AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080048692.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048692.01.T01 MTR_4g050960 100.000 54 0 0 1 54 28 81 1.23e-35 114
MsG0080048692.01.T01 MTR_4g006120 94.444 54 3 0 1 54 28 81 3.51e-34 120
MsG0080048692.01.T01 MTR_7g021720 94.444 54 3 0 1 54 28 81 3.74e-34 120
MsG0080048692.01.T01 MTR_4g026420 86.842 38 5 0 16 53 51 88 3.65e-18 70.9
MsG0080048692.01.T01 MTR_0002s0170 100.000 24 0 0 1 24 75 98 3.91e-13 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048692.01.T01 ATCG01060 96.296 54 2 0 1 54 28 81 2.83e-33 108

Find 20 sgRNAs with CRISPR-Local

Find 17 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTAAGTGTTCGGGTTTATTT+AGG 0.160330 contig404end:+30804 MsG0080048692.01.T01:CDS
CCCATACTTCGAGTTGTTTC+AGG 0.216040 contig404end:-30828 None:intergenic
CCAACACAGTCCTCTGTTCT+TGG 0.284080 contig404end:-30744 None:intergenic
GCCTGAAACAACTCGAAGTA+TGG 0.293148 contig404end:+30827 MsG0080048692.01.T01:CDS
TAAGTGTTCGGGTTTATTTA+GGG 0.345248 contig404end:+30805 MsG0080048692.01.T01:CDS
CGACGGATTTCTTAAGTGTT+CGG 0.352142 contig404end:+30793 MsG0080048692.01.T01:CDS
CAACACAGTCCTCTGTTCTT+GGG 0.362053 contig404end:-30743 None:intergenic
GACGGATTTCTTAAGTGTTC+GGG 0.373431 contig404end:+30794 MsG0080048692.01.T01:CDS
TGTATTAGAAATGATACCTT+GGG 0.506689 contig404end:+30689 None:intergenic
AGGACTGTGTTGGTTGTAAG+AGG 0.549741 contig404end:+30754 MsG0080048692.01.T01:CDS
TAAGAAATCCGTCGGACAAG+CGG 0.555225 contig404end:-30784 None:intergenic
ATGTATTAGAAATGATACCT+TGG 0.569899 contig404end:+30688 None:intergenic
AACACAGTCCTCTGTTCTTG+GGG 0.571622 contig404end:-30742 None:intergenic
GTGTGAGTCCGCTTGTCCGA+CGG 0.572513 contig404end:+30776 MsG0080048692.01.T01:CDS
CCTGAAACAACTCGAAGTAT+GGG 0.598749 contig404end:+30828 MsG0080048692.01.T01:CDS
TTAGCTTTACATCCATCCCA+AGG 0.604501 contig404end:-30705 None:intergenic
TTAGAAATGATACCTTGGGA+TGG 0.649544 contig404end:+30693 None:intergenic
AGCTTCTGCCCCAAGAACAG+AGG 0.655273 contig404end:+30734 MsG0080048692.01.T01:CDS
CCAAGAACAGAGGACTGTGT+TGG 0.685178 contig404end:+30744 MsG0080048692.01.T01:CDS
CGAACACTTAAGAAATCCGT+CGG 0.691774 contig404end:-30792 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TAAGTGTTCGGGTTTATTTA+GGG + contig404end:30805-30824 MsG0080048692.01.T01:CDS 30.0%
! TTAAGTGTTCGGGTTTATTT+AGG + contig404end:30804-30823 MsG0080048692.01.T01:CDS 30.0%
CCTGAAACAACTCGAAGTAT+GGG + contig404end:30828-30847 MsG0080048692.01.T01:CDS 40.0%
CGAACACTTAAGAAATCCGT+CGG - contig404end:30795-30814 None:intergenic 40.0%
! CGACGGATTTCTTAAGTGTT+CGG + contig404end:30793-30812 MsG0080048692.01.T01:CDS 40.0%
! GACGGATTTCTTAAGTGTTC+GGG + contig404end:30794-30813 MsG0080048692.01.T01:CDS 40.0%
!! TTAGCTTTACATCCATCCCA+AGG - contig404end:30708-30727 None:intergenic 40.0%
AACACAGTCCTCTGTTCTTG+GGG - contig404end:30745-30764 None:intergenic 45.0%
CAACACAGTCCTCTGTTCTT+GGG - contig404end:30746-30765 None:intergenic 45.0%
GCCTGAAACAACTCGAAGTA+TGG + contig404end:30827-30846 MsG0080048692.01.T01:CDS 45.0%
TAAGAAATCCGTCGGACAAG+CGG - contig404end:30787-30806 None:intergenic 45.0%
!! AGGACTGTGTTGGTTGTAAG+AGG + contig404end:30754-30773 MsG0080048692.01.T01:CDS 45.0%
!! CCCATACTTCGAGTTGTTTC+AGG - contig404end:30831-30850 None:intergenic 45.0%
CCAACACAGTCCTCTGTTCT+TGG - contig404end:30747-30766 None:intergenic 50.0%
CCAAGAACAGAGGACTGTGT+TGG + contig404end:30744-30763 MsG0080048692.01.T01:CDS 50.0%
AGCTTCTGCCCCAAGAACAG+AGG + contig404end:30734-30753 MsG0080048692.01.T01:CDS 55.0%
GTGTGAGTCCGCTTGTCCGA+CGG + contig404end:30776-30795 MsG0080048692.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
contig404end gene 30699 30863 30699 ID=MsG0080048692.01;Name=MsG0080048692.01
contig404end mRNA 30699 30863 30699 ID=MsG0080048692.01.T01;Parent=MsG0080048692.01;Name=MsG0080048692.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|54
contig404end exon 30699 30863 30699 ID=MsG0080048692.01.T01:exon:3501;Parent=MsG0080048692.01.T01
contig404end CDS 30699 30863 30699 ID=MsG0080048692.01.T01:cds;Parent=MsG0080048692.01.T01
contig404end mRNA 30846 30863 30846 ID=MsG0080048692.01.T02;Parent=MsG0080048692.01;Name=MsG0080048692.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|5
contig404end exon 30846 30863 30846 ID=MsG0080048692.01.T02:exon:3502;Parent=MsG0080048692.01.T02
contig404end CDS 30846 30863 30846 ID=MsG0080048692.01.T02:cds;Parent=MsG0080048692.01.T02
Gene Sequence

>MsG0080048692.01.T01

ATGATACCTTGGGATGGATGTAAAGCTAAGCAAATAGCTTCTGCCCCAAGAACAGAGGACTGTGTTGGTTGTAAGAGGTGTGAGTCCGCTTGTCCGACGGATTTCTTAAGTGTTCGGGTTTATTTAGGGCCTGAAACAACTCGAAGTATGGGTCTAGCTTATTGA

>MsG0080048692.01.T02

ATGGGTCTAGCTTATTGA

Protein sequence

>MsG0080048692.01.T01

MIPWDGCKAKQIASAPRTEDCVGCKRCESACPTDFLSVRVYLGPETTRSMGLAY*

>MsG0080048692.01.T02

MGLAY*