AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36905

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36905.t1 MTR_7g108855 34.821 112 64 3 14 121 62 168 2.85e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 41 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCACCATTTGGAAGTAATT+AGG 0.245444 8.2:-64876668 MS.gene36905:CDS
GGTCTTCTTTAGACCAATAA+AGG 0.247419 8.2:+64876742 None:intergenic
ACTACGATTGCGCCCTTTAT+TGG 0.263600 8.2:-64876755 MS.gene36905:CDS
TTCCCAACTATATTTCTTTC+CGG 0.282733 8.2:-64876914 MS.gene36905:CDS
TGCATACCATGCATGCATTC+TGG 0.324425 8.2:+64876777 None:intergenic
TTCCGCAAGTTGGACACTTA+TGG 0.354700 8.2:+64876715 None:intergenic
ACCATTGTCTCAGCACCATT+TGG 0.383855 8.2:-64876679 MS.gene36905:CDS
CCAAATGGTCGTCGTCTGAT+TGG 0.404110 8.2:+64876951 None:intergenic
GATCGGGTGGGTGTCGGAAT+CGG 0.432374 8.2:+64876860 None:intergenic
AGTGTCCAACTTGCGGAATC+CGG 0.438842 8.2:-64876710 MS.gene36905:CDS
TAGTTGGGAATCAGCTTCTT+CGG 0.444538 8.2:+64876927 None:intergenic
CCAATCAGACGACGACCATT+TGG 0.452237 8.2:-64876951 MS.gene36905:CDS
TGAAAGTGGGAAGATGCTTC+CGG 0.459913 8.2:+64876895 None:intergenic
CAAGTTGGACACTTATGGTA+AGG 0.475386 8.2:+64876720 None:intergenic
GTCTTCTTTAGACCAATAAA+GGG 0.478289 8.2:+64876743 None:intergenic
GAGACAATGGTCTTTCAAAC+CGG 0.481043 8.2:+64876691 None:intergenic
TAAGCCTAATTACTTCCAAA+TGG 0.483290 8.2:+64876664 None:intergenic
TGTTACAAGGAGTTCGTAGA+TGG 0.488118 8.2:-64876819 MS.gene36905:CDS
ATCAGCTTCTTCGGACCAAA+TGG 0.489732 8.2:+64876936 None:intergenic
CTTCCGGAAAGAAATATAGT+TGG 0.493805 8.2:+64876911 None:intergenic
GGAAGAGGAGTATGTGAAAG+TGG 0.502649 8.2:+64876881 None:intergenic
GTGGGTGTCGGAATCGGAAG+AGG 0.507812 8.2:+64876866 None:intergenic
TTCCGGAAAGAAATATAGTT+GGG 0.510227 8.2:+64876912 None:intergenic
CACTTCAGGAAAGTTTCTGA+TGG 0.510769 8.2:+64876629 None:intergenic
CGGAGCAAGATCCACCGATC+GGG 0.512178 8.2:+64876844 None:intergenic
TCCAAATGGTGCTGAGACAA+TGG 0.521723 8.2:+64876678 None:intergenic
TTCAACCAATCAACCATGGC+TGG 0.525368 8.2:-64876987 None:intergenic
AGCAAGATCCACCGATCGGG+TGG 0.529965 8.2:+64876847 None:intergenic
GAAGAGGAGTATGTGAAAGT+GGG 0.545248 8.2:+64876882 None:intergenic
ATCTTGCTCCGTCTGTTACA+AGG 0.551982 8.2:-64876832 MS.gene36905:CDS
TCCACCGATCGGGTGGGTGT+CGG 0.559357 8.2:+64876854 None:intergenic
TCAAACCGGATTCCGCAAGT+TGG 0.559868 8.2:+64876705 None:intergenic
TTTATTAGCATCACCAGCCA+TGG 0.561595 8.2:+64876974 None:intergenic
TACCATAAGTGTCCAACTTG+CGG 0.576135 8.2:-64876717 MS.gene36905:CDS
TCCGACACCCACCCGATCGG+TGG 0.579668 8.2:-64876855 MS.gene36905:CDS
TACGAACTCCTTGTAACAGA+CGG 0.602518 8.2:+64876824 None:intergenic
AAGTTGGACACTTATGGTAA+GGG 0.605876 8.2:+64876721 None:intergenic
GATTCCGACACCCACCCGAT+CGG 0.620723 8.2:-64876858 MS.gene36905:CDS
ACGGAGCAAGATCCACCGAT+CGG 0.626627 8.2:+64876843 None:intergenic
ATACTTCCAGAATGCATGCA+TGG 0.632773 8.2:-64876783 MS.gene36905:CDS
GCAAGATCCACCGATCGGGT+GGG 0.657120 8.2:+64876848 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GTCTTCTTTAGACCAATAAA+GGG + chr8.2:64876864-64876883 None:intergenic 30.0%
TAAGCCTAATTACTTCCAAA+TGG + chr8.2:64876943-64876962 None:intergenic 30.0%
TTCCCAACTATATTTCTTTC+CGG - chr8.2:64876690-64876709 MS.gene36905:CDS 30.0%
TTCCGGAAAGAAATATAGTT+GGG + chr8.2:64876695-64876714 None:intergenic 30.0%
AAGTTGGACACTTATGGTAA+GGG + chr8.2:64876886-64876905 None:intergenic 35.0%
AGCACCATTTGGAAGTAATT+AGG - chr8.2:64876936-64876955 MS.gene36905:CDS 35.0%
CTTCCGGAAAGAAATATAGT+TGG + chr8.2:64876696-64876715 None:intergenic 35.0%
GGTCTTCTTTAGACCAATAA+AGG + chr8.2:64876865-64876884 None:intergenic 35.0%
ATACTTCCAGAATGCATGCA+TGG - chr8.2:64876821-64876840 MS.gene36905:CDS 40.0%
GAGACAATGGTCTTTCAAAC+CGG + chr8.2:64876916-64876935 None:intergenic 40.0%
TACCATAAGTGTCCAACTTG+CGG - chr8.2:64876887-64876906 MS.gene36905:CDS 40.0%
TACGAACTCCTTGTAACAGA+CGG + chr8.2:64876783-64876802 None:intergenic 40.0%
TAGTTGGGAATCAGCTTCTT+CGG + chr8.2:64876680-64876699 None:intergenic 40.0%
TGTTACAAGGAGTTCGTAGA+TGG - chr8.2:64876785-64876804 MS.gene36905:CDS 40.0%
! CAAGTTGGACACTTATGGTA+AGG + chr8.2:64876887-64876906 None:intergenic 40.0%
! GAAGAGGAGTATGTGAAAGT+GGG + chr8.2:64876725-64876744 None:intergenic 40.0%
ACCATTGTCTCAGCACCATT+TGG - chr8.2:64876925-64876944 MS.gene36905:CDS 45.0%
ACTACGATTGCGCCCTTTAT+TGG - chr8.2:64876849-64876868 MS.gene36905:CDS 45.0%
ATCAGCTTCTTCGGACCAAA+TGG + chr8.2:64876671-64876690 None:intergenic 45.0%
ATCTTGCTCCGTCTGTTACA+AGG - chr8.2:64876772-64876791 MS.gene36905:CDS 45.0%
TGAAAGTGGGAAGATGCTTC+CGG + chr8.2:64876712-64876731 None:intergenic 45.0%
TGCATACCATGCATGCATTC+TGG + chr8.2:64876830-64876849 None:intergenic 45.0%
! GGAAGAGGAGTATGTGAAAG+TGG + chr8.2:64876726-64876745 None:intergenic 45.0%
! TCCAAATGGTGCTGAGACAA+TGG + chr8.2:64876929-64876948 None:intergenic 45.0%
! TTCCGCAAGTTGGACACTTA+TGG + chr8.2:64876892-64876911 None:intergenic 45.0%
AGTGTCCAACTTGCGGAATC+CGG - chr8.2:64876894-64876913 MS.gene36905:CDS 50.0%
CCAAATGGTCGTCGTCTGAT+TGG + chr8.2:64876656-64876675 None:intergenic 50.0%
CCAATCAGACGACGACCATT+TGG - chr8.2:64876653-64876672 MS.gene36905:CDS 50.0%
TCAAACCGGATTCCGCAAGT+TGG + chr8.2:64876902-64876921 None:intergenic 50.0%
ACGGAGCAAGATCCACCGAT+CGG + chr8.2:64876764-64876783 None:intergenic 55.0%
AGCAAGATCCACCGATCGGG+TGG + chr8.2:64876760-64876779 None:intergenic 60.0%
CGGAGCAAGATCCACCGATC+GGG + chr8.2:64876763-64876782 None:intergenic 60.0%
GATTCCGACACCCACCCGAT+CGG - chr8.2:64876746-64876765 MS.gene36905:CDS 60.0%
GCAAGATCCACCGATCGGGT+GGG + chr8.2:64876759-64876778 None:intergenic 60.0%
!! GATCGGGTGGGTGTCGGAAT+CGG + chr8.2:64876747-64876766 None:intergenic 60.0%
!! GTGGGTGTCGGAATCGGAAG+AGG + chr8.2:64876741-64876760 None:intergenic 60.0%
TCCACCGATCGGGTGGGTGT+CGG + chr8.2:64876753-64876772 None:intergenic 65.0%
TCCGACACCCACCCGATCGG+TGG - chr8.2:64876749-64876768 MS.gene36905:CDS 70.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 64876632 64876994 64876632 ID=MS.gene36905
chr8.2 mRNA 64876632 64876994 64876632 ID=MS.gene36905.t1;Parent=MS.gene36905
chr8.2 exon 64876632 64876994 64876632 ID=MS.gene36905.t1.exon1;Parent=MS.gene36905.t1
chr8.2 CDS 64876632 64876994 64876632 ID=cds.MS.gene36905.t1;Parent=MS.gene36905.t1
Gene Sequence

>MS.gene36905

ATGGCTGGTGATGCTAATAAACCAATCAGACGACGACCATTTGGTCCGAAGAAGCTGATTCCCAACTATATTTCTTTCCGGAAGCATCTTCCCACTTTCACATACTCCTCTTCCGATTCCGACACCCACCCGATCGGTGGATCTTGCTCCGTCTGTTACAAGGAGTTCGTAGATGGTGACAAAGAGTGTATACTTCCAGAATGCATGCATGGTATGCACTACGATTGCGCCCTTTATTGGTCTAAAGAAGACCCTTACCATAAGTGTCCAACTTGCGGAATCCGGTTTGAAAGACCATTGTCTCAGCACCATTTGGAAGTAATTAGGCTTATGAAAGAAACAACCATCAGAAACTTTCCTGAA
Protein sequence

>MS.gene36905.t1

MAGDANKPIRRRPFGPKKLIPNYISFRKHLPTFTYSSSDSDTHPIGGSCSVCYKEFVDGDKECILPECMHGMHYDCALYWSKEDPYHKCPTCGIRFERPLSQHHLEVIRLMKETTIRNFPE