AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580030226.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580030226.01.T01 MTR_5g099030 94.170 223 13 0 10 232 1 223 6.01e-160 441
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580030226.01.T01 AT4G38370 65.297 219 73 1 14 232 10 225 1.29e-108 312

Find 26 sgRNAs with CRISPR-Local

Find 132 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAATATTAGCGGCGGTTC+AGG 0.288734 5:+108556104 MsG0580030226.01.T01:exon
ATCAATGCAGCTAACTGTTT+TGG 0.291389 5:+108556217 MsG0580030226.01.T01:exon
TATGAAGATGATGATTCTTC+AGG 0.312719 5:+108556323 MsG0580030226.01.T01:exon
TTATCATATTCAAAACTCTT+TGG 0.327781 5:+108556278 MsG0580030226.01.T01:exon
CGCCAGTATGCTCTGAATAC+TGG 0.357359 5:+108556150 MsG0580030226.01.T01:exon
AATATGATAAAACTAAATAA+TGG 0.373373 5:-108556265 None:intergenic
TCAGAGCATACTGGCGGTGC+TGG 0.382439 5:-108556143 None:intergenic
ATCATGCAGATGTGCGATTC+TGG 0.416868 5:+108555993 MsG0580030226.01.T01:intron
GAATTGTTTGCAAGATCTGC+AGG 0.433814 5:-108556035 None:intergenic
CGATTCTGGTTGTCAGCCAT+GGG 0.469114 5:+108556007 MsG0580030226.01.T01:exon
CTCCAGTATTCAGAGCATAC+TGG 0.471623 5:-108556152 None:intergenic
TGGCGGTGCTGGGACAAGAT+TGG 0.489709 5:-108556132 None:intergenic
GCATGCTGCTAAGAAACATA+AGG 0.497206 5:+108556059 MsG0580030226.01.T01:exon
GCGATTCTGGTTGTCAGCCA+TGG 0.511993 5:+108556006 MsG0580030226.01.T01:exon
CAGAGCATACTGGCGGTGCT+GGG 0.532312 5:-108556142 None:intergenic
TGACTTAGCTTCAATATTAG+CGG 0.535064 5:+108556095 MsG0580030226.01.T01:exon
CTCTGAATACTGGAGAGCTC+AGG 0.547008 5:+108556160 MsG0580030226.01.T01:exon
AATATTAGCGGCGGTTCAGG+TGG 0.558199 5:+108556107 MsG0580030226.01.T01:exon
TGAAGCTAAGTCATCAGAAG+TGG 0.576783 5:-108556085 None:intergenic
AATTGTTTGCAAGATCTGCA+GGG 0.616735 5:-108556034 None:intergenic
ATTGTTTGCAAGATCTGCAG+GGG 0.632923 5:-108556033 None:intergenic
CTTAGCTTCAATATTAGCGG+CGG 0.633224 5:+108556098 MsG0580030226.01.T01:exon
GAAGCTAAGTCATCAGAAGT+GGG 0.635529 5:-108556084 None:intergenic
AGATCTGCAGGGGATCCCCA+TGG 0.642367 5:-108556023 None:intergenic
CAGTATTCAGAGCATACTGG+CGG 0.703219 5:-108556149 None:intergenic
GATTCTGGTTGTCAGCCATG+GGG 0.723007 5:+108556008 MsG0580030226.01.T01:exon

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATATGATAAAACTAAATAA+TGG - Chr5:108556268-108556287 None:intergenic 10.0%
!!! TATGCTATTTATTTATTTAT+TGG + Chr5:108554808-108554827 MsG0580030226.01.T01:intron 10.0%
!! ATTGATATTACAGATAATTA+TGG - Chr5:108555220-108555239 None:intergenic 15.0%
!! GAATTTCAAATGATATTTAA+AGG - Chr5:108555724-108555743 None:intergenic 15.0%
!! TATTTATTTATTTATTGGAC+AGG + Chr5:108554813-108554832 MsG0580030226.01.T01:intron 15.0%
!! TCATATTCATAAATTCTAAT+TGG + Chr5:108555067-108555086 MsG0580030226.01.T01:intron 15.0%
!! TTGATATTTATAACAATACT+CGG + Chr5:108555274-108555293 MsG0580030226.01.T01:intron 15.0%
!!! AATATCAACATTTTATATCA+CGG - Chr5:108555262-108555281 None:intergenic 15.0%
!!! AGATAGTGAATATTTTATTT+TGG + Chr5:108555843-108555862 MsG0580030226.01.T01:intron 15.0%
!!! TATATCTTTAAGTATGTTTT+TGG + Chr5:108555924-108555943 MsG0580030226.01.T01:intron 15.0%
!! ATAAATTCTAATTGGTATTG+AGG + Chr5:108555075-108555094 MsG0580030226.01.T01:intron 20.0%
!! TTATCATATTCAAAACTCTT+TGG + Chr5:108556278-108556297 MsG0580030226.01.T01:exon 20.0%
!! TTTCAGCATACTTATATAAA+GGG - Chr5:108555513-108555532 None:intergenic 20.0%
!!! ACTAAATAATGGAAGAAAAA+AGG - Chr5:108556257-108556276 None:intergenic 20.0%
!!! CTAAATAATGGAAGAAAAAA+GGG - Chr5:108556256-108556275 None:intergenic 20.0%
!!! TAAATAATGGAAGAAAAAAG+GGG - Chr5:108556255-108556274 None:intergenic 20.0%
! AAATTCAATTCACAGGAAAA+TGG + Chr5:108554650-108554669 MsG0580030226.01.T01:intron 25.0%
! ATGATATTTAAAGGCAGAAA+TGG - Chr5:108555715-108555734 None:intergenic 25.0%
! CAAATTCAAATTCAATTCAC+AGG + Chr5:108554643-108554662 MsG0580030226.01.T01:intron 25.0%
! GTTTCAGCATACTTATATAA+AGG - Chr5:108555514-108555533 None:intergenic 25.0%
! TGATATTTAAAGGCAGAAAT+GGG - Chr5:108555714-108555733 None:intergenic 25.0%
! TTCAGCATACTTATATAAAG+GGG - Chr5:108555512-108555531 None:intergenic 25.0%
!! AATTGGTATTGAGGTATAAT+TGG + Chr5:108555084-108555103 MsG0580030226.01.T01:intron 25.0%
!! TGGTATTGAAGAACAAATAT+TGG + Chr5:108554500-108554519 MsG0580030226.01.T01:CDS 25.0%
!! TTTTATCTCATGATATGGTA+TGG + Chr5:108555010-108555029 MsG0580030226.01.T01:intron 25.0%
!!! CATTTGAGATTTGATTTTTG+AGG + Chr5:108556188-108556207 MsG0580030226.01.T01:exon 25.0%
AAAATGAGTTTCGCAAACTA+CGG - Chr5:108555539-108555558 None:intergenic 30.0%
AATTGTTATGTTACCTACCA+TGG - Chr5:108554578-108554597 None:intergenic 30.0%
ACTACTTACATATTCTGTAG+CGG + Chr5:108555322-108555341 MsG0580030226.01.T01:intron 30.0%
AGAACAAATATTGGATTGTG+AGG + Chr5:108554509-108554528 MsG0580030226.01.T01:CDS 30.0%
ATCATGAGATAAAAGCTCAA+AGG - Chr5:108555004-108555023 None:intergenic 30.0%
ATTCTCGAATCAGAATTTGA+AGG + Chr5:108555685-108555704 MsG0580030226.01.T01:CDS 30.0%
CAGATAATTATGGTCAAAAG+TGG - Chr5:108555210-108555229 None:intergenic 30.0%
CATGAAAAACTTAAACGATG+TGG - Chr5:108555166-108555185 None:intergenic 30.0%
TATGAAGATGATGATTCTTC+AGG + Chr5:108556323-108556342 MsG0580030226.01.T01:exon 30.0%
TGACTTAGCTTCAATATTAG+CGG + Chr5:108556095-108556114 MsG0580030226.01.T01:exon 30.0%
TTCTCGAATCAGAATTTGAA+GGG + Chr5:108555686-108555705 MsG0580030226.01.T01:CDS 30.0%
! GCATTGAATATTCCTTTTCA+TGG + Chr5:108554928-108554947 MsG0580030226.01.T01:CDS 30.0%
! TGAGCTTTTATCTCATGATA+TGG + Chr5:108555005-108555024 MsG0580030226.01.T01:CDS 30.0%
! TTCAAATTCTGATTCGAGAA+TGG - Chr5:108555686-108555705 None:intergenic 30.0%
AAATATTGGATTGTGAGGCA+TGG + Chr5:108554514-108554533 MsG0580030226.01.T01:CDS 35.0%
AATTGTTTGCAAGATCTGCA+GGG - Chr5:108556037-108556056 None:intergenic 35.0%
AGAATGTCAGAATCAGAATC+AGG + Chr5:108554469-108554488 MsG0580030226.01.T01:exon 35.0%
ATAATTGGATAGTTAGCAGC+AGG + Chr5:108555099-108555118 MsG0580030226.01.T01:intron 35.0%
ATCAGAATCAGGTAGCAAAT+TGG + Chr5:108554480-108554499 MsG0580030226.01.T01:CDS 35.0%
ATCGACAGTATGATCAGATT+TGG + Chr5:108555575-108555594 MsG0580030226.01.T01:intron 35.0%
ATGAGAAAGATCCTCTTGTT+GGG + Chr5:108555605-108555624 MsG0580030226.01.T01:CDS 35.0%
ATGTAAGTAGTGGCACTAAA+CGG - Chr5:108555313-108555332 None:intergenic 35.0%
CAGTAGACTTGCAAAAACAA+TGG + Chr5:108555660-108555679 MsG0580030226.01.T01:CDS 35.0%
GCTACAGAATATGTAAGTAG+TGG - Chr5:108555323-108555342 None:intergenic 35.0%
TATTCTCCCTGAATTCCAAT+TGG + Chr5:108554673-108554692 MsG0580030226.01.T01:CDS 35.0%
TCGACAGTATGATCAGATTT+GGG + Chr5:108555576-108555595 MsG0580030226.01.T01:intron 35.0%
TGAGATAAAAGCTCAAAGGA+AGG - Chr5:108555000-108555019 None:intergenic 35.0%
TGTATGTCTGTTTGCATGTT+AGG - Chr5:108554770-108554789 None:intergenic 35.0%
! ACATTTTATATCACGGTCAC+AGG - Chr5:108555255-108555274 None:intergenic 35.0%
! ATCAATGCAGCTAACTGTTT+TGG + Chr5:108556217-108556236 MsG0580030226.01.T01:exon 35.0%
! CGCTGGATTTTCATTTCAAA+AGG + Chr5:108554724-108554743 MsG0580030226.01.T01:CDS 35.0%
! TGTGGGTTGTTCTTGAAAAA+GGG - Chr5:108554888-108554907 None:intergenic 35.0%
!!! CATTGTTTTTGCAAGTCTAC+TGG - Chr5:108555662-108555681 None:intergenic 35.0%
AAACTCATGACTGAGTGAGT+AGG - Chr5:108555388-108555407 None:intergenic 40.0%
ATTGTTTGCAAGATCTGCAG+GGG - Chr5:108556036-108556055 None:intergenic 40.0%
CAACTTCAACTGTTGCAATG+AGG - Chr5:108555355-108555374 None:intergenic 40.0%
CTACCATGGAAGAAACAATG+AGG - Chr5:108554564-108554583 None:intergenic 40.0%
CTTACATATTCTGTAGCGGT+AGG + Chr5:108555326-108555345 MsG0580030226.01.T01:intron 40.0%
CTTAGCTTCAATATTAGCGG+CGG + Chr5:108556098-108556117 MsG0580030226.01.T01:exon 40.0%
CTTGGATGACCTTACAATGA+GGG - Chr5:108554954-108554973 None:intergenic 40.0%
GAAGCTAAGTCATCAGAAGT+GGG - Chr5:108556087-108556106 None:intergenic 40.0%
GAATTGTTTGCAAGATCTGC+AGG - Chr5:108556038-108556057 None:intergenic 40.0%
GATGAGAAAGATCCTCTTGT+TGG + Chr5:108555604-108555623 MsG0580030226.01.T01:CDS 40.0%
GCATGCTGCTAAGAAACATA+AGG + Chr5:108556059-108556078 MsG0580030226.01.T01:exon 40.0%
GCTTCAGTAAACCCTTTCTT+GGG + Chr5:108555449-108555468 MsG0580030226.01.T01:intron 40.0%
GTGTTAGAAAGCTCTTGTCA+CGG - Chr5:108555483-108555502 None:intergenic 40.0%
TCTTGGATGACCTTACAATG+AGG - Chr5:108554955-108554974 None:intergenic 40.0%
TGAAGCTAAGTCATCAGAAG+TGG - Chr5:108556088-108556107 None:intergenic 40.0%
TGCAACAACATTAGCAGTGT+GGG - Chr5:108554905-108554924 None:intergenic 40.0%
TGCTTCAGTAAACCCTTTCT+TGG + Chr5:108555448-108555467 MsG0580030226.01.T01:intron 40.0%
TGTAAGTAGTGGCACTAAAC+GGG - Chr5:108555312-108555331 None:intergenic 40.0%
TTACAATGAGGGCCATGAAA+AGG - Chr5:108554943-108554962 None:intergenic 40.0%
TTGCAACAACATTAGCAGTG+TGG - Chr5:108554906-108554925 None:intergenic 40.0%
! CTCATTGTTTCTTCCATGGT+AGG + Chr5:108554562-108554581 MsG0580030226.01.T01:intron 40.0%
! GTGGGTTGTTCTTGAAAAAG+GGG - Chr5:108554887-108554906 None:intergenic 40.0%
! GTGTGGGTTGTTCTTGAAAA+AGG - Chr5:108554889-108554908 None:intergenic 40.0%
! TGCACAGGGTTTTTCATCTA+TGG + Chr5:108555878-108555897 MsG0580030226.01.T01:intron 40.0%
! TTTTCATGGCCCTCATTGTA+AGG + Chr5:108554942-108554961 MsG0580030226.01.T01:CDS 40.0%
!! GTCTTTTTAGCACAAGCTTG+TGG + Chr5:108555757-108555776 MsG0580030226.01.T01:intron 40.0%
!!! ATGCAGCTAACTGTTTTGGT+TGG + Chr5:108556221-108556240 MsG0580030226.01.T01:exon 40.0%
AATCGCACATCTGCATGATG+TGG - Chr5:108555992-108556011 None:intergenic 45.0%
ATCATGCAGATGTGCGATTC+TGG + Chr5:108555993-108556012 MsG0580030226.01.T01:intron 45.0%
ATGAGTTTCGCAAACTACGG+TGG - Chr5:108555536-108555555 None:intergenic 45.0%
CAAATGCGCACATTAGCAAG+TGG - Chr5:108554859-108554878 None:intergenic 45.0%
CACATCTGCATGATGTGGAA+TGG - Chr5:108555987-108556006 None:intergenic 45.0%
CAGTATTCAGAGCATACTGG+CGG - Chr5:108556152-108556171 None:intergenic 45.0%
CTCCAGTATTCAGAGCATAC+TGG - Chr5:108556155-108556174 None:intergenic 45.0%
GTCAGCTTGAACTAACTGCA+GGG - Chr5:108555783-108555802 None:intergenic 45.0%
GTTAATCAAGCACAACTCGC+TGG + Chr5:108554707-108554726 MsG0580030226.01.T01:CDS 45.0%
TGTCAGCTTGAACTAACTGC+AGG - Chr5:108555784-108555803 None:intergenic 45.0%
TTAACACTTTCCCCTCCTTC+TGG - Chr5:108555631-108555650 None:intergenic 45.0%
TTAGAAAGCTCTTGTCACGG+CGG - Chr5:108555480-108555499 None:intergenic 45.0%
TTCAATATTAGCGGCGGTTC+AGG + Chr5:108556104-108556123 MsG0580030226.01.T01:exon 45.0%
! AGGCCTCATTGTTTCTTCCA+TGG + Chr5:108554558-108554577 MsG0580030226.01.T01:CDS 45.0%
!! AAAAGCATTCCTAACGAGCG+AGG + Chr5:108554538-108554557 MsG0580030226.01.T01:CDS 45.0%
!! AGAAGGAGGGGAAAGTGTTA+AGG + Chr5:108555630-108555649 MsG0580030226.01.T01:CDS 45.0%
AATATTAGCGGCGGTTCAGG+TGG + Chr5:108556107-108556126 MsG0580030226.01.T01:exon 50.0%
AGTAGCGCTCACGAAGATCT+TGG - Chr5:108554972-108554991 None:intergenic 50.0%
CTCTGAATACTGGAGAGCTC+AGG + Chr5:108556160-108556179 MsG0580030226.01.T01:exon 50.0%
CTGGGGCCAATTGGAATTCA+GGG - Chr5:108554682-108554701 None:intergenic 50.0%
GAATTCCAATTGGCCCCAGA+CGG + Chr5:108554683-108554702 MsG0580030226.01.T01:CDS 50.0%
GATCTTCGTGAGCGCTACTT+TGG + Chr5:108554973-108554992 MsG0580030226.01.T01:CDS 50.0%
GGCTTGTGATCTAGTGCACA+GGG + Chr5:108555864-108555883 MsG0580030226.01.T01:intron 50.0%
GTGCTTGATTAACGCCGTCT+GGG - Chr5:108554700-108554719 None:intergenic 50.0%
TGCTTGATTAACGCCGTCTG+GGG - Chr5:108554699-108554718 None:intergenic 50.0%
TGTGCTTGATTAACGCCGTC+TGG - Chr5:108554701-108554720 None:intergenic 50.0%
! CGATTCTGGTTGTCAGCCAT+GGG + Chr5:108556007-108556026 MsG0580030226.01.T01:exon 50.0%
! CGCCAGTATGCTCTGAATAC+TGG + Chr5:108556150-108556169 MsG0580030226.01.T01:exon 50.0%
! GATTCTGGTTGTCAGCCATG+GGG + Chr5:108556008-108556027 MsG0580030226.01.T01:exon 50.0%
! TCTGGGGCCAATTGGAATTC+AGG - Chr5:108554683-108554702 None:intergenic 50.0%
! TGGCTTGTGATCTAGTGCAC+AGG + Chr5:108555863-108555882 MsG0580030226.01.T01:intron 50.0%
ACAATGAGGCCTCGCTCGTT+AGG - Chr5:108554550-108554569 None:intergenic 55.0%
CTCTTGTTGGGCCAGAAGGA+GGG + Chr5:108555617-108555636 MsG0580030226.01.T01:CDS 55.0%
GATCCTCTTGTTGGGCCAGA+AGG + Chr5:108555613-108555632 MsG0580030226.01.T01:CDS 55.0%
TCTTGTTGGGCCAGAAGGAG+GGG + Chr5:108555618-108555637 MsG0580030226.01.T01:CDS 55.0%
! GCGATTCTGGTTGTCAGCCA+TGG + Chr5:108556006-108556025 MsG0580030226.01.T01:exon 55.0%
AAAGCTCTTGTCACGGCGGC+AGG - Chr5:108555476-108555495 None:intergenic 60.0%
AGATCTGCAGGGGATCCCCA+TGG - Chr5:108556026-108556045 None:intergenic 60.0%
CAGAGCATACTGGCGGTGCT+GGG - Chr5:108556145-108556164 None:intergenic 60.0%
CCTCCTTCTGGCCCAACAAG+AGG - Chr5:108555619-108555638 None:intergenic 60.0%
CCTCTTGTTGGGCCAGAAGG+AGG + Chr5:108555616-108555635 MsG0580030226.01.T01:CDS 60.0%
TCAGAGCATACTGGCGGTGC+TGG - Chr5:108556146-108556165 None:intergenic 60.0%
! TAACGCCGTCTGGGGCCAAT+TGG - Chr5:108554691-108554710 None:intergenic 60.0%
! TGGCGGTGCTGGGACAAGAT+TGG - Chr5:108556135-108556154 None:intergenic 60.0%
ACGGCGGCAGGTCCCAAGAA+AGG - Chr5:108555464-108555483 None:intergenic 65.0%
CGGCGGCAGGTCCCAAGAAA+GGG - Chr5:108555463-108555482 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr5 gene 108554437 108556384 108554437 ID=MsG0580030226.01;
Chr5 mRNA 108554437 108556384 108554437 ID=MsG0580030226.01.T01;Parent=MsG0580030226.01
Chr5 exon 108554437 108554579 108554437 ID=MsG0580030226.01.T01.exon;Parent=MsG0580030226.01.T01
Chr5 CDS 108554472 108554579 108554472 ID=MsG0580030226.01.T01.cds;Parent=MsG0580030226.01.T01
Chr5 CDS 108554665 108554745 108554665 ID=MsG0580030226.01.T01.cds;Parent=MsG0580030226.01.T01
Chr5 exon 108554665 108554745 108554665 ID=MsG0580030226.01.T01.exon;Parent=MsG0580030226.01.T01
Chr5 CDS 108554835 108555026 108554835 ID=MsG0580030226.01.T01.cds;Parent=MsG0580030226.01.T01
Chr5 exon 108554835 108555026 108554835 ID=MsG0580030226.01.T01.exon;Parent=MsG0580030226.01.T01
Chr5 CDS 108555583 108555707 108555583 ID=MsG0580030226.01.T01.cds;Parent=MsG0580030226.01.T01
Chr5 exon 108555583 108555707 108555583 ID=MsG0580030226.01.T01.exon;Parent=MsG0580030226.01.T01
Chr5 CDS 108556002 108556194 108556002 ID=MsG0580030226.01.T01.cds;Parent=MsG0580030226.01.T01
Chr5 exon 108556002 108556384 108556002 ID=MsG0580030226.01.T01.exon;Parent=MsG0580030226.01.T01
Gene Sequence

>MsG0580030226.01.T01

ATGTCAGAATCAGAATCAGGTAGCAAATTGGTATTGAAGAACAAATATTGGATTGTGAGGCATGGCAAAAGCATTCCTAACGAGCGAGGCCTCATTGTTTCTTCCATGGAAAATGGTATTCTCCCTGAATTCCAATTGGCCCCAGACGGCGTTAATCAAGCACAACTCGCTGGATTTTCATTTCAAAAGGAACTAGAGTCTAATAATATACCACTTGCTAATGTGCGCATTTGCTACTCCCCTTTTTCAAGAACAACCCACACTGCTAATGTTGTTGCAACTGCATTGAATATTCCTTTTCATGGCCCTCATTGTAAGGTCATCCAAGATCTTCGTGAGCGCTACTTTGGTCCTTCCTTTGAGCTTTTATCTCATGATATGTATGATCAGATTTGGGAAATAGATGAGAAAGATCCTCTTGTTGGGCCAGAAGGAGGGGAAAGTGTTAAGGATGTTGCCAGTAGACTTGCAAAAACAATGGCCATTCTCGAATCAGAATTTGAAGGATGTGCGATTCTGGTTGTCAGCCATGGGGATCCCCTGCAGATCTTGCAAACAATTCTGCATGCTGCTAAGAAACATAAGGAACCCACTTCTGATGACTTAGCTTCAATATTAGCGGCGGTTCAGGTGGCGCCAATCTTGTCCCAGCACCGCCAGTATGCTCTGAATACTGGAGAGCTCAGGAGAGTCATTTGA
Protein sequence

>MsG0580030226.01.T01

MSESESGSKLVLKNKYWIVRHGKSIPNERGLIVSSMENGILPEFQLAPDGVNQAQLAGFSFQKELESNNIPLANVRICYSPFSRTTHTANVVATALNIPFHGPHCKVIQDLRERYFGPSFELLSHDMYDQIWEIDEKDPLVGPEGGESVKDVASRLAKTMAILESEFEGCAILVVSHGDPLQILQTILHAAKKHKEPTSDDLASILAAVQVAPILSQHRQYALNTGELRRVI*