AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1348470


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1348470 MtrunA17_Chr3g0139001 90.400 125 12 0 1 125 23 147 6.84e-72 213
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1348470 AT5G10700.1 50.000 120 43 3 6 125 24 126 1.50e-33 116
Msa1348470 AT5G10700.2 50.000 120 43 3 6 125 24 126 1.56e-33 115

Find 39 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGTTGACTCATTGAGTTAA+AGG 0.322492 tig0010468:-55052 None:intergenic
CTGATCGATACTTGGCCATT+AGG 0.378184 tig0010468:+55165 Msa1348470:CDS
TTGATTCTATGCACAAAGTA+AGG 0.385439 tig0010468:+55283 Msa1348470:CDS
ACGCTTCTGTTTCCGCGGTT+TGG 0.395935 tig0010468:+55211 Msa1348470:CDS
AGTGGTGGAATCGGTGGAGG+CGG 0.421097 tig0010468:-55073 None:intergenic
TGAGTAACCACACTGCCTAA+TGG 0.453176 tig0010468:-55180 None:intergenic
GGTGACAGGATCGTCTTTGT+TGG 0.456796 tig0010468:-55235 None:intergenic
TGGTCCAATACGTGGTGCTC+CGG 0.468634 tig0010468:+55136 Msa1348470:CDS
GAGAGTGGTGGAATCGGTGG+AGG 0.477145 tig0010468:-55076 None:intergenic
TAAAGGTGAGCTGACTCGTC+CGG 0.477990 tig0010468:-55035 None:intergenic
CTCCACATCAACTGATTCGC+CGG 0.486687 tig0010468:+55098 Msa1348470:CDS
CACGCCGGAGCACCACGTAT+TGG 0.503895 tig0010468:-55140 None:intergenic
GGCGTGATCTGATCGATACT+TGG 0.507820 tig0010468:+55157 Msa1348470:CDS
CTACAATAATCAACGGTGAC+AGG 0.516772 tig0010468:-55249 None:intergenic
TGAGAAGGCGAGGTACGAAC+GGG 0.519329 tig0010468:-54968 None:intergenic
GTGGTGGAATCGGTGGAGGC+GGG 0.520690 tig0010468:-55072 None:intergenic
TTGAGAAGGCGAGGTACGAA+CGG 0.522363 tig0010468:-54969 None:intergenic
TGTGGAGAGAGTGGTGGAAT+CGG 0.534342 tig0010468:-55082 None:intergenic
AGGCGAGGTACGAACGGGAG+GGG 0.553596 tig0010468:-54963 None:intergenic
TTCCGGCGAATCAGTTGATG+TGG 0.555932 tig0010468:-55100 None:intergenic
GGGTTGAAGAGACGAAGCGT+AGG 0.561056 tig0010468:-54943 None:intergenic
TTAGGCAGTGTGGTTACTCA+AGG 0.562328 tig0010468:+55183 Msa1348470:CDS
GAAGGCGAGGTACGAACGGG+AGG 0.562660 tig0010468:-54965 None:intergenic
GGAGAGAGTGGTGGAATCGG+TGG 0.566146 tig0010468:-55079 None:intergenic
AAGGCGAGGTACGAACGGGA+GGG 0.566860 tig0010468:-54964 None:intergenic
GCCGGAAAACGTCGATGTTG+TGG 0.569743 tig0010468:+55116 Msa1348470:CDS
TGAAGAGACGAAGCGTAGGA+AGG 0.573707 tig0010468:-54939 None:intergenic
ACTAAACTTCGTTCTTGAGA+AGG 0.577942 tig0010468:-54983 None:intergenic
GAAGAGACGAAGCGTAGGAA+GGG 0.601157 tig0010468:-54938 None:intergenic
GTCGGGGCTACAATAATCAA+CGG 0.604557 tig0010468:-55256 None:intergenic
ACTTCGTTCTTGAGAAGGCG+AGG 0.622634 tig0010468:-54978 None:intergenic
TTGTCACGCTTCTGTTTCCG+CGG 0.641384 tig0010468:+55206 Msa1348470:CDS
ATCAGTTGATGTGGAGAGAG+TGG 0.646257 tig0010468:-55091 None:intergenic
CGATGTTGTGGTCCAATACG+TGG 0.652164 tig0010468:+55128 Msa1348470:CDS
GTCTTTGTTGGACCAAACCG+CGG 0.653891 tig0010468:-55223 None:intergenic
AGTTGATGTGGAGAGAGTGG+TGG 0.659985 tig0010468:-55088 None:intergenic
TACTTGGCCATTAGGCAGTG+TGG 0.667910 tig0010468:+55173 Msa1348470:CDS
GTTTAGTGTCACTTTACACG+CGG 0.717247 tig0010468:+54999 Msa1348470:CDS
AAGTATCGATCAGATCACGC+CGG 0.740521 tig0010468:-55155 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGCATAGAATCAATTTTGTC+GGG - tig0010468:55276-55295 None:intergenic 30.0%
! GTGCATAGAATCAATTTTGT+CGG - tig0010468:55277-55296 None:intergenic 30.0%
ACTAAACTTCGTTCTTGAGA+AGG - tig0010468:54986-55005 None:intergenic 35.0%
! GCATAGAATCAATTTTGTCG+GGG - tig0010468:55275-55294 None:intergenic 35.0%
!! GTTTAGTGTCACTTTACACG+CGG + tig0010468:54999-55018 Msa1348470:CDS 40.0%
! GGGTTGACTCATTGAGTTAA+AGG - tig0010468:55055-55074 None:intergenic 40.0%
CTACAATAATCAACGGTGAC+AGG - tig0010468:55252-55271 None:intergenic 40.0%
! ACTCGTCCGGTTTGAAAAAG+AGG - tig0010468:55025-55044 None:intergenic 45.0%
! ATCAGTTGATGTGGAGAGAG+TGG - tig0010468:55094-55113 None:intergenic 45.0%
! ACCACAACATCGACGTTTTC+CGG - tig0010468:55120-55139 None:intergenic 45.0%
!! AAGTATCGATCAGATCACGC+CGG - tig0010468:55158-55177 None:intergenic 45.0%
CTGATCGATACTTGGCCATT+AGG + tig0010468:55165-55184 Msa1348470:CDS 45.0%
TGAGTAACCACACTGCCTAA+TGG - tig0010468:55183-55202 None:intergenic 45.0%
TTAGGCAGTGTGGTTACTCA+AGG + tig0010468:55183-55202 Msa1348470:CDS 45.0%
GTCGGGGCTACAATAATCAA+CGG - tig0010468:55259-55278 None:intergenic 45.0%
GAAGAGACGAAGCGTAGGAA+GGG - tig0010468:54941-54960 None:intergenic 50.0%
TGAAGAGACGAAGCGTAGGA+AGG - tig0010468:54942-54961 None:intergenic 50.0%
TTGAGAAGGCGAGGTACGAA+CGG - tig0010468:54972-54991 None:intergenic 50.0%
ACTTCGTTCTTGAGAAGGCG+AGG - tig0010468:54981-55000 None:intergenic 50.0%
!!! ACGCGGCCTCTTTTTCAAAC+CGG + tig0010468:55016-55035 Msa1348470:CDS 50.0%
!! TAAAGGTGAGCTGACTCGTC+CGG - tig0010468:55038-55057 None:intergenic 50.0%
! TGTGGAGAGAGTGGTGGAAT+CGG - tig0010468:55085-55104 None:intergenic 50.0%
! AGTTGATGTGGAGAGAGTGG+TGG - tig0010468:55091-55110 None:intergenic 50.0%
!! CTCCACATCAACTGATTCGC+CGG + tig0010468:55098-55117 Msa1348470:CDS 50.0%
! TTCCGGCGAATCAGTTGATG+TGG - tig0010468:55103-55122 None:intergenic 50.0%
CGATGTTGTGGTCCAATACG+TGG + tig0010468:55128-55147 Msa1348470:CDS 50.0%
GGCGTGATCTGATCGATACT+TGG + tig0010468:55157-55176 Msa1348470:CDS 50.0%
TACTTGGCCATTAGGCAGTG+TGG + tig0010468:55173-55192 Msa1348470:CDS 50.0%
TTGTCACGCTTCTGTTTCCG+CGG + tig0010468:55206-55225 Msa1348470:CDS 50.0%
GTCTTTGTTGGACCAAACCG+CGG - tig0010468:55226-55245 None:intergenic 50.0%
GGTGACAGGATCGTCTTTGT+TGG - tig0010468:55238-55257 None:intergenic 50.0%
GGGTTGAAGAGACGAAGCGT+AGG - tig0010468:54946-54965 None:intergenic 55.0%
TGAGAAGGCGAGGTACGAAC+GGG - tig0010468:54971-54990 None:intergenic 55.0%
GCCGGAAAACGTCGATGTTG+TGG + tig0010468:55116-55135 Msa1348470:CDS 55.0%
TGGTCCAATACGTGGTGCTC+CGG + tig0010468:55136-55155 Msa1348470:CDS 55.0%
ACGCTTCTGTTTCCGCGGTT+TGG + tig0010468:55211-55230 Msa1348470:CDS 55.0%
AAGGCGAGGTACGAACGGGA+GGG - tig0010468:54967-54986 None:intergenic 60.0%
! AGTGGTGGAATCGGTGGAGG+CGG - tig0010468:55076-55095 None:intergenic 60.0%
! GAGAGTGGTGGAATCGGTGG+AGG - tig0010468:55079-55098 None:intergenic 60.0%
! GGAGAGAGTGGTGGAATCGG+TGG - tig0010468:55082-55101 None:intergenic 60.0%
AGGCGAGGTACGAACGGGAG+GGG - tig0010468:54966-54985 None:intergenic 65.0%
GAAGGCGAGGTACGAACGGG+AGG - tig0010468:54968-54987 None:intergenic 65.0%
! GTGGTGGAATCGGTGGAGGC+GGG - tig0010468:55075-55094 None:intergenic 65.0%
! CACGCCGGAGCACCACGTAT+TGG - tig0010468:55143-55162 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
tig0010468 gene 54928 55302 54928 ID=Msa1348470;Name=Msa1348470
tig0010468 mRNA 54928 55302 54928 ID=Msa1348470-mRNA-1;Parent=Msa1348470;Name=Msa1348470-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0|-1|0|1|-1|1|1|0|125
tig0010468 exon 54928 55302 54928 ID=Msa1348470-mRNA-1:exon:6439;Parent=Msa1348470-mRNA-1
tig0010468 CDS 54928 55302 54928 ID=Msa1348470-mRNA-1:cds;Parent=Msa1348470-mRNA-1
Gene Sequence

>Msa1348470

ATGGCTTACACCCTTCCTACGCTTCGTCTCTTCAACCCCTCCCGTTCGTACCTCGCCTTCTCAAGAACGAAGTTTAGTGTCACTTTACACGCGGCCTCTTTTTCAAACCGGACGAGTCAGCTCACCTTTAACTCAATGAGTCAACCCGCCTCCACCGATTCCACCACTCTCTCCACATCAACTGATTCGCCGGAAAACGTCGATGTTGTGGTCCAATACGTGGTGCTCCGGCGTGATCTGATCGATACTTGGCCATTAGGCAGTGTGGTTACTCAAGGTTGTCACGCTTCTGTTTCCGCGGTTTGGTCCAACAAAGACGATCCTGTCACCGTTGATTATTGTAGCCCCGACAAAATTGATTCTATGCACAAAGTA

Protein sequence

>Msa1348470

MAYTLPTLRLFNPSRSYLAFSRTKFSVTLHAASFSNRTSQLTFNSMSQPASTDSTTLSTSTDSPENVDVVVQYVVLRRDLIDTWPLGSVVTQGCHASVSAVWSNKDDPVTVDYCSPDKIDSMHKV