AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280006683.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006683.01.T01 MTR_2g012810 82.203 118 19 1 20 135 70 187 3.33e-60 185
MsG0280006683.01.T01 MTR_2g012810 82.203 118 19 1 20 135 112 229 3.77e-60 186
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006683.01.T01 AT1G61150 68.750 128 31 2 20 145 96 216 2.87e-52 166
MsG0280006683.01.T01 AT1G61150 68.750 128 31 2 20 145 96 216 2.87e-52 166
MsG0280006683.01.T01 AT1G61150 68.750 128 31 2 20 145 96 216 2.87e-52 166
MsG0280006683.01.T01 AT1G61150 68.750 128 31 2 20 145 96 216 2.87e-52 166
MsG0280006683.01.T01 AT1G61150 68.750 128 31 2 20 145 96 216 2.87e-52 166
MsG0280006683.01.T01 AT1G61150 68.750 128 31 2 20 145 90 210 3.67e-52 165
MsG0280006683.01.T01 AT1G61150 68.750 128 31 2 20 145 63 183 4.65e-52 164
MsG0280006683.01.T01 AT1G61150 68.750 128 31 2 20 145 63 183 4.65e-52 164
MsG0280006683.01.T01 AT1G61150 68.750 128 31 2 20 145 113 233 7.42e-52 165
MsG0280006683.01.T01 AT1G61150 68.750 128 31 2 20 145 113 233 7.42e-52 165
MsG0280006683.01.T01 AT1G61150 68.750 128 31 2 20 145 113 233 7.42e-52 165
MsG0280006683.01.T01 AT4G09300 48.462 130 60 2 24 151 35 159 1.61e-27 100
MsG0280006683.01.T01 AT4G09300 48.462 130 60 2 24 151 95 219 5.75e-27 101
MsG0280006683.01.T01 AT4G09300 48.462 130 60 2 24 151 96 220 6.40e-27 100
MsG0280006683.01.T01 AT4G09300 48.462 130 60 2 24 151 96 220 6.40e-27 100
MsG0280006683.01.T01 AT4G09300 45.139 144 69 3 13 151 87 225 6.78e-27 100
MsG0280006683.01.T01 AT1G11110 54.167 96 41 2 24 116 88 183 7.25e-21 85.1
MsG0280006683.01.T01 AT1G11110 56.322 87 35 2 24 107 137 223 5.48e-20 84.0
MsG0280006683.01.T01 AT1G11110 56.322 87 35 2 24 107 144 230 6.58e-20 83.6

Find 22 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGAATAGTGGCTGTTTAAT+TGG 0.243808 2:-4917285 None:intergenic
CAAACCCAATATCAGACTTT+TGG 0.278937 2:+4916218 MsG0280006683.01.T01:CDS
ATACTCCAAAAGTCTGATAT+TGG 0.281176 2:-4916223 None:intergenic
ACAAGCCAGAGTCACGAAAA+AGG 0.325763 2:+4917223 MsG0280006683.01.T01:CDS
CAAAAGTCTGATATTGGGTT+TGG 0.341686 2:-4916217 None:intergenic
AACCATCACAATGTACAATA+AGG 0.350765 2:-4917305 None:intergenic
TACTCCAAAAGTCTGATATT+GGG 0.358978 2:-4916222 None:intergenic
ATGTCAAGAAGCTCTCCAAC+TGG 0.470536 2:-4917154 None:intergenic
CAATGTACAATAAGGAATAG+TGG 0.497709 2:-4917297 None:intergenic
AGCGGCTGATCGAACTAATC+CGG 0.504613 2:+4916780 MsG0280006683.01.T01:CDS
TTCCTTATTGTACATTGTGA+TGG 0.506989 2:+4917303 MsG0280006683.01.T01:CDS
TCAGCCGCTGCTGTTGAAGA+TGG 0.510895 2:-4916766 None:intergenic
AGCTCTAGAGTTTGCACAGG+AGG 0.517633 2:+4916820 MsG0280006683.01.T01:CDS
ACAGGAGGAGCTTGCCCCAA+GGG 0.537281 2:+4916835 MsG0280006683.01.T01:CDS
GGAGCTTGCCCCAAGGGGAG+AGG 0.539784 2:+4916841 MsG0280006683.01.T01:CDS
AGAAGCTCTAGAGTTTGCAC+AGG 0.550731 2:+4916817 MsG0280006683.01.T01:CDS
CACAGGAGGAGCTTGCCCCA+AGG 0.557799 2:+4916834 MsG0280006683.01.T01:CDS
CTGATCGAACTAATCCGGAA+TGG 0.583212 2:+4916785 MsG0280006683.01.T01:CDS
GATGTCTCTAACTGTCCAGT+TGG 0.596680 2:+4917139 MsG0280006683.01.T01:CDS
AAACTTGTAGCGCTTGTAAG+CGG 0.608028 2:+4917349 MsG0280006683.01.T01:CDS
ACAGTTAGAGACATCTTCAA+AGG 0.634264 2:-4917131 None:intergenic
CAGGAGGAGCTTGCCCCAAG+GGG 0.637162 2:+4916836 MsG0280006683.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAAGTACTGATATTAAATT+TGG + Chr2:4916428-4916447 MsG0280006683.01.T01:intron 15.0%
!!! AAAGTACTGATATTAAATTT+GGG + Chr2:4916429-4916448 MsG0280006683.01.T01:intron 15.0%
!!! TTTTTTAATGAAAAATTGTG+TGG + Chr2:4916572-4916591 MsG0280006683.01.T01:intron 15.0%
!! AAAAAGTGAAAAAATACAAG+GGG - Chr2:4916511-4916530 None:intergenic 20.0%
!! AGAAAAAGTGAAAAAATACA+AGG - Chr2:4916513-4916532 None:intergenic 20.0%
!! GAAAAAGTGAAAAAATACAA+GGG - Chr2:4916512-4916531 None:intergenic 20.0%
!! TTGAAGATGGAAAAATAATT+GGG - Chr2:4916756-4916775 None:intergenic 20.0%
!!! ACTTTTTCTCAATTTTTCAT+AGG + Chr2:4916524-4916543 MsG0280006683.01.T01:intron 20.0%
!!! CAAGTTTGAATTCATTTTTA+TGG - Chr2:4917336-4917355 None:intergenic 20.0%
!!! TTTCAATTTTTGAAAGAACT+TGG + Chr2:4917034-4917053 MsG0280006683.01.T01:intron 20.0%
! AAAAGTGAAAAAATACAAGG+GGG - Chr2:4916510-4916529 None:intergenic 25.0%
! ACACGAAAAATTCATTAGAA+TGG - Chr2:4916877-4916896 None:intergenic 25.0%
! GTCGTTAGCAAAAAAATTAA+TGG - Chr2:4916610-4916629 None:intergenic 25.0%
! GTTGAAGATGGAAAAATAAT+TGG - Chr2:4916757-4916776 None:intergenic 25.0%
! TAGTCAAGAAAAAGCAAAAT+AGG + Chr2:4916994-4917013 MsG0280006683.01.T01:intron 25.0%
! TGAAGATGGAAAAATAATTG+GGG - Chr2:4916755-4916774 None:intergenic 25.0%
! TGTCATATTATAGCTTCATT+GGG + Chr2:4916903-4916922 MsG0280006683.01.T01:intron 25.0%
! TTGTCATATTATAGCTTCAT+TGG + Chr2:4916902-4916921 MsG0280006683.01.T01:intron 25.0%
!! CTATGAATTTTCATTTCACT+GGG + Chr2:4916466-4916485 MsG0280006683.01.T01:intron 25.0%
!!! ATTTCTGGCATTTTTATTGA+TGG + Chr2:4916931-4916950 MsG0280006683.01.T01:intron 25.0%
!!! TTTCTGGCATTTTTATTGAT+GGG + Chr2:4916932-4916951 MsG0280006683.01.T01:intron 25.0%
!!! TTTTGCTTTTTCTTGACTAT+AGG - Chr2:4916993-4917012 None:intergenic 25.0%
AACCATCACAATGTACAATA+AGG - Chr2:4917308-4917327 None:intergenic 30.0%
ATACTCCAAAAGTCTGATAT+TGG - Chr2:4916226-4916245 None:intergenic 30.0%
CAATGTACAATAAGGAATAG+TGG - Chr2:4917300-4917319 None:intergenic 30.0%
CCAGTGAAATGAAAATTCAT+AGG - Chr2:4916468-4916487 None:intergenic 30.0%
CTAACACATGCTTGAAATTT+GGG + Chr2:4917059-4917078 MsG0280006683.01.T01:intron 30.0%
GGGTTTATTAACAGTGAAAT+AGG + Chr2:4916952-4916971 MsG0280006683.01.T01:intron 30.0%
GTCATATTATAGCTTCATTG+GGG + Chr2:4916904-4916923 MsG0280006683.01.T01:intron 30.0%
TACTCCAAAAGTCTGATATT+GGG - Chr2:4916225-4916244 None:intergenic 30.0%
TTCCTTATTGTACATTGTGA+TGG + Chr2:4917303-4917322 MsG0280006683.01.T01:CDS 30.0%
! AAATCTTTGATGACACCAAA+TGG - Chr2:4916551-4916570 None:intergenic 30.0%
! CAATTTTTCATAGGTCCATT+TGG + Chr2:4916533-4916552 MsG0280006683.01.T01:intron 30.0%
! CCTATGAATTTTCATTTCAC+TGG + Chr2:4916465-4916484 MsG0280006683.01.T01:intron 30.0%
! GTGATTCATATGAAGTACTT+TGG + Chr2:4916354-4916373 MsG0280006683.01.T01:intron 30.0%
!! CTTCTTCTATTTTTCCATTC+CGG - Chr2:4916802-4916821 None:intergenic 30.0%
AAAGTGACAAGGACAAAAAG+AGG - Chr2:4916635-4916654 None:intergenic 35.0%
AAGTGACAAGGACAAAAAGA+GGG - Chr2:4916634-4916653 None:intergenic 35.0%
ACAGTTAGAGACATCTTCAA+AGG - Chr2:4917134-4917153 None:intergenic 35.0%
AGGAATAGTGGCTGTTTAAT+TGG - Chr2:4917288-4917307 None:intergenic 35.0%
ATGTGGGATCTTGATAAAAG+AGG + Chr2:4916392-4916411 MsG0280006683.01.T01:intron 35.0%
ATTCTTCCAAAAAGCTTTGC+TGG - Chr2:4917087-4917106 None:intergenic 35.0%
CAAAAGTCTGATATTGGGTT+TGG - Chr2:4916220-4916239 None:intergenic 35.0%
GCTAACACATGCTTGAAATT+TGG + Chr2:4917058-4917077 MsG0280006683.01.T01:intron 35.0%
TGATGAGTACAAAAGTGACA+AGG - Chr2:4916646-4916665 None:intergenic 35.0%
TTAAGCTAACTCAAAAGGTG+AGG + Chr2:4916324-4916343 MsG0280006683.01.T01:intron 35.0%
! CAAACCCAATATCAGACTTT+TGG + Chr2:4916218-4916237 MsG0280006683.01.T01:CDS 35.0%
!! GCAAAGCTTTTTGGAAGAAT+TGG + Chr2:4917087-4917106 MsG0280006683.01.T01:intron 35.0%
!!! CTTTTGGAGTATGACAAATG+TGG + Chr2:4916234-4916253 MsG0280006683.01.T01:intron 35.0%
!!! TCACCTTTTGAGTTAGCTTA+AGG - Chr2:4916325-4916344 None:intergenic 35.0%
AAACTTGTAGCGCTTGTAAG+CGG + Chr2:4917349-4917368 MsG0280006683.01.T01:CDS 40.0%
GGATGGCTCGTTAACAATTA+GGG + Chr2:4916255-4916274 MsG0280006683.01.T01:intron 40.0%
GGTTTGTATCTAGTATCTGC+AGG - Chr2:4916734-4916753 None:intergenic 40.0%
TATCAAGATCCCACATCAAC+TGG - Chr2:4916388-4916407 None:intergenic 40.0%
TGGAGTATGACAAATGTGGA+TGG + Chr2:4916238-4916257 MsG0280006683.01.T01:intron 40.0%
TGGATGGCTCGTTAACAATT+AGG + Chr2:4916254-4916273 MsG0280006683.01.T01:intron 40.0%
! TTACATTTTCCTCTCCCCTT+GGG - Chr2:4916853-4916872 None:intergenic 40.0%
! TTTACATTTTCCTCTCCCCT+TGG - Chr2:4916854-4916873 None:intergenic 40.0%
! TTTTCCATCTTCAACAGCAG+CGG + Chr2:4916762-4916781 MsG0280006683.01.T01:CDS 40.0%
!! ACAAACCTTTTTCGTGACTC+TGG - Chr2:4917231-4917250 None:intergenic 40.0%
!! CTTCATTGGGGAAGTATTTC+TGG + Chr2:4916916-4916935 MsG0280006683.01.T01:intron 40.0%
!! GCTTTTTGGAAGAATTGGAG+AGG + Chr2:4917092-4917111 MsG0280006683.01.T01:CDS 40.0%
ACAAGCCAGAGTCACGAAAA+AGG + Chr2:4917223-4917242 MsG0280006683.01.T01:CDS 45.0%
ATGTCAAGAAGCTCTCCAAC+TGG - Chr2:4917157-4917176 None:intergenic 45.0%
CTGATCGAACTAATCCGGAA+TGG + Chr2:4916785-4916804 MsG0280006683.01.T01:CDS 45.0%
GATGTCTCTAACTGTCCAGT+TGG + Chr2:4917139-4917158 MsG0280006683.01.T01:CDS 45.0%
GCGCCTTAAGCTAACTCAAA+AGG + Chr2:4916319-4916338 MsG0280006683.01.T01:intron 45.0%
GCGTCTAAAAACAGCAAGTG+AGG + Chr2:4917183-4917202 MsG0280006683.01.T01:CDS 45.0%
GGCTCGTTAACAATTAGGGT+AGG + Chr2:4916259-4916278 MsG0280006683.01.T01:intron 45.0%
TCCCACATCAACTGGAGTTA+TGG - Chr2:4916380-4916399 None:intergenic 45.0%
! GCCATAACTCCAGTTGATGT+GGG + Chr2:4916376-4916395 MsG0280006683.01.T01:intron 45.0%
! TACATTTTCCTCTCCCCTTG+GGG - Chr2:4916852-4916871 None:intergenic 45.0%
! TGGGTTCCAGCAAAGCTTTT+TGG + Chr2:4917078-4917097 MsG0280006683.01.T01:intron 45.0%
! TTGAGTTAGCTTAAGGCGCT+GGG - Chr2:4916318-4916337 None:intergenic 45.0%
! TTTGAGTTAGCTTAAGGCGC+TGG - Chr2:4916319-4916338 None:intergenic 45.0%
!! AGAAGCTCTAGAGTTTGCAC+AGG + Chr2:4916817-4916836 MsG0280006683.01.T01:CDS 45.0%
AGCGGCTGATCGAACTAATC+CGG + Chr2:4916780-4916799 MsG0280006683.01.T01:CDS 50.0%
! GGCCATAACTCCAGTTGATG+TGG + Chr2:4916375-4916394 MsG0280006683.01.T01:intron 50.0%
!! AGCTCTAGAGTTTGCACAGG+AGG + Chr2:4916820-4916839 MsG0280006683.01.T01:CDS 50.0%
TCAGCCGCTGCTGTTGAAGA+TGG - Chr2:4916769-4916788 None:intergenic 55.0%
ACAGGAGGAGCTTGCCCCAA+GGG + Chr2:4916835-4916854 MsG0280006683.01.T01:CDS 60.0%
CACAGGAGGAGCTTGCCCCA+AGG + Chr2:4916834-4916853 MsG0280006683.01.T01:CDS 65.0%
CAGGAGGAGCTTGCCCCAAG+GGG + Chr2:4916836-4916855 MsG0280006683.01.T01:CDS 65.0%
GGAGCTTGCCCCAAGGGGAG+AGG + Chr2:4916841-4916860 MsG0280006683.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
Chr2 gene 4916210 4917375 4916210 ID=MsG0280006683.01;Name=MsG0280006683.01
Chr2 mRNA 4916210 4917375 4916210 ID=MsG0280006683.01.T01;Parent=MsG0280006683.01;Name=MsG0280006683.01.T01;_AED=0.46;_eAED=0.58;_QI=0|0.5|0.33|1|0|0|3|0|153
Chr2 exon 4916210 4916252 4916210 ID=MsG0280006683.01.T01:exon:1831;Parent=MsG0280006683.01.T01
Chr2 exon 4916738 4916868 4916738 ID=MsG0280006683.01.T01:exon:1832;Parent=MsG0280006683.01.T01
Chr2 exon 4917088 4917375 4917088 ID=MsG0280006683.01.T01:exon:1833;Parent=MsG0280006683.01.T01
Chr2 CDS 4916210 4916252 4916210 ID=MsG0280006683.01.T01:cds;Parent=MsG0280006683.01.T01
Chr2 CDS 4916738 4916868 4916738 ID=MsG0280006683.01.T01:cds;Parent=MsG0280006683.01.T01
Chr2 CDS 4917088 4917375 4917088 ID=MsG0280006683.01.T01:cds;Parent=MsG0280006683.01.T01
Gene Sequence

>MsG0280006683.01.T01

ATGGGAACCAAACCCAATATCAGACTTTTGGAGTATGACAAATATACTAGATACAAACCCCAATTATTTTTCCATCTTCAACAGCAGCGGCTGATCGAACTAATCCGGAATGGAAAAATAGAAGAAGCTCTAGAGTTTGCACAGGAGGAGCTTGCCCCAAGGGGAGAGGAAAATCAAAGCTTTTTGGAAGAATTGGAGAGGACTGTTGCACTGCTTGCCTTTGAAGATGTCTCTAACTGTCCAGTTGGAGAGCTTCTTGACATATCACAGCGTCTAAAAACAGCAAGTGAGGTGAATGCAGCTATACTTACAAGCCAGAGTCACGAAAAAGGTTTGTGTTTGCTTCAAAAAGCTGTTTTTTTTTTTTTGTGCCAATTAAACAGCCACTATTCCTTATTGTACATTGTGATGGTTTATATCCATAAAAATGAATTCAAACTTGTAGCGCTTGTAAGCGGTTAA
Protein sequence

>MsG0280006683.01.T01

MGTKPNIRLLEYDKYTRYKPQLFFHLQQQRLIELIRNGKIEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDVSNCPVGELLDISQRLKTASEVNAAILTSQSHEKGLCLLQKAVFFFLCQLNSHYSLLYIVMVYIHKNEFKLVALVSG*