AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180003493.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180003493.01.T01 MTR_5g057990 95.238 84 4 0 9 92 843 926 1.95e-48 164
MsG0180003493.01.T01 MTR_1g111000 55.435 92 37 1 1 92 850 937 1.66e-28 107
MsG0180003493.01.T01 MTR_1g110980 52.381 84 35 2 9 92 846 924 7.68e-24 94.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180003493.01.T01 AT1G68560 44.706 85 43 3 9 92 832 913 1.25e-16 73.6
MsG0180003493.01.T01 AT3G45940 39.286 84 48 3 11 92 771 853 8.39e-12 59.7

Find 22 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTTGCTATGACATGGAAAA+TGG 0.163449 1:+63185194 MsG0180003493.01.T01:CDS
TTAGATGGAAAACCACTAAT+TGG 0.283753 1:+63185054 MsG0180003493.01.T01:CDS
ATTTCTGTGTTGGGATTAGA+TGG 0.354107 1:+63185003 MsG0180003493.01.T01:CDS
TACTTCTGAACATGTGCATT+TGG 0.366445 1:+63185098 MsG0180003493.01.T01:CDS
ATTGATTCAATTTCTGTGTT+GGG 0.371345 1:+63184994 MsG0180003493.01.T01:CDS
GTGGCTTCACTTGAGTTAGA+TGG 0.373357 1:+63185039 MsG0180003493.01.T01:CDS
ACACTTGACAAGCCAATTAG+TGG 0.412039 1:-63185066 None:intergenic
GCAAGGTGGATTGATCTCTA+AGG 0.447708 1:+63184948 MsG0180003493.01.T01:CDS
TATTGATTCAATTTCTGTGT+TGG 0.473152 1:+63184993 MsG0180003493.01.T01:CDS
TTTGCTATGACATGGAAAAT+GGG 0.511308 1:+63185195 MsG0180003493.01.T01:CDS
TCTAAGGATGCTTTAGACAA+AGG 0.534929 1:+63184964 MsG0180003493.01.T01:CDS
AGATGGAAGTGTTGGAGCAG+TGG 0.546659 1:+63185020 MsG0180003493.01.T01:CDS
TTGGGATTAGATGGAAGTGT+TGG 0.571364 1:+63185012 MsG0180003493.01.T01:CDS
CATTTGGAAGGTGAAGGAAA+TGG 0.600808 1:+63185114 MsG0180003493.01.T01:CDS
TCTGAACATGTGCATTTGGA+AGG 0.603305 1:+63185102 MsG0180003493.01.T01:CDS
ACTGTGATGGTAACTTTGAG+AGG 0.604296 1:+63185147 MsG0180003493.01.T01:CDS
AGAGGGTTGAGCATTCCTGT+TGG 0.649091 1:+63185165 MsG0180003493.01.T01:CDS
CTGTGATGGTAACTTTGAGA+GGG 0.681039 1:+63185148 MsG0180003493.01.T01:CDS
TGGTGAAAGTAAGACTGTGA+TGG 0.681480 1:+63185134 MsG0180003493.01.T01:CDS
TGATCTCTAAGGATGCAGCA+AGG 0.697333 1:+63184931 None:intergenic
TCTCTAAGGATGCAGCAAGG+TGG 0.705537 1:+63184934 None:intergenic
CATGTGCATTTGGAAGGTGA+AGG 0.717327 1:+63185108 MsG0180003493.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTGATTCAATTTCTGTGTT+GGG + Chr1:63184994-63185013 MsG0180003493.01.T01:CDS 25.0%
!!! TATTGATTCAATTTCTGTGT+TGG + Chr1:63184993-63185012 MsG0180003493.01.T01:CDS 25.0%
TTAGATGGAAAACCACTAAT+TGG + Chr1:63185054-63185073 MsG0180003493.01.T01:CDS 30.0%
! ATAGCAAAGTTTTTACCAAC+AGG - Chr1:63185183-63185202 None:intergenic 30.0%
! GTAAAAACTTTGCTATGACA+TGG + Chr1:63185187-63185206 MsG0180003493.01.T01:CDS 30.0%
! TTTGCTATGACATGGAAAAT+GGG + Chr1:63185195-63185214 MsG0180003493.01.T01:CDS 30.0%
ATTTCTGTGTTGGGATTAGA+TGG + Chr1:63185003-63185022 MsG0180003493.01.T01:CDS 35.0%
TACTTCTGAACATGTGCATT+TGG + Chr1:63185098-63185117 MsG0180003493.01.T01:CDS 35.0%
! CTTTGCTATGACATGGAAAA+TGG + Chr1:63185194-63185213 MsG0180003493.01.T01:CDS 35.0%
! TCTAAGGATGCTTTAGACAA+AGG + Chr1:63184964-63184983 MsG0180003493.01.T01:CDS 35.0%
ACACTTGACAAGCCAATTAG+TGG - Chr1:63185069-63185088 None:intergenic 40.0%
ACTGTGATGGTAACTTTGAG+AGG + Chr1:63185147-63185166 MsG0180003493.01.T01:CDS 40.0%
CATTTGGAAGGTGAAGGAAA+TGG + Chr1:63185114-63185133 MsG0180003493.01.T01:CDS 40.0%
TCTGAACATGTGCATTTGGA+AGG + Chr1:63185102-63185121 MsG0180003493.01.T01:CDS 40.0%
TGGTGAAAGTAAGACTGTGA+TGG + Chr1:63185134-63185153 MsG0180003493.01.T01:CDS 40.0%
! CTGTGATGGTAACTTTGAGA+GGG + Chr1:63185148-63185167 MsG0180003493.01.T01:CDS 40.0%
! TTGGGATTAGATGGAAGTGT+TGG + Chr1:63185012-63185031 MsG0180003493.01.T01:CDS 40.0%
CATGTGCATTTGGAAGGTGA+AGG + Chr1:63185108-63185127 MsG0180003493.01.T01:CDS 45.0%
GTGGCTTCACTTGAGTTAGA+TGG + Chr1:63185039-63185058 MsG0180003493.01.T01:CDS 45.0%
!! GCAAGGTGGATTGATCTCTA+AGG + Chr1:63184948-63184967 MsG0180003493.01.T01:CDS 45.0%
AGAGGGTTGAGCATTCCTGT+TGG + Chr1:63185165-63185184 MsG0180003493.01.T01:CDS 50.0%
!! AGATGGAAGTGTTGGAGCAG+TGG + Chr1:63185020-63185039 MsG0180003493.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr1 gene 63184943 63185221 63184943 ID=MsG0180003493.01;Name=MsG0180003493.01
Chr1 mRNA 63184943 63185221 63184943 ID=MsG0180003493.01.T01;Parent=MsG0180003493.01;Name=MsG0180003493.01.T01;_AED=0.24;_eAED=0.24;_QI=0|-1|0|1|-1|1|1|0|92
Chr1 exon 63184943 63185221 63184943 ID=MsG0180003493.01.T01:exon:5696;Parent=MsG0180003493.01.T01
Chr1 CDS 63184943 63185221 63184943 ID=MsG0180003493.01.T01:cds;Parent=MsG0180003493.01.T01
Gene Sequence

>MsG0180003493.01.T01

ATGCAGCAAGGTGGATTGATCTCTAAGGATGCTTTAGACAAAGGTTTGATTATTGATTCAATTTCTGTGTTGGGATTAGATGGAAGTGTTGGAGCAGTGGCTTCACTTGAGTTAGATGGAAAACCACTAATTGGCTTGTCAAGTGTGAATGTTACTACTTCTGAACATGTGCATTTGGAAGGTGAAGGAAATGGTGAAAGTAAGACTGTGATGGTAACTTTGAGAGGGTTGAGCATTCCTGTTGGTAAAAACTTTGCTATGACATGGAAAATGGGATGA

Protein sequence

>MsG0180003493.01.T01

MQQGGLISKDALDKGLIIDSISVLGLDGSVGAVASLELDGKPLIGLSSVNVTTSEHVHLEGEGNGESKTVMVTLRGLSIPVGKNFAMTWKMG*