AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580027376.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580027376.01.T01 MTR_4g123470 87.850 107 13 0 1 107 119 225 4.79e-67 201
MsG0580027376.01.T01 MTR_7g113060 89.189 37 4 0 69 105 3 39 4.62e-18 75.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 22 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGTTCCTATCGTTGGATA+TGG 0.258835 5:-59361527 MsG0580027376.01.T01:CDS
AATCGTGATGTTTCACTCTA+AGG 0.341127 5:+59361366 None:intergenic
AGGAATTTGCCAAAAGTATC+AGG 0.344083 5:+59361386 None:intergenic
TAGGAACTACCTGATACTTT+TGG 0.356273 5:-59361395 MsG0580027376.01.T01:CDS
TCCGAACATCACATTTGGTA+TGG 0.417548 5:+59361280 None:intergenic
ACCTTTGAAGTTCCTATCGT+TGG 0.439777 5:-59361533 MsG0580027376.01.T01:CDS
CCGAACATCACATTTGGTAT+GGG 0.451435 5:+59361281 None:intergenic
CCAAATGTGATGTTCGGAAA+AGG 0.475440 5:-59361275 MsG0580027376.01.T01:CDS
CCCATACCAAATGTGATGTT+CGG 0.477035 5:-59361281 MsG0580027376.01.T01:CDS
GTCATGTGTTTATCAACGCT+TGG 0.483566 5:+59361157 None:intergenic
CACGATTACGTCATGTTGTA+CGG 0.501494 5:-59361350 MsG0580027376.01.T01:CDS
ACAGGAATTATATTGTCATA+AGG 0.502590 5:+59361326 None:intergenic
GATGTTGCCGCACTAAAGTT+AGG 0.524474 5:+59361566 None:intergenic
TTGTGCTGCTAATGGTATTG+AGG 0.529169 5:-59361240 MsG0580027376.01.T01:CDS
CGAACATCACATTTGGTATG+GGG 0.552019 5:+59361282 None:intergenic
TCTGTATATTTGAGTCTCAC+AGG 0.555272 5:+59361308 None:intergenic
TTTCAAGTGCAAGTGCGTCA+TGG 0.567746 5:-59361201 MsG0580027376.01.T01:CDS
GTCGATCCATATCCAACGAT+AGG 0.588698 5:+59361521 None:intergenic
ATGTGATGTTCGGAAAAGGT+TGG 0.606400 5:-59361271 MsG0580027376.01.T01:CDS
TCCAACGATAGGAACTTCAA+AGG 0.611311 5:+59361532 None:intergenic
TGGATCGACAAAATCACCGA+AGG 0.660770 5:-59361507 MsG0580027376.01.T01:intron
GCTGCTAATGGTATTGAGGA+CGG 0.706139 5:-59361236 MsG0580027376.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CAGTTTTTTTTCTTTTTTTT+AGG - Chr5:59361318-59361337 MsG0580027376.01.T01:CDS 15.0%
!! AAAAAACAATAAACAACCTT+CGG + Chr5:59361244-59361263 None:intergenic 20.0%
! ACAGGAATTATATTGTCATA+AGG + Chr5:59361409-59361428 None:intergenic 25.0%
AATCGTGATGTTTCACTCTA+AGG + Chr5:59361369-59361388 None:intergenic 35.0%
TCTGTATATTTGAGTCTCAC+AGG + Chr5:59361427-59361446 None:intergenic 35.0%
! TAGGAACTACCTGATACTTT+TGG - Chr5:59361337-59361356 MsG0580027376.01.T01:CDS 35.0%
!! AGGAATTTGCCAAAAGTATC+AGG + Chr5:59361349-59361368 None:intergenic 35.0%
ATGTGATGTTCGGAAAAGGT+TGG - Chr5:59361461-59361480 MsG0580027376.01.T01:intron 40.0%
CACGATTACGTCATGTTGTA+CGG - Chr5:59361382-59361401 MsG0580027376.01.T01:CDS 40.0%
CCAAATGTGATGTTCGGAAA+AGG - Chr5:59361457-59361476 MsG0580027376.01.T01:intron 40.0%
CCCATACCAAATGTGATGTT+CGG - Chr5:59361451-59361470 MsG0580027376.01.T01:intron 40.0%
CCGAACATCACATTTGGTAT+GGG + Chr5:59361454-59361473 None:intergenic 40.0%
CGAACATCACATTTGGTATG+GGG + Chr5:59361453-59361472 None:intergenic 40.0%
GAAGTTCCTATCGTTGGATA+TGG - Chr5:59361205-59361224 MsG0580027376.01.T01:CDS 40.0%
TCCAACGATAGGAACTTCAA+AGG + Chr5:59361203-59361222 None:intergenic 40.0%
TCCGAACATCACATTTGGTA+TGG + Chr5:59361455-59361474 None:intergenic 40.0%
! CCTTTTCCGAACATCACATT+TGG + Chr5:59361460-59361479 None:intergenic 40.0%
! TTGTGCTGCTAATGGTATTG+AGG - Chr5:59361492-59361511 MsG0580027376.01.T01:intron 40.0%
!! ACCTTTGAAGTTCCTATCGT+TGG - Chr5:59361199-59361218 MsG0580027376.01.T01:CDS 40.0%
!! ACGAGTTTTTGTGCTGCTAA+TGG - Chr5:59361484-59361503 MsG0580027376.01.T01:intron 40.0%
GTCGATCCATATCCAACGAT+AGG + Chr5:59361214-59361233 None:intergenic 45.0%
TGGATCGACAAAATCACCGA+AGG - Chr5:59361225-59361244 MsG0580027376.01.T01:CDS 45.0%
! GCTGCTAATGGTATTGAGGA+CGG - Chr5:59361496-59361515 MsG0580027376.01.T01:intron 45.0%
! TTTCAAGTGCAAGTGCGTCA+TGG - Chr5:59361531-59361550 MsG0580027376.01.T01:CDS 45.0%
Chromosome Type Strat End Strand Name
Chr5 gene 59361169 59361585 59361169 ID=MsG0580027376.01;Name=MsG0580027376.01
Chr5 mRNA 59361169 59361585 59361169 ID=MsG0580027376.01.T01;Parent=MsG0580027376.01;Name=MsG0580027376.01.T01;_AED=0.48;_eAED=0.48;_QI=0|0|0|1|0|0|2|0|107
Chr5 exon 59361169 59361414 59361169 ID=MsG0580027376.01.T01:exon:22101;Parent=MsG0580027376.01.T01
Chr5 exon 59361508 59361585 59361508 ID=MsG0580027376.01.T01:exon:22100;Parent=MsG0580027376.01.T01
Chr5 CDS 59361508 59361585 59361508 ID=MsG0580027376.01.T01:cds;Parent=MsG0580027376.01.T01
Chr5 CDS 59361169 59361414 59361169 ID=MsG0580027376.01.T01:cds;Parent=MsG0580027376.01.T01
Gene Sequence

>MsG0580027376.01.T01

AACTTTAGTGCGGCAACATCATGTTATTGTACCTTTGAAGTTCCTATCGTTGGATATGGATCGACAAAATCACCGAAGGAACTACCTGATACTTTTGGCAAATTCCTTAGAGTGAAACATCACGATTACGTCATGTTGTACGGACCTTATGACAATATAATTCCTGTGAGACTCAAATATACAGACGACCCCATACCAAATGTGATGTTCGGAAAAGGTTGGACGAGTTTTTGTGCTGCTAATGGTATTGAGGACGGAGACGTGTTGATTTTCAAGTGCAAGTGCGTCATGGACAAAAAATATGTTATCGTATCCAAGCGTTGA
Protein sequence

>MsG0580027376.01.T01

NFSAATSCYCTFEVPIVGYGSTKSPKELPDTFGKFLRVKHHDYVMLYGPYDNIIPVRLKYTDDPIPNVMFGKGWTSFCAANGIEDGDVLIFKCKCVMDKKYVIVSKR*