AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380014266.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014266.01.T01 MTR_7g113780 95.652 92 4 0 1 92 183 274 2.96e-61 187
MsG0380014266.01.T01 MTR_8g078200 31.522 92 63 0 1 92 202 293 6.79e-12 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014266.01.T01 AT3G06470 63.043 92 30 2 1 92 190 277 2.84e-31 110
MsG0380014266.01.T01 AT3G06460 48.780 82 39 2 1 81 187 266 3.96e-17 73.9

Find 22 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCGGTGGTGGTGGATGCTC+TGG 0.244745 3:+52179748 MsG0380014266.01.T01:CDS
TGGTGGATGCTCTGGGATGA+AGG 0.407237 3:+52179756 MsG0380014266.01.T01:CDS
CTTTATTATCACTTCGGATC+CGG 0.421923 3:+52179730 MsG0380014266.01.T01:CDS
GATGCTCTGGGATGAAGGCT+TGG 0.437263 3:+52179761 MsG0380014266.01.T01:CDS
CACTTCGGATCCGGTGGTGG+TGG 0.447681 3:+52179739 MsG0380014266.01.T01:CDS
GTGTTCAGCTTTGCCGTCTC+CGG 0.450503 3:+52179700 MsG0380014266.01.T01:CDS
CCGGTGGTGGTGGATGCTCT+GGG 0.474001 3:+52179749 MsG0380014266.01.T01:CDS
TGAACACGAACTGAACAATC+TGG 0.475700 3:-52179684 None:intergenic
TACTACTTCCTCACCACTGT+TGG 0.476064 3:+52179625 MsG0380014266.01.T01:CDS
TATCACTTCGGATCCGGTGG+TGG 0.497768 3:+52179736 MsG0380014266.01.T01:CDS
CTTATGCTTTATTATCACTT+CGG 0.498009 3:+52179724 MsG0380014266.01.T01:CDS
CCCAGAGCATCCACCACCAC+CGG 0.521985 3:-52179749 None:intergenic
TCGGTAACGACGCGTTTCCA+CGG 0.536456 3:-52179658 None:intergenic
GTGATAATAAAGCATAAGAC+CGG 0.555355 3:-52179719 None:intergenic
ATAAAGCATAAGACCGGAGA+CGG 0.574571 3:-52179713 None:intergenic
TATTATCACTTCGGATCCGG+TGG 0.582897 3:+52179733 MsG0380014266.01.T01:CDS
CGACGCGTTTCCACGGCGGT+CGG 0.590079 3:-52179651 None:intergenic
GTCGGATTCCAACAGTGGTG+AGG 0.628146 3:-52179633 None:intergenic
CGGCGGTCGGATTCCAACAG+TGG 0.641832 3:-52179638 None:intergenic
GAACTGAACAATCTGGCAGT+CGG 0.662736 3:-52179677 None:intergenic
CTGTTGGAATCCGACCGCCG+TGG 0.731632 3:+52179641 MsG0380014266.01.T01:CDS
GTAACGACGCGTTTCCACGG+CGG 0.765126 3:-52179655 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CTTATGCTTTATTATCACTT+CGG + Chr3:52179724-52179743 MsG0380014266.01.T01:CDS 25.0%
!!! TGTTTTTAATGCTTCTCTTT+TGG + Chr3:52179795-52179814 MsG0380014266.01.T01:CDS 25.0%
GTGATAATAAAGCATAAGAC+CGG - Chr3:52179722-52179741 None:intergenic 30.0%
CTTTATTATCACTTCGGATC+CGG + Chr3:52179730-52179749 MsG0380014266.01.T01:CDS 35.0%
ATAAAGCATAAGACCGGAGA+CGG - Chr3:52179716-52179735 None:intergenic 40.0%
TGAACACGAACTGAACAATC+TGG - Chr3:52179687-52179706 None:intergenic 40.0%
GAACTGAACAATCTGGCAGT+CGG - Chr3:52179680-52179699 None:intergenic 45.0%
TACTACTTCCTCACCACTGT+TGG + Chr3:52179625-52179644 MsG0380014266.01.T01:CDS 45.0%
TATTATCACTTCGGATCCGG+TGG + Chr3:52179733-52179752 MsG0380014266.01.T01:CDS 45.0%
GTCGGATTCCAACAGTGGTG+AGG - Chr3:52179636-52179655 None:intergenic 55.0%
GTGTTCAGCTTTGCCGTCTC+CGG + Chr3:52179700-52179719 MsG0380014266.01.T01:CDS 55.0%
TATCACTTCGGATCCGGTGG+TGG + Chr3:52179736-52179755 MsG0380014266.01.T01:CDS 55.0%
TCGGTAACGACGCGTTTCCA+CGG - Chr3:52179661-52179680 None:intergenic 55.0%
!! GATGCTCTGGGATGAAGGCT+TGG + Chr3:52179761-52179780 MsG0380014266.01.T01:CDS 55.0%
!! TGGTGGATGCTCTGGGATGA+AGG + Chr3:52179756-52179775 MsG0380014266.01.T01:CDS 55.0%
GTAACGACGCGTTTCCACGG+CGG - Chr3:52179658-52179677 None:intergenic 60.0%
CGGCGGTCGGATTCCAACAG+TGG - Chr3:52179641-52179660 None:intergenic 65.0%
CTGTTGGAATCCGACCGCCG+TGG + Chr3:52179641-52179660 MsG0380014266.01.T01:CDS 65.0%
! CACTTCGGATCCGGTGGTGG+TGG + Chr3:52179739-52179758 MsG0380014266.01.T01:CDS 65.0%
! CCCAGAGCATCCACCACCAC+CGG - Chr3:52179752-52179771 None:intergenic 65.0%
!! CCGGTGGTGGTGGATGCTCT+GGG + Chr3:52179749-52179768 MsG0380014266.01.T01:CDS 65.0%
!! TCCGGTGGTGGTGGATGCTC+TGG + Chr3:52179748-52179767 MsG0380014266.01.T01:CDS 65.0%
CGACGCGTTTCCACGGCGGT+CGG - Chr3:52179654-52179673 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr3 gene 52179616 52179894 52179616 ID=MsG0380014266.01;Name=MsG0380014266.01
Chr3 mRNA 52179616 52179894 52179616 ID=MsG0380014266.01.T01;Parent=MsG0380014266.01;Name=MsG0380014266.01.T01;_AED=0.45;_eAED=0.45;_QI=0|-1|0|1|-1|1|1|0|92
Chr3 exon 52179616 52179894 52179616 ID=MsG0380014266.01.T01:exon:16510;Parent=MsG0380014266.01.T01
Chr3 CDS 52179616 52179894 52179616 ID=MsG0380014266.01.T01:cds;Parent=MsG0380014266.01.T01
Gene Sequence

>MsG0380014266.01.T01

ATGTACTCTTACTACTTCCTCACCACTGTTGGAATCCGACCGCCGTGGAAACGCGTCGTTACCGACTGCCAGATTGTTCAGTTCGTGTTCAGCTTTGCCGTCTCCGGTCTTATGCTTTATTATCACTTCGGATCCGGTGGTGGTGGATGCTCTGGGATGAAGGCTTGGTGCTTCAATGCTGTTTTTAATGCTTCTCTTTTGGCTCTTTTTCTTGATTTTCATCTCAAGAGTTATGCTAATTCTAAGAAGAAGAAACGTACTACCGAAAAAGACTCGTGA

Protein sequence

>MsG0380014266.01.T01

MYSYYFLTTVGIRPPWKRVVTDCQIVQFVFSFAVSGLMLYYHFGSGGGGCSGMKAWCFNAVFNASLLALFLDFHLKSYANSKKKKRTTEKDS*