AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680031333.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680031333.01.T01 MTR_6g029240 85.185 81 5 1 4 84 53 126 3.17e-41 137
MsG0680031333.01.T01 MTR_3g074620 49.231 65 26 1 20 84 80 137 2.31e-13 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680031333.01.T01 AT5G18120 51.190 84 34 1 1 84 5 81 2.78e-24 92.8
MsG0680031333.01.T01 AT3G03860 50.617 81 33 1 4 84 59 132 4.68e-23 90.5
MsG0680031333.01.T01 AT5G18120 50.617 81 33 1 4 84 55 128 5.04e-22 87.8
MsG0680031333.01.T01 AT5G18120 58.730 63 19 1 22 84 10 65 6.30e-19 78.6
MsG0680031333.01.T01 AT1G34780 42.029 69 33 1 16 84 78 139 5.83e-13 63.5
MsG0680031333.01.T01 AT4G08930 35.135 74 41 1 11 84 66 132 2.17e-11 58.9

Find 26 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAACTAAGAGCTTCAAATTT+AGG 0.163201 6:-18362157 None:intergenic
AGCTCTTAGTTCCATGTTTC+CGG 0.212131 6:+18362168 MsG0680031333.01.T01:CDS
GGAAGCATTCTGCGGGAAAA+TGG 0.226560 6:-18362136 None:intergenic
AGCAGCTTATATTCAAAATA+TGG 0.256366 6:+18362768 MsG0680031333.01.T01:intron
ATAACCAAATGCTCTATTTC+CGG 0.269637 6:-18362187 None:intergenic
CTATACTCTTCTATGCTTCC+TGG 0.293178 6:+18362110 MsG0680031333.01.T01:CDS
GTTTCCGGAAATAGAGCATT+TGG 0.357492 6:+18362183 MsG0680031333.01.T01:CDS
TTCGTTGACGAAGTTCTATC+TGG 0.441060 6:+18362064 MsG0680031333.01.T01:CDS
CAACAATTTATTCAGGTGGA+TGG 0.445643 6:+18362037 MsG0680031333.01.T01:intron
GAAGCATTCTGCGGGAAAAT+GGG 0.446680 6:-18362135 None:intergenic
ATCGTCTGCCTGTTGTGTGC+AGG 0.509751 6:+18362796 MsG0680031333.01.T01:CDS
ATAAAAGCATATAATGGAAA+CGG 0.512744 6:+18361930 None:intergenic
TGTTACACAAACTCTTGTGT+AGG 0.513613 6:+18362863 MsG0680031333.01.T01:CDS
ATGTGGGTCCTGCACACAAC+AGG 0.517341 6:-18362804 None:intergenic
GTTACACAAACTCTTGTGTA+GGG 0.524351 6:+18362864 MsG0680031333.01.T01:CDS
ATGCTCTATTTCCGGAAACA+TGG 0.539291 6:-18362179 None:intergenic
TTAGCCATCCCACGTGCATG+TGG 0.561887 6:-18362821 None:intergenic
AAATTTAGGAAGCATTCTGC+GGG 0.564708 6:-18362143 None:intergenic
GGACCCACATGCACGTGGGA+TGG 0.569017 6:+18362817 MsG0680031333.01.T01:CDS
CAAATTTAGGAAGCATTCTG+CGG 0.584243 6:-18362144 None:intergenic
TCTGCGGGAAAATGGGCACC+AGG 0.602668 6:-18362128 None:intergenic
AGCAATCATCAGCTTTACCA+AGG 0.608417 6:+18362212 MsG0680031333.01.T01:CDS
TGCACACAACAGGCAGACGA+TGG 0.628513 6:-18362794 None:intergenic
TAGCCATCCCACGTGCATGT+GGG 0.632613 6:-18362820 None:intergenic
GTGCAGGACCCACATGCACG+TGG 0.642672 6:+18362812 MsG0680031333.01.T01:CDS
TGCAGGACCCACATGCACGT+GGG 0.736763 6:+18362813 MsG0680031333.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTGATTAAAAATTACTTAA+TGG - Chr6:18362394-18362413 None:intergenic 10.0%
!!! TTAATCAATTTTTTAAAAAC+CGG + Chr6:18362405-18362424 MsG0680031333.01.T01:intron 10.0%
!! ATAATTACAACAATTTATTC+AGG + Chr6:18362030-18362049 MsG0680031333.01.T01:intron 15.0%
!! GAATAAATTGTTGTAATTAT+TGG - Chr6:18362030-18362049 None:intergenic 15.0%
!! TTTATAATCAAATTCAACTG+TGG - Chr6:18362490-18362509 None:intergenic 20.0%
!!! GTTTTAAAAATATAGCATAC+TGG + Chr6:18362326-18362345 MsG0680031333.01.T01:intron 20.0%
!!! TTTTATTTTAGTAGAACCTA+TGG + Chr6:18362681-18362700 MsG0680031333.01.T01:intron 20.0%
! ACGAGTAAGTATTAAAAAGA+AGG + Chr6:18362524-18362543 MsG0680031333.01.T01:intron 25.0%
! AGCAGCTTATATTCAAAATA+TGG + Chr6:18362768-18362787 MsG0680031333.01.T01:intron 25.0%
! AGGAAATTAAAAATAGAACC+GGG - Chr6:18362251-18362270 None:intergenic 25.0%
! ATTACAACAATTTATTCAGG+TGG + Chr6:18362033-18362052 MsG0680031333.01.T01:intron 25.0%
! CAGGAAATTAAAAATAGAAC+CGG - Chr6:18362252-18362271 None:intergenic 25.0%
! TGAGTTCATAATTATTATCC+AGG - Chr6:18362271-18362290 None:intergenic 25.0%
!! GTTTTTGCTCAATTTTATTG+TGG - Chr6:18361960-18361979 None:intergenic 25.0%
ACTCAATTTCTTGTGTTGTA+TGG + Chr6:18362286-18362305 MsG0680031333.01.T01:intron 30.0%
ATAACCAAATGCTCTATTTC+CGG - Chr6:18362190-18362209 None:intergenic 30.0%
GAACTAAGAGCTTCAAATTT+AGG - Chr6:18362160-18362179 None:intergenic 30.0%
GGAAATTAAAAATAGAACCG+GGG - Chr6:18362250-18362269 None:intergenic 30.0%
!!! CGGTTCTATTTTTAATTTCC+TGG + Chr6:18362250-18362269 MsG0680031333.01.T01:intron 30.0%
AATCAGATTGCTGTACAACT+GGG + Chr6:18362568-18362587 MsG0680031333.01.T01:intron 35.0%
AATTCAGACCATGATTCAGA+TGG + Chr6:18362450-18362469 MsG0680031333.01.T01:intron 35.0%
CAACAATTTATTCAGGTGGA+TGG + Chr6:18362037-18362056 MsG0680031333.01.T01:intron 35.0%
CATCATTTAGCCTAACCAAT+AGG - Chr6:18362371-18362390 None:intergenic 35.0%
TATAACCGTAGCTAACTGAA+TGG - Chr6:18362709-18362728 None:intergenic 35.0%
TATGGTATGCTATATCTGCT+TGG + Chr6:18362304-18362323 MsG0680031333.01.T01:intron 35.0%
TGATTGAACCATCTGAATCA+TGG - Chr6:18362461-18362480 None:intergenic 35.0%
!! AAATTTAGGAAGCATTCTGC+GGG - Chr6:18362146-18362165 None:intergenic 35.0%
!! CAAATTTAGGAAGCATTCTG+CGG - Chr6:18362147-18362166 None:intergenic 35.0%
!!! AATGTTTTAACAACCGAACC+AGG - Chr6:18362612-18362631 None:intergenic 35.0%
ACAGCAATCTGATTGAACCA+TGG - Chr6:18362562-18362581 None:intergenic 40.0%
AGCAATCATCAGCTTTACCA+AGG + Chr6:18362212-18362231 MsG0680031333.01.T01:CDS 40.0%
AGCTCTTAGTTCCATGTTTC+CGG + Chr6:18362168-18362187 MsG0680031333.01.T01:CDS 40.0%
ATGCTCTATTTCCGGAAACA+TGG - Chr6:18362182-18362201 None:intergenic 40.0%
CAATCAGATTGCTGTACAAC+TGG + Chr6:18362567-18362586 MsG0680031333.01.T01:intron 40.0%
CAATCTGATTGAACCATGGT+TGG - Chr6:18362558-18362577 None:intergenic 40.0%
CTATACTCTTCTATGCTTCC+TGG + Chr6:18362110-18362129 MsG0680031333.01.T01:CDS 40.0%
GCAATACCTGAGTTTCCTAT+TGG + Chr6:18362353-18362372 MsG0680031333.01.T01:intron 40.0%
TCATGGTCTGAATTTCTCAC+TGG - Chr6:18362444-18362463 None:intergenic 40.0%
TTCGTTGACGAAGTTCTATC+TGG + Chr6:18362064-18362083 MsG0680031333.01.T01:CDS 40.0%
! ACCTGAGTTTCCTATTGGTT+AGG + Chr6:18362358-18362377 MsG0680031333.01.T01:intron 40.0%
! GTTTCCGGAAATAGAGCATT+TGG + Chr6:18362183-18362202 MsG0680031333.01.T01:CDS 40.0%
!! CAAGGTTTTTAAGCTATCCC+CGG + Chr6:18362230-18362249 MsG0680031333.01.T01:CDS 40.0%
CGGGGATAGCTTAAAAACCT+TGG - Chr6:18362232-18362251 None:intergenic 45.0%
GCCTAACCAATAGGAAACTC+AGG - Chr6:18362362-18362381 None:intergenic 45.0%
GTACAACTGGGATAGCAAAC+TGG + Chr6:18362580-18362599 MsG0680031333.01.T01:intron 45.0%
TGGCACCATTCAGTTAGCTA+CGG + Chr6:18362701-18362720 MsG0680031333.01.T01:intron 45.0%
TTAACAACCGAACCAGGAAC+CGG - Chr6:18362606-18362625 None:intergenic 45.0%
! GAAGCATTCTGCGGGAAAAT+GGG - Chr6:18362138-18362157 None:intergenic 45.0%
!! AGCTAACTGAATGGTGCCAT+AGG - Chr6:18362700-18362719 None:intergenic 45.0%
!! CACTGGTTCAATCTTCAGTC+CGG - Chr6:18362427-18362446 None:intergenic 45.0%
AACTGGGATAGCAAACTGGC+CGG + Chr6:18362584-18362603 MsG0680031333.01.T01:intron 50.0%
GAAGGCAGATGAACCAACCA+TGG + Chr6:18362542-18362561 MsG0680031333.01.T01:intron 50.0%
!! GGAAGCATTCTGCGGGAAAA+TGG - Chr6:18362139-18362158 None:intergenic 50.0%
ATCGTCTGCCTGTTGTGTGC+AGG + Chr6:18362796-18362815 MsG0680031333.01.T01:CDS 55.0%
ATGTGGGTCCTGCACACAAC+AGG - Chr6:18362807-18362826 None:intergenic 55.0%
TAGCCATCCCACGTGCATGT+GGG - Chr6:18362823-18362842 None:intergenic 55.0%
TGCACACAACAGGCAGACGA+TGG - Chr6:18362797-18362816 None:intergenic 55.0%
TTAGCCATCCCACGTGCATG+TGG - Chr6:18362824-18362843 None:intergenic 55.0%
! AAACTGGCCGGTTCCTGGTT+CGG + Chr6:18362596-18362615 MsG0680031333.01.T01:intron 55.0%
! ATAGCAAACTGGCCGGTTCC+TGG + Chr6:18362591-18362610 MsG0680031333.01.T01:intron 55.0%
TCTGCGGGAAAATGGGCACC+AGG - Chr6:18362131-18362150 None:intergenic 60.0%
TGCAGGACCCACATGCACGT+GGG + Chr6:18362813-18362832 MsG0680031333.01.T01:CDS 60.0%
GGACCCACATGCACGTGGGA+TGG + Chr6:18362817-18362836 MsG0680031333.01.T01:CDS 65.0%
GTGCAGGACCCACATGCACG+TGG + Chr6:18362812-18362831 MsG0680031333.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr6 gene 18361943 18362884 18361943 ID=MsG0680031333.01;Name=MsG0680031333.01
Chr6 mRNA 18361943 18362884 18361943 ID=MsG0680031333.01.T01;Parent=MsG0680031333.01;Name=MsG0680031333.01.T01;_AED=0.50;_eAED=0.65;_QI=0|0|0|0.66|0|0|3|0|107
Chr6 exon 18361943 18361951 18361943 ID=MsG0680031333.01.T01:exon:1856;Parent=MsG0680031333.01.T01
Chr6 exon 18362052 18362251 18362052 ID=MsG0680031333.01.T01:exon:1857;Parent=MsG0680031333.01.T01
Chr6 exon 18362770 18362884 18362770 ID=MsG0680031333.01.T01:exon:1858;Parent=MsG0680031333.01.T01
Chr6 CDS 18361943 18361951 18361943 ID=MsG0680031333.01.T01:cds;Parent=MsG0680031333.01.T01
Chr6 CDS 18362052 18362251 18362052 ID=MsG0680031333.01.T01:cds;Parent=MsG0680031333.01.T01
Chr6 CDS 18362770 18362884 18362770 ID=MsG0680031333.01.T01:cds;Parent=MsG0680031333.01.T01
Gene Sequence

>MsG0680031333.01.T01

ATGGAAACGGTGGATGGAAATTTCGTTGACGAAGTTCTATCTGGTAGAAAGAATATCGAGTCTGTCTCTATACTCTTCTATGCTTCCTGGTGCCCATTTTCCCGCAGAATGCTTCCTAAATTTGAAGCTCTTAGTTCCATGTTTCCGGAAATAGAGCATTTGGTTATTGAGCAATCATCAGCTTTACCAAGGTTTTTAAGCTATCCCCGCAGCTTATATTCAAAATATGGAATCCATCGTCTGCCTGTTGTGTGCAGGACCCACATGCACGTGGGATGGCTAAACAATTTGCTGAAGCAAATTGTTACACAAACTCTTGTGTAG

Protein sequence

>MsG0680031333.01.T01

METVDGNFVDEVLSGRKNIESVSILFYASWCPFSRRMLPKFEALSSMFPEIEHLVIEQSSALPRFLSYPRSLYSKYGIHRLPVVCRTHMHVGWLNNLLKQIVTQTLV*