AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080048691.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048691.01.T02 MTR_7g021710 100.000 75 0 0 1 75 206 280 6.02e-46 147
MsG0080048691.01.T02 MTR_5g063410 100.000 75 0 0 1 75 206 280 6.85e-46 147
MsG0080048691.01.T02 MTR_4g006110 100.000 75 0 0 1 75 206 280 7.08e-46 147
MsG0080048691.01.T02 MTR_0002s0170 67.123 73 24 0 1 73 1 73 6.74e-21 84.7
MsG0080048691.01.T01 MTR_7g021710 100.000 101 0 0 1 101 180 280 9.74e-66 199
MsG0080048691.01.T01 MTR_5g063410 100.000 101 0 0 1 101 180 280 1.07e-65 199
MsG0080048691.01.T01 MTR_4g006110 100.000 101 0 0 1 101 180 280 1.09e-65 199
MsG0080048691.01.T01 MTR_0002s0170 66.216 74 25 0 27 100 1 74 3.27e-22 89.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048691.01.T02 ATCG01070 88.000 75 9 0 1 75 27 101 1.52e-29 100
MsG0080048691.01.T01 ATCG01070 88.119 101 12 0 1 101 1 101 7.52e-47 145

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 contig404end:+30159 MsG0080048691.01.T01:CDS
GATACCAATAGAAAATAAAT+AGG 0.351599 contig404end:-30037 None:intergenic
ATTGATCACGAGCCGAAATA+TGG 0.361907 contig404end:+30065 MsG0080048691.01.T01:CDS
TAAGGGCTCTAACCATATTT+CGG 0.387511 contig404end:-30077 None:intergenic
CAAATTCGATTGATTGATAC+GGG 0.453649 contig404end:-30277 None:intergenic
TATAAGTTCAAGACACATAA+GGG 0.469487 contig404end:-30094 None:intergenic
GTATAAGTTCAAGACACATA+AGG 0.481145 contig404end:-30095 None:intergenic
ACAAATTCGATTGATTGATA+CGG 0.484459 contig404end:-30278 None:intergenic
CGCTGAAGCAGCTATCGGAC+TGG 0.527747 contig404end:+30218 MsG0080048691.01.T01:CDS
CAGTCCGATAGCTGCTTCAG+CGG 0.570136 contig404end:-30217 None:intergenic
GCAGCCGCTGAAGCAGCTAT+CGG 0.578247 contig404end:+30213 MsG0080048691.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAAAATATTTCCTTTTAAT+TGG - contig404end:30173-30192 None:intergenic 10.0%
!! GATACCAATAGAAAATAAAT+AGG - contig404end:30040-30059 None:intergenic 20.0%
!!! TTATTTTCTATTGGTATCTA+TGG + contig404end:30042-30061 MsG0080048691.01.T01:CDS 20.0%
! ACAAATTCGATTGATTGATA+CGG - contig404end:30281-30300 None:intergenic 25.0%
! TATAAGTTCAAGACACATAA+GGG - contig404end:30097-30116 None:intergenic 25.0%
!! TTTGATAATCGCCAATTAAA+AGG + contig404end:30159-30178 MsG0080048691.01.T01:CDS 25.0%
!!! AGTGCCTATTTATTTTCTAT+TGG + contig404end:30033-30052 MsG0080048691.01.T01:CDS 25.0%
CAAATTCGATTGATTGATAC+GGG - contig404end:30280-30299 None:intergenic 30.0%
GTATAAGTTCAAGACACATA+AGG - contig404end:30098-30117 None:intergenic 30.0%
! TAAGGGCTCTAACCATATTT+CGG - contig404end:30080-30099 None:intergenic 35.0%
! TTTTCTGTTACGAGCAATTG+CGG - contig404end:30253-30272 None:intergenic 35.0%
ATTGATCACGAGCCGAAATA+TGG + contig404end:30065-30084 MsG0080048691.01.T01:CDS 40.0%
CAGTCCGATAGCTGCTTCAG+CGG - contig404end:30220-30239 None:intergenic 55.0%
CGCTGAAGCAGCTATCGGAC+TGG + contig404end:30218-30237 MsG0080048691.01.T01:CDS 60.0%
GCAGCCGCTGAAGCAGCTAT+CGG + contig404end:30213-30232 MsG0080048691.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
contig404end gene 30006 30311 30006 ID=MsG0080048691.01;Name=MsG0080048691.01
contig404end mRNA 30006 30311 30006 ID=MsG0080048691.01.T01;Parent=MsG0080048691.01;Name=MsG0080048691.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|101
contig404end exon 30006 30311 30006 ID=MsG0080048691.01.T01:exon:8378;Parent=MsG0080048691.01.T01
contig404end CDS 30006 30311 30006 ID=MsG0080048691.01.T01:cds;Parent=MsG0080048691.01.T01
contig404end mRNA 30084 30311 30084 ID=MsG0080048691.01.T02;Parent=MsG0080048691.01;Name=MsG0080048691.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|75
contig404end exon 30084 30311 30084 ID=MsG0080048691.01.T02:exon:8379;Parent=MsG0080048691.01.T02
contig404end CDS 30084 30311 30084 ID=MsG0080048691.01.T02:cds;Parent=MsG0080048691.01.T02
Gene Sequence

>MsG0080048691.01.T02

ATGGTTAGAGCCCTTATGTGTCTTGAACTTATACTGAATGCAGTTAATATAAATCTCGTAACTTTTTCTGATTTTTTTGATAATCGCCAATTAAAAGGAAATATTTTTTCAATTTTTGTTATAGCTATTGCAGCCGCTGAAGCAGCTATCGGACTGGCTATTGTTTCCGCAATTGCTCGTAACAGAAAATCAACCCGTATCAATCAATCGAATTTGTTGAATAAATAG

>MsG0080048691.01.T01

ATGATGCTCGAACATGTACTTGTTTTGAGTGCCTATTTATTTTCTATTGGTATCTATGGATTGATCACGAGCCGAAATATGGTTAGAGCCCTTATGTGTCTTGAACTTATACTGAATGCAGTTAATATAAATCTCGTAACTTTTTCTGATTTTTTTGATAATCGCCAATTAAAAGGAAATATTTTTTCAATTTTTGTTATAGCTATTGCAGCCGCTGAAGCAGCTATCGGACTGGCTATTGTTTCCGCAATTGCTCGTAACAGAAAATCAACCCGTATCAATCAATCGAATTTGTTGAATAAATAG

Protein sequence

>MsG0080048691.01.T02

MVRALMCLELILNAVNINLVTFSDFFDNRQLKGNIFSIFVIAIAAAEAAIGLAIVSAIARNRKSTRINQSNLLNK*

>MsG0080048691.01.T01

MMLEHVLVLSAYLFSIGIYGLITSRNMVRALMCLELILNAVNINLVTFSDFFDNRQLKGNIFSIFVIAIAAAEAAIGLAIVSAIARNRKSTRINQSNLLNK*