AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780040875.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040875.01.T01 MTR_7g100150 95.789 190 7 1 1 190 1 189 1.29e-132 369
MsG0780040875.01.T01 MTR_7g100150 96.078 153 5 1 1 153 1 152 2.24e-107 307
MsG0780040875.01.T01 MTR_1g067320 54.430 158 60 2 8 158 5 157 5.69e-62 191
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040875.01.T01 AT3G53490 56.410 156 64 3 1 156 1 152 5.55e-56 177
MsG0780040875.01.T01 AT5G02720 52.055 146 67 2 6 151 3 145 1.66e-52 168
MsG0780040875.01.T01 AT5G02720 53.968 63 28 1 89 151 1 62 2.95e-19 80.1

Find 30 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACGGACATGGCAAGGAAATT+TGG 0.181662 7:-83746808 None:intergenic
TTCAACATCTGCGCAATTCT+AGG 0.248044 7:+83746830 MsG0780040875.01.T01:CDS
TTTCTTGACATCAGGTAAAA+TGG 0.318128 7:-83747105 None:intergenic
TTGTTATGGACCTGGAAAAT+AGG 0.334749 7:-83746896 None:intergenic
CGGACATGGCAAGGAAATTT+GGG 0.341162 7:-83746807 None:intergenic
GAGTGGGTCTTAGCCACTCA+TGG 0.409317 7:-83747046 None:intergenic
TGGAAAATATGTCCACTTCA+AGG 0.463691 7:+83747789 MsG0780040875.01.T01:CDS
TCAACATCTGCGCAATTCTA+GGG 0.479530 7:+83746831 MsG0780040875.01.T01:CDS
TAAGGGTGAAGAGTCTTGGC+AGG 0.496162 7:+83747148 MsG0780040875.01.T01:CDS
AGTGGGTCTTAGCCACTCAT+GGG 0.512780 7:-83747045 None:intergenic
ATGGGTTGTGAAAATCTCAA+TGG 0.520373 7:-83747027 None:intergenic
CAACTTAATAATTGCTGCAG+TGG 0.527046 7:-83747941 None:intergenic
CTAGCTGTAAATTCAGTCAA+AGG 0.531118 7:-83747667 None:intergenic
GGTGAAGAAGAAGAAGATGA+AGG 0.535310 7:-83746875 None:intergenic
TCGAAAATAGACAGTTGGAG+TGG 0.538335 7:-83747063 None:intergenic
TGATGATGTATTTGATGAGT+GGG 0.539391 7:+83747735 MsG0780040875.01.T01:CDS
GCGCAGATGTTGAACGGACA+TGG 0.542673 7:-83746821 None:intergenic
GATGTTGAACGGACATGGCA+AGG 0.567179 7:-83746816 None:intergenic
CGAAAATAGACAGTTGGAGT+GGG 0.578844 7:-83747062 None:intergenic
CTGATGATGTATTTGATGAG+TGG 0.581690 7:+83747734 MsG0780040875.01.T01:CDS
CACAGGTTTGGTATTATCCG+CGG 0.582344 7:+83746989 MsG0780040875.01.T01:intron
AGCAGTAAAAGAAATTTCAA+AGG 0.584501 7:-83747881 None:intergenic
AGATGAAGGAGATTAAGAAG+AGG 0.602449 7:-83746861 None:intergenic
CTACATCGAAAATAGACAGT+TGG 0.606664 7:-83747068 None:intergenic
AGAATTGCGCAGATGTTGAA+CGG 0.607828 7:-83746827 None:intergenic
CATCAACAAAGTAGTCTGCA+TGG 0.613322 7:-83747918 None:intergenic
GCTAGAAAGTGCAAGCGATG+TGG 0.625391 7:+83747685 MsG0780040875.01.T01:CDS
TCAGGAGCAGTAAAATCAGA+AGG 0.628086 7:-83747766 None:intergenic
AGGTTTGGTATTATCCGCGG+TGG 0.662719 7:+83746992 MsG0780040875.01.T01:intron
GGAACTTAGCGTTACCACCG+CGG 0.693370 7:-83747006 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTAATTGTGATTATATTA+AGG + Chr7:83747223-83747242 MsG0780040875.01.T01:intron 10.0%
!! ATTAATTGTGATTATATTAA+GGG + Chr7:83747224-83747243 MsG0780040875.01.T01:intron 10.0%
!!! AATTGTTTATTCAACTTTTT+TGG + Chr7:83746963-83746982 MsG0780040875.01.T01:intron 15.0%
!! TAAACACAACAAAACAAAAT+AGG - Chr7:83747180-83747199 None:intergenic 20.0%
!! TTCTTCAAATATATGAAATG+AGG - Chr7:83746926-83746945 None:intergenic 20.0%
!!! ATTAAGTTGTTTATCTCAAT+AGG + Chr7:83747487-83747506 MsG0780040875.01.T01:intron 20.0%
!!! TTAAGTTGTTTATCTCAATA+GGG + Chr7:83747488-83747507 MsG0780040875.01.T01:intron 20.0%
! AGCAGTAAAAGAAATTTCAA+AGG - Chr7:83747884-83747903 None:intergenic 25.0%
! ATAGTTGTATAAAATTCCAG+TGG + Chr7:83747589-83747608 MsG0780040875.01.T01:intron 25.0%
! TAGTTGTATAAAATTCCAGT+GGG + Chr7:83747590-83747609 MsG0780040875.01.T01:intron 25.0%
! TTAGCAATAATTAAACGTGA+AGG - Chr7:83747205-83747224 None:intergenic 25.0%
! TTCAAATATATGAAATGAGG+TGG - Chr7:83746923-83746942 None:intergenic 25.0%
!! ACATGTTCTTTATGCTTTTA+AGG + Chr7:83747130-83747149 MsG0780040875.01.T01:CDS 25.0%
!! CATGTTCTTTATGCTTTTAA+GGG + Chr7:83747131-83747150 MsG0780040875.01.T01:CDS 25.0%
!! GAATGCTTTTCTTTTTCTAA+TGG + Chr7:83747844-83747863 MsG0780040875.01.T01:CDS 25.0%
!!! TAGAAAAAGAAAAGCATTCA+GGG - Chr7:83747843-83747862 None:intergenic 25.0%
!!! TTAGAAAAAGAAAAGCATTC+AGG - Chr7:83747844-83747863 None:intergenic 25.0%
TTTCTTGACATCAGGTAAAA+TGG - Chr7:83747108-83747127 None:intergenic 30.0%
! GATTATATTAAGGGCATGTT+TGG + Chr7:83747233-83747252 MsG0780040875.01.T01:intron 30.0%
! TAAGTTCTTTTTCCTTGAAG+TGG - Chr7:83747804-83747823 None:intergenic 30.0%
! TGATGATGTATTTGATGAGT+GGG + Chr7:83747735-83747754 MsG0780040875.01.T01:CDS 30.0%
! TTATTTCCATTAGCTCTTCA+TGG + Chr7:83747356-83747375 MsG0780040875.01.T01:intron 30.0%
!!! ACATGTTTTTTCTTGACATC+AGG - Chr7:83747116-83747135 None:intergenic 30.0%
!!! TTCAACTTTTTTGGTTTCAC+AGG + Chr7:83746972-83746991 MsG0780040875.01.T01:intron 30.0%
AGATGAAGGAGATTAAGAAG+AGG - Chr7:83746864-83746883 None:intergenic 35.0%
CAACTTAATAATTGCTGCAG+TGG - Chr7:83747944-83747963 None:intergenic 35.0%
CTACATCGAAAATAGACAGT+TGG - Chr7:83747071-83747090 None:intergenic 35.0%
CTAGCTGTAAATTCAGTCAA+AGG - Chr7:83747670-83747689 None:intergenic 35.0%
GCTTATTTGAGCTTATCTAC+TGG + Chr7:83747260-83747279 MsG0780040875.01.T01:intron 35.0%
TGGAAAATATGTCCACTTCA+AGG + Chr7:83747789-83747808 MsG0780040875.01.T01:CDS 35.0%
TTGTTATGGACCTGGAAAAT+AGG - Chr7:83746899-83746918 None:intergenic 35.0%
! AAGTGGACATATTTTCCATC+AGG - Chr7:83747787-83747806 None:intergenic 35.0%
! ACTGTCTATTTTCGATGTAG+CGG + Chr7:83747071-83747090 MsG0780040875.01.T01:CDS 35.0%
! ATGGGTTGTGAAAATCTCAA+TGG - Chr7:83747030-83747049 None:intergenic 35.0%
! CTGATGATGTATTTGATGAG+TGG + Chr7:83747734-83747753 MsG0780040875.01.T01:CDS 35.0%
! TATTAAGGGCATGTTTGGAT+TGG + Chr7:83747238-83747257 MsG0780040875.01.T01:intron 35.0%
! TTCTTCTTCACCTATTTTCC+AGG + Chr7:83746886-83746905 MsG0780040875.01.T01:CDS 35.0%
!! TGAAATGAGGTGGTTTGTTA+TGG - Chr7:83746913-83746932 None:intergenic 35.0%
!!! CTTTTTTGGTTTCACAGGTT+TGG + Chr7:83746977-83746996 MsG0780040875.01.T01:intron 35.0%
AAGCTACCATGAAGAGCTAA+TGG - Chr7:83747365-83747384 None:intergenic 40.0%
AGAATTGCGCAGATGTTGAA+CGG - Chr7:83746830-83746849 None:intergenic 40.0%
CATCAACAAAGTAGTCTGCA+TGG - Chr7:83747921-83747940 None:intergenic 40.0%
CGAAAATAGACAGTTGGAGT+GGG - Chr7:83747065-83747084 None:intergenic 40.0%
GGTGAAGAAGAAGAAGATGA+AGG - Chr7:83746878-83746897 None:intergenic 40.0%
TCAACATCTGCGCAATTCTA+GGG + Chr7:83746831-83746850 MsG0780040875.01.T01:CDS 40.0%
TCAGGAGCAGTAAAATCAGA+AGG - Chr7:83747769-83747788 None:intergenic 40.0%
TCGAAAATAGACAGTTGGAG+TGG - Chr7:83747066-83747085 None:intergenic 40.0%
TTCAACATCTGCGCAATTCT+AGG + Chr7:83746830-83746849 MsG0780040875.01.T01:CDS 40.0%
! AGATTTTCACAACCCATGAG+TGG + Chr7:83747033-83747052 MsG0780040875.01.T01:CDS 40.0%
! TCTGATTTTACTGCTCCTGA+TGG + Chr7:83747769-83747788 MsG0780040875.01.T01:CDS 40.0%
!! CAACTCTTGCTGATTAGCTT+AGG + Chr7:83747556-83747575 MsG0780040875.01.T01:intron 40.0%
!! CTTTTAAGGGTGAAGAGTCT+TGG + Chr7:83747144-83747163 MsG0780040875.01.T01:CDS 40.0%
AACTACAGATGCAAACCCAC+TGG - Chr7:83747608-83747627 None:intergenic 45.0%
ACGGACATGGCAAGGAAATT+TGG - Chr7:83746811-83746830 None:intergenic 45.0%
CGGACATGGCAAGGAAATTT+GGG - Chr7:83746810-83746829 None:intergenic 45.0%
! CACAGGTTTGGTATTATCCG+CGG + Chr7:83746989-83747008 MsG0780040875.01.T01:intron 45.0%
AGTGGGTCTTAGCCACTCAT+GGG - Chr7:83747048-83747067 None:intergenic 50.0%
GATGTTGAACGGACATGGCA+AGG - Chr7:83746819-83746838 None:intergenic 50.0%
TAAGGGTGAAGAGTCTTGGC+AGG + Chr7:83747148-83747167 MsG0780040875.01.T01:CDS 50.0%
! AGGTTTGGTATTATCCGCGG+TGG + Chr7:83746992-83747011 MsG0780040875.01.T01:intron 50.0%
! GCTAGAAAGTGCAAGCGATG+TGG + Chr7:83747685-83747704 MsG0780040875.01.T01:CDS 50.0%
!! GAGGTGGTTTGTTATGGACC+TGG - Chr7:83746907-83746926 None:intergenic 50.0%
GAGTGGGTCTTAGCCACTCA+TGG - Chr7:83747049-83747068 None:intergenic 55.0%
GCGCAGATGTTGAACGGACA+TGG - Chr7:83746824-83746843 None:intergenic 55.0%
GGAACTTAGCGTTACCACCG+CGG - Chr7:83747009-83747028 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 83746768 83747978 83746768 ID=MsG0780040875.01;Name=MsG0780040875.01
Chr7 mRNA 83746768 83747978 83746768 ID=MsG0780040875.01.T01;Parent=MsG0780040875.01;Name=MsG0780040875.01.T01;_AED=0.50;_eAED=0.50;_QI=55|1|0.66|1|0.5|0.66|3|0|190
Chr7 exon 83746768 83746907 83746768 ID=MsG0780040875.01.T01:exon:19890;Parent=MsG0780040875.01.T01
Chr7 exon 83746994 83747169 83746994 ID=MsG0780040875.01.T01:exon:19891;Parent=MsG0780040875.01.T01
Chr7 exon 83747667 83747978 83747667 ID=MsG0780040875.01.T01:exon:19892;Parent=MsG0780040875.01.T01
Chr7 five_prime_UTR 83746768 83746822 83746768 ID=MsG0780040875.01.T01:five_prime_utr;Parent=MsG0780040875.01.T01
Chr7 CDS 83746823 83746907 83746823 ID=MsG0780040875.01.T01:cds;Parent=MsG0780040875.01.T01
Chr7 CDS 83746994 83747169 83746994 ID=MsG0780040875.01.T01:cds;Parent=MsG0780040875.01.T01
Chr7 CDS 83747667 83747978 83747667 ID=MsG0780040875.01.T01:cds;Parent=MsG0780040875.01.T01
Gene Sequence

>MsG0780040875.01.T01

ATGTCCGTTCAACATCTGCGCAATTCTAGGGTTTCTCGCCTCTTCTTAATCTCCTTCATCTTCTTCTTCTTCACCTATTTTCCAGGTTTGGTATTATCCGCGGTGGTAACGCTAAGTTCCATTGAGATTTTCACAACCCATGAGTGGCTAAGACCCACTCCAACTGTCTATTTTCGATGTAGCGGTGACAACAAGACCATTTTACCTGATGTCAAGAAAAAACATGTTCTTTATGCTTTTAAGGGTGAAGAGTCTTGGCAGCCTTTGACTGAATTTACAGCTAGAAAGTGCAAGCGATGTGGATTCTATGAGAAAGACAGCGTTCTTTCTGATGATGTATTTGATGAGTGGGAGCTGTGTCCTTCTGATTTTACTGCTCCTGATGGAAAATATGTCCACTTCAAGGAAAAAGAACTTAATGCTAGTTTTATATGCCCTGAATGCTTTTCTTTTTCTAATGGTGAGCATCTTGCAACCTTTGAAATTTCTTTTACTGCTATCGTGATATTTGTCCATGCAGACTACTTTGTTGATGCCACTGCAGCAATTATTAAGTTGATCAAAAGAAGTTAA
Protein sequence

>MsG0780040875.01.T01

MSVQHLRNSRVSRLFLISFIFFFFTYFPGLVLSAVVTLSSIEIFTTHEWLRPTPTVYFRCSGDNKTILPDVKKKHVLYAFKGEESWQPLTEFTARKCKRCGFYEKDSVLSDDVFDEWELCPSDFTAPDGKYVHFKEKELNASFICPECFSFSNGEHLATFEISFTAIVIFVHADYFVDATAAIIKLIKRS*