+GGG + Chr7:537335-537354 MsG0780035958.01.T01:CDS 55.0%
! TGGGTTTAGGGCTAGGGTTG+CGG + Chr7:537371-537390 MsG0780035958.01.T01:CDS 55.0%
!! GTTGCGGCTTTAAGGCCGAA+TGG + Chr7:537387-537406 MsG0780035958.01.T01:CDS 55.0%
ACGCCAAGCTGCGATCATGG+TGG + Chr7:536951-536970 MsG0780035958.01.T01:CDS 60.0%
GGGCTAGGGTTGCGGCTTTA+AGG + Chr7:537379-537398 MsG0780035958.01.T01:CDS 60.0%
! ATGCGGTGGTGGTTTGCCTG+AGG + Chr7:537776-537795 MsG0780035958.01.T01:CDS 60.0%
TTTCATCGCCTCCGCGGTCG+AGG - Chr7:536900-536919 None:intergenic 65.0%
! CGCCGCCTTATTGTCGGGGA+AGG + Chr7:537572-537591 MsG0780035958.01.T01:intron 65.0%
Chromosome Type Strat End Strand Name
Chr7 gene 536893 537929 536893 ID=MsG0780035958.01;Name=MsG0780035958.01
Chr7 mRNA 536893 537929 536893 ID=MsG0780035958.01.T01;Parent=MsG0780035958.01;Name=MsG0780035958.01.T01;_AED=0.47;_eAED=0.55;_QI=0|0|0|1|1|0.66|3|0|170
Chr7 exon 536893 536972 536893 ID=MsG0780035958.01.T01:exon:38266;Parent=MsG0780035958.01.T01
Chr7 exon 537296 537423 537296 ID=MsG0780035958.01.T01:exon:38267;Parent=MsG0780035958.01.T01
Chr7 exon 537625 537929 537625 ID=MsG0780035958.01.T01:exon:38268;Parent=MsG0780035958.01.T01
Chr7 CDS 536893 536972 536893 ID=MsG0780035958.01.T01:cds;Parent=MsG0780035958.01.T01
Chr7 CDS 537296 537423 537296 ID=MsG0780035958.01.T01:cds;Parent=MsG0780035958.01.T01
Chr7 CDS 537625 537929 537625 ID=MsG0780035958.01.T01:cds;Parent=MsG0780035958.01.T01
Gene Sequence

>MsG0780035958.01.T01

ATGTCCTCGACCGCGGAGGCGATGAAATCAAAATCCTCTACTTATTGGAAAAGCTCAAACGCCAAGCTGCGATCATGGTGGTTGGAAGAAACGGTTGTAGATCCGTTAGAAAATGTTCACGTGGCGTTTCGTGGTGTTAGGGAAGAGTTTCATGATGGGTTTAGGGCTAGGGTTGCGGCTTTAAGGCCGAATGGACGATTTCAAAAAGATGGGAGTTGTGATTGTTCGAGTCTTGAGCATGTTTTGTCGACGATTCCTGGTGTTAAGAGGATGATTATGGGGCATACGATTCAGAAGGAAGGGATTAATGGTGTCTGCGAAAATAAGGCGATTAGGATCGATGTTGGTATGTCGAAAGGATGCGGTGGTGGTTTGCCTGAGGTTTTGGAGATTGACCGTTATGGGGTGAGGATATTGACATCAAATCCTTTATATAGTCAGATGAATAAGGAAAATGTGGATGTTGGGAAGGTGGAAGAAGGGTTTGGATTGTTGCTTAATAATCAATTGTAG

Protein sequence

>MsG0780035958.01.T01

MSSTAEAMKSKSSTYWKSSNAKLRSWWLEETVVDPLENVHVAFRGVREEFHDGFRARVAALRPNGRFQKDGSCDCSSLEHVLSTIPGVKRMIMGHTIQKEGINGVCENKAIRIDVGMSKGCGGGLPEVLEIDRYGVRILTSNPLYSQMNKENVDVGKVEEGFGLLLNNQL*