AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780038480.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038480.01.T01 MTR_7g020830 70.000 70 19 1 4 73 29 96 2.63e-29 101
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038480.01.T01 AT2G29540 47.761 67 33 1 4 70 29 93 1.72e-16 69.3
MsG0780038480.01.T01 AT2G29540 47.761 67 33 1 4 70 29 93 1.72e-16 69.3
MsG0780038480.01.T01 AT2G29540 51.667 60 27 1 11 70 53 110 3.94e-16 68.6

Find 15 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTACCACTACAACTTGTC+TGG 0.377241 7:+47396044 None:intergenic
AATATCATCCCAAGTCTTGC+TGG 0.377659 7:+47395102 None:intergenic
TGCTTATGTGCCAGCATGTT+AGG 0.420836 7:-47395158 MsG0780038480.01.T01:CDS
GTACCCACAAATGTCACTCT+TGG 0.483117 7:+47396108 None:intergenic
GGTGTTAAAAGATGGTTGTC+AGG 0.493371 7:-47395187 MsG0780038480.01.T01:CDS
AGTCCAAGAGTGACATTTGT+GGG 0.510206 7:-47396111 MsG0780038480.01.T01:CDS
CAGTCCAAGAGTGACATTTG+TGG 0.533400 7:-47396112 MsG0780038480.01.T01:CDS
GCAAGTGAGGTGTTAAAAGA+TGG 0.554457 7:-47395195 MsG0780038480.01.T01:CDS
CGAAAGTGCTCCTAACATGC+TGG 0.562050 7:+47395148 None:intergenic
TGTTAGGAGCACTTTCGAGA+AGG 0.575154 7:-47395142 MsG0780038480.01.T01:CDS
TCTGGACTCCGACATTAACA+TGG 0.593994 7:+47396062 None:intergenic
TCAGAAAACCATGTTAATGT+CGG 0.597690 7:-47396070 MsG0780038480.01.T01:CDS
TGTAGGGGATCCAGCAAGTG+AGG 0.608307 7:-47395208 MsG0780038480.01.T01:intron
GGAGTCCAGACAAGTTGTAG+TGG 0.661857 7:-47396049 MsG0780038480.01.T01:intron
ATATTGATATATGAACTAGT+CGG 0.686775 7:-47395084 MsG0780038480.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTAAATATAATATTGTGT+TGG - Chr7:47395817-47395836 MsG0780038480.01.T01:intron 10.0%
!! TTGAACAAAAATAACTTATA+CGG + Chr7:47395944-47395963 None:intergenic 15.0%
!!! AAGAGAAAAAATTTAGAATA+TGG + Chr7:47395467-47395486 None:intergenic 15.0%
!!! ATAAGTTATTTTTGTTCAAT+GGG - Chr7:47395945-47395964 MsG0780038480.01.T01:intron 15.0%
!!! TATAAGTTATTTTTGTTCAA+TGG - Chr7:47395944-47395963 MsG0780038480.01.T01:intron 15.0%
!!! TATATTTCTTTTGTATTGTA+GGG - Chr7:47395968-47395987 MsG0780038480.01.T01:intron 15.0%
!!! TCTATTTCTTTCTTATATAT+AGG + Chr7:47395795-47395814 None:intergenic 15.0%
!!! TGATATAAAAATCGAATTTT+CGG + Chr7:47395234-47395253 None:intergenic 15.0%
!! AATAAAAATATTGAAGGCAA+TGG - Chr7:47395355-47395374 MsG0780038480.01.T01:intron 20.0%
!! ATATTGATATATGAACTAGT+CGG - Chr7:47396108-47396127 MsG0780038480.01.T01:CDS 20.0%
!! ATTAAATTATCTATTCACAC+AGG - Chr7:47395712-47395731 MsG0780038480.01.T01:intron 20.0%
!! TACAGTCAAATAGTTTATAA+GGG - Chr7:47395655-47395674 MsG0780038480.01.T01:intron 20.0%
!! TTAAATTATCTATTCACACA+GGG - Chr7:47395713-47395732 MsG0780038480.01.T01:intron 20.0%
!! TTACAGTCAAATAGTTTATA+AGG - Chr7:47395654-47395673 MsG0780038480.01.T01:intron 20.0%
!!! AGAATCTACCTATTTTATAA+AGG + Chr7:47395561-47395580 None:intergenic 20.0%
!!! ATATAATATTGTGTTGGTAT+TGG - Chr7:47395823-47395842 MsG0780038480.01.T01:intron 20.0%
!!! ATATTTCTTTTGTATTGTAG+GGG - Chr7:47395969-47395988 MsG0780038480.01.T01:intron 20.0%
!!! GTATATTTCTTTTGTATTGT+AGG - Chr7:47395967-47395986 MsG0780038480.01.T01:intron 20.0%
! ACAGTCAAATAGTTTATAAG+GGG - Chr7:47395656-47395675 MsG0780038480.01.T01:intron 25.0%
! AGTAGCTTCCTTTATAAAAT+AGG - Chr7:47395550-47395569 MsG0780038480.01.T01:intron 25.0%
! GCTATTCATCATATGTAAAT+TGG - Chr7:47395498-47395517 MsG0780038480.01.T01:intron 25.0%
AGTCAAATAGTTTATAAGGG+GGG - Chr7:47395658-47395677 MsG0780038480.01.T01:intron 30.0%
ATGAACTCTATAGAGAAAGT+TGG - Chr7:47395527-47395546 MsG0780038480.01.T01:intron 30.0%
ATTGTGAATTACATAACCAG+TGG - Chr7:47395404-47395423 MsG0780038480.01.T01:intron 30.0%
CAGGGATTTATTACATTTGA+TGG - Chr7:47395731-47395750 MsG0780038480.01.T01:intron 30.0%
CAGTCAAATAGTTTATAAGG+GGG - Chr7:47395657-47395676 MsG0780038480.01.T01:intron 30.0%
TCAGAAAACCATGTTAATGT+CGG - Chr7:47395122-47395141 MsG0780038480.01.T01:CDS 30.0%
TGGATATAATGCACTGTAAT+TGG - Chr7:47395186-47395205 MsG0780038480.01.T01:CDS 30.0%
! AAAGACTTTTGTAGATGTTG+TGG - Chr7:47395893-47395912 MsG0780038480.01.T01:intron 30.0%
! ACATTAACATGGTTTTCTGA+AGG + Chr7:47395122-47395141 None:intergenic 30.0%
! ATTGTGTTGGTATTGGATAA+CGG - Chr7:47395830-47395849 MsG0780038480.01.T01:intron 30.0%
! ATTTTAAACCAGCAAGACTT+GGG - Chr7:47396082-47396101 MsG0780038480.01.T01:CDS 30.0%
!! TTTGTTGGTTTAAACGTATG+TGG - Chr7:47395585-47395604 MsG0780038480.01.T01:intron 30.0%
ACAATGTTAGCACATACTTG+TGG + Chr7:47395389-47395408 None:intergenic 35.0%
AGGTAGATTCTCATCTTTGT+TGG - Chr7:47395570-47395589 MsG0780038480.01.T01:intron 35.0%
GTCAAATAGTTTATAAGGGG+GGG - Chr7:47395659-47395678 MsG0780038480.01.T01:intron 35.0%
TAACATAAGCTGTCTCATGT+TGG - Chr7:47395166-47395185 MsG0780038480.01.T01:CDS 35.0%
TTTATTTGCAGAAGCCTACA+AGG + Chr7:47395431-47395450 None:intergenic 35.0%
! GATTTTAAACCAGCAAGACT+TGG - Chr7:47396081-47396100 MsG0780038480.01.T01:CDS 35.0%
AATATCATCCCAAGTCTTGC+TGG + Chr7:47396093-47396112 None:intergenic 40.0%
AGTCCAAGAGTGACATTTGT+GGG - Chr7:47395081-47395100 MsG0780038480.01.T01:CDS 40.0%
CTTATATATAGGTGTCAGCG+TGG + Chr7:47395784-47395803 None:intergenic 40.0%
GGTGTTAAAAGATGGTTGTC+AGG - Chr7:47396005-47396024 MsG0780038480.01.T01:intron 40.0%
TGTTACCACTACAACTTGTC+TGG + Chr7:47395151-47395170 None:intergenic 40.0%
! GCAAGTGAGGTGTTAAAAGA+TGG - Chr7:47395997-47396016 MsG0780038480.01.T01:intron 40.0%
! TCAGAACTGAAGCACCATAA+GGG - Chr7:47395616-47395635 MsG0780038480.01.T01:intron 40.0%
! TCTTTTAACACCTCACTTGC+TGG + Chr7:47395997-47396016 None:intergenic 40.0%
! TTATGGTGCTTCAGTTCTGA+AGG + Chr7:47395616-47395635 None:intergenic 40.0%
! TTCAGAACTGAAGCACCATA+AGG - Chr7:47395615-47395634 MsG0780038480.01.T01:intron 40.0%
!! ACATGGTTTTCTGAAGGATG+AGG + Chr7:47395116-47395135 None:intergenic 40.0%
!! ATGGTTTTCTGAAGGATGAG+GGG + Chr7:47395114-47395133 None:intergenic 40.0%
!! CATGGTTTTCTGAAGGATGA+GGG + Chr7:47395115-47395134 None:intergenic 40.0%
ACATAACCAGTGGTCCTTGT+AGG - Chr7:47395414-47395433 MsG0780038480.01.T01:intron 45.0%
CAGTCCAAGAGTGACATTTG+TGG - Chr7:47395080-47395099 MsG0780038480.01.T01:CDS 45.0%
GCAGTGAAACTTCGCATTGA+AGG + Chr7:47395861-47395880 None:intergenic 45.0%
GTACCCACAAATGTCACTCT+TGG + Chr7:47395087-47395106 None:intergenic 45.0%
TCTGGACTCCGACATTAACA+TGG + Chr7:47395133-47395152 None:intergenic 45.0%
TGCTTATGTGCCAGCATGTT+AGG - Chr7:47396034-47396053 MsG0780038480.01.T01:intron 45.0%
! AGAACTGAAGCACCATAAGG+GGG - Chr7:47395618-47395637 MsG0780038480.01.T01:intron 45.0%
! CAGAACTGAAGCACCATAAG+GGG - Chr7:47395617-47395636 MsG0780038480.01.T01:intron 45.0%
!! TGTTAGGAGCACTTTCGAGA+AGG - Chr7:47396050-47396069 MsG0780038480.01.T01:CDS 45.0%
!!! TATTTTAATAAAAATATTGA+AGG - Chr7:47395349-47395368 MsG0780038480.01.T01:intron 5.0%
AAGTTTCACTGCGACATGGG+GGG - Chr7:47395869-47395888 MsG0780038480.01.T01:intron 50.0%
AGCACCATAAGGGGGAATAG+CGG - Chr7:47395626-47395645 MsG0780038480.01.T01:intron 50.0%
CGAAGTTTCACTGCGACATG+GGG - Chr7:47395867-47395886 MsG0780038480.01.T01:intron 50.0%
CTATCCGCTATTCCCCCTTA+TGG + Chr7:47395633-47395652 None:intergenic 50.0%
GAAGTTTCACTGCGACATGG+GGG - Chr7:47395868-47395887 MsG0780038480.01.T01:intron 50.0%
GCGAAGTTTCACTGCGACAT+GGG - Chr7:47395866-47395885 MsG0780038480.01.T01:intron 50.0%
GGAGTCCAGACAAGTTGTAG+TGG - Chr7:47395143-47395162 MsG0780038480.01.T01:CDS 50.0%
TGCGAAGTTTCACTGCGACA+TGG - Chr7:47395865-47395884 MsG0780038480.01.T01:intron 50.0%
!! CGAAAGTGCTCCTAACATGC+TGG + Chr7:47396047-47396066 None:intergenic 50.0%
CAGAAGCCTACAAGGACCAC+TGG + Chr7:47395423-47395442 None:intergenic 55.0%
TGTAGGGGATCCAGCAAGTG+AGG - Chr7:47395984-47396003 MsG0780038480.01.T01:intron 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 47395056 47396158 47395056 ID=MsG0780038480.01;Name=MsG0780038480.01
Chr7 mRNA 47395056 47396158 47395056 ID=MsG0780038480.01.T01;Parent=MsG0780038480.01;Name=MsG0780038480.01.T01;_AED=0.60;_eAED=0.60;_QI=0|0|0|1|0|0.5|2|0|92
Chr7 exon 47396050 47396158 47396050 ID=MsG0780038480.01.T01:exon:6056;Parent=MsG0780038480.01.T01
Chr7 exon 47395056 47395225 47395056 ID=MsG0780038480.01.T01:exon:6055;Parent=MsG0780038480.01.T01
Chr7 CDS 47396050 47396158 47396050 ID=MsG0780038480.01.T01:cds;Parent=MsG0780038480.01.T01
Chr7 CDS 47395056 47395225 47395056 ID=MsG0780038480.01.T01:cds;Parent=MsG0780038480.01.T01
Gene Sequence

>MsG0780038480.01.T01

ATGAGAGTAATTATGTTGTCTTTGCAGTCCAAGAGTGACATTTGTGGGTACAGCACCCCTCATCCTTCAGAAAACCATGTTAATGTCGGAGTCCAGACAAGTTGTAGTGGGGATCCAGCAAGTGAGGTGTTAAAAGATGGTTGTCAGGATCTGATGCTTATGTGCCAGCATGTTAGGAGCACTTTCGAGAAGGCAGATAATGATTTTAAACCAGCAAGACTTGGGATGATATTGATATATGAACTAGTCGGCAAGTTTATAGTTTTGATTTTGAATTAG
Protein sequence

>MsG0780038480.01.T01

MRVIMLSLQSKSDICGYSTPHPSENHVNVGVQTSCSGDPASEVLKDGCQDLMLMCQHVRSTFEKADNDFKPARLGMILIYELVGKFIVLILN*