AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380013935.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013935.01.T03 MTR_4g006110 100.000 70 0 0 1 70 211 280 3.11e-42 138
MsG0380013935.01.T03 MTR_7g021710 100.000 70 0 0 1 70 211 280 3.17e-42 138
MsG0380013935.01.T03 MTR_5g063410 100.000 70 0 0 1 70 211 280 3.17e-42 138
MsG0380013935.01.T03 MTR_0002s0170 64.706 68 24 0 1 68 6 73 5.84e-18 76.3
MsG0380013935.01.T01 MTR_7g021710 100.000 101 0 0 1 101 180 280 9.74e-66 199
MsG0380013935.01.T01 MTR_5g063410 100.000 101 0 0 1 101 180 280 1.07e-65 199
MsG0380013935.01.T01 MTR_4g006110 100.000 101 0 0 1 101 180 280 1.09e-65 199
MsG0380013935.01.T01 MTR_0002s0170 66.216 74 25 0 27 100 1 74 3.27e-22 89.4
MsG0380013935.01.T02 MTR_7g021710 100.000 75 0 0 1 75 206 280 6.02e-46 147
MsG0380013935.01.T02 MTR_5g063410 100.000 75 0 0 1 75 206 280 6.85e-46 147
MsG0380013935.01.T02 MTR_4g006110 100.000 75 0 0 1 75 206 280 7.08e-46 147
MsG0380013935.01.T02 MTR_0002s0170 67.123 73 24 0 1 73 1 73 6.74e-21 84.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013935.01.T03 ATCG01070 87.143 70 9 0 1 70 32 101 6.50e-26 91.7
MsG0380013935.01.T01 ATCG01070 88.119 101 12 0 1 101 1 101 7.52e-47 145
MsG0380013935.01.T02 ATCG01070 88.000 75 9 0 1 75 27 101 1.52e-29 100

Find 11 sgRNAs with CRISPR-Local

Find 15 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGATAATCGCCAATTAAA+AGG 0.212894 3:-48461084 MsG0380013935.01.T01:CDS
GATACCAATAGAAAATAAAT+AGG 0.351599 3:+48461206 None:intergenic
ATTGATCACGAGCCGAAATA+TGG 0.361907 3:-48461178 MsG0380013935.01.T01:CDS
TAAGGGCTCTAACCATATTT+CGG 0.387511 3:+48461166 None:intergenic
CAAATTCGATTGATTGATAC+GGG 0.453649 3:+48460966 None:intergenic
TATAAGTTCAAGACACATAA+GGG 0.469487 3:+48461149 None:intergenic
GTATAAGTTCAAGACACATA+AGG 0.481145 3:+48461148 None:intergenic
ACAAATTCGATTGATTGATA+CGG 0.484459 3:+48460965 None:intergenic
CGCTGAAGCAGCTATCGGAC+TGG 0.527747 3:-48461025 MsG0380013935.01.T01:CDS
CAGTCCGATAGCTGCTTCAG+CGG 0.570136 3:+48461026 None:intergenic
GCAGCCGCTGAAGCAGCTAT+CGG 0.578247 3:-48461030 MsG0380013935.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAAAATATTTCCTTTTAAT+TGG + Chr3:48461121-48461140 None:intergenic 10.0%
!! GATACCAATAGAAAATAAAT+AGG + Chr3:48460988-48461007 None:intergenic 20.0%
!!! TTATTTTCTATTGGTATCTA+TGG - Chr3:48460990-48461009 MsG0380013935.01.T01:CDS 20.0%
! ACAAATTCGATTGATTGATA+CGG + Chr3:48461229-48461248 None:intergenic 25.0%
! TATAAGTTCAAGACACATAA+GGG + Chr3:48461045-48461064 None:intergenic 25.0%
!! TTTGATAATCGCCAATTAAA+AGG - Chr3:48461107-48461126 MsG0380013935.01.T01:CDS 25.0%
!!! AGTGCCTATTTATTTTCTAT+TGG - Chr3:48460981-48461000 MsG0380013935.01.T01:CDS 25.0%
CAAATTCGATTGATTGATAC+GGG + Chr3:48461228-48461247 None:intergenic 30.0%
GTATAAGTTCAAGACACATA+AGG + Chr3:48461046-48461065 None:intergenic 30.0%
! TAAGGGCTCTAACCATATTT+CGG + Chr3:48461028-48461047 None:intergenic 35.0%
! TTTTCTGTTACGAGCAATTG+CGG + Chr3:48461201-48461220 None:intergenic 35.0%
ATTGATCACGAGCCGAAATA+TGG - Chr3:48461013-48461032 MsG0380013935.01.T01:CDS 40.0%
CAGTCCGATAGCTGCTTCAG+CGG + Chr3:48461168-48461187 None:intergenic 55.0%
CGCTGAAGCAGCTATCGGAC+TGG - Chr3:48461166-48461185 MsG0380013935.01.T01:CDS 60.0%
GCAGCCGCTGAAGCAGCTAT+CGG - Chr3:48461161-48461180 MsG0380013935.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 48460954 48461259 48460954 ID=MsG0380013935.01;Name=MsG0380013935.01
Chr3 mRNA 48460954 48461259 48460954 ID=MsG0380013935.01.T01;Parent=MsG0380013935.01;Name=MsG0380013935.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|101
Chr3 exon 48460954 48461259 48460954 ID=MsG0380013935.01.T01:exon:24738;Parent=MsG0380013935.01.T01
Chr3 CDS 48460954 48461259 48460954 ID=MsG0380013935.01.T01:cds;Parent=MsG0380013935.01.T01
Chr3 mRNA 48460954 48461181 48460954 ID=MsG0380013935.01.T02;Parent=MsG0380013935.01;Name=MsG0380013935.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|75
Chr3 exon 48460954 48461181 48460954 ID=MsG0380013935.01.T02:exon:24739;Parent=MsG0380013935.01.T02
Chr3 CDS 48460954 48461181 48460954 ID=MsG0380013935.01.T02:cds;Parent=MsG0380013935.01.T02
Chr3 mRNA 48460954 48461166 48460954 ID=MsG0380013935.01.T03;Parent=MsG0380013935.01;Name=MsG0380013935.01.T03;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|70
Chr3 exon 48460954 48461166 48460954 ID=MsG0380013935.01.T03:exon:24740;Parent=MsG0380013935.01.T03
Chr3 CDS 48460954 48461166 48460954 ID=MsG0380013935.01.T03:cds;Parent=MsG0380013935.01.T03
Gene Sequence

>MsG0380013935.01.T03

ATGTGTCTTGAACTTATACTGAATGCAGTTAATATAAATCTCGTAACTTTTTCTGATTTTTTTGATAATCGCCAATTAAAAGGAAATATTTTTTCAATTTTTGTTATAGCTATTGCAGCCGCTGAAGCAGCTATCGGACTGGCTATTGTTTCCGCAATTGCTCGTAACAGAAAATCAACCCGTATCAATCAATCGAATTTGTTGAATAAATAG

>MsG0380013935.01.T01

ATGATGCTCGAACATGTACTTGTTTTGAGTGCCTATTTATTTTCTATTGGTATCTATGGATTGATCACGAGCCGAAATATGGTTAGAGCCCTTATGTGTCTTGAACTTATACTGAATGCAGTTAATATAAATCTCGTAACTTTTTCTGATTTTTTTGATAATCGCCAATTAAAAGGAAATATTTTTTCAATTTTTGTTATAGCTATTGCAGCCGCTGAAGCAGCTATCGGACTGGCTATTGTTTCCGCAATTGCTCGTAACAGAAAATCAACCCGTATCAATCAATCGAATTTGTTGAATAAATAG

>MsG0380013935.01.T02

ATGGTTAGAGCCCTTATGTGTCTTGAACTTATACTGAATGCAGTTAATATAAATCTCGTAACTTTTTCTGATTTTTTTGATAATCGCCAATTAAAAGGAAATATTTTTTCAATTTTTGTTATAGCTATTGCAGCCGCTGAAGCAGCTATCGGACTGGCTATTGTTTCCGCAATTGCTCGTAACAGAAAATCAACCCGTATCAATCAATCGAATTTGTTGAATAAATAG

Protein sequence

>MsG0380013935.01.T03

MCLELILNAVNINLVTFSDFFDNRQLKGNIFSIFVIAIAAAEAAIGLAIVSAIARNRKSTRINQSNLLNK*

>MsG0380013935.01.T01

MMLEHVLVLSAYLFSIGIYGLITSRNMVRALMCLELILNAVNINLVTFSDFFDNRQLKGNIFSIFVIAIAAAEAAIGLAIVSAIARNRKSTRINQSNLLNK*

>MsG0380013935.01.T02

MVRALMCLELILNAVNINLVTFSDFFDNRQLKGNIFSIFVIAIAAAEAAIGLAIVSAIARNRKSTRINQSNLLNK*