AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080048560.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048560.01.T01 MTR_4g034790 95.161 62 3 0 31 92 134 195 1.07e-33 117
MsG0080048560.01.T01 MTR_0002s0750 96.667 60 2 0 33 92 148 207 4.59e-33 115
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048560.01.T01 ATCG00730 95.652 92 4 0 1 92 22 113 1.06e-58 177

Find 34 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGAACGCCTAATAATTTAT+TGG 0.207304 contig356end:-17089 None:intergenic
AAGGGATGGGTCATAATTTA+TGG 0.230017 contig356end:+16873 None:intergenic
TTCCAAACCCTTGTATTTCT+AGG 0.231279 contig356end:+17171 MsG0080048560.01.T01:CDS
CTTATTAACATTCTCCAAAA+AGG 0.274687 contig356end:-17148 MsG0080048560.01.T01:intergenic
AACCGCTAAGCCTACGTTAC+AGG 0.327005 contig356end:-16960 MsG0080048560.01.T01:intergenic
AGAACGCCTAATAATTTATT+GGG 0.334901 contig356end:-17088 MsG0080048560.01.T01:intergenic
TTCTTGAACCATCAATGATT+GGG 0.366256 contig356end:+16981 MsG0080048560.01.T01:CDS
GTTCTTGAACCATCAATGAT+TGG 0.388826 contig356end:+16980 MsG0080048560.01.T01:CDS
ACAGTACCCAATAAATTATT+AGG 0.414832 contig356end:+17082 MsG0080048560.01.T01:CDS
CTCCTAGAAATACAAGGGTT+TGG 0.417045 contig356end:-17173 None:intergenic
GCGGGTTCCCCAATCATTGA+TGG 0.439647 contig356end:-16989 None:intergenic
TGTACGAAGTATTTGAAATA+CGG 0.446276 contig356end:-17062 None:intergenic
AAAATATATAAAAGATCGTT+AGG 0.468270 contig356end:-16911 None:intergenic
AGGGATGGGTCATAATTTAT+GGG 0.496639 contig356end:+16874 None:intergenic
TGCCTGTAACGTAGGCTTAG+CGG 0.512367 contig356end:+16958 MsG0080048560.01.T01:CDS
ATTTGCAAAGGAGTTGCAAA+CGG 0.516968 contig356end:-17016 MsG0080048560.01.T01:intergenic
GGAGTTGCAAACGGATCTGC+GGG 0.522591 contig356end:-17007 MsG0080048560.01.T01:intergenic
GTACGAAGTATTTGAAATAC+GGG 0.524954 contig356end:-17061 MsG0080048560.01.T01:intergenic
ATAGTACCTAGAATTACTAC+TGG 0.528303 contig356end:-16935 MsG0080048560.01.T01:intergenic
ATTATACTCCTAGAAATACA+AGG 0.550719 contig356end:-17179 MsG0080048560.01.T01:intergenic
CTTTGCAAATATTGCCCGAA+TGG 0.552029 contig356end:+17029 MsG0080048560.01.T01:CDS
TTTAATGGTTTCAGTACCCG+TGG 0.553376 contig356end:+17111 MsG0080048560.01.T01:CDS
CATTCGGGCAATATTTGCAA+AGG 0.581077 contig356end:-17028 MsG0080048560.01.T01:intergenic
GGTACTATTGCCTGTAACGT+AGG 0.584071 contig356end:+16950 MsG0080048560.01.T01:CDS
AAAAGATCGTTAGGCCACGC+GGG 0.590659 contig356end:-16902 MsG0080048560.01.T01:intergenic
AGGTACTGTTAATAATCCCA+CGG 0.598380 contig356end:-17128 MsG0080048560.01.T01:intergenic
AGGAGTTGCAAACGGATCTG+CGG 0.603433 contig356end:-17008 MsG0080048560.01.T01:intergenic
TCTTGAACCATCAATGATTG+GGG 0.613325 contig356end:+16982 MsG0080048560.01.T01:CDS
TAAAAGATCGTTAGGCCACG+CGG 0.617439 contig356end:-16903 MsG0080048560.01.T01:intergenic
GGTACTGTTAATAATCCCAC+GGG 0.628204 contig356end:-17127 MsG0080048560.01.T01:intergenic
TTATACTCCTAGAAATACAA+GGG 0.633321 contig356end:-17178 MsG0080048560.01.T01:intergenic
TTAATGGTTTCAGTACCCGT+GGG 0.652508 contig356end:+17112 MsG0080048560.01.T01:CDS
GGGATGGGTCATAATTTATG+GGG 0.685228 contig356end:+16875 None:intergenic
ATTTATGGGGAGAACCCGCG+TGG 0.741850 contig356end:+16888 MsG0080048560.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAATATATAAAAGATCGTT+AGG - contig356end:16914-16933 MsG0080048560.01.T01:intergenic 15.0%
! AAGAACGCCTAATAATTTAT+TGG - contig356end:17092-17111 MsG0080048560.01.T01:intergenic 25.0%
! ACAGTACCCAATAAATTATT+AGG + contig356end:17082-17101 MsG0080048560.01.T01:CDS 25.0%
! AGAACGCCTAATAATTTATT+GGG - contig356end:17091-17110 MsG0080048560.01.T01:intergenic 25.0%
! CTTATTAACATTCTCCAAAA+AGG - contig356end:17151-17170 MsG0080048560.01.T01:intergenic 25.0%
!! ATTATTAGGCGTTCTTTTAA+TGG + contig356end:17096-17115 MsG0080048560.01.T01:CDS 25.0%
!! ATTTTTCCAGTAGTAATTCT+AGG + contig356end:16929-16948 MsG0080048560.01.T01:CDS 25.0%
!! GATTATTAACAGTACCTTTT+TGG + contig356end:17134-17153 MsG0080048560.01.T01:CDS 25.0%
!! TGTACGAAGTATTTGAAATA+CGG - contig356end:17065-17084 MsG0080048560.01.T01:intergenic 25.0%
ATAGTACCTAGAATTACTAC+TGG - contig356end:16938-16957 None:intergenic 30.0%
TACGGGAAAAAAATACCATT+CGG - contig356end:17047-17066 MsG0080048560.01.T01:intergenic 30.0%
TTCTTGAACCATCAATGATT+GGG + contig356end:16981-17000 MsG0080048560.01.T01:CDS 30.0%
! GTACGAAGTATTTGAAATAC+GGG - contig356end:17064-17083 MsG0080048560.01.T01:intergenic 30.0%
ACGGGAAAAAAATACCATTC+GGG - contig356end:17046-17065 None:intergenic 35.0%
ATTTGCAAAGGAGTTGCAAA+CGG - contig356end:17019-17038 MsG0080048560.01.T01:intergenic 35.0%
GTTCTTGAACCATCAATGAT+TGG + contig356end:16980-16999 MsG0080048560.01.T01:CDS 35.0%
TCTTGAACCATCAATGATTG+GGG + contig356end:16982-17001 MsG0080048560.01.T01:CDS 35.0%
! AGGTACTGTTAATAATCCCA+CGG - contig356end:17131-17150 MsG0080048560.01.T01:intergenic 35.0%
CATTCGGGCAATATTTGCAA+AGG - contig356end:17031-17050 MsG0080048560.01.T01:intergenic 40.0%
CTTTGCAAATATTGCCCGAA+TGG + contig356end:17029-17048 MsG0080048560.01.T01:CDS 40.0%
GGTACTGTTAATAATCCCAC+GGG - contig356end:17130-17149 MsG0080048560.01.T01:intergenic 40.0%
TTAATGGTTTCAGTACCCGT+GGG + contig356end:17112-17131 MsG0080048560.01.T01:CDS 40.0%
TTTAATGGTTTCAGTACCCG+TGG + contig356end:17111-17130 MsG0080048560.01.T01:CDS 40.0%
GGTACTATTGCCTGTAACGT+AGG + contig356end:16950-16969 MsG0080048560.01.T01:CDS 45.0%
TAAAAGATCGTTAGGCCACG+CGG - contig356end:16906-16925 MsG0080048560.01.T01:intergenic 45.0%
AAAAGATCGTTAGGCCACGC+GGG - contig356end:16905-16924 None:intergenic 50.0%
AACCGCTAAGCCTACGTTAC+AGG - contig356end:16963-16982 None:intergenic 50.0%
AGGAGTTGCAAACGGATCTG+CGG - contig356end:17011-17030 None:intergenic 50.0%
TGCCTGTAACGTAGGCTTAG+CGG + contig356end:16958-16977 MsG0080048560.01.T01:CDS 50.0%
ATTTATGGGGAGAACCCGCG+TGG + contig356end:16888-16907 MsG0080048560.01.T01:CDS 55.0%
GCGGGTTCCCCAATCATTGA+TGG - contig356end:16992-17011 MsG0080048560.01.T01:intergenic 55.0%
GGAGTTGCAAACGGATCTGC+GGG - contig356end:17010-17029 MsG0080048560.01.T01:intergenic 55.0%
Chromosome Type Strat End Strand Name
contig356end gene 16878 17192 16878 ID=MsG0080048560.01;Name=MsG0080048560.01
contig356end mRNA 16878 17192 16878 ID=MsG0080048560.01.T01;Parent=MsG0080048560.01;Name=MsG0080048560.01.T01;_AED=0.13;_eAED=0.13;_QI=0|-1|0|1|-1|0|1|0|104
contig356end exon 16878 17192 16878 ID=MsG0080048560.01.T01:exon:17605;Parent=MsG0080048560.01.T01
contig356end CDS 16878 17192 16878 ID=MsG0080048560.01.T01:cds;Parent=MsG0080048560.01.T01
Gene Sequence

>MsG0080048560.01.T01

ATGGGTCATAATTTATGGGGAGAACCCGCGTGGCCTAACGATCTTTTATATATTTTTCCAGTAGTAATTCTAGGTACTATTGCCTGTAACGTAGGCTTAGCGGTTCTTGAACCATCAATGATTGGGGAACCCGCAGATCCGTTTGCAACTCCTTTGCAAATATTGCCCGAATGGTATTTTTTTCCCGTATTTCAAATACTTCGTACAGTACCCAATAAATTATTAGGCGTTCTTTTAATGGTTTCAGTACCCGTGGGATTATTAACAGTACCTTTTTGGAGAATGTTAATAAGTTCCAAACCCTTGTATTTCTAG

Protein sequence

>MsG0080048560.01.T01

MGHNLWGEPAWPNDLLYIFPVVILGTIACNVGLAVLEPSMIGEPADPFATPLQILPEWYFFPVFQILRTVPNKLLGVLLMVSVPVGLLTVPFWRMLISSKPLYF*