AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580024763.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580024763.01.T01 MTR_5g016100 95.181 83 4 0 1 83 51 133 6.32e-45 147
MsG0580024763.01.T01 MTR_5g016100 91.304 46 4 0 38 83 1 46 1.14e-21 85.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580024763.01.T01 AT5G67370 76.000 75 18 0 9 83 74 148 1.35e-34 120

Find 48 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTAAAGTTAAGGCATAAA+AGG 0.225823 5:+9388696 MsG0580024763.01.T01:five_prime_UTR
TGAAAACAACCTTGCTTTGT+TGG 0.310340 5:+9388518 MsG0580024763.01.T01:five_prime_UTR
AACGAACCATGGTTGCTTCC+CGG 0.333037 5:-9388629 MsG0580024766.01.T02:three_prime_UTR
GCTGTATTCATGGGGAGAAC+TGG 0.347057 5:+9389260 MsG0580024763.01.T01:CDS
CTAAAGCTTGCAGCTGCAAT+TGG 0.364895 5:-9389348 MsG0580024766.01.T02:three_prime_UTR
AAGTATATGTGTATAATGAT+TGG 0.365954 5:+9389397 MsG0580024763.01.T01:CDS
ACGGGTTTCCATTAAAGTTA+AGG 0.374992 5:+9388687 MsG0580024763.01.T01:five_prime_UTR
AAATTCGCACTTACTCTAGA+AGG 0.375714 5:-9389372 MsG0580024766.01.T02:three_prime_UTR
GGAGAAACAAGTGGATCTTC+AGG 0.375718 5:+9388729 MsG0580024763.01.T01:CDS
GGAGAAGGAAGAGGAGGAAA+AGG 0.396271 5:-9388484 MsG0580024766.01.T02:three_prime_UTR
CATACCGGTCTTTGCTCAAA+AGG 0.406196 5:-9388786 MsG0580024766.01.T02:three_prime_UTR
GGGTCGTTCTTTCTTCGCCT+TGG 0.406243 5:+9389288 MsG0580024763.01.T01:CDS
TCATGGGGAGAACTGGGTCC+AGG 0.410922 5:+9389267 MsG0580024763.01.T01:CDS
GTGGATCTTCAGGAGGTAGC+TGG 0.417633 5:+9388739 MsG0580024763.01.T01:CDS
GAGCTTCAAAATTTCTCAAC+GGG 0.420370 5:+9388669 MsG0580024763.01.T01:five_prime_UTR
AACTGCAAGACAAACTAAAC+CGG 0.436110 5:+9388610 MsG0580024763.01.T01:five_prime_UTR
TTCTTCGCCTTGGAGGTCTC+TGG 0.439796 5:+9389298 MsG0580024763.01.T01:CDS
GGGACTTCAATTTCCAATCC+AGG 0.460451 5:-9388765 MsG0580024766.01.T02:three_prime_UTR
AGTATATGTGTATAATGATT+GGG 0.461202 5:+9389398 MsG0580024763.01.T01:CDS
GGTTTAGTTTGTCTTGCAGT+TGG 0.461505 5:-9388608 MsG0580024766.01.T02:three_prime_UTR
TCAGGAGGTAGCTGGGATCC+TGG 0.464576 5:+9388747 MsG0580024763.01.T01:CDS
TTGGCAGTGTTCACAGTGCT+TGG 0.468253 5:+9389321 MsG0580024763.01.T01:CDS
AGGATGGAATGCTGTATTCA+TGG 0.479665 5:+9389250 MsG0580024763.01.T01:CDS
GAAGGAAGAGGAGGAAAAGG+AGG 0.488611 5:-9388481 MsG0580024766.01.T02:three_prime_UTR
GGCATAAAAGGTGAGATGAA+TGG 0.498108 5:+9388708 MsG0580024763.01.T01:exon
TCTTTACTTGGAGAAGGAAG+AGG 0.499084 5:-9388493 MsG0580024766.01.T02:three_prime_UTR
TCGTTCTTTCTTCGCCTTGG+AGG 0.501822 5:+9389291 MsG0580024763.01.T01:CDS
TTCAATTCTTTACTTGGAGA+AGG 0.504464 5:-9388499 MsG0580024766.01.T02:three_prime_UTR
CTGTATTCATGGGGAGAACT+GGG 0.507278 5:+9389261 MsG0580024763.01.T01:CDS
AAATGAGTACTCATCTTTGA+AGG 0.527068 5:+9389230 MsG0580024763.01.T01:CDS
AGGTAGCTGGGATCCTGGAT+TGG 0.543722 5:+9388752 MsG0580024763.01.T01:CDS
TGGATCTTCAGGAGGTAGCT+GGG 0.548745 5:+9388740 MsG0580024763.01.T01:CDS
GAGTACTCATCTTTGAAGGA+TGG 0.549927 5:+9389234 MsG0580024763.01.T01:CDS
ATACCGGTCTTTGCTCAAAA+GGG 0.558808 5:-9388785 MsG0580024766.01.T02:three_prime_UTR
TCGCCTTGGAGGTCTCTGGT+TGG 0.574053 5:+9389302 MsG0580024763.01.T01:CDS
TTACTTGGAGAAGGAAGAGG+AGG 0.575146 5:-9388490 MsG0580024766.01.T02:three_prime_UTR
GGATGGAATGCTGTATTCAT+GGG 0.587098 5:+9389251 MsG0580024763.01.T01:CDS
CATGGGGAGAACTGGGTCCA+GGG 0.587436 5:+9389268 MsG0580024763.01.T01:CDS
AGAGCTTCAAAATTTCTCAA+CGG 0.592707 5:+9388668 MsG0580024763.01.T01:five_prime_UTR
ATGAGTAAACCAACAAAGCA+AGG 0.599136 5:-9388527 MsG0580024766.01.T02:three_prime_UTR
AGGCGAAGAAAGAACGACCC+TGG 0.620568 5:-9389285 MsG0580024766.01.T02:three_prime_UTR
ACTAAACCGGGAAGCAACCA+TGG 0.621555 5:+9388623 MsG0580024763.01.T01:five_prime_UTR
TTTGGATGATGAACGAACCA+TGG 0.644971 5:-9388640 MsG0580024766.01.T02:three_prime_UTR
ACTGCAAGACAAACTAAACC+GGG 0.646464 5:+9388611 MsG0580024763.01.T01:five_prime_UTR
GAGATGAATGGAGAAACAAG+TGG 0.659434 5:+9388720 MsG0580024763.01.T01:exon
CTGCCAACCAGAGACCTCCA+AGG 0.677013 5:-9389305 MsG0580024766.01.T02:three_prime_UTR
GATGGAATGCTGTATTCATG+GGG 0.687693 5:+9389252 MsG0580024763.01.T01:CDS
GAAACAAGTGGATCTTCAGG+AGG 0.690118 5:+9388732 MsG0580024763.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAAAAATAATTACAAATAAT+TGG + Chr5:9388399-9388418 MsG0580024763.01.T01:five_prime_UTR 10.0%
!! ATGAGAAAAAATCAAAATAT+TGG + Chr5:9388993-9389012 MsG0580024763.01.T01:intron 15.0%
!!! TATAAGAAACATTTTTTAGT+GGG - Chr5:9389169-9389188 MsG0580024766.01.T02:three_prime_UTR 15.0%
!!! TTATAAGAAACATTTTTTAG+TGG - Chr5:9389170-9389189 MsG0580024766.01.T02:three_prime_UTR 15.0%
!! AAATAAACTTTGATATTGCA+TGG + Chr5:9388870-9388889 MsG0580024763.01.T01:intron 20.0%
!! AAGTATATGTGTATAATGAT+TGG + Chr5:9389397-9389416 MsG0580024763.01.T01:CDS 20.0%
!! AATAAACTTTGATATTGCAT+GGG + Chr5:9388871-9388890 MsG0580024763.01.T01:intron 20.0%
!! AGTATATGTGTATAATGATT+GGG + Chr5:9389398-9389417 MsG0580024763.01.T01:CDS 20.0%
!! ATATTAGAGTATGTATTTCA+TGG + Chr5:9389026-9389045 MsG0580024763.01.T01:intron 20.0%
!! ATGCAATATCAAAGTTTATT+TGG - Chr5:9388871-9388890 MsG0580024766.01.T02:three_prime_UTR 20.0%
!!! TAAAAGAAAGTATCAGAAAA+AGG + Chr5:9388969-9388988 MsG0580024763.01.T01:intron 20.0%
! ATAAACTTTGATATTGCATG+GGG + Chr5:9388872-9388891 MsG0580024763.01.T01:intron 25.0%
! CATTAAAGTTAAGGCATAAA+AGG + Chr5:9388696-9388715 MsG0580024763.01.T01:five_prime_UTR 25.0%
! TAAAAAGAACAGAGATAGAA+AGG + Chr5:9388925-9388944 MsG0580024763.01.T01:intron 25.0%
! TATAACATTTCATGCTAACT+TGG + Chr5:9389185-9389204 MsG0580024763.01.T01:intron 25.0%
!! CTTTTATGCCTTAACTTTAA+TGG - Chr5:9388698-9388717 MsG0580024766.01.T02:three_prime_UTR 25.0%
!!! GTTGTTTTCAATTCTTTACT+TGG - Chr5:9388508-9388527 MsG0580024766.01.T02:three_prime_UTR 25.0%
!!! TTATGCACACTTTTTTTCTT+AGG - Chr5:9388449-9388468 MsG0580024766.01.T02:three_prime_UTR 25.0%
AAATGAGTACTCATCTTTGA+AGG + Chr5:9389230-9389249 MsG0580024763.01.T01:CDS 30.0%
AGAGCTTCAAAATTTCTCAA+CGG + Chr5:9388668-9388687 MsG0580024763.01.T01:five_prime_UTR 30.0%
ATAGAAAGGAGGATAAAATG+AGG + Chr5:9388939-9388958 MsG0580024763.01.T01:intron 30.0%
TTCAATTCTTTACTTGGAGA+AGG - Chr5:9388502-9388521 MsG0580024766.01.T02:three_prime_UTR 30.0%
!!! ATTTTGAAGCTCTTGGATTT+TGG - Chr5:9388661-9388680 MsG0580024766.01.T02:three_prime_UTR 30.0%
!!! TTGAGAAATTTTGAAGCTCT+TGG - Chr5:9388668-9388687 MsG0580024766.01.T02:three_prime_UTR 30.0%
AAAGAACAGAGATAGAAAGG+AGG + Chr5:9388928-9388947 MsG0580024763.01.T01:intron 35.0%
AAATTCGCACTTACTCTAGA+AGG - Chr5:9389375-9389394 MsG0580024766.01.T02:three_prime_UTR 35.0%
AACTGCAAGACAAACTAAAC+CGG + Chr5:9388610-9388629 MsG0580024763.01.T01:five_prime_UTR 35.0%
ACGGGTTTCCATTAAAGTTA+AGG + Chr5:9388687-9388706 MsG0580024763.01.T01:five_prime_UTR 35.0%
ATGAGTAAACCAACAAAGCA+AGG - Chr5:9388530-9388549 MsG0580024766.01.T02:three_prime_UTR 35.0%
CACACACATACAAACTGAAA+CGG + Chr5:9389099-9389118 MsG0580024763.01.T01:intron 35.0%
GAGCTTCAAAATTTCTCAAC+GGG + Chr5:9388669-9388688 MsG0580024763.01.T01:five_prime_UTR 35.0%
GGAATATGTCATGGTCTAAT+AGG + Chr5:9389206-9389225 MsG0580024763.01.T01:intron 35.0%
GTAGTTGTCTACATACATAC+CGG - Chr5:9388804-9388823 MsG0580024766.01.T02:three_prime_UTR 35.0%
TGAAAACAACCTTGCTTTGT+TGG + Chr5:9388518-9388537 MsG0580024763.01.T01:five_prime_UTR 35.0%
TGCTAACTTGGAATATGTCA+TGG + Chr5:9389197-9389216 MsG0580024763.01.T01:intron 35.0%
TTGATATTGCATGGGGTAAT+AGG + Chr5:9388879-9388898 MsG0580024763.01.T01:intron 35.0%
! TTTTAACCTCTCAGTCCAAA+GGG - Chr5:9388910-9388929 MsG0580024766.01.T02:three_prime_UTR 35.0%
! TTTTTAACCTCTCAGTCCAA+AGG - Chr5:9388911-9388930 MsG0580024766.01.T02:three_prime_UTR 35.0%
ACTGCAAGACAAACTAAACC+GGG + Chr5:9388611-9388630 MsG0580024763.01.T01:five_prime_UTR 40.0%
AGGATGGAATGCTGTATTCA+TGG + Chr5:9389250-9389269 MsG0580024763.01.T01:CDS 40.0%
ATACCGGTCTTTGCTCAAAA+GGG - Chr5:9388788-9388807 MsG0580024766.01.T02:three_prime_UTR 40.0%
CTAACTGTCATGCTTTCTGA+TGG - Chr5:9389062-9389081 MsG0580024766.01.T02:three_prime_UTR 40.0%
GAAAGGAGGATAAAATGAGG+AGG + Chr5:9388942-9388961 MsG0580024763.01.T01:intron 40.0%
GAGATGAATGGAGAAACAAG+TGG + Chr5:9388720-9388739 MsG0580024763.01.T01:exon 40.0%
GATGGAATGCTGTATTCATG+GGG + Chr5:9389252-9389271 MsG0580024763.01.T01:CDS 40.0%
GGATGGAATGCTGTATTCAT+GGG + Chr5:9389251-9389270 MsG0580024763.01.T01:CDS 40.0%
GGCATAAAAGGTGAGATGAA+TGG + Chr5:9388708-9388727 MsG0580024763.01.T01:exon 40.0%
GGGTAATAGGATATTCCCTT+TGG + Chr5:9388892-9388911 MsG0580024763.01.T01:intron 40.0%
TCAGTTTGTATGTGTGTGCA+GGG - Chr5:9389097-9389116 MsG0580024766.01.T02:three_prime_UTR 40.0%
TCTTTACTTGGAGAAGGAAG+AGG - Chr5:9388496-9388515 MsG0580024766.01.T02:three_prime_UTR 40.0%
TTCAGTTTGTATGTGTGTGC+AGG - Chr5:9389098-9389117 MsG0580024766.01.T02:three_prime_UTR 40.0%
TTTGGATGATGAACGAACCA+TGG - Chr5:9388643-9388662 MsG0580024766.01.T02:three_prime_UTR 40.0%
! GAGTACTCATCTTTGAAGGA+TGG + Chr5:9389234-9389253 MsG0580024763.01.T01:CDS 40.0%
!! GGTTTAGTTTGTCTTGCAGT+TGG - Chr5:9388611-9388630 MsG0580024766.01.T02:three_prime_UTR 40.0%
CATACCGGTCTTTGCTCAAA+AGG - Chr5:9388789-9388808 MsG0580024766.01.T02:three_prime_UTR 45.0%
CTAAAGCTTGCAGCTGCAAT+TGG - Chr5:9389351-9389370 MsG0580024766.01.T02:three_prime_UTR 45.0%
CTGTATTCATGGGGAGAACT+GGG + Chr5:9389261-9389280 MsG0580024763.01.T01:CDS 45.0%
GAAACAAGTGGATCTTCAGG+AGG + Chr5:9388732-9388751 MsG0580024763.01.T01:CDS 45.0%
GATATTCCCTTTGGACTGAG+AGG + Chr5:9388901-9388920 MsG0580024763.01.T01:intron 45.0%
GGAGAAACAAGTGGATCTTC+AGG + Chr5:9388729-9388748 MsG0580024763.01.T01:CDS 45.0%
GGGACTTCAATTTCCAATCC+AGG - Chr5:9388768-9388787 MsG0580024766.01.T02:three_prime_UTR 45.0%
TGTCATGCTTTCTGATGGCT+TGG - Chr5:9389057-9389076 MsG0580024766.01.T02:three_prime_UTR 45.0%
TTACTTGGAGAAGGAAGAGG+AGG - Chr5:9388493-9388512 MsG0580024766.01.T02:three_prime_UTR 45.0%
! AGTCCCTTTTGAGCAAAGAC+CGG + Chr5:9388782-9388801 MsG0580024763.01.T01:CDS 45.0%
AACGAACCATGGTTGCTTCC+CGG - Chr5:9388632-9388651 MsG0580024766.01.T02:three_prime_UTR 50.0%
ACTAAACCGGGAAGCAACCA+TGG + Chr5:9388623-9388642 MsG0580024763.01.T01:five_prime_UTR 50.0%
GAAGGAAGAGGAGGAAAAGG+AGG - Chr5:9388484-9388503 MsG0580024766.01.T02:three_prime_UTR 50.0%
GCTGTATTCATGGGGAGAAC+TGG + Chr5:9389260-9389279 MsG0580024763.01.T01:CDS 50.0%
GGAGAAGGAAGAGGAGGAAA+AGG - Chr5:9388487-9388506 MsG0580024766.01.T02:three_prime_UTR 50.0%
TCGTTCTTTCTTCGCCTTGG+AGG + Chr5:9389291-9389310 MsG0580024763.01.T01:CDS 50.0%
TGGATCTTCAGGAGGTAGCT+GGG + Chr5:9388740-9388759 MsG0580024763.01.T01:CDS 50.0%
TTGGCAGTGTTCACAGTGCT+TGG + Chr5:9389321-9389340 MsG0580024763.01.T01:CDS 50.0%
AGGCGAAGAAAGAACGACCC+TGG - Chr5:9389288-9389307 MsG0580024766.01.T02:three_prime_UTR 55.0%
AGGTAGCTGGGATCCTGGAT+TGG + Chr5:9388752-9388771 MsG0580024763.01.T01:CDS 55.0%
GGGTCGTTCTTTCTTCGCCT+TGG + Chr5:9389288-9389307 MsG0580024763.01.T01:CDS 55.0%
GTGGATCTTCAGGAGGTAGC+TGG + Chr5:9388739-9388758 MsG0580024763.01.T01:CDS 55.0%
TTCTTCGCCTTGGAGGTCTC+TGG + Chr5:9389298-9389317 MsG0580024763.01.T01:CDS 55.0%
CATGGGGAGAACTGGGTCCA+GGG + Chr5:9389268-9389287 MsG0580024763.01.T01:CDS 60.0%
CTGCCAACCAGAGACCTCCA+AGG - Chr5:9389308-9389327 MsG0580024766.01.T02:three_prime_UTR 60.0%
TCAGGAGGTAGCTGGGATCC+TGG + Chr5:9388747-9388766 MsG0580024763.01.T01:CDS 60.0%
TCATGGGGAGAACTGGGTCC+AGG + Chr5:9389267-9389286 MsG0580024763.01.T01:CDS 60.0%
TCGCCTTGGAGGTCTCTGGT+TGG + Chr5:9389302-9389321 MsG0580024763.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr5 gene 9388387 9389431 9388387 ID=MsG0580024763.01;Name=MsG0580024763.01
Chr5 mRNA 9388387 9389431 9388387 ID=MsG0580024763.01.T01;Parent=MsG0580024763.01;Name=MsG0580024763.01.T01;_AED=0.41;_eAED=0.44;_QI=336|1|0.5|1|1|1|2|0|94
Chr5 exon 9388387 9388803 9388387 ID=MsG0580024763.01.T01:exon:2872;Parent=MsG0580024763.01.T01
Chr5 exon 9389228 9389431 9389228 ID=MsG0580024763.01.T01:exon:2873;Parent=MsG0580024763.01.T01
Chr5 five_prime_UTR 9388387 9388722 9388387 ID=MsG0580024763.01.T01:five_prime_utr;Parent=MsG0580024763.01.T01
Chr5 CDS 9388723 9388803 9388723 ID=MsG0580024763.01.T01:cds;Parent=MsG0580024763.01.T01
Chr5 CDS 9389228 9389431 9389228 ID=MsG0580024763.01.T01:cds;Parent=MsG0580024763.01.T01
Gene Sequence

>MsG0580024763.01.T01

ATGAATGGAGAAACAAGTGGATCTTCAGGAGGTAGCTGGGATCCTGGATTGGAAATTGAAGTCCCTTTTGAGCAAAGACCGGTAAATGAGTACTCATCTTTGAAGGATGGAATGCTGTATTCATGGGGAGAACTGGGTCCAGGGTCGTTCTTTCTTCGCCTTGGAGGTCTCTGGTTGGCAGTGTTCACAGTGCTTGGAGCACCAATTGCAGCTGCAAGCTTTAGTCCTTCTAGAGTAAGTGCGAATTTTAAAGTATATGTGTATAATGATTGGGATATCAAGTAA

Protein sequence

>MsG0580024763.01.T01

MNGETSGSSGGSWDPGLEIEVPFEQRPVNEYSSLKDGMLYSWGELGPGSFFLRLGGLWLAVFTVLGAPIAAASFSPSRVSANFKVYVYNDWDIK*