AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017431.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017431.01.T01 MTR_3g107470 100.000 86 0 0 1 86 264 349 4.56e-59 184
MsG0380017431.01.T01 MTR_4g114360 82.558 86 15 0 1 86 260 345 1.15e-48 157
MsG0380017431.01.T01 MTR_0011s0320 72.222 90 20 3 1 85 260 349 2.11e-37 128
MsG0380017431.01.T01 MTR_2g070400 49.231 65 28 2 1 64 258 318 2.01e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017431.01.T01 AT5G25400 81.395 86 16 0 1 86 264 349 5.73e-48 155
MsG0380017431.01.T01 AT4G32390 79.310 87 17 1 1 86 264 350 2.32e-45 149
MsG0380017431.01.T01 AT2G25520 79.070 86 16 1 1 86 264 347 5.35e-44 145
MsG0380017431.01.T01 AT5G11230 82.353 85 14 1 1 84 264 348 1.01e-42 142

Find 19 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGGTATGGTCTTGCTTTCT+TGG 0.200875 3:+96204837 MsG0380017431.01.T01:CDS
GTTACACCCATTAATTTGTT+TGG 0.247768 3:+96204817 MsG0380017431.01.T01:CDS
ACCATACCCAAACAAATTAA+TGG 0.252828 3:-96204824 None:intergenic
TTATAATCATTCAAAGTTGC+AGG 0.345135 3:+96204870 MsG0380017431.01.T01:CDS
TTCAAAGTTGCAGGCACTTA+AGG 0.351119 3:+96204879 MsG0380017431.01.T01:CDS
TTACACCCATTAATTTGTTT+GGG 0.369732 3:+96204818 MsG0380017431.01.T01:CDS
GGGTATGGTCTTGCTTTCTT+GGG 0.380931 3:+96204838 MsG0380017431.01.T01:CDS
CCCATTAATTTGTTTGGGTA+TGG 0.385268 3:+96204823 MsG0380017431.01.T01:CDS
GCTTTGACAATGAATGTTGC+TGG 0.418945 3:+96204739 None:intergenic
ACACAAGCTGATGAAGAAAC+TGG 0.430294 3:+96204925 MsG0380017431.01.T01:CDS
TGGTCTTGCTTTCTTGGGTG+TGG 0.436023 3:+96204843 MsG0380017431.01.T01:CDS
CCATACCCAAACAAATTAAT+GGG 0.439143 3:-96204823 None:intergenic
TTGCTGGTGTTGTTAAAGAT+TGG 0.469874 3:+96204755 MsG0380017431.01.T01:CDS
GATAGAGAAGGTGATGGATC+AGG 0.496335 3:+96204961 MsG0380017431.01.T01:CDS
GGCTAAAGAAGCACAGAAGA+AGG 0.498350 3:+96204900 MsG0380017431.01.T01:CDS
CTTGAGGATAGAGAAGGTGA+TGG 0.583598 3:+96204955 MsG0380017431.01.T01:CDS
AGGTTGCTTGAGGATAGAGA+AGG 0.638167 3:+96204949 MsG0380017431.01.T01:CDS
AAGCTGATGAAGAAACTGGA+AGG 0.653904 3:+96204929 MsG0380017431.01.T01:CDS
AGAAACTGGAAGGTTGCTTG+AGG 0.654156 3:+96204939 MsG0380017431.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTATAATCATTCAAAGTTGC+AGG + Chr3:96204870-96204889 MsG0380017431.01.T01:CDS 25.0%
!!! TTACACCCATTAATTTGTTT+GGG + Chr3:96204818-96204837 MsG0380017431.01.T01:CDS 25.0%
ACCATACCCAAACAAATTAA+TGG - Chr3:96204827-96204846 None:intergenic 30.0%
CCATACCCAAACAAATTAAT+GGG - Chr3:96204826-96204845 None:intergenic 30.0%
! TTTTTCATGGAGTGTGATTA+AGG + Chr3:96204789-96204808 MsG0380017431.01.T01:CDS 30.0%
!! GTTACACCCATTAATTTGTT+TGG + Chr3:96204817-96204836 MsG0380017431.01.T01:CDS 30.0%
!! CCCATTAATTTGTTTGGGTA+TGG + Chr3:96204823-96204842 MsG0380017431.01.T01:CDS 35.0%
!! TTGCTGGTGTTGTTAAAGAT+TGG + Chr3:96204755-96204774 MsG0380017431.01.T01:CDS 35.0%
!!! GGCTTTTGATTGCTTTTTCA+TGG + Chr3:96204776-96204795 MsG0380017431.01.T01:CDS 35.0%
AAGCTGATGAAGAAACTGGA+AGG + Chr3:96204929-96204948 MsG0380017431.01.T01:CDS 40.0%
ACACAAGCTGATGAAGAAAC+TGG + Chr3:96204925-96204944 MsG0380017431.01.T01:CDS 40.0%
TTCAAAGTTGCAGGCACTTA+AGG + Chr3:96204879-96204898 MsG0380017431.01.T01:CDS 40.0%
AGAAACTGGAAGGTTGCTTG+AGG + Chr3:96204939-96204958 MsG0380017431.01.T01:CDS 45.0%
AGGTTGCTTGAGGATAGAGA+AGG + Chr3:96204949-96204968 MsG0380017431.01.T01:CDS 45.0%
CTTGAGGATAGAGAAGGTGA+TGG + Chr3:96204955-96204974 MsG0380017431.01.T01:CDS 45.0%
! GGCTAAAGAAGCACAGAAGA+AGG + Chr3:96204900-96204919 MsG0380017431.01.T01:CDS 45.0%
! GGGTATGGTCTTGCTTTCTT+GGG + Chr3:96204838-96204857 MsG0380017431.01.T01:CDS 45.0%
! TGGGTATGGTCTTGCTTTCT+TGG + Chr3:96204837-96204856 MsG0380017431.01.T01:CDS 45.0%
!! GATAGAGAAGGTGATGGATC+AGG + Chr3:96204961-96204980 MsG0380017431.01.T01:CDS 45.0%
! TGGTCTTGCTTTCTTGGGTG+TGG + Chr3:96204843-96204862 MsG0380017431.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr3 gene 96204748 96205008 96204748 ID=MsG0380017431.01;Name=MsG0380017431.01
Chr3 mRNA 96204748 96205008 96204748 ID=MsG0380017431.01.T01;Parent=MsG0380017431.01;Name=MsG0380017431.01.T01;_AED=0.45;_eAED=0.45;_QI=0|-1|0|1|-1|1|1|0|86
Chr3 exon 96204748 96205008 96204748 ID=MsG0380017431.01.T01:exon:17428;Parent=MsG0380017431.01.T01
Chr3 CDS 96204748 96205008 96204748 ID=MsG0380017431.01.T01:cds;Parent=MsG0380017431.01.T01
Gene Sequence

>MsG0380017431.01.T01

ATGAATGTTGCTGGTGTTGTTAAAGATTGGCTTTTGATTGCTTTTTCATGGAGTGTGATTAAGGATACTGTTACACCCATTAATTTGTTTGGGTATGGTCTTGCTTTCTTGGGTGTGGCTTATTATAATCATTCAAAGTTGCAGGCACTTAAGGCTAAAGAAGCACAGAAGAAGGTTACACAAGCTGATGAAGAAACTGGAAGGTTGCTTGAGGATAGAGAAGGTGATGGATCAGGCAAGAGAAATGATCAGCAGAATTGA

Protein sequence

>MsG0380017431.01.T01

MNVAGVVKDWLLIAFSWSVIKDTVTPINLFGYGLAFLGVAYYNHSKLQALKAKEAQKKVTQADEETGRLLEDREGDGSGKRNDQQN*