AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680032665.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680032665.01.T01 MTR_3g109950 69.481 154 12 2 1 119 126 279 4.42e-62 197
MsG0680032665.01.T01 MTR_3g109950 69.481 154 12 2 1 119 126 279 8.50e-62 196
MsG0680032665.01.T01 MTR_3g109950 69.481 154 12 2 1 119 126 279 9.03e-62 195
MsG0680032665.01.T01 MTR_5g019950 47.436 156 42 4 1 119 129 281 7.47e-37 131
MsG0680032665.01.T01 MTR_8g077830 47.170 159 43 4 1 119 122 279 2.54e-35 127
MsG0680032665.01.T01 MTR_1g026910 42.945 163 49 4 1 119 106 268 7.14e-32 117
MsG0680032665.01.T01 MTR_1g026910 42.945 163 49 4 1 119 106 268 1.02e-31 117
MsG0680032665.01.T01 MTR_8g088080 43.293 164 50 4 1 121 125 288 2.35e-31 116
MsG0680032665.01.T01 MTR_8g088070 41.104 163 52 3 1 119 119 281 4.98e-31 115
MsG0680032665.01.T01 MTR_7g103300 65.714 70 24 0 1 70 110 179 1.75e-28 107
MsG0680032665.01.T01 MTR_7g103300 65.714 70 24 0 1 70 20 89 2.02e-28 107
MsG0680032665.01.T01 MTR_7g103300 65.714 70 24 0 1 70 110 179 2.14e-28 107
MsG0680032665.01.T01 MTR_7g103300 65.714 70 24 0 1 70 110 179 3.14e-28 107
MsG0680032665.01.T01 MTR_7g103300 65.714 70 24 0 1 70 62 131 3.31e-28 107
MsG0680032665.01.T01 MTR_7g103300 65.714 70 24 0 1 70 110 179 4.44e-28 107
MsG0680032665.01.T01 MTR_1g061710 63.768 69 25 0 1 69 111 179 7.91e-26 101
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680032665.01.T01 AT2G25737 55.280 161 31 3 1 120 127 287 1.12e-46 155
MsG0680032665.01.T01 AT2G25737 55.280 161 31 3 1 120 127 287 4.94e-46 155
MsG0680032665.01.T01 AT2G36630 50.538 93 41 1 1 93 107 194 2.85e-26 102
MsG0680032665.01.T01 AT1G11540 47.436 78 39 2 1 77 19 95 1.02e-13 67.0
MsG0680032665.01.T01 AT1G11540 47.436 78 39 2 1 77 102 178 1.09e-13 67.0
MsG0680032665.01.T01 AT1G61740 38.542 96 51 2 1 88 106 201 1.12e-12 64.3

Find 28 sgRNAs with CRISPR-Local

Find 107 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGTATATTGGAAGGAGTT+TGG 0.234623 6:+47165794 MsG0680032665.01.T01:CDS
ATGTATATTGGAAGGAGTTT+GGG 0.321228 6:+47165795 MsG0680032665.01.T01:CDS
TACATGTTCTGCTGCATATT+GGG 0.323539 6:+47165993 MsG0680032665.01.T01:CDS
CTACATGTTCTGCTGCATAT+TGG 0.324025 6:+47165992 MsG0680032665.01.T01:CDS
GCCAATCATTGACTATGATT+TGG 0.335930 6:+47164772 MsG0680032665.01.T01:CDS
TCAACGTTGTATTTCCTGAT+TGG 0.361915 6:+47164846 MsG0680032665.01.T01:CDS
CTATAATTGAAAATGTATAT+TGG 0.377259 6:+47165783 MsG0680032665.01.T01:CDS
GAATATAAAGCTCTTCCAAC+TGG 0.413552 6:+47165525 MsG0680032665.01.T01:CDS
AATATAGTGACAAGCCAATC+AGG 0.423808 6:-47164860 None:intergenic
GCCAAATCATAGTCAATGAT+TGG 0.441902 6:-47164773 None:intergenic
ACAAGTAAATTTACCTCTTG+TGG 0.454854 6:+47166029 MsG0680032665.01.T01:CDS
ATTCAACCTATGTTAATGCT+TGG 0.473639 6:+47164803 MsG0680032665.01.T01:CDS
TTTGTTTCAGGTATGGTCAT+GGG 0.488773 6:+47164692 None:intergenic
GTTTGTTTCAGGTATGGTCA+TGG 0.493247 6:+47164691 None:intergenic
AGGAATGAAATCCACACAAA+TGG 0.507054 6:-47165824 None:intergenic
ACCAAATGTTGCCATTGAAA+AGG 0.507227 6:+47165548 MsG0680032665.01.T01:CDS
ATGGCAACATTTGGTCCAGT+TGG 0.520257 6:-47165540 None:intergenic
TTAATGCTTGGAATCAGCAT+TGG 0.528414 6:+47164815 MsG0680032665.01.T01:CDS
CTGATTCCAAGCATTAACAT+AGG 0.546907 6:-47164809 None:intergenic
AATTGAAAATGTATATTGGA+AGG 0.548451 6:+47165787 MsG0680032665.01.T01:CDS
CAACTGTCTACTACAACCTC+AGG 0.551520 6:+47164726 MsG0680032665.01.T01:CDS
GTCAATGATTGGCATATCCA+AGG 0.593318 6:-47164762 None:intergenic
AAGAAAAGCAGAACCACAAG+AGG 0.603028 6:-47166042 None:intergenic
CAGGCTGAGACATCCTACCT+TGG 0.609778 6:+47164745 MsG0680032665.01.T01:CDS
ATGATTGGCATATCCAAGGT+AGG 0.612586 6:-47164758 None:intergenic
AGGTAGGATGTCTCAGCCTG+AGG 0.637706 6:-47164742 None:intergenic
GCTTGGAATCAGCATTGGAG+TGG 0.667172 6:+47164820 MsG0680032665.01.T01:CDS
TGCCATTGAAAAGGAAAACG+AGG 0.701492 6:+47165557 MsG0680032665.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TACCAAATTATTATTAAATA+TGG - Chr6:47165619-47165638 None:intergenic 10.0%
!! TTCCATATTTAATAATAATT+TGG + Chr6:47165614-47165633 MsG0680032665.01.T01:intron 10.0%
!! AACGAATTATTATATCAATA+AGG - Chr6:47165750-47165769 None:intergenic 15.0%
!! ATTAATTGAAAGTTATAAAC+TGG - Chr6:47165904-47165923 None:intergenic 15.0%
!! CTATAATTGAAAATGTATAT+TGG + Chr6:47165783-47165802 MsG0680032665.01.T01:CDS 15.0%
!! TACTACATGATATATTAAAT+GGG - Chr6:47165029-47165048 None:intergenic 15.0%
!! AATTGAAAATGTATATTGGA+AGG + Chr6:47165787-47165806 MsG0680032665.01.T01:CDS 20.0%
!! GTACTACATGATATATTAAA+TGG - Chr6:47165030-47165049 None:intergenic 20.0%
! ATAAGAGTAAAAATATTCCG+AGG - Chr6:47164935-47164954 None:intergenic 25.0%
! ATAATAATTCGTTCAATTGC+AGG + Chr6:47165757-47165776 MsG0680032665.01.T01:intron 25.0%
! GTACAAGAGACTATTATATT+GGG + Chr6:47165579-47165598 MsG0680032665.01.T01:intron 25.0%
! TAAGGAAACCATAATGAAAA+AGG + Chr6:47165002-47165021 MsG0680032665.01.T01:intron 25.0%
! TACAAGAGACTATTATATTG+GGG + Chr6:47165580-47165599 MsG0680032665.01.T01:intron 25.0%
!! TTGCTTATTGTTCTTTTCTT+AGG + Chr6:47164881-47164900 MsG0680032665.01.T01:CDS 25.0%
!!! CACTAATGATCTTTTTTCAA+TGG + Chr6:47165660-47165679 MsG0680032665.01.T01:intron 25.0%
!!! GAATATTTTTACTCTTATGC+AGG + Chr6:47164937-47164956 MsG0680032665.01.T01:intron 25.0%
AATGTATATTGGAAGGAGTT+TGG + Chr6:47165794-47165813 MsG0680032665.01.T01:CDS 30.0%
ACAAGAGACTATTATATTGG+GGG + Chr6:47165581-47165600 MsG0680032665.01.T01:intron 30.0%
ACAAGTAAATTTACCTCTTG+TGG + Chr6:47166029-47166048 MsG0680032665.01.T01:CDS 30.0%
AGTATGATTCCTAATTGGAT+CGG + Chr6:47165240-47165259 MsG0680032665.01.T01:intron 30.0%
ATGTATATTGGAAGGAGTTT+GGG + Chr6:47165795-47165814 MsG0680032665.01.T01:CDS 30.0%
ATTCAACCTATGTTAATGCT+TGG + Chr6:47164803-47164822 MsG0680032665.01.T01:CDS 30.0%
CAACAAAAATGTCTAATTCC+TGG - Chr6:47164910-47164929 None:intergenic 30.0%
GGTACAAGAGACTATTATAT+TGG + Chr6:47165578-47165597 MsG0680032665.01.T01:intron 30.0%
TATCTTGATCATCAAACAGT+TGG + Chr6:47165215-47165234 MsG0680032665.01.T01:intron 30.0%
TGATGATCAAGATAAGAGAA+GGG - Chr6:47165209-47165228 None:intergenic 30.0%
TGGTTAGTATGATTCCTAAT+TGG + Chr6:47165235-47165254 MsG0680032665.01.T01:intron 30.0%
TTGTCCTTCTAATCTAATGA+CGG - Chr6:47165706-47165725 None:intergenic 30.0%
! CACTGTATTTTCACTATCTT+TGG + Chr6:47165061-47165080 MsG0680032665.01.T01:intron 30.0%
! TCAATAAGGTGTCAATTTAG+TGG - Chr6:47165736-47165755 None:intergenic 30.0%
! TTGATGATCAAGATAAGAGA+AGG - Chr6:47165210-47165229 None:intergenic 30.0%
!! AAATGGGACCTTTTTCATTA+TGG - Chr6:47165013-47165032 None:intergenic 30.0%
!! CAACAAAGGCATTCTTTAAA+GGG + Chr6:47164965-47164984 MsG0680032665.01.T01:intron 30.0%
!! TCAACAAAGGCATTCTTTAA+AGG + Chr6:47164964-47164983 MsG0680032665.01.T01:intron 30.0%
!!! AACCTATTTTAACTCATTCG+AGG + Chr6:47165431-47165450 MsG0680032665.01.T01:intron 30.0%
!!! ATTTCTTTTTGGTTAGGTTC+AGG + Chr6:47165501-47165520 MsG0680032665.01.T01:intron 30.0%
!!! TGTTCGATTTCTTTTTGGTT+AGG + Chr6:47165495-47165514 MsG0680032665.01.T01:intron 30.0%
AACTCCGTCATTAGATTAGA+AGG + Chr6:47165699-47165718 MsG0680032665.01.T01:intron 35.0%
AATATAGTGACAAGCCAATC+AGG - Chr6:47164863-47164882 None:intergenic 35.0%
ACCAAATGTTGCCATTGAAA+AGG + Chr6:47165548-47165567 MsG0680032665.01.T01:CDS 35.0%
AGGAATGAAATCCACACAAA+TGG - Chr6:47165827-47165846 None:intergenic 35.0%
CTCCTCGAATGAGTTAAAAT+AGG - Chr6:47165436-47165455 None:intergenic 35.0%
CTGATTCCAAGCATTAACAT+AGG - Chr6:47164812-47164831 None:intergenic 35.0%
GAATATAAAGCTCTTCCAAC+TGG + Chr6:47165525-47165544 MsG0680032665.01.T01:CDS 35.0%
GCCAAATCATAGTCAATGAT+TGG - Chr6:47164776-47164795 None:intergenic 35.0%
TACATGTTCTGCTGCATATT+GGG + Chr6:47165993-47166012 MsG0680032665.01.T01:CDS 35.0%
TAGAAAGTTAGAAGCTATCG+CGG - Chr6:47165382-47165401 None:intergenic 35.0%
TCAACGTTGTATTTCCTGAT+TGG + Chr6:47164846-47164865 MsG0680032665.01.T01:CDS 35.0%
TTAATGCTTGGAATCAGCAT+TGG + Chr6:47164815-47164834 MsG0680032665.01.T01:CDS 35.0%
TTGAAACTCTCGATTGAGAA+GGG - Chr6:47165168-47165187 None:intergenic 35.0%
! CTATTTGCTGAAACGATTTC+CGG + Chr6:47165340-47165359 MsG0680032665.01.T01:intron 35.0%
! GAGTGTGTTCGATTTCTTTT+TGG + Chr6:47165490-47165509 MsG0680032665.01.T01:intron 35.0%
! GCCAATCATTGACTATGATT+TGG + Chr6:47164772-47164791 MsG0680032665.01.T01:CDS 35.0%
! TACCTCGTTTTCCTTTTCAA+TGG - Chr6:47165562-47165581 None:intergenic 35.0%
! TAGACATTTTTGTTGCTCCT+CGG + Chr6:47164915-47164934 MsG0680032665.01.T01:intron 35.0%
! TCCTTTTCAATGGCAACATT+TGG - Chr6:47165552-47165571 None:intergenic 35.0%
! TGTTCTTTTCTTAGGTAACC+AGG + Chr6:47164889-47164908 MsG0680032665.01.T01:intron 35.0%
! TTTGAAACTCTCGATTGAGA+AGG - Chr6:47165169-47165188 None:intergenic 35.0%
!!! CTATTTTAACTCATTCGAGG+AGG + Chr6:47165434-47165453 MsG0680032665.01.T01:intron 35.0%
AAACGATTTCCGGTTCCTTA+TGG + Chr6:47165350-47165369 MsG0680032665.01.T01:intron 40.0%
AAGAAAAGCAGAACCACAAG+AGG - Chr6:47166045-47166064 None:intergenic 40.0%
ACCATTTGATTCTTGTCTCC+TGG - Chr6:47165463-47165482 None:intergenic 40.0%
AGAAGACATCCGATCCAATT+AGG - Chr6:47165252-47165271 None:intergenic 40.0%
AGAGACTATTATATTGGGGG+AGG + Chr6:47165584-47165603 MsG0680032665.01.T01:intron 40.0%
ATGATTGGCATATCCAAGGT+AGG - Chr6:47164761-47164780 None:intergenic 40.0%
CTACATGTTCTGCTGCATAT+TGG + Chr6:47165992-47166011 MsG0680032665.01.T01:CDS 40.0%
GAGACTATTATATTGGGGGA+GGG + Chr6:47165585-47165604 MsG0680032665.01.T01:intron 40.0%
GGAGAATGTCATTGCAAAAG+CGG - Chr6:47165297-47165316 None:intergenic 40.0%
GTCAATGATTGGCATATCCA+AGG - Chr6:47164765-47164784 None:intergenic 40.0%
TCCAGGAGACAAGAATCAAA+TGG + Chr6:47165459-47165478 MsG0680032665.01.T01:intron 40.0%
TGCCATTGAAAAGGAAAACG+AGG + Chr6:47165557-47165576 MsG0680032665.01.T01:CDS 40.0%
TGTGATGACATAACAGACCT+TGG - Chr6:47165864-47165883 None:intergenic 40.0%
TTATGCAGGCACATCAACAA+AGG + Chr6:47164951-47164970 MsG0680032665.01.T01:intron 40.0%
TTCTACAACAGACATAGACG+AGG - Chr6:47165318-47165337 None:intergenic 40.0%
! TCTTTAAAGGGCTTGAGACA+TGG + Chr6:47164977-47164996 MsG0680032665.01.T01:intron 40.0%
! TTTCACTATCTTTGGTGTGC+TGG + Chr6:47165069-47165088 MsG0680032665.01.T01:intron 40.0%
!! ACCCCTAGCTTTAGAAAAAG+CGG - Chr6:47165145-47165164 None:intergenic 40.0%
!!! GATCTTTTTTCAATGGTCCC+TGG + Chr6:47165667-47165686 MsG0680032665.01.T01:intron 40.0%
!!! GTCCGCTTTTTCTAAAGCTA+GGG + Chr6:47165140-47165159 MsG0680032665.01.T01:intron 40.0%
!!! TCCGCTTTTTCTAAAGCTAG+GGG + Chr6:47165141-47165160 MsG0680032665.01.T01:intron 40.0%
ACGGAGTTCAAATTCCTCCA+GGG - Chr6:47165687-47165706 None:intergenic 45.0%
AGGGCTTGAGACATGGAATA+AGG + Chr6:47164984-47165003 MsG0680032665.01.T01:intron 45.0%
ATGGCAACATTTGGTCCAGT+TGG - Chr6:47165543-47165562 None:intergenic 45.0%
CAACTGTCTACTACAACCTC+AGG + Chr6:47164726-47164745 MsG0680032665.01.T01:CDS 45.0%
TTGGGCTTCTACCATTTGTG+TGG + Chr6:47165813-47165832 MsG0680032665.01.T01:intron 45.0%
!! ACTAGGGGGCAGATTTGTTA+TGG + Chr6:47165117-47165136 MsG0680032665.01.T01:intron 45.0%
!! CTAGGGGGCAGATTTGTTAT+GGG + Chr6:47165118-47165137 MsG0680032665.01.T01:intron 45.0%
!!! CTTTTTTCAATGGTCCCTGG+AGG + Chr6:47165670-47165689 MsG0680032665.01.T01:intron 45.0%
!!! GGTCCGCTTTTTCTAAAGCT+AGG + Chr6:47165139-47165158 MsG0680032665.01.T01:intron 45.0%
CCTTGCACTACAGATTGCCA+AGG + Chr6:47165844-47165863 MsG0680032665.01.T01:intron 50.0%
CCTTGGCAATCTGTAGTGCA+AGG - Chr6:47165847-47165866 None:intergenic 50.0%
CGGCACAAACCATAAGGAAC+CGG - Chr6:47165362-47165381 None:intergenic 50.0%
CTATCGCGGCACAAACCATA+AGG - Chr6:47165368-47165387 None:intergenic 50.0%
GACGGAGTTCAAATTCCTCC+AGG - Chr6:47165688-47165707 None:intergenic 50.0%
TGTCATTGCAAAAGCGGTCG+TGG - Chr6:47165291-47165310 None:intergenic 50.0%
! ACTATCTTTGGTGTGCTGGC+TGG + Chr6:47165073-47165092 MsG0680032665.01.T01:intron 50.0%
! GCTTGGAATCAGCATTGGAG+TGG + Chr6:47164820-47164839 MsG0680032665.01.T01:CDS 50.0%
!! GGTATAGTCGGTGGATTGCT+AGG + Chr6:47165094-47165113 MsG0680032665.01.T01:intron 50.0%
!! TCGGTGGATTGCTAGGACTA+GGG + Chr6:47165101-47165120 MsG0680032665.01.T01:intron 50.0%
ACTCATTCGAGGAGGCTTCC+AGG + Chr6:47165442-47165461 MsG0680032665.01.T01:intron 55.0%
AGGTAGGATGTCTCAGCCTG+AGG - Chr6:47164745-47164764 None:intergenic 55.0%
CAGGCTGAGACATCCTACCT+TGG + Chr6:47164745-47164764 MsG0680032665.01.T01:CDS 55.0%
!! CGGTGGATTGCTAGGACTAG+GGG + Chr6:47165102-47165121 MsG0680032665.01.T01:intron 55.0%
!! GGTGGATTGCTAGGACTAGG+GGG + Chr6:47165103-47165122 MsG0680032665.01.T01:intron 55.0%
!! GGTGTGCTGGCTGGTATAGT+CGG + Chr6:47165082-47165101 MsG0680032665.01.T01:intron 55.0%
!! GTCGGTGGATTGCTAGGACT+AGG + Chr6:47165100-47165119 MsG0680032665.01.T01:intron 55.0%
!! GTGCTGGCTGGTATAGTCGG+TGG + Chr6:47165085-47165104 MsG0680032665.01.T01:intron 60.0%
Chromosome Type Strat End Strand Name
Chr6 gene 47164704 47166070 47164704 ID=MsG0680032665.01;Name=MsG0680032665.01
Chr6 mRNA 47164704 47166070 47164704 ID=MsG0680032665.01.T01;Parent=MsG0680032665.01;Name=MsG0680032665.01.T01;_AED=0.41;_eAED=0.56;_QI=0|0|0|1|0.66|0.5|4|0|139
Chr6 exon 47164704 47164902 47164704 ID=MsG0680032665.01.T01:exon:10625;Parent=MsG0680032665.01.T01
Chr6 exon 47165517 47165578 47165517 ID=MsG0680032665.01.T01:exon:10626;Parent=MsG0680032665.01.T01
Chr6 exon 47165779 47165831 47165779 ID=MsG0680032665.01.T01:exon:10627;Parent=MsG0680032665.01.T01
Chr6 exon 47165965 47166070 47165965 ID=MsG0680032665.01.T01:exon:10628;Parent=MsG0680032665.01.T01
Chr6 CDS 47164704 47164902 47164704 ID=MsG0680032665.01.T01:cds;Parent=MsG0680032665.01.T01
Chr6 CDS 47165517 47165578 47165517 ID=MsG0680032665.01.T01:cds;Parent=MsG0680032665.01.T01
Chr6 CDS 47165779 47165831 47165779 ID=MsG0680032665.01.T01:cds;Parent=MsG0680032665.01.T01
Chr6 CDS 47165965 47166070 47165965 ID=MsG0680032665.01.T01:cds;Parent=MsG0680032665.01.T01
Gene Sequence

>MsG0680032665.01.T01

ATGGTCATGGGTGCAGCTCTGTCAACTGTCTACTACAACCTCAGGCTGAGACATCCTACCTTGGATATGCCAATCATTGACTATGATTTGGCACTTCTCATTCAACCTATGTTAATGCTTGGAATCAGCATTGGAGTGGTCTTCAACGTTGTATTTCCTGATTGGCTTGTCACTATATTGCTTATTGTTCTTTTCTTAGGTTCAGGAGAATATAAAGCTCTTCCAACTGGACCAAATGTTGCCATTGAAAAGGAAAACGAGGTGTCTATAATTGAAAATGTATATTGGAAGGAGTTTGGGCTTCTACCATTTGTTCTCTTGTTAACAGCAAAACTACACAACTACATGTTCTGCTGCATATTGGGTACTGAACTTGTTACAAGTAAATTTACCTCTTGTGGTTCTGCTTTTCTTGATTGA
Protein sequence

>MsG0680032665.01.T01

MVMGAALSTVYYNLRLRHPTLDMPIIDYDLALLIQPMLMLGISIGVVFNVVFPDWLVTILLIVLFLGSGEYKALPTGPNVAIEKENEVSIIENVYWKEFGLLPFVLLLTAKLHNYMFCCILGTELVTSKFTSCGSAFLD*