AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680030882.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680030882.01.T01 MTR_6g013815 96.923 130 1 1 1 130 8 134 5.82e-88 252
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680030882.01.T01 AT3G29280 69.106 123 35 1 4 126 55 174 5.41e-60 182
MsG0680030882.01.T01 AT3G29280 64.394 132 35 2 4 126 55 183 5.91e-57 175

Find 35 sgRNAs with CRISPR-Local

Find 68 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAATTTCTGGGCTGGATTT+TGG 0.147980 6:+11099340 MsG0680030882.01.T01:CDS
GTTGGAAAGATGACAATTTC+TGG 0.233986 6:+11099328 MsG0680030882.01.T01:CDS
TATTTAACTTAATAGCTTAA+TGG 0.248649 6:-11099420 None:intergenic
ATTTAACTTAATAGCTTAAT+GGG 0.305991 6:-11099419 None:intergenic
GCATCCATCCCAGCTAGTTT+TGG 0.340791 6:-11098906 None:intergenic
CGAGCACGTGTTTCTATTCC+AGG 0.350155 6:-11099524 None:intergenic
CACAGGTATGGTTGAACAAA+AGG 0.398980 6:+11098797 MsG0680030882.01.T01:CDS
AAGTTCATGCCAAAACTAGC+TGG 0.442466 6:+11098897 MsG0680030882.01.T01:CDS
TTGGAAAGATGACAATTTCT+GGG 0.446900 6:+11099329 MsG0680030882.01.T01:CDS
ATGCAGCTGAAGACCACATC+AGG 0.457770 6:+11098874 MsG0680030882.01.T01:CDS
GTGCGAAAGGGAATGCAGTA+AGG 0.476356 6:+11098266 MsG0680030882.01.T01:CDS
AAAGATGACAATTTCTGGGC+TGG 0.478819 6:+11099333 MsG0680030882.01.T01:CDS
CACTGCATTGATCATGCTCA+TGG 0.480055 6:+11098469 MsG0680030882.01.T01:CDS
TTGAATTATGCAGTTAACGT+TGG 0.489090 6:+11099310 MsG0680030882.01.T01:intron
AAACTATTCTGTAGAAAGGT+AGG 0.495438 6:+11099475 MsG0680030882.01.T01:three_prime_UTR
GCAGTAAGGGTGAGGACTAT+CGG 0.514678 6:+11098280 MsG0680030882.01.T01:CDS
TAGAAAACTATTCTGTAGAA+AGG 0.514941 6:+11099471 MsG0680030882.01.T01:three_prime_UTR
TTGGCATGAACTTCCTGATG+TGG 0.518276 6:-11098887 None:intergenic
TGAAAGAATTGGAGTGCGAA+AGG 0.552769 6:+11098253 MsG0680030882.01.T01:CDS
CATGCCAAAACTAGCTGGGA+TGG 0.557559 6:+11098902 MsG0680030882.01.T01:CDS
GGTATGGTTGAACAAAAGGA+TGG 0.563367 6:+11098801 MsG0680030882.01.T01:CDS
GGATAAGGAGATCACAGGTA+TGG 0.582254 6:+11098785 MsG0680030882.01.T01:CDS
GAAAGAATTGGAGTGCGAAA+GGG 0.583284 6:+11098254 MsG0680030882.01.T01:CDS
AAGGGAATGCAGTAAGGGTG+AGG 0.592308 6:+11098272 MsG0680030882.01.T01:CDS
GCCACTGTTGTGGAGTGCAA+AGG 0.593450 6:+11098427 MsG0680030882.01.T01:CDS
AGTTCATGCCAAAACTAGCT+GGG 0.594981 6:+11098898 MsG0680030882.01.T01:CDS
TGCGAAAGGGAATGCAGTAA+GGG 0.601067 6:+11098267 MsG0680030882.01.T01:CDS
ACTGCATTGATCATGCTCAT+GGG 0.609253 6:+11098470 MsG0680030882.01.T01:CDS
AGTTGGGATAAGGAGATCAC+AGG 0.611502 6:+11098780 MsG0680030882.01.T01:intron
ACCTTTGCACTCCACAACAG+TGG 0.620667 6:-11098428 None:intergenic
AAAAGAACAAGCCACTGTTG+TGG 0.622805 6:+11098417 MsG0680030882.01.T01:CDS
CATGAGCATGATCAATGCAG+TGG 0.642794 6:-11098468 None:intergenic
CTAGCTGGGATGGATGCTGT+TGG 0.649663 6:+11098912 MsG0680030882.01.T01:CDS
GTATGGTTGAACAAAAGGAT+GGG 0.653224 6:+11098802 MsG0680030882.01.T01:CDS
GTGTGAGACACTGAAAGCTG+AGG 0.748209 6:+11098851 MsG0680030882.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAACCTTAAAATATTTTGA+AGG - Chr6:11099130-11099149 None:intergenic 15.0%
!!! ATTTAACTTAATAGCTTAAT+GGG - Chr6:11099422-11099441 None:intergenic 15.0%
!!! TATTTAACTTAATAGCTTAA+TGG - Chr6:11099423-11099442 None:intergenic 15.0%
!!! TTACTTTTTTATAACTCTAT+TGG + Chr6:11098981-11099000 MsG0680030882.01.T01:intron 15.0%
!! CTGTTATATCAAAAACATAT+AGG - Chr6:11098392-11098411 None:intergenic 20.0%
!! TAATGTAATCAAAGAGAAAT+CGG - Chr6:11098718-11098737 None:intergenic 20.0%
!! TAGGAATCAAAATAAAAATC+TGG + Chr6:11098557-11098576 MsG0680030882.01.T01:intron 20.0%
!!! AAGTCCTTCAAAATATTTTA+AGG + Chr6:11099123-11099142 MsG0680030882.01.T01:intron 20.0%
! TAGAAAACTATTCTGTAGAA+AGG + Chr6:11099471-11099490 MsG0680030882.01.T01:three_prime_UTR 25.0%
!! TTATTAGTTTCATGTCAGTT+CGG + Chr6:11099016-11099035 MsG0680030882.01.T01:intron 25.0%
AAACTATTCTGTAGAAAGGT+AGG + Chr6:11099475-11099494 MsG0680030882.01.T01:three_prime_UTR 30.0%
CATTTAAGCAAATCAGAACT+AGG - Chr6:11099252-11099271 None:intergenic 30.0%
TGCAAAACACACAATTTGTA+AGG - Chr6:11098746-11098765 None:intergenic 30.0%
TTCTACTCAAGACAAACTAT+AGG + Chr6:11098538-11098557 MsG0680030882.01.T01:intron 30.0%
TTGAATTATGCAGTTAACGT+TGG + Chr6:11099310-11099329 MsG0680030882.01.T01:intron 30.0%
TTGGAAAGATGACAATTTCT+GGG + Chr6:11099329-11099348 MsG0680030882.01.T01:CDS 30.0%
! CATTCACCTTTTTAACAGTT+GGG + Chr6:11098764-11098783 MsG0680030882.01.T01:intron 30.0%
! CTTGACTCTTATATTTTGCT+TGG + Chr6:11099283-11099302 MsG0680030882.01.T01:intron 30.0%
!! AGAAATCGGTTTGTAAAACT+AGG - Chr6:11098704-11098723 None:intergenic 30.0%
!!! CTATTCCAGGATGATTTTTT+GGG - Chr6:11099514-11099533 None:intergenic 30.0%
!!! TCTATTCCAGGATGATTTTT+TGG - Chr6:11099515-11099534 None:intergenic 30.0%
CCTTATCCCAACTGTTAAAA+AGG - Chr6:11098773-11098792 None:intergenic 35.0%
GTATGGTTGAACAAAAGGAT+GGG + Chr6:11098802-11098821 MsG0680030882.01.T01:CDS 35.0%
GTTGGAAAGATGACAATTTC+TGG + Chr6:11099328-11099347 MsG0680030882.01.T01:CDS 35.0%
GTTTGTAAAACTAGGTACAG+AGG - Chr6:11098696-11098715 None:intergenic 35.0%
! CCTTTTTAACAGTTGGGATA+AGG + Chr6:11098770-11098789 MsG0680030882.01.T01:intron 35.0%
! GACTCTTATATTTTGCTTGG+TGG + Chr6:11099286-11099305 MsG0680030882.01.T01:intron 35.0%
! GCATTCACCTTTTTAACAGT+TGG + Chr6:11098763-11098782 MsG0680030882.01.T01:intron 35.0%
AAAAGAACAAGCCACTGTTG+TGG + Chr6:11098417-11098436 MsG0680030882.01.T01:CDS 40.0%
AAACTAGGTACAGAGGACAA+TGG - Chr6:11098689-11098708 None:intergenic 40.0%
AAGTTCATGCCAAAACTAGC+TGG + Chr6:11098897-11098916 MsG0680030882.01.T01:CDS 40.0%
AGTTCATGCCAAAACTAGCT+GGG + Chr6:11098898-11098917 MsG0680030882.01.T01:CDS 40.0%
CACAGGTATGGTTGAACAAA+AGG + Chr6:11098797-11098816 MsG0680030882.01.T01:CDS 40.0%
CCACAACATTGATCATCTTG+TGG + Chr6:11098514-11098533 MsG0680030882.01.T01:intron 40.0%
CCACAAGATGATCAATGTTG+TGG - Chr6:11098517-11098536 None:intergenic 40.0%
GAAAGAATTGGAGTGCGAAA+GGG + Chr6:11098254-11098273 MsG0680030882.01.T01:CDS 40.0%
GGTATGGTTGAACAAAAGGA+TGG + Chr6:11098801-11098820 MsG0680030882.01.T01:CDS 40.0%
GTTTGCCCAAAAAATCATCC+TGG + Chr6:11099506-11099525 MsG0680030882.01.T01:three_prime_UTR 40.0%
TGAAAGAATTGGAGTGCGAA+AGG + Chr6:11098253-11098272 MsG0680030882.01.T01:CDS 40.0%
TTCAGTTGTGACAGTTGGAA+CGG + Chr6:11099039-11099058 MsG0680030882.01.T01:intron 40.0%
! AAAGATGACAATTTCTGGGC+TGG + Chr6:11099333-11099352 MsG0680030882.01.T01:CDS 40.0%
! ACTGCATTGATCATGCTCAT+GGG + Chr6:11098470-11098489 MsG0680030882.01.T01:CDS 40.0%
!! ACAATTTCTGGGCTGGATTT+TGG + Chr6:11099340-11099359 MsG0680030882.01.T01:CDS 40.0%
AGGTACAGAGGACAATGGAT+TGG - Chr6:11098684-11098703 None:intergenic 45.0%
AGTTGGGATAAGGAGATCAC+AGG + Chr6:11098780-11098799 MsG0680030882.01.T01:intron 45.0%
CATGAGCATGATCAATGCAG+TGG - Chr6:11098471-11098490 None:intergenic 45.0%
GGATAAGGAGATCACAGGTA+TGG + Chr6:11098785-11098804 MsG0680030882.01.T01:CDS 45.0%
TGCGAAAGGGAATGCAGTAA+GGG + Chr6:11098267-11098286 MsG0680030882.01.T01:CDS 45.0%
TTCGGTTCAGTTGTGACAGT+TGG + Chr6:11099034-11099053 MsG0680030882.01.T01:intron 45.0%
TTGGCATGAACTTCCTGATG+TGG - Chr6:11098890-11098909 None:intergenic 45.0%
! CACTGCATTGATCATGCTCA+TGG + Chr6:11098469-11098488 MsG0680030882.01.T01:CDS 45.0%
AAAACAGACCCAGCATGCAG+GGG - Chr6:11099213-11099232 None:intergenic 50.0%
AAGGGAATGCAGTAAGGGTG+AGG + Chr6:11098272-11098291 MsG0680030882.01.T01:CDS 50.0%
ACAAAACAGACCCAGCATGC+AGG - Chr6:11099215-11099234 None:intergenic 50.0%
ACCTTTGCACTCCACAACAG+TGG - Chr6:11098431-11098450 None:intergenic 50.0%
ATGCAGCTGAAGACCACATC+AGG + Chr6:11098874-11098893 MsG0680030882.01.T01:CDS 50.0%
CAAAACAGACCCAGCATGCA+GGG - Chr6:11099214-11099233 None:intergenic 50.0%
CATGCCAAAACTAGCTGGGA+TGG + Chr6:11098902-11098921 MsG0680030882.01.T01:CDS 50.0%
GCAGTAAGGGTGAGGACTAT+CGG + Chr6:11098280-11098299 MsG0680030882.01.T01:CDS 50.0%
GTGCGAAAGGGAATGCAGTA+AGG + Chr6:11098266-11098285 MsG0680030882.01.T01:CDS 50.0%
GTGTGAGACACTGAAAGCTG+AGG + Chr6:11098851-11098870 MsG0680030882.01.T01:CDS 50.0%
TGTTTCTTCCCCTGCATGCT+GGG + Chr6:11099202-11099221 MsG0680030882.01.T01:intron 50.0%
! CGAGCACGTGTTTCTATTCC+AGG - Chr6:11099527-11099546 None:intergenic 50.0%
! TGCATGCTGGGTCTGTTTTG+TGG + Chr6:11099214-11099233 MsG0680030882.01.T01:intron 50.0%
! TTGTTTCTTCCCCTGCATGC+TGG + Chr6:11099201-11099220 MsG0680030882.01.T01:intron 50.0%
!! GCATCCATCCCAGCTAGTTT+TGG - Chr6:11098909-11098928 None:intergenic 50.0%
CTAGCTGGGATGGATGCTGT+TGG + Chr6:11098912-11098931 MsG0680030882.01.T01:CDS 55.0%
GCCACTGTTGTGGAGTGCAA+AGG + Chr6:11098427-11098446 MsG0680030882.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr6 gene 11098249 11099554 11098249 ID=MsG0680030882.01;Name=MsG0680030882.01
Chr6 mRNA 11098249 11099554 11098249 ID=MsG0680030882.01.T01;Parent=MsG0680030882.01;Name=MsG0680030882.01.T01;_AED=0.49;_eAED=0.50;_QI=0|0.66|0.75|1|0.66|0.75|4|164|130
Chr6 exon 11098249 11098341 11098249 ID=MsG0680030882.01.T01:exon:8205;Parent=MsG0680030882.01.T01
Chr6 exon 11098412 11098491 11098412 ID=MsG0680030882.01.T01:exon:8206;Parent=MsG0680030882.01.T01
Chr6 exon 11098782 11098933 11098782 ID=MsG0680030882.01.T01:exon:8207;Parent=MsG0680030882.01.T01
Chr6 exon 11099323 11099554 11099323 ID=MsG0680030882.01.T01:exon:8208;Parent=MsG0680030882.01.T01
Chr6 CDS 11098249 11098341 11098249 ID=MsG0680030882.01.T01:cds;Parent=MsG0680030882.01.T01
Chr6 CDS 11098412 11098491 11098412 ID=MsG0680030882.01.T01:cds;Parent=MsG0680030882.01.T01
Chr6 CDS 11098782 11098933 11098782 ID=MsG0680030882.01.T01:cds;Parent=MsG0680030882.01.T01
Chr6 CDS 11099323 11099390 11099323 ID=MsG0680030882.01.T01:cds;Parent=MsG0680030882.01.T01
Chr6 three_prime_UTR 11099391 11099554 11099391 ID=MsG0680030882.01.T01:three_prime_utr;Parent=MsG0680030882.01.T01
Gene Sequence

>MsG0680030882.01.T01

ATGGTGAAAGAATTGGAGTGCGAAAGGGAATGCAGTAAGGGTGAGGACTATCGGCTAATCAAACTCACAATCACAGATTTCAATGTAATAACAACGAAAAAAGAACAAGCCACTGTTGTGGAGTGCAAAGGTCATGATGCTGCTCGATTCCACTGCATTGATCATGCTCATGGTTGGGATAAGGAGATCACAGGTATGGTTGAACAAAAGGATGGGAAGAAAAGAATCACAGTTTCATTTGAGTGTGAGACACTGAAAGCTGAGGATGCAGCTGAAGACCACATCAGGAAGTTCATGCCAAAACTAGCTGGGATGGATGCTGTTGTTAACGTTGGAAAGATGACAATTTCTGGGCTGGATTTTGGAGCAGATGAAGATGATGATACTGAGTAG

Protein sequence

>MsG0680030882.01.T01

MVKELECERECSKGEDYRLIKLTITDFNVITTKKEQATVVECKGHDAARFHCIDHAHGWDKEITGMVEQKDGKKRITVSFECETLKAEDAAEDHIRKFMPKLAGMDAVVNVGKMTISGLDFGADEDDDTE*