AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene65210

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene65210.t1 MTR_3g070120 32.911 158 92 4 29 175 146 300 7.84e-13 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 38 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTTGATGTTTGCTTCTTTA+AGG 0.138534 6.4:-6884590 None:intergenic
CTTAGATTTCAAATCCAAAT+TGG 0.175377 6.4:+6884666 MS.gene65210:CDS
TTTACCTTTCTCACAAGATT+TGG 0.226819 6.4:+6884875 MS.gene65210:CDS
GAAGAGGGTTTCTCTTGTTT+TGG 0.245975 6.4:-6884565 None:intergenic
CTAAGAAGCCATTGAGAATA+AGG 0.247836 6.4:-6884648 None:intergenic
GGAGCGTGCACGGTTAATTA+AGG 0.290096 6.4:+6884984 MS.gene65210:CDS
TTTCTAAGCTGCCCTTGTTT+AGG 0.299863 6.4:-6884754 None:intergenic
TCAAGAGCCGGAATTGGATT+TGG 0.301896 6.4:+6884963 MS.gene65210:CDS
TTACCTTTCTCACAAGATTT+GGG 0.302378 6.4:+6884876 MS.gene65210:CDS
TCCTTCACAGAGTTATAAAA+AGG 0.345114 6.4:-6884715 None:intergenic
GAAAGTTCAAGAGCCGGAAT+TGG 0.391991 6.4:+6884957 MS.gene65210:CDS
TTAGATTTCAAATCCAAATT+GGG 0.401807 6.4:+6884667 MS.gene65210:CDS
GGCAGCTTAGAAAGAGGATC+TGG 0.431103 6.4:+6884764 MS.gene65210:CDS
GCACGCTCCAAATCCAATTC+CGG 0.440433 6.4:-6884970 None:intergenic
GACGAAATCCTTATTCTCAA+TGG 0.457404 6.4:+6884640 MS.gene65210:CDS
GTCCCCAAATCTTGTGAGAA+AGG 0.458776 6.4:-6884879 None:intergenic
TCAAGATCATTATAGAATCT+AGG 0.460182 6.4:-6884841 None:intergenic
ATATGAGAACATGAAGAAAG+AGG 0.508111 6.4:+6884801 MS.gene65210:CDS
GTCATTTCTAAGTTATTGCA+AGG 0.515777 6.4:+6885018 MS.gene65210:CDS
ATTCTATAATGATCTTGAGC+AGG 0.520209 6.4:+6884846 MS.gene65210:CDS
GTTGACTGAGGAATCGAATC+GGG 0.521747 6.4:+6884906 MS.gene65210:CDS
AGTTGACTGAGGAATCGAAT+CGG 0.535931 6.4:+6884905 MS.gene65210:CDS
AATTGGATTTGGAGCGTGCA+CGG 0.556576 6.4:+6884974 MS.gene65210:CDS
GGAATCGAATCGGGTAGAGT+TGG 0.557159 6.4:+6884915 MS.gene65210:CDS
TGCTTCTTTAAGGAAGAAGA+GGG 0.572401 6.4:-6884580 None:intergenic
TACCTTTCTCACAAGATTTG+GGG 0.576919 6.4:+6884877 MS.gene65210:CDS
AACAAGGGCAGCTTAGAAAG+AGG 0.580040 6.4:+6884758 MS.gene65210:CDS
GGGTAGAGTTGGATGAAATG+TGG 0.588939 6.4:+6884926 MS.gene65210:CDS
CTTAGTGTGAAACCTAAACA+AGG 0.589654 6.4:+6884742 MS.gene65210:CDS
TTGCTTCTTTAAGGAAGAAG+AGG 0.590446 6.4:-6884581 None:intergenic
GGAATTGAAAGTTCAAGAGC+CGG 0.590503 6.4:+6884951 MS.gene65210:CDS
GATTTCGTCATCGAAAGTGA+AGG 0.607171 6.4:-6884626 None:intergenic
AGCTTAGAAAGAGGATCTGG+AGG 0.623043 6.4:+6884767 MS.gene65210:CDS
AGAGTTGGATGAAATGTGGA+GGG 0.623431 6.4:+6884930 MS.gene65210:CDS
TAGAGTTGGATGAAATGTGG+AGG 0.631386 6.4:+6884929 MS.gene65210:CDS
AGATCATTATAGAATCTAGG+AGG 0.675424 6.4:-6884838 None:intergenic
TTGGGGACAAGAGTTGACTG+AGG 0.693465 6.4:+6884894 MS.gene65210:CDS
TTAGTGTGAAACCTAAACAA+GGG 0.727599 6.4:+6884743 MS.gene65210:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAGATTTCAAATCCAAATT+GGG + chr6.4:6884667-6884686 MS.gene65210:CDS 20.0%
! CTTAGATTTCAAATCCAAAT+TGG + chr6.4:6884666-6884685 MS.gene65210:CDS 25.0%
! TCAAGATCATTATAGAATCT+AGG - chr6.4:6884844-6884863 None:intergenic 25.0%
!!! TTTCTCTTGTTTTGGATTTT+GGG - chr6.4:6884560-6884579 None:intergenic 25.0%
AGATCATTATAGAATCTAGG+AGG - chr6.4:6884841-6884860 None:intergenic 30.0%
ATATGAGAACATGAAGAAAG+AGG + chr6.4:6884801-6884820 MS.gene65210:CDS 30.0%
ATTCTATAATGATCTTGAGC+AGG + chr6.4:6884846-6884865 MS.gene65210:CDS 30.0%
GTCATTTCTAAGTTATTGCA+AGG + chr6.4:6885018-6885037 MS.gene65210:CDS 30.0%
GTTTGATGTTTGCTTCTTTA+AGG - chr6.4:6884593-6884612 None:intergenic 30.0%
TCCTTCACAGAGTTATAAAA+AGG - chr6.4:6884718-6884737 None:intergenic 30.0%
TTACCTTTCTCACAAGATTT+GGG + chr6.4:6884876-6884895 MS.gene65210:CDS 30.0%
TTAGTGTGAAACCTAAACAA+GGG + chr6.4:6884743-6884762 MS.gene65210:CDS 30.0%
TTTACCTTTCTCACAAGATT+TGG + chr6.4:6884875-6884894 MS.gene65210:CDS 30.0%
! AGAATCTAGGAGGAAATTTT+TGG - chr6.4:6884831-6884850 None:intergenic 30.0%
! TCCTTTTTATAACTCTGTGA+AGG + chr6.4:6884714-6884733 MS.gene65210:CDS 30.0%
!!! GTTTCTCTTGTTTTGGATTT+TGG - chr6.4:6884561-6884580 None:intergenic 30.0%
CTAAGAAGCCATTGAGAATA+AGG - chr6.4:6884651-6884670 None:intergenic 35.0%
CTTAGTGTGAAACCTAAACA+AGG + chr6.4:6884742-6884761 MS.gene65210:CDS 35.0%
GACGAAATCCTTATTCTCAA+TGG + chr6.4:6884640-6884659 MS.gene65210:CDS 35.0%
TACCTTTCTCACAAGATTTG+GGG + chr6.4:6884877-6884896 MS.gene65210:CDS 35.0%
! TGCTTCTTTAAGGAAGAAGA+GGG - chr6.4:6884583-6884602 None:intergenic 35.0%
! TTGCTTCTTTAAGGAAGAAG+AGG - chr6.4:6884584-6884603 None:intergenic 35.0%
!! CATTGCATTTTGACCCAATT+TGG - chr6.4:6884683-6884702 None:intergenic 35.0%
AGAGTTGGATGAAATGTGGA+GGG + chr6.4:6884930-6884949 MS.gene65210:CDS 40.0%
AGTTGACTGAGGAATCGAAT+CGG + chr6.4:6884905-6884924 MS.gene65210:CDS 40.0%
GATTTCGTCATCGAAAGTGA+AGG - chr6.4:6884629-6884648 None:intergenic 40.0%
GGAATTGAAAGTTCAAGAGC+CGG + chr6.4:6884951-6884970 MS.gene65210:CDS 40.0%
TAGAGTTGGATGAAATGTGG+AGG + chr6.4:6884929-6884948 MS.gene65210:CDS 40.0%
! TTTCTAAGCTGCCCTTGTTT+AGG - chr6.4:6884757-6884776 None:intergenic 40.0%
!! GAAGAGGGTTTCTCTTGTTT+TGG - chr6.4:6884568-6884587 None:intergenic 40.0%
AACAAGGGCAGCTTAGAAAG+AGG + chr6.4:6884758-6884777 MS.gene65210:CDS 45.0%
AGCTTAGAAAGAGGATCTGG+AGG + chr6.4:6884767-6884786 MS.gene65210:CDS 45.0%
GAAAGTTCAAGAGCCGGAAT+TGG + chr6.4:6884957-6884976 MS.gene65210:CDS 45.0%
GGGTAGAGTTGGATGAAATG+TGG + chr6.4:6884926-6884945 MS.gene65210:CDS 45.0%
GTCCCCAAATCTTGTGAGAA+AGG - chr6.4:6884882-6884901 None:intergenic 45.0%
GTTGACTGAGGAATCGAATC+GGG + chr6.4:6884906-6884925 MS.gene65210:CDS 45.0%
TCAAGAGCCGGAATTGGATT+TGG + chr6.4:6884963-6884982 MS.gene65210:CDS 45.0%
! AATTGGATTTGGAGCGTGCA+CGG + chr6.4:6884974-6884993 MS.gene65210:CDS 45.0%
GCACGCTCCAAATCCAATTC+CGG - chr6.4:6884973-6884992 None:intergenic 50.0%
GGAATCGAATCGGGTAGAGT+TGG + chr6.4:6884915-6884934 MS.gene65210:CDS 50.0%
GGAGCGTGCACGGTTAATTA+AGG + chr6.4:6884984-6885003 MS.gene65210:CDS 50.0%
GGCAGCTTAGAAAGAGGATC+TGG + chr6.4:6884764-6884783 MS.gene65210:CDS 50.0%
TTGGGGACAAGAGTTGACTG+AGG + chr6.4:6884894-6884913 MS.gene65210:CDS 50.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 6884523 6885056 6884523 ID=MS.gene65210
chr6.4 mRNA 6884523 6885056 6884523 ID=MS.gene65210.t1;Parent=MS.gene65210
chr6.4 exon 6884523 6885056 6884523 ID=MS.gene65210.t1.exon1;Parent=MS.gene65210.t1
chr6.4 CDS 6884523 6885056 6884523 ID=cds.MS.gene65210.t1;Parent=MS.gene65210.t1
Gene Sequence

>MS.gene65210

ATGGCAAAGAAATCAAGTTGTTCTTCTTCTTCATCCCAAAATCCAAAACAAGAGAAACCCTCTTCTTCCTTAAAGAAGCAAACATCAAACTCACGTAAGAAAACCTTCACTTTCGATGACGAAATCCTTATTCTCAATGGCTTCTTAGATTTCAAATCCAAATTGGGTCAAAATGCAATGACAGATTACACTCCTTTTTATAACTCTGTGAAGGATTTGCTTAGTGTGAAACCTAAACAAGGGCAGCTTAGAAAGAGGATCTGGAGGTTAACACAAAAATATGAGAACATGAAGAAAGAGGAAAACCAAAAATTTCCTCCTAGATTCTATAATGATCTTGAGCAGGAAATAATTTACCTTTCTCACAAGATTTGGGGACAAGAGTTGACTGAGGAATCGAATCGGGTAGAGTTGGATGAAATGTGGAGGGAATTGAAAGTTCAAGAGCCGGAATTGGATTTGGAGCGTGCACGGTTAATTAAGGACTCGATTGACGTCATTTCTAAGTTATTGCAAGGATCATCTTCGTCTTAG
Protein sequence

>MS.gene65210.t1

MAKKSSCSSSSSQNPKQEKPSSSLKKQTSNSRKKTFTFDDEILILNGFLDFKSKLGQNAMTDYTPFYNSVKDLLSVKPKQGQLRKRIWRLTQKYENMKKEENQKFPPRFYNDLEQEIIYLSHKIWGQELTEESNRVELDEMWRELKVQEPELDLERARLIKDSIDVISKLLQGSSSS