AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380014020.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014020.01.T01 MTR_0002s0420 90.588 85 8 0 2 86 565 649 5.36e-48 162
MsG0380014020.01.T01 MTR_7g016660 82.000 50 9 0 37 86 3 52 1.26e-22 84.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014020.01.T01 ATCG00280 92.941 85 6 0 2 86 240 324 4.12e-50 164

Find 19 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGTATACTTGGTGGAATC+TGG 0.304089 3:+48671622 MsG0380014020.01.T01:CDS
TTATAGCTTGTTGCTTTGTC+TGG 0.320070 3:+48671745 MsG0380014020.01.T01:CDS
GTGGGTTCCATTTGTATACT+TGG 0.354445 3:+48671612 MsG0380014020.01.T01:CDS
GGGCTCGTCGTGCACTAGTA+TGG 0.390161 3:+48671670 MsG0380014020.01.T01:CDS
GCTTGAGCTTGAGAAGCTTC+CGG 0.413608 3:-48671813 None:intergenic
GGTTCCATTTGTATACTTGG+TGG 0.465852 3:+48671615 MsG0380014020.01.T01:CDS
CGTCGTGCACTAGTATGGTC+TGG 0.475241 3:+48671675 MsG0380014020.01.T01:CDS
GATTCCACCAAGTATACAAA+TGG 0.483879 3:-48671619 None:intergenic
TCTTAACTAAACCCTTTGCA+TGG 0.520783 3:+48671649 MsG0380014020.01.T01:CDS
TCTAGTTAGAGCCAACGTCT+TGG 0.534669 3:+48671845 MsG0380014020.01.T01:CDS
CAACGTCTTGGAGCTAATGT+AGG 0.550781 3:+48671857 MsG0380014020.01.T01:CDS
GCACGACGAGCCCATGCAAA+GGG 0.561557 3:-48671660 None:intergenic
CTTAACTAAACCCTTTGCAT+GGG 0.565570 3:+48671650 MsG0380014020.01.T01:CDS
TTGAGAAGCTTCCGGTCCAG+TGG 0.585881 3:-48671805 None:intergenic
AATTGGAGGGCATGTATGGT+GGG 0.587438 3:+48671594 None:intergenic
TGCACGACGAGCCCATGCAA+AGG 0.603460 3:-48671661 None:intergenic
GTGGGACCATAAAACTCACT+AGG 0.627713 3:-48671786 None:intergenic
TGAGAAGCTTCCGGTCCAGT+GGG 0.627895 3:-48671804 None:intergenic
CTACATTAGCTCCAAGACGT+TGG 0.651991 3:-48671856 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ACAAGCTATAAAACCAAAAA+CGG - Chr3:48671736-48671755 None:intergenic 25.0%
CTTAACTAAACCCTTTGCAT+GGG + Chr3:48671650-48671669 MsG0380014020.01.T01:CDS 35.0%
GATTCCACCAAGTATACAAA+TGG - Chr3:48671622-48671641 None:intergenic 35.0%
TCTTAACTAAACCCTTTGCA+TGG + Chr3:48671649-48671668 MsG0380014020.01.T01:CDS 35.0%
! GCTTATCCTAGTGAGTTTTA+TGG + Chr3:48671780-48671799 MsG0380014020.01.T01:CDS 35.0%
! TTTGTATACTTGGTGGAATC+TGG + Chr3:48671622-48671641 MsG0380014020.01.T01:CDS 35.0%
!! TTAGCAGCTTTATCCGTTTT+TGG + Chr3:48671720-48671739 MsG0380014020.01.T01:CDS 35.0%
!! TTATAGCTTGTTGCTTTGTC+TGG + Chr3:48671745-48671764 MsG0380014020.01.T01:CDS 35.0%
GGTTCCATTTGTATACTTGG+TGG + Chr3:48671615-48671634 MsG0380014020.01.T01:CDS 40.0%
GTGGGTTCCATTTGTATACT+TGG + Chr3:48671612-48671631 MsG0380014020.01.T01:CDS 40.0%
CTACATTAGCTCCAAGACGT+TGG - Chr3:48671859-48671878 None:intergenic 45.0%
GTGGGACCATAAAACTCACT+AGG - Chr3:48671789-48671808 None:intergenic 45.0%
TCTAGTTAGAGCCAACGTCT+TGG + Chr3:48671845-48671864 MsG0380014020.01.T01:CDS 45.0%
!! AGTGAGTTTTATGGTCCCAC+TGG + Chr3:48671789-48671808 MsG0380014020.01.T01:CDS 45.0%
GCTTGAGCTTGAGAAGCTTC+CGG - Chr3:48671816-48671835 None:intergenic 50.0%
! GTTTTATGGTCCCACTGGAC+CGG + Chr3:48671794-48671813 MsG0380014020.01.T01:CDS 50.0%
CGTCGTGCACTAGTATGGTC+TGG + Chr3:48671675-48671694 MsG0380014020.01.T01:CDS 55.0%
TGAGAAGCTTCCGGTCCAGT+GGG - Chr3:48671807-48671826 None:intergenic 55.0%
TTGAGAAGCTTCCGGTCCAG+TGG - Chr3:48671808-48671827 None:intergenic 55.0%
GCACGACGAGCCCATGCAAA+GGG - Chr3:48671663-48671682 None:intergenic 60.0%
GGGCTCGTCGTGCACTAGTA+TGG + Chr3:48671670-48671689 MsG0380014020.01.T01:CDS 60.0%
TGCACGACGAGCCCATGCAA+AGG - Chr3:48671664-48671683 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 48671609 48671878 48671609 ID=MsG0380014020.01;Name=MsG0380014020.01
Chr3 mRNA 48671609 48671878 48671609 ID=MsG0380014020.01.T01;Parent=MsG0380014020.01;Name=MsG0380014020.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|89
Chr3 exon 48671609 48671878 48671609 ID=MsG0380014020.01.T01:exon:8537;Parent=MsG0380014020.01.T01
Chr3 CDS 48671609 48671878 48671609 ID=MsG0380014020.01.T01:cds;Parent=MsG0380014020.01.T01
Gene Sequence

>MsG0380014020.01.T01

ATGGTGGGTTCCATTTGTATACTTGGTGGAATCTGGCATATCTTAACTAAACCCTTTGCATGGGCTCGTCGTGCACTAGTATGGTCTGGAGAAGCTTACTTGTCTTATAGTTTAGCAGCTTTATCCGTTTTTGGTTTTATAGCTTGTTGCTTTGTCTGGTTTAATAATACTGCTTATCCTAGTGAGTTTTATGGTCCCACTGGACCGGAAGCTTCTCAAGCTCAAGCATTTACTTTTCTAGTTAGAGCCAACGTCTTGGAGCTAATGTAG

Protein sequence

>MsG0380014020.01.T01

MVGSICILGGIWHILTKPFAWARRALVWSGEAYLSYSLAALSVFGFIACCFVWFNNTAYPSEFYGPTGPEASQAQAFTFLVRANVLELM*