AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007088.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007088.01.T01 MTR_2g020420 73.077 182 8 2 8 148 752 933 1.46e-82 260
MsG0280007088.01.T01 MTR_2g020420 73.077 182 8 2 8 148 765 946 1.84e-82 260
MsG0280007088.01.T01 MTR_4g118660 44.693 179 57 4 7 145 817 993 3.53e-38 137
MsG0280007088.01.T01 MTR_3g099170 38.202 89 49 3 60 145 690 775 1.65e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007088.01.T01 AT5G18750 36.571 175 70 2 7 141 705 878 3.09e-25 100
MsG0280007088.01.T01 AT5G18750 39.130 92 52 3 60 148 540 630 3.62e-11 60.5
MsG0280007088.01.T01 AT3G04960 42.857 98 51 4 51 145 442 537 7.27e-15 70.9
MsG0280007088.01.T01 AT3G04960 42.857 98 51 4 51 145 494 589 7.68e-15 70.9
MsG0280007088.01.T01 AT3G04960 42.857 98 51 4 51 145 393 488 8.23e-15 70.9
MsG0280007088.01.T01 AT3G04960 42.857 98 51 4 51 145 445 540 9.00e-15 70.5

Find 34 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTACTTGCAACTCAATTT+TGG 0.093338 2:-10445694 None:intergenic
TCCCATCTAATAACTTTCTT+AGG 0.239915 2:-10445738 None:intergenic
GCAGAAATCTGAGAGGCTTC+TGG 0.266113 2:+10446172 MsG0280007088.01.T01:CDS
ATTATTCCTTGCTGAGATAA+TGG 0.300567 2:-10446221 None:intergenic
TAATTTATCTTACTGATTGC+TGG 0.321072 2:+10445712 MsG0280007088.01.T01:CDS
TACCTAAGAAAGTTATTAGA+TGG 0.342918 2:+10445736 MsG0280007088.01.T01:CDS
ATTATCTCAGCAAGGAATAA+TGG 0.389341 2:+10446223 MsG0280007088.01.T01:CDS
CAGAAATCTGAGAGGCTTCT+GGG 0.401330 2:+10446173 MsG0280007088.01.T01:CDS
ATTAAATGCGTTCGGAGGAT+TGG 0.441380 2:+10445670 None:intergenic
AATTTATCTTACTGATTGCT+GGG 0.453279 2:+10445713 MsG0280007088.01.T01:CDS
ATGGTCAGATTAAATGCGTT+CGG 0.485378 2:+10445662 None:intergenic
AGTTATTAGATGGGAAGATA+AGG 0.488752 2:+10445746 MsG0280007088.01.T01:CDS
CTTCCGTCAGTTTGAAAGCA+GGG 0.503543 2:-10446143 None:intergenic
TTCAAGGGTAAATTAAGTAA+CGG 0.514783 2:+10446060 MsG0280007088.01.T01:CDS
AGGCTTCTGGGAACTTGATC+CGG 0.521662 2:+10446185 MsG0280007088.01.T01:CDS
TTATTTCTGGAGAAGGTAAG+TGG 0.525653 2:+10446024 MsG0280007088.01.T01:CDS
TCTTCCGTCAGTTTGAAAGC+AGG 0.538427 2:-10446144 None:intergenic
TAATGGTGTGGTACTGCTGC+CGG 0.550049 2:-10446204 None:intergenic
ACCTAAGAAAGTTATTAGAT+GGG 0.557163 2:+10445737 MsG0280007088.01.T01:CDS
AGTTGCTCAGATTCTCTCAC+AGG 0.572226 2:+10446118 MsG0280007088.01.T01:CDS
TTACTGAAGATGCTGATATG+TGG 0.595321 2:+10445992 MsG0280007088.01.T01:CDS
GTGAGAGAATCTGAGCAACT+CGG 0.610716 2:-10446115 None:intergenic
CTCGGTCCTATCGATAGTCA+TGG 0.615174 2:-10446097 None:intergenic
AAACTGTGAGTATGACATAG+TGG 0.623986 2:+10445966 MsG0280007088.01.T01:CDS
GTCAGATTAAATGCGTTCGG+AGG 0.627109 2:+10445665 None:intergenic
TTCAAACTGACGGAAGAACA+TGG 0.627670 2:+10446150 MsG0280007088.01.T01:CDS
AGATGACCATGACTATCGAT+AGG 0.630507 2:+10446091 MsG0280007088.01.T01:CDS
GATCCCTGCTTTCAAACTGA+CGG 0.646604 2:+10446140 MsG0280007088.01.T01:CDS
ACCACACCATTATCTCAGCA+AGG 0.646629 2:+10446215 MsG0280007088.01.T01:CDS
AAGGGTAAATTAAGTAACGG+AGG 0.655997 2:+10446063 MsG0280007088.01.T01:CDS
AAGGATATGATCATTTCCTG+TGG 0.671661 2:+10445765 MsG0280007088.01.T01:CDS
AGATTTAAAATCAATCCAAG+TGG 0.713999 2:+10445789 MsG0280007088.01.T01:CDS
TCCTTGCTGAGATAATGGTG+TGG 0.715462 2:-10446216 None:intergenic
GAACATGGCAGAAATCTGAG+AGG 0.745585 2:+10446165 MsG0280007088.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ACCTAAGAAAGTTATTAGAT+GGG + Chr2:10445737-10445756 MsG0280007088.01.T01:CDS 25.0%
! AGGAATATGAAATTTATCCA+CGG + Chr2:10445883-10445902 MsG0280007088.01.T01:intron 25.0%
! TACCTAAGAAAGTTATTAGA+TGG + Chr2:10445736-10445755 MsG0280007088.01.T01:CDS 25.0%
! TTCAAGGGTAAATTAAGTAA+CGG + Chr2:10446060-10446079 MsG0280007088.01.T01:CDS 25.0%
!! AATTACTTGCAACTCAATTT+TGG - Chr2:10445697-10445716 None:intergenic 25.0%
!! AATTTATCTTACTGATTGCT+GGG + Chr2:10445713-10445732 MsG0280007088.01.T01:CDS 25.0%
!! AGATTTAAAATCAATCCAAG+TGG + Chr2:10445789-10445808 MsG0280007088.01.T01:CDS 25.0%
!! ATTACTTGCAACTCAATTTT+GGG - Chr2:10445696-10445715 None:intergenic 25.0%
!! TAATTTATCTTACTGATTGC+TGG + Chr2:10445712-10445731 MsG0280007088.01.T01:CDS 25.0%
!!! ATTGATTTTAAATCTTCCAC+AGG - Chr2:10445784-10445803 None:intergenic 25.0%
AGTTATTAGATGGGAAGATA+AGG + Chr2:10445746-10445765 MsG0280007088.01.T01:CDS 30.0%
ATATGAAATTTATCCACGGA+AGG + Chr2:10445887-10445906 MsG0280007088.01.T01:intron 30.0%
TATGAAATTTATCCACGGAA+GGG + Chr2:10445888-10445907 MsG0280007088.01.T01:intron 30.0%
TCCCATCTAATAACTTTCTT+AGG - Chr2:10445741-10445760 None:intergenic 30.0%
TGAAATTTGGGGATTGTATA+GGG + Chr2:10445911-10445930 MsG0280007088.01.T01:intron 30.0%
!!! AGATGTTTTATTTCTGGAGA+AGG + Chr2:10446017-10446036 MsG0280007088.01.T01:CDS 30.0%
AAACTGTGAGTATGACATAG+TGG + Chr2:10445966-10445985 MsG0280007088.01.T01:CDS 35.0%
AAGGATATGATCATTTCCTG+TGG + Chr2:10445765-10445784 MsG0280007088.01.T01:CDS 35.0%
AAGGGTAAATTAAGTAACGG+AGG + Chr2:10446063-10446082 MsG0280007088.01.T01:CDS 35.0%
GAAATTTGGGGATTGTATAG+GGG + Chr2:10445912-10445931 MsG0280007088.01.T01:intron 35.0%
GTGAAATTTGGGGATTGTAT+AGG + Chr2:10445910-10445929 MsG0280007088.01.T01:intron 35.0%
TTACTGAAGATGCTGATATG+TGG + Chr2:10445992-10446011 MsG0280007088.01.T01:CDS 35.0%
! GGTTACAGTTCAGTTTTCAA+GGG + Chr2:10446045-10446064 MsG0280007088.01.T01:CDS 35.0%
! TGGTTACAGTTCAGTTTTCA+AGG + Chr2:10446044-10446063 MsG0280007088.01.T01:CDS 35.0%
!! AACAGAATTGGTGTTGTTGT+AGG - Chr2:10445826-10445845 None:intergenic 35.0%
!! TTATTTCTGGAGAAGGTAAG+TGG + Chr2:10446024-10446043 MsG0280007088.01.T01:CDS 35.0%
!!! GTGGACAGATGTTTTATTTC+TGG + Chr2:10446011-10446030 MsG0280007088.01.T01:CDS 35.0%
AGATGACCATGACTATCGAT+AGG + Chr2:10446091-10446110 MsG0280007088.01.T01:CDS 40.0%
CACCAATTCTGTTTCACATC+AGG + Chr2:10445833-10445852 MsG0280007088.01.T01:intron 40.0%
CACCTGATGTGAAACAGAAT+TGG - Chr2:10445838-10445857 None:intergenic 40.0%
TTCAAACTGACGGAAGAACA+TGG + Chr2:10446150-10446169 MsG0280007088.01.T01:CDS 40.0%
! TAGTGCTGTTCGAAACAACA+AGG + Chr2:10445863-10445882 MsG0280007088.01.T01:intron 40.0%
ACCACACCATTATCTCAGCA+AGG + Chr2:10446215-10446234 MsG0280007088.01.T01:CDS 45.0%
AGTTGCTCAGATTCTCTCAC+AGG + Chr2:10446118-10446137 MsG0280007088.01.T01:CDS 45.0%
ATCCACGGAAGGGTGAAATT+TGG + Chr2:10445898-10445917 MsG0280007088.01.T01:intron 45.0%
CAGAAATCTGAGAGGCTTCT+GGG + Chr2:10446173-10446192 MsG0280007088.01.T01:CDS 45.0%
CTTCCGTCAGTTTGAAAGCA+GGG - Chr2:10446146-10446165 None:intergenic 45.0%
GAACATGGCAGAAATCTGAG+AGG + Chr2:10446165-10446184 MsG0280007088.01.T01:CDS 45.0%
GATCCCTGCTTTCAAACTGA+CGG + Chr2:10446140-10446159 MsG0280007088.01.T01:CDS 45.0%
GTGAGAGAATCTGAGCAACT+CGG - Chr2:10446118-10446137 None:intergenic 45.0%
TCCACGGAAGGGTGAAATTT+GGG + Chr2:10445899-10445918 MsG0280007088.01.T01:intron 45.0%
TCTTCCGTCAGTTTGAAAGC+AGG - Chr2:10446147-10446166 None:intergenic 45.0%
TTTGGGGATTGTATAGGGGA+TGG + Chr2:10445916-10445935 MsG0280007088.01.T01:intron 45.0%
! TCCTTGCTGAGATAATGGTG+TGG - Chr2:10446219-10446238 None:intergenic 45.0%
CCACGGAAGGGTGAAATTTG+GGG + Chr2:10445900-10445919 MsG0280007088.01.T01:intron 50.0%
CTCGGTCCTATCGATAGTCA+TGG - Chr2:10446100-10446119 None:intergenic 50.0%
GCAGAAATCTGAGAGGCTTC+TGG + Chr2:10446172-10446191 MsG0280007088.01.T01:CDS 50.0%
TAATGGTGTGGTACTGCTGC+CGG - Chr2:10446207-10446226 None:intergenic 50.0%
TAGGTGCAGAGCTTACCACT+TGG - Chr2:10445807-10445826 None:intergenic 50.0%
! AGGCTTCTGGGAACTTGATC+CGG + Chr2:10446185-10446204 MsG0280007088.01.T01:CDS 50.0%
CCCCAAATTTCACCCTTCCG+TGG - Chr2:10445903-10445922 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 10445675 10446242 10445675 ID=MsG0280007088.01;Name=MsG0280007088.01
Chr2 mRNA 10445675 10446242 10445675 ID=MsG0280007088.01.T01;Parent=MsG0280007088.01;Name=MsG0280007088.01.T01;_AED=0.43;_eAED=0.44;_QI=0|0|0|1|1|1|2|0|148
Chr2 exon 10445675 10445810 10445675 ID=MsG0280007088.01.T01:exon:3298;Parent=MsG0280007088.01.T01
Chr2 exon 10445932 10446242 10445932 ID=MsG0280007088.01.T01:exon:3299;Parent=MsG0280007088.01.T01
Chr2 CDS 10445675 10445810 10445675 ID=MsG0280007088.01.T01:cds;Parent=MsG0280007088.01.T01
Chr2 CDS 10445932 10446242 10445932 ID=MsG0280007088.01.T01:cds;Parent=MsG0280007088.01.T01
Gene Sequence

>MsG0280007088.01.T01

ATGCGTTCGGAGGATTGGCCCAAAATTGAGTTGCAAGTAATTTATCTTACTGATTGCTGGGTACCTAAGAAAGTTATTAGATGGGAAGATAAGGATATGATCATTTCCTGTGGAAGATTTAAAATCAATCCAAGTGGGGATGGAGAACTACACTCAAACTCTGATTTGAAAAACTGTGAGTATGACATAGTGGAAGTTACTGAAGATGCTGATATGTGGACAGATGTTTTATTTCTGGAGAAGGTAAGTGGTTACAGTTCAGTTTTCAAGGGTAAATTAAGTAACGGAGGATCAAAGATGACCATGACTATCGATAGGACCGAGTTGCTCAGATTCTCTCACAGGATCCCTGCTTTCAAACTGACGGAAGAACATGGCAGAAATCTGAGAGGCTTCTGGGAACTTGATCCGGCAGCAGTACCACACCATTATCTCAGCAAGGAATAA

Protein sequence

>MsG0280007088.01.T01

MRSEDWPKIELQVIYLTDCWVPKKVIRWEDKDMIISCGRFKINPSGDGELHSNSDLKNCEYDIVEVTEDADMWTDVLFLEKVSGYSSVFKGKLSNGGSKMTMTIDRTELLRFSHRIPAFKLTEEHGRNLRGFWELDPAAVPHHYLSKE*