AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010730.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010730.01.T01 MTR_2g090340 97.143 70 2 0 1 70 1 70 9.07e-44 135
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010730.01.T01 AT4G28290 50.847 59 29 0 12 70 22 80 7.83e-14 60.5
MsG0280010730.01.T01 AT4G28290 50.847 59 29 0 12 70 22 80 7.83e-14 60.5

Find 36 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAGAGAGACAGAGGAAATT+TGG 0.190544 2:+73998292 None:intergenic
AAATTAAAAGTATAAGATTT+TGG 0.218403 2:-73997646 MsG0280010730.01.T01:three_prime_UTR
CGCTGTCTCCGTTTCTTCTT+CGG 0.298620 2:-73998113 MsG0280010730.01.T01:CDS
GGAAGCGGCGGCGACGGAGG+CGG 0.308504 2:+73998141 None:intergenic
TGAGAGAAACAAATGAAGAT+TGG 0.330432 2:+73998197 None:intergenic
AAGAAGAAGATTTCACTTGT+TGG 0.358736 2:-73997774 MsG0280010730.01.T01:three_prime_UTR
GAGAGAAACAAATGAAGATT+GGG 0.372997 2:+73998198 None:intergenic
CGGCGACGGAGGCGGCGAAG+AGG 0.418581 2:+73998149 None:intergenic
GGAGACAGCGGTGGCGGAAG+CGG 0.428305 2:+73998126 None:intergenic
GGTGGCGGAAGCGGCGGCGA+CGG 0.429714 2:+73998135 None:intergenic
GGCAAATAACTCAAATCATC+AGG 0.435276 2:-73998092 MsG0280010730.01.T01:intron
GAAGAAGAAGAGAGAGAAAG+AGG 0.446300 2:+73998256 None:intergenic
TCATAGATGAAAGAGGGGTT+TGG 0.481099 2:-73997856 MsG0280010730.01.T01:exon
GGCGGAAGCGGCGGCGACGG+AGG 0.483294 2:+73998138 None:intergenic
ACCGCCACAATGAAGAAATC+CGG 0.492103 2:-73998172 MsG0280010730.01.T01:exon
AAATTTGCGCCGAGATTCGA+TGG 0.499729 2:-73997909 MsG0280010730.01.T01:CDS
GACGGAGGCGGCGAAGAGGC+CGG 0.501966 2:+73998153 None:intergenic
GACAGCGGTGGCGGAAGCGG+CGG 0.505444 2:+73998129 None:intergenic
AGAAACGGAGACAGCGGTGG+CGG 0.505992 2:+73998120 None:intergenic
TGATACGCGAAATTATTACT+TGG 0.513903 2:-73997704 MsG0280010730.01.T01:three_prime_UTR
GTTATTTGCCGAAGAAGAAA+CGG 0.515047 2:+73998105 None:intergenic
AAACGCAAACCATCGAATCT+CGG 0.521279 2:+73997900 None:intergenic
AGACAGAGGAAATTTGGTTG+CGG 0.546519 2:+73998298 None:intergenic
AACTGCTCATAGATGAAAGA+GGG 0.547718 2:-73997862 MsG0280010730.01.T01:exon
ACAAGACGAAGAAACATATG+AGG 0.552549 2:+73997820 None:intergenic
ATTTGTAGAGAGTGAATATG+TGG 0.567779 2:+73998232 None:intergenic
GAGGCCGGATTTCTTCATTG+TGG 0.578217 2:+73998168 None:intergenic
GTCTTGTTGAACTTCTTGTG+TGG 0.583419 2:-73997804 MsG0280010730.01.T01:three_prime_UTR
GCCGGATTTCTTCATTGTGG+CGG 0.585971 2:+73998171 None:intergenic
TAACTGCTCATAGATGAAAG+AGG 0.603127 2:-73997863 MsG0280010730.01.T01:exon
GAGATCTTCATCGTCGACGA+CGG 0.630755 2:-73997934 MsG0280010730.01.T01:CDS
AGAAGAAACGGAGACAGCGG+TGG 0.633424 2:+73998117 None:intergenic
GACGGTACGGTTGAAAGAAG+AGG 0.642636 2:-73997966 MsG0280010730.01.T01:CDS
CGAAGAAGAAACGGAGACAG+CGG 0.672061 2:+73998114 None:intergenic
ACTGCTCATAGATGAAAGAG+GGG 0.694445 2:-73997861 MsG0280010730.01.T01:exon
ACGATGAAGATCTCTCATCA+CGG 0.698985 2:+73997943 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATTAAAAGTATAAGATTT+TGG - Chr2:73998281-73998300 MsG0280010730.01.T01:five_prime_UTR 10.0%
!!! TCTTTTTTGTAATCCTTAAT+GGG - Chr2:73998252-73998271 MsG0280010730.01.T01:five_prime_UTR 20.0%
!!! TGAATAAATTTTCAGATCTT+GGG + Chr2:73997890-73997909 None:intergenic 20.0%
!!! TTAATTTTCATTACCCATTA+AGG + Chr2:73998268-73998287 None:intergenic 20.0%
!!! TTCTTTTTTGTAATCCTTAA+TGG - Chr2:73998251-73998270 MsG0280010730.01.T01:five_prime_UTR 20.0%
!!! TTGAATAAATTTTCAGATCT+TGG + Chr2:73997891-73997910 None:intergenic 20.0%
!! AATTTGTGTTTTGTATAGGA+CGG - Chr2:73997943-73997962 MsG0280010730.01.T01:CDS 25.0%
!! TGTGAATTTGTGTTTTGTAT+AGG - Chr2:73997939-73997958 MsG0280010730.01.T01:CDS 25.0%
AAGAAGAAGATTTCACTTGT+TGG - Chr2:73998153-73998172 MsG0280010730.01.T01:CDS 30.0%
ATTTGTAGAGAGTGAATATG+TGG + Chr2:73997698-73997717 None:intergenic 30.0%
GAGAGAAACAAATGAAGATT+GGG + Chr2:73997732-73997751 None:intergenic 30.0%
TGAGAGAAACAAATGAAGAT+TGG + Chr2:73997733-73997752 None:intergenic 30.0%
TGATACGCGAAATTATTACT+TGG - Chr2:73998223-73998242 MsG0280010730.01.T01:five_prime_UTR 30.0%
AACTGCTCATAGATGAAAGA+GGG - Chr2:73998065-73998084 MsG0280010730.01.T01:intron 35.0%
ACAAGACGAAGAAACATATG+AGG + Chr2:73998110-73998129 None:intergenic 35.0%
GGCAAATAACTCAAATCATC+AGG - Chr2:73997835-73997854 MsG0280010730.01.T01:three_prime_UTR 35.0%
GTTATTTGCCGAAGAAGAAA+CGG + Chr2:73997825-73997844 None:intergenic 35.0%
TAACTGCTCATAGATGAAAG+AGG - Chr2:73998064-73998083 MsG0280010730.01.T01:intron 35.0%
AAACGCAAACCATCGAATCT+CGG + Chr2:73998030-73998049 None:intergenic 40.0%
ACGATGAAGATCTCTCATCA+CGG + Chr2:73997987-73998006 None:intergenic 40.0%
ACTGCTCATAGATGAAAGAG+GGG - Chr2:73998066-73998085 MsG0280010730.01.T01:intron 40.0%
AGACAGAGGAAATTTGGTTG+CGG + Chr2:73997632-73997651 None:intergenic 40.0%
AGAGAGAGACAGAGGAAATT+TGG + Chr2:73997638-73997657 None:intergenic 40.0%
GAAGAAGAAGAGAGAGAAAG+AGG + Chr2:73997674-73997693 None:intergenic 40.0%
TCATAGATGAAAGAGGGGTT+TGG - Chr2:73998071-73998090 MsG0280010730.01.T01:intron 40.0%
! GTCTTGTTGAACTTCTTGTG+TGG - Chr2:73998123-73998142 MsG0280010730.01.T01:CDS 40.0%
! GTGTTTTGTATAGGACGGTA+CGG - Chr2:73997948-73997967 MsG0280010730.01.T01:CDS 40.0%
AAATTTGCGCCGAGATTCGA+TGG - Chr2:73998018-73998037 MsG0280010730.01.T01:intron 45.0%
ACCGCCACAATGAAGAAATC+CGG - Chr2:73997755-73997774 MsG0280010730.01.T01:three_prime_UTR 45.0%
AGAGAGAGAGAGAGAGACAG+AGG + Chr2:73997646-73997665 None:intergenic 50.0%
CGAAGAAGAAACGGAGACAG+CGG + Chr2:73997816-73997835 None:intergenic 50.0%
CGCTGTCTCCGTTTCTTCTT+CGG - Chr2:73997814-73997833 MsG0280010730.01.T01:three_prime_UTR 50.0%
GACGGTACGGTTGAAAGAAG+AGG - Chr2:73997961-73997980 MsG0280010730.01.T01:CDS 50.0%
GAGATCTTCATCGTCGACGA+CGG - Chr2:73997993-73998012 MsG0280010730.01.T01:intron 50.0%
GAGGCCGGATTTCTTCATTG+TGG + Chr2:73997762-73997781 None:intergenic 50.0%
GCCGGATTTCTTCATTGTGG+CGG + Chr2:73997759-73997778 None:intergenic 50.0%
AGAAGAAACGGAGACAGCGG+TGG + Chr2:73997813-73997832 None:intergenic 55.0%
AGAAACGGAGACAGCGGTGG+CGG + Chr2:73997810-73997829 None:intergenic 60.0%
!! GGAGACAGCGGTGGCGGAAG+CGG + Chr2:73997804-73997823 None:intergenic 70.0%
GACGGAGGCGGCGAAGAGGC+CGG + Chr2:73997777-73997796 None:intergenic 75.0%
!! GACAGCGGTGGCGGAAGCGG+CGG + Chr2:73997801-73997820 None:intergenic 75.0%
! CGGCGACGGAGGCGGCGAAG+AGG + Chr2:73997781-73997800 None:intergenic 80.0%
! GGAAGCGGCGGCGACGGAGG+CGG + Chr2:73997789-73997808 None:intergenic 80.0%
!!! GGTGGCGGAAGCGGCGGCGA+CGG + Chr2:73997795-73997814 None:intergenic 80.0%
! GGCGGAAGCGGCGGCGACGG+AGG + Chr2:73997792-73997811 None:intergenic 85.0%
Chromosome Type Strat End Strand Name
Chr2 gene 73997629 73998320 73997629 ID=MsG0280010730.01;Name=MsG0280010730.01
Chr2 mRNA 73997629 73998320 73997629 ID=MsG0280010730.01.T01;Parent=MsG0280010730.01;Name=MsG0280010730.01.T01;_AED=0.37;_eAED=0.37;_QI=135|1|1|1|0|0|2|240|70
Chr2 exon 73997629 73997988 73997629 ID=MsG0280010730.01.T01:exon:7429;Parent=MsG0280010730.01.T01
Chr2 exon 73998093 73998320 73998093 ID=MsG0280010730.01.T01:exon:7428;Parent=MsG0280010730.01.T01
Chr2 five_prime_UTR 73998186 73998320 73998186 ID=MsG0280010730.01.T01:five_prime_utr;Parent=MsG0280010730.01.T01
Chr2 CDS 73998093 73998185 73998093 ID=MsG0280010730.01.T01:cds;Parent=MsG0280010730.01.T01
Chr2 CDS 73997869 73997988 73997869 ID=MsG0280010730.01.T01:cds;Parent=MsG0280010730.01.T01
Chr2 three_prime_UTR 73997629 73997868 73997629 ID=MsG0280010730.01.T01:three_prime_utr;Parent=MsG0280010730.01.T01
Gene Sequence

>MsG0280010730.01.T01

ATGAAGAAATCCGGCCTCTTCGCCGCCTCCGTCGCCGCCGCTTCCGCCACCGCTGTCTCCGTTTCTTCTTCGGCAAATAACTCAAATCATCAGGACGGTACGGTTGAAAGAAGAGGCCGTGATGAGAGATCTTCATCGTCGACGACGGAGAAATTTGCGCCGAGATTCGATGGTTTGCGTTTCATAGAAACGCTGATAACTGCTCATAGATGA
Protein sequence

>MsG0280010730.01.T01

MKKSGLFAASVAAASATAVSVSSSANNSNHQDGTVERRGRDERSSSSTTEKFAPRFDGLRFIETLITAHR*