AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680031355.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680031355.01.T01 MTR_6g018800 83.459 133 8 2 12 144 12 130 3.12e-67 200
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680031355.01.T01 AT5G16160 37.584 149 63 4 1 144 10 133 4.26e-20 80.5

Find 0 sgRNAs with CRISPR-Local

Find 167 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTCAAAAAAAAACAAAAAA+GGG + Chr6:18830092-18830111 None:intergenic 10.0%
!!! AAATTATTGAAGAAATTTTT+TGG - Chr6:18830183-18830202 MsG0680031355.01.T01:intron 10.0%
!!! TCTTATTTGTTTTTAAATTT+TGG - Chr6:18831474-18831493 MsG0680031355.01.T01:intron 10.0%
!!! TTTTCAAAAAAAAACAAAAA+AGG + Chr6:18830093-18830112 None:intergenic 10.0%
!! AAAATTAAAATTAAGGCAAA+GGG - Chr6:18830286-18830305 MsG0680031355.01.T01:intron 15.0%
!! TTCAAAAAAAAACAAAAAAG+GGG + Chr6:18830091-18830110 None:intergenic 15.0%
!!! GTTTGAATTTATTTTAATTC+TGG + Chr6:18830549-18830568 None:intergenic 15.0%
!!! TTTTATGTTATTCATGTATA+TGG - Chr6:18832689-18832708 MsG0680031355.01.T01:intron 15.0%
!! AAAAAACAAAAAGAACCTTT+GGG + Chr6:18831449-18831468 None:intergenic 20.0%
!! ACTATCAACAACTATATAAA+TGG + Chr6:18831080-18831099 None:intergenic 20.0%
!! ATATTGTAGAATCATCATAT+TGG + Chr6:18831103-18831122 None:intergenic 20.0%
!! ATCAGAAAATTATATATCCA+CGG - Chr6:18831827-18831846 MsG0680031355.01.T01:intron 20.0%
!! CAAAATTAAAATTAAGGCAA+AGG - Chr6:18830285-18830304 MsG0680031355.01.T01:intron 20.0%
!! GATTACTATAAACACATTTA+AGG + Chr6:18832508-18832527 None:intergenic 20.0%
!! TAAGTTGTTTATCCAAAATA+TGG + Chr6:18830466-18830485 None:intergenic 20.0%
!! TTGAGTAAGATAACATATAA+GGG - Chr6:18830882-18830901 MsG0680031355.01.T01:intron 20.0%
!!! AATTATTCTAGAAAGCTATA+AGG - Chr6:18830601-18830620 MsG0680031355.01.T01:intron 20.0%
!!! TATAAGGTGAAAATAACTTT+TGG - Chr6:18830617-18830636 MsG0680031355.01.T01:intron 20.0%
!!! TATTGAAGAAATTTTTTGGT+GGG - Chr6:18830187-18830206 MsG0680031355.01.T01:intron 20.0%
!!! TATTTATTTTTTTTGAGGGA+AGG - Chr6:18831202-18831221 MsG0680031355.01.T01:intron 20.0%
!!! TGATTTTCTCAAATTATTAG+CGG + Chr6:18832571-18832590 None:intergenic 20.0%
!!! TTATTGAAGAAATTTTTTGG+TGG - Chr6:18830186-18830205 MsG0680031355.01.T01:intron 20.0%
!!! TTTTTTTTCTTCCAAAATTC+TGG - Chr6:18830122-18830141 MsG0680031355.01.T01:intron 20.0%
! ATAAGAACTTACAAGTTACA+TGG + Chr6:18830810-18830829 None:intergenic 25.0%
! ATATTACTATCTATGAAGCA+CGG + Chr6:18832664-18832683 None:intergenic 25.0%
! CAAAAAACAAAAAGAACCTT+TGG + Chr6:18831450-18831469 None:intergenic 25.0%
! GATGATTCTACAATATGTTA+GGG - Chr6:18831107-18831126 MsG0680031355.01.T01:CDS 25.0%
! GGAAGGAGATTATTAAAATT+AGG - Chr6:18831219-18831238 MsG0680031355.01.T01:intron 25.0%
! GTTGAGTAAGATAACATATA+AGG - Chr6:18830881-18830900 MsG0680031355.01.T01:intron 25.0%
! TAAAACATGTTGAATTCAAG+TGG + Chr6:18831318-18831337 None:intergenic 25.0%
! TCTAACTCTACTTTAAATGA+AGG - Chr6:18831747-18831766 MsG0680031355.01.T01:intron 25.0%
! TGAGTAAGATAACATATAAG+GGG - Chr6:18830883-18830902 MsG0680031355.01.T01:intron 25.0%
! TGATGATTCTACAATATGTT+AGG - Chr6:18831106-18831125 MsG0680031355.01.T01:CDS 25.0%
! TTCTGTGTAATTATATGTGT+CGG - Chr6:18832596-18832615 MsG0680031355.01.T01:intron 25.0%
! TTTATGAGTAAATCATGTGA+AGG + Chr6:18831928-18831947 None:intergenic 25.0%
!! GGAATGCTAAATCTATATTT+TGG - Chr6:18830975-18830994 MsG0680031355.01.T01:intron 25.0%
!!! TATTTTGTGTGTTCTGAATT+GGG - Chr6:18831531-18831550 MsG0680031355.01.T01:intron 25.0%
AAAGAAGCCAAAATTGCATT+GGG - Chr6:18831716-18831735 MsG0680031355.01.T01:intron 30.0%
AAAGGGGAAAAATTGCAATA+TGG + Chr6:18830075-18830094 None:intergenic 30.0%
AATGTTCACTCAATGTTAAC+AGG + Chr6:18831361-18831380 None:intergenic 30.0%
ATGTTCACTCAATGTTAACA+GGG + Chr6:18831360-18831379 None:intergenic 30.0%
CGATTATGGATCACATAAAA+CGG + Chr6:18832160-18832179 None:intergenic 30.0%
CTAAATAACTAGCGTATGTT+TGG - Chr6:18830915-18830934 MsG0680031355.01.T01:intron 30.0%
CTTACCAAAAACAGATTAGT+CGG + Chr6:18831173-18831192 None:intergenic 30.0%
CTTATTTCAATAAGCTCTCT+AGG + Chr6:18830326-18830345 None:intergenic 30.0%
CTTCCTAATTAGAAAAGATG+CGG - Chr6:18831046-18831065 MsG0680031355.01.T01:CDS 30.0%
GTTAACATTGAGTGAACATT+TGG - Chr6:18831361-18831380 MsG0680031355.01.T01:intron 30.0%
TGAGCTTAGGATATTTACAT+GGG - Chr6:18832209-18832228 MsG0680031355.01.T01:intron 30.0%
TGCAACATATTGTCAAATAG+CGG - Chr6:18832106-18832125 MsG0680031355.01.T01:intron 30.0%
TTACATGGGATTTCAGTAAA+TGG - Chr6:18832223-18832242 MsG0680031355.01.T01:intron 30.0%
TTACTCAACACTCAAACTTA+AGG + Chr6:18830870-18830889 None:intergenic 30.0%
TTCCATAAGCTCTTCTAAAT+AGG - Chr6:18830656-18830675 MsG0680031355.01.T01:intron 30.0%
TTGAATTCAAGTGGTTAATG+TGG + Chr6:18831309-18831328 None:intergenic 30.0%
! AACTGTTAAGTTTTTATCCG+TGG + Chr6:18831847-18831866 None:intergenic 30.0%
! AAGTTTAAGACAAAACCCAA+AGG - Chr6:18831431-18831450 MsG0680031355.01.T01:intron 30.0%
! ACTCAAACTTAAGGTTTGTT+TGG + Chr6:18830861-18830880 None:intergenic 30.0%
! ATTAAGTTGTTTATCCAAGC+AGG + Chr6:18830220-18830239 None:intergenic 30.0%
! TAAACACCAACACTTTTCTT+CGG + Chr6:18830440-18830459 None:intergenic 30.0%
! TGAAAGCTTTGATTCGAAAA+AGG - Chr6:18831665-18831684 MsG0680031355.01.T01:intron 30.0%
! TTAAGTTGTTTATCCAAGCA+GGG + Chr6:18830219-18830238 None:intergenic 30.0%
!! AAATGGAAGTATCAGAAATG+AGG - Chr6:18832240-18832259 MsG0680031355.01.T01:intron 30.0%
!! AAGAAAAGTGTTGGTGTTTA+AGG - Chr6:18830440-18830459 MsG0680031355.01.T01:intron 30.0%
!! GTATTTTGTGTGTTCTGAAT+TGG - Chr6:18831530-18831549 MsG0680031355.01.T01:intron 30.0%
!! TATCTGGGTATTGTTTTACT+AGG - Chr6:18830145-18830164 MsG0680031355.01.T01:intron 30.0%
AAGAAGCCAAAATTGCATTG+GGG - Chr6:18831717-18831736 MsG0680031355.01.T01:intron 35.0%
ACGATAATGATCACTGCAAA+CGG - Chr6:18831957-18831976 MsG0680031355.01.T01:intron 35.0%
AGCCTATTTAGAAGAGCTTA+TGG + Chr6:18830661-18830680 None:intergenic 35.0%
AGCTTTCACAATTGTTCAAG+AGG + Chr6:18831653-18831672 None:intergenic 35.0%
ATAACTAGCGTATGTTTGGA+TGG - Chr6:18830919-18830938 MsG0680031355.01.T01:intron 35.0%
ATGCTACACTATAGTATCAC+CGG + Chr6:18832049-18832068 None:intergenic 35.0%
CAAAGAAGCCAAAATTGCAT+TGG - Chr6:18831715-18831734 MsG0680031355.01.T01:intron 35.0%
CTTCCAAAATTCTGGTATCT+GGG - Chr6:18830130-18830149 MsG0680031355.01.T01:intron 35.0%
GATGTATATAGCAAGAACAG+TGG - Chr6:18831591-18831610 MsG0680031355.01.T01:intron 35.0%
GTGAGCTTAGGATATTTACA+TGG - Chr6:18832208-18832227 MsG0680031355.01.T01:intron 35.0%
TAAGCACTTATGAGACAGTT+TGG + Chr6:18830397-18830416 None:intergenic 35.0%
TCGAAAAAGGAAGACTCAAA+GGG - Chr6:18831678-18831697 MsG0680031355.01.T01:intron 35.0%
TCTTAGAACTAGAATTGCTG+CGG + Chr6:18832428-18832447 None:intergenic 35.0%
TCTTCCAAAATTCTGGTATC+TGG - Chr6:18830129-18830148 MsG0680031355.01.T01:intron 35.0%
TTATGAATTATTCCACCACC+CGG - Chr6:18831242-18831261 MsG0680031355.01.T01:intron 35.0%
TTCGAAAAAGGAAGACTCAA+AGG - Chr6:18831677-18831696 MsG0680031355.01.T01:intron 35.0%
! AAGTTGCCTTTTACACTCTT+CGG - Chr6:18831773-18831792 MsG0680031355.01.T01:intron 35.0%
! ACACCGCATCTTTTCTAATT+AGG + Chr6:18831052-18831071 None:intergenic 35.0%
! ATACCCAGATACCAGAATTT+TGG + Chr6:18830136-18830155 None:intergenic 35.0%
!! TAGTTCTAAGAAATAGAGCG+CGG - Chr6:18832437-18832456 MsG0680031355.01.T01:intron 35.0%
!! TGGTGTTTAAGGCCATATTT+TGG - Chr6:18830451-18830470 MsG0680031355.01.T01:intron 35.0%
!! TGTTTGTTGTGAACATTTGC+AGG - Chr6:18832757-18832776 MsG0680031355.01.T01:CDS 35.0%
!! TTGAAATTGGGTTGAAGACA+AGG + Chr6:18829951-18829970 None:intergenic 35.0%
!!! CGACTAATCTGTTTTTGGTA+AGG - Chr6:18831171-18831190 MsG0680031355.01.T01:CDS 35.0%
AAAAAGGAAGACTCAAAGGG+TGG - Chr6:18831681-18831700 MsG0680031355.01.T01:intron 40.0%
ACTATTTGACAACACTAGCC+AGG + Chr6:18832022-18832041 None:intergenic 40.0%
AGAAGCCAAAATTGCATTGG+GGG - Chr6:18831718-18831737 MsG0680031355.01.T01:intron 40.0%
ATCACTGCAAACGGAACTTT+GGG - Chr6:18831966-18831985 MsG0680031355.01.T01:intron 40.0%
CAACCCAATTTCAATCCCAA+AGG - Chr6:18829957-18829976 MsG0680031355.01.T01:intron 40.0%
CGCATATCGCAGAACAAAAA+TGG + Chr6:18832080-18832099 None:intergenic 40.0%
CTATTTGACAACACTAGCCA+GGG + Chr6:18832021-18832040 None:intergenic 40.0%
GAAAGATCTAGCGATAAACG+AGG - Chr6:18830738-18830757 MsG0680031355.01.T01:intron 40.0%
GAGAATACTCACACGAAACT+TGG + Chr6:18830003-18830022 None:intergenic 40.0%
GAGTGAACATTTGGATCTGT+AGG - Chr6:18831370-18831389 MsG0680031355.01.T01:intron 40.0%
GGTTAATGTGGTCCATGTAA+AGG + Chr6:18831297-18831316 None:intergenic 40.0%
TACACTCTTCGGAAGGAATT+TGG - Chr6:18831784-18831803 MsG0680031355.01.T01:intron 40.0%
TCCATGTAAAGGAACAAGCT+TGG + Chr6:18831286-18831305 None:intergenic 40.0%
TGATCCATAATCGACAACAC+TGG - Chr6:18832167-18832186 MsG0680031355.01.T01:intron 40.0%
TGATCTTGAGAAACGCCTTT+GGG + Chr6:18829975-18829994 None:intergenic 40.0%
TGGCTAGTGTTGTCAAATAG+TGG - Chr6:18832021-18832040 MsG0680031355.01.T01:intron 40.0%
TGTAAAGGAACAAGCTTGGT+TGG + Chr6:18831282-18831301 None:intergenic 40.0%
TTCGGAAAGAGTTCATCTAC+TGG + Chr6:18830422-18830441 None:intergenic 40.0%
TTGATCTTGAGAAACGCCTT+TGG + Chr6:18829976-18829995 None:intergenic 40.0%
! ACCAAGCTTGTTCCTTTACA+TGG - Chr6:18831282-18831301 MsG0680031355.01.T01:CDS 40.0%
! AGCTTTTCAGAGGATTATGG+AGG - Chr6:18830942-18830961 MsG0680031355.01.T01:intron 40.0%
! CTATACCCCCAATGCAATTT+TGG + Chr6:18831726-18831745 None:intergenic 40.0%
! CTCTTTCCGAAGAAAAGTGT+TGG - Chr6:18830431-18830450 MsG0680031355.01.T01:intron 40.0%
! CTTTTCAGAGGATTATGGAG+GGG - Chr6:18830944-18830963 MsG0680031355.01.T01:intron 40.0%
! GCTTTTCAGAGGATTATGGA+GGG - Chr6:18830943-18830962 MsG0680031355.01.T01:intron 40.0%
! TGGAGCTTTTCAGAGGATTA+TGG - Chr6:18830939-18830958 MsG0680031355.01.T01:intron 40.0%
! TTCCTTCCGAAGAGTGTAAA+AGG + Chr6:18831782-18831801 None:intergenic 40.0%
!! AACGCCTTTGGGATTGAAAT+TGG + Chr6:18829964-18829983 None:intergenic 40.0%
!! ACGCCTTTGGGATTGAAATT+GGG + Chr6:18829963-18829982 None:intergenic 40.0%
!! TCTGCCGACTAATCTGTTTT+TGG - Chr6:18831166-18831185 MsG0680031355.01.T01:CDS 40.0%
AAATAGCGGCTGTAGCATAG+CGG - Chr6:18832120-18832139 MsG0680031355.01.T01:intron 45.0%
AGTGAAATTTCGCGTTTCCC+TGG - Chr6:18832001-18832020 MsG0680031355.01.T01:intron 45.0%
CCCTCGTGACCTTACAAAAT+GGG - Chr6:18831132-18831151 MsG0680031355.01.T01:CDS 45.0%
CCTAAGCTCACTCTACTAGT+GGG + Chr6:18832199-18832218 None:intergenic 45.0%
CTAGCGATAAACGAGGTGTA+TGG - Chr6:18830745-18830764 MsG0680031355.01.T01:intron 45.0%
GATCACTGCAAACGGAACTT+TGG - Chr6:18831965-18831984 MsG0680031355.01.T01:intron 45.0%
GTGTTGTCAAATAGTGGCTC+CGG - Chr6:18832027-18832046 MsG0680031355.01.T01:intron 45.0%
TCACTGCAAACGGAACTTTG+GGG - Chr6:18831967-18831986 MsG0680031355.01.T01:intron 45.0%
TCCTAAGCTCACTCTACTAG+TGG + Chr6:18832200-18832219 None:intergenic 45.0%
TGACCTTACAAAATGGGCCA+TGG - Chr6:18831138-18831157 MsG0680031355.01.T01:CDS 45.0%
TGATCCGTGCAGCTAAAATC+AGG + Chr6:18832485-18832504 None:intergenic 45.0%
TGCAGATGACGCCAAAAAGA+AGG - Chr6:18831557-18831576 MsG0680031355.01.T01:intron 45.0%
! AGGACCAGTGTTGTCGATTA+TGG + Chr6:18832174-18832193 None:intergenic 45.0%
! AGTCCATGGCCCATTTTGTA+AGG + Chr6:18831144-18831163 None:intergenic 45.0%
! ATTGCCTCGTGCCTTCTTTT+TGG + Chr6:18831571-18831590 None:intergenic 45.0%
! CCATTTTGTAAGGTCACGAG+GGG + Chr6:18831134-18831153 None:intergenic 45.0%
! CCCATTTTGTAAGGTCACGA+GGG + Chr6:18831135-18831154 None:intergenic 45.0%
! GATTATGGAGGGGAGAGTTT+TGG - Chr6:18830954-18830973 MsG0680031355.01.T01:intron 45.0%
! GTTTGGATGGAGCTTTTCAG+AGG - Chr6:18830932-18830951 MsG0680031355.01.T01:intron 45.0%
! TATTAGCGGTGTCAACGAGT+CGG + Chr6:18832557-18832576 None:intergenic 45.0%
! TGCCTTTTACACTCTTCGGA+AGG - Chr6:18831777-18831796 MsG0680031355.01.T01:intron 45.0%
!!! CGATCCTGATTTTAGCTGCA+CGG - Chr6:18832478-18832497 MsG0680031355.01.T01:intron 45.0%
!! TTATATCAAAATTAAAATTA+AGG - Chr6:18830279-18830298 MsG0680031355.01.T01:intron 5.0%
!!! TATTTATTTATTTTTTTTGA+GGG - Chr6:18831198-18831217 MsG0680031355.01.T01:intron 5.0%
!!! TTATTTATTTATTTTTTTTG+AGG - Chr6:18831197-18831216 MsG0680031355.01.T01:intron 5.0%
AGCAAGAACAGTGGAGCTCA+AGG - Chr6:18831600-18831619 MsG0680031355.01.T01:intron 50.0%
CATTTGCAGGCTTGACACCA+AGG - Chr6:18832770-18832789 MsG0680031355.01.T01:CDS 50.0%
CCCACTAGTAGAGTGAGCTT+AGG - Chr6:18832196-18832215 MsG0680031355.01.T01:intron 50.0%
CCCCTCGTGACCTTACAAAA+TGG - Chr6:18831131-18831150 MsG0680031355.01.T01:CDS 50.0%
GATAAGGCGTGTCCTAGTGT+CGG + Chr6:18832631-18832650 None:intergenic 50.0%
! GCCCATTTTGTAAGGTCACG+AGG + Chr6:18831136-18831155 None:intergenic 50.0%
! TTAGTCGGCAGACTAGTCCA+TGG + Chr6:18831158-18831177 None:intergenic 50.0%
! TTGGTAACCGAGTTCGATCC+GGG + Chr6:18831263-18831282 None:intergenic 50.0%
!! GTTGGTAACCGAGTTCGATC+CGG + Chr6:18831264-18831283 None:intergenic 50.0%
ACTAGGACACGCCTTATCCG+AGG - Chr6:18832633-18832652 MsG0680031355.01.T01:intron 55.0%
GCTTGACACCAAGGAGAGGT+GGG - Chr6:18832779-18832798 MsG0680031355.01.T01:CDS 55.0%
TATGAAGCACGGACGCTCCT+CGG + Chr6:18832653-18832672 None:intergenic 55.0%
TTTCCTCTCCCACCTCTCCT+TGG + Chr6:18832790-18832809 None:intergenic 55.0%
! GACGCCAAAAAGAAGGCACG+AGG - Chr6:18831564-18831583 MsG0680031355.01.T01:intron 55.0%
! GCTCACTCTACTAGTGGGTC+AGG + Chr6:18832194-18832213 None:intergenic 55.0%
!! TGGTGGGTTAAGACCCTGCT+TGG - Chr6:18830203-18830222 MsG0680031355.01.T01:intron 55.0%
ACACCAAGGAGAGGTGGGAG+AGG - Chr6:18832784-18832803 MsG0680031355.01.T01:CDS 60.0%
CGGCTATCGTGTCCGACACT+AGG - Chr6:18832616-18832635 MsG0680031355.01.T01:intron 60.0%
GCAGGCTTGACACCAAGGAG+AGG - Chr6:18832775-18832794 MsG0680031355.01.T01:CDS 60.0%
GGCTTGACACCAAGGAGAGG+TGG - Chr6:18832778-18832797 MsG0680031355.01.T01:CDS 60.0%
GTAACCGAGTTCGATCCGGG+TGG + Chr6:18831260-18831279 None:intergenic 60.0%
TCCACCACCCGGATCGAACT+CGG - Chr6:18831253-18831272 MsG0680031355.01.T01:intron 60.0%
ACCGAGTTCGATCCGGGTGG+TGG + Chr6:18831257-18831276 None:intergenic 65.0%
GCACGGACGCTCCTCGGATA+AGG + Chr6:18832647-18832666 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr6 gene 18829897 18832821 18829897 ID=MsG0680031355.01;
Chr6 mRNA 18829897 18832821 18829897 ID=MsG0680031355.01.T01;Parent=MsG0680031355.01
Chr6 CDS 18829897 18829939 18829897 ID=MsG0680031355.01.T01.cds;Parent=MsG0680031355.01.T01
Chr6 CDS 18830979 18831195 18830979 ID=MsG0680031355.01.T01.cds;Parent=MsG0680031355.01.T01
Chr6 CDS 18831266 18831326 18831266 ID=MsG0680031355.01.T01.cds;Parent=MsG0680031355.01.T01
Chr6 CDS 18832708 18832821 18832708 ID=MsG0680031355.01.T01.cds;Parent=MsG0680031355.01.T01
Gene Sequence

>MsG0680031355.01.T01

ATGGAAAAGGAAGAAGAAGATCGAAGAAGAGAAGCAGCAATTTCATCAACACCTTGTCTTCAACCCAATTTCAATCCCAAAGGCGTTTCTCAAGATCAACTCTCCAAGTTTCGTGAACTGCACAGAAAGCGATTACAGCTAAAGTCAAAATCAAAGTTTAAGACAAAACCCAAAGTTGATATGTATTTTGTGTGTTCTGAATTGGGTTCTGCAGATGACGCCAAAAAGAAGGCACGAGGCAATGATGTATATAGCAAGAACAGTGGAGCTCAAGGATTCAAAGTTGATAACAAAGAACAAAGCCTCTTGAACAATTGTGAAAGCTTTGATTCGAAAAAGGAAGACTCAAAGGGTGGTGTATTTGCATCAAAGAAGCCAAAATTGCATTGGGGGCTTGACACCAAGGAGAGGTGGGAGAGGAAATCCAACATGTAG

Protein sequence

>MsG0680031355.01.T01

MEKEEEDRRREAAISSTPCLQPNFNPKGVSQDQLSKFRELHRKRLQLKSKSKFKTKPKVDMYFVCSELGSADDAKKKARGNDVYSKNSGAQGFKVDNKEQSLLNNCESFDSKKEDSKGGVFASKKPKLHWGLDTKERWERKSNM*