AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180001303.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001303.01.T01 MTR_1g034960 98.058 103 2 0 1 103 174 276 1.31e-69 210
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001303.01.T01 AT1G20990 60.870 69 24 3 37 102 210 278 2.50e-20 83.6

Find 27 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTGCTAAGAATAAAGTTAA+TGG 0.247808 1:-19081547 MsG0180001303.01.T01:CDS
CAAGTTGTGATTGAATTTAT+TGG 0.281922 1:-19081454 MsG0180001303.01.T01:CDS
TTGAATTTATTGGTGGGTTT+TGG 0.304338 1:-19081444 MsG0180001303.01.T01:CDS
GTCTTCAAGCTAATGGTATT+AGG 0.329280 1:-19081525 MsG0180001303.01.T01:CDS
TTGAGAGTGTGTGGATGATT+TGG 0.350556 1:+19081709 None:intergenic
ATCGGTGTTTGTTGCGGCCC+CGG 0.388093 1:+19081663 None:intergenic
TGAGAGTGTGTGGATGATTT+GGG 0.389020 1:+19081710 None:intergenic
GTTAATGGTCTTCAAGCTAA+TGG 0.394008 1:-19081532 MsG0180001303.01.T01:CDS
GAGTGCAAGAAACGAAGGTC+GGG 0.467602 1:-19081616 MsG0180001303.01.T01:CDS
TTCAATTTCTGTGTTGAGCA+TGG 0.482378 1:+19081735 None:intergenic
GTTTGTTGCGGCCCCGGTGG+TGG 0.489625 1:+19081669 None:intergenic
CACATTCAACAACCACCACC+GGG 0.505441 1:-19081681 MsG0180001303.01.T01:CDS
AACGATCGTGTTGGAAAGAT+CGG 0.526444 1:+19081645 None:intergenic
ACACATTCAACAACCACCAC+CGG 0.526885 1:-19081682 MsG0180001303.01.T01:CDS
GCAGCAGCAGAAAGAACACT+TGG 0.575529 1:+19081490 None:intergenic
CTCGTTGCAAACGATCGTGT+TGG 0.577724 1:+19081636 None:intergenic
GGAAAGATCGGTGTTTGTTG+CGG 0.583663 1:+19081657 None:intergenic
TGTGTAAGTTTGAGAGTGTG+TGG 0.589605 1:+19081700 None:intergenic
GTTGTGATTGAATTTATTGG+TGG 0.605324 1:-19081451 MsG0180001303.01.T01:CDS
GGGGAAAGTGTATCGGTGCA+CGG 0.605648 1:-19081596 MsG0180001303.01.T01:CDS
TTGTGATTGAATTTATTGGT+GGG 0.605849 1:-19081450 MsG0180001303.01.T01:CDS
GAAGGTCGGGGAAAGTGTAT+CGG 0.622440 1:-19081603 MsG0180001303.01.T01:CDS
CGAGTGCAAGAAACGAAGGT+CGG 0.625441 1:-19081617 MsG0180001303.01.T01:CDS
GGTGTTTGTTGCGGCCCCGG+TGG 0.636946 1:+19081666 None:intergenic
AGTGCAAGAAACGAAGGTCG+GGG 0.650929 1:-19081615 MsG0180001303.01.T01:CDS
GCAACGAGTGCAAGAAACGA+AGG 0.666806 1:-19081621 MsG0180001303.01.T01:CDS
ACATTCAACAACCACCACCG+GGG 0.748062 1:-19081680 MsG0180001303.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CAAGTTGTGATTGAATTTAT+TGG - Chr1:19081720-19081739 MsG0180001303.01.T01:CDS 25.0%
! TGTGCTAAGAATAAAGTTAA+TGG - Chr1:19081627-19081646 MsG0180001303.01.T01:CDS 25.0%
! TTGTGATTGAATTTATTGGT+GGG - Chr1:19081724-19081743 MsG0180001303.01.T01:CDS 25.0%
GTTGTGATTGAATTTATTGG+TGG - Chr1:19081723-19081742 MsG0180001303.01.T01:CDS 30.0%
!!! TTGAATTTATTGGTGGGTTT+TGG - Chr1:19081730-19081749 MsG0180001303.01.T01:CDS 30.0%
GTCTTCAAGCTAATGGTATT+AGG - Chr1:19081649-19081668 MsG0180001303.01.T01:CDS 35.0%
GTTAATGGTCTTCAAGCTAA+TGG - Chr1:19081642-19081661 MsG0180001303.01.T01:CDS 35.0%
!! GAAAGAACACTTGGTTTTTC+AGG + Chr1:19081678-19081697 None:intergenic 35.0%
AACGATCGTGTTGGAAAGAT+CGG + Chr1:19081532-19081551 None:intergenic 40.0%
! TGAGAGTGTGTGGATGATTT+GGG + Chr1:19081467-19081486 None:intergenic 40.0%
! TGTGTAAGTTTGAGAGTGTG+TGG + Chr1:19081477-19081496 None:intergenic 40.0%
! TTGAGAGTGTGTGGATGATT+TGG + Chr1:19081468-19081487 None:intergenic 40.0%
ACACATTCAACAACCACCAC+CGG - Chr1:19081492-19081511 MsG0180001303.01.T01:CDS 45.0%
! GGAAAGATCGGTGTTTGTTG+CGG + Chr1:19081520-19081539 None:intergenic 45.0%
ACATTCAACAACCACCACCG+GGG - Chr1:19081494-19081513 MsG0180001303.01.T01:CDS 50.0%
AGTGCAAGAAACGAAGGTCG+GGG - Chr1:19081559-19081578 MsG0180001303.01.T01:CDS 50.0%
CACATTCAACAACCACCACC+GGG - Chr1:19081493-19081512 MsG0180001303.01.T01:CDS 50.0%
CGAGTGCAAGAAACGAAGGT+CGG - Chr1:19081557-19081576 MsG0180001303.01.T01:CDS 50.0%
CTCGTTGCAAACGATCGTGT+TGG + Chr1:19081541-19081560 None:intergenic 50.0%
GAGTGCAAGAAACGAAGGTC+GGG - Chr1:19081558-19081577 MsG0180001303.01.T01:CDS 50.0%
GCAACGAGTGCAAGAAACGA+AGG - Chr1:19081553-19081572 MsG0180001303.01.T01:CDS 50.0%
GCAGCAGCAGAAAGAACACT+TGG + Chr1:19081687-19081706 None:intergenic 50.0%
! GAAGGTCGGGGAAAGTGTAT+CGG - Chr1:19081571-19081590 MsG0180001303.01.T01:CDS 50.0%
! GGGGAAAGTGTATCGGTGCA+CGG - Chr1:19081578-19081597 MsG0180001303.01.T01:CDS 55.0%
! ATCGGTGTTTGTTGCGGCCC+CGG + Chr1:19081514-19081533 None:intergenic 60.0%
! GGTGTTTGTTGCGGCCCCGG+TGG + Chr1:19081511-19081530 None:intergenic 70.0%
! GTTTGTTGCGGCCCCGGTGG+TGG + Chr1:19081508-19081527 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr1 gene 19081441 19081755 19081441 ID=MsG0180001303.01;Name=MsG0180001303.01
Chr1 mRNA 19081441 19081755 19081441 ID=MsG0180001303.01.T01;Parent=MsG0180001303.01;Name=MsG0180001303.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|104
Chr1 exon 19081441 19081755 19081441 ID=MsG0180001303.01.T01:exon:6525;Parent=MsG0180001303.01.T01
Chr1 CDS 19081441 19081755 19081441 ID=MsG0180001303.01.T01:cds;Parent=MsG0180001303.01.T01
Gene Sequence

>MsG0180001303.01.T01

ATGCTCAACACAGAAATTGAATTCCCAAATCATCCACACACTCTCAAACTTACACATTCAACAACCACCACCGGGGCCGCAACAAACACCGATCTTTCCAACACGATCGTTTGCAACGAGTGCAAGAAACGAAGGTCGGGGAAAGTGTATCGGTGCACGGTGTGTAACTACAATCTTCATGCATTTTGTGCTAAGAATAAAGTTAATGGTCTTCAAGCTAATGGTATTAGGCTTCCTGAAAAACCAAGTGTTCTTTCTGCTGCTGCTAAAGTTGCTTCTCAAGTTGTGATTGAATTTATTGGTGGGTTTTGGTGA
Protein sequence

>MsG0180001303.01.T01

MLNTEIEFPNHPHTLKLTHSTTTTGAATNTDLSNTIVCNECKKRRSGKVYRCTVCNYNLHAFCAKNKVNGLQANGIRLPEKPSVLSAAAKVASQVVIEFIGGFW*