AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene63684

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63684.t1 MTR_7g108855 32.231 121 73 3 5 121 53 168 2.31e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 39 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCACCATTTGGAAGTAATT+AGG 0.245444 8.4:-63136358 MS.gene63684:CDS
GGTCTTCTTTAGACCAATAA+AGG 0.247419 8.4:+63136432 None:intergenic
ACTACGATTGCGCCCTTTAT+TGG 0.263600 8.4:-63136445 MS.gene63684:CDS
TTCCCAACTATATTTCTTTC+CGG 0.282733 8.4:-63136604 MS.gene63684:CDS
TGCATACCATGCATGCATTC+TGG 0.324425 8.4:+63136467 None:intergenic
TTCCGCAAGTTGGACACTTA+TGG 0.354700 8.4:+63136405 None:intergenic
ACCATTGTCTCAGCACCATT+TGG 0.383855 8.4:-63136369 MS.gene63684:CDS
AGTGTCCAACTTGCGGAATC+CGG 0.438842 8.4:-63136400 MS.gene63684:CDS
AGAAGAGGAGTATGTGAAAG+TGG 0.441950 8.4:+63136571 None:intergenic
TAGTTGGGAATCAGCTTCTT+CGG 0.444538 8.4:+63136617 None:intergenic
CAAATCAGACGACGACCATT+TGG 0.449941 8.4:-63136641 MS.gene63684:CDS
TGAAAGTGGGAAGATGCTTC+CGG 0.459913 8.4:+63136585 None:intergenic
CAAGTTGGACACTTATGGTA+AGG 0.475386 8.4:+63136410 None:intergenic
GTCTTCTTTAGACCAATAAA+GGG 0.478289 8.4:+63136433 None:intergenic
GAGACAATGGTCTTTCAAAC+CGG 0.481043 8.4:+63136381 None:intergenic
TAAGCCTAATTACTTCCAAA+TGG 0.483290 8.4:+63136354 None:intergenic
TGTTACAAGGAGTTCGTAGA+TGG 0.488118 8.4:-63136509 MS.gene63684:CDS
ATCAGCTTCTTCGGACCAAA+TGG 0.489732 8.4:+63136626 None:intergenic
CTTCCGGAAAGAAATATAGT+TGG 0.493805 8.4:+63136601 None:intergenic
GAAGAGGAGTATGTGAAAGT+GGG 0.508595 8.4:+63136572 None:intergenic
TTCCGGAAAGAAATATAGTT+GGG 0.510227 8.4:+63136602 None:intergenic
CACTTCAGGAAAGTTTCTGA+TGG 0.510769 8.4:+63136319 None:intergenic
CGGAGCAAGATCCACCGATC+GGG 0.512178 8.4:+63136534 None:intergenic
TCCAAATGGTGCTGAGACAA+TGG 0.521723 8.4:+63136368 None:intergenic
TTCAACCAATCAACCATGGC+TGG 0.525368 8.4:-63136677 None:intergenic
AGCAAGATCCACCGATCGGG+TGG 0.529965 8.4:+63136537 None:intergenic
TTTATTAGCATCACCAGCCA+TGG 0.546288 8.4:+63136664 None:intergenic
ATCTTGCTCCGTCTGTTACA+AGG 0.551982 8.4:-63136522 MS.gene63684:CDS
TCCACCGATCGGGTGGGTGT+CGG 0.559357 8.4:+63136544 None:intergenic
TCAAACCGGATTCCGCAAGT+TGG 0.559868 8.4:+63136395 None:intergenic
TACCATAAGTGTCCAACTTG+CGG 0.576135 8.4:-63136407 MS.gene63684:CDS
TCCGACACCCACCCGATCGG+TGG 0.579668 8.4:-63136545 MS.gene63684:CDS
TACGAACTCCTTGTAACAGA+CGG 0.602518 8.4:+63136514 None:intergenic
AAGTTGGACACTTATGGTAA+GGG 0.605876 8.4:+63136411 None:intergenic
GATTCCGACACCCACCCGAT+CGG 0.619379 8.4:-63136548 MS.gene63684:CDS
ACGGAGCAAGATCCACCGAT+CGG 0.626627 8.4:+63136533 None:intergenic
GTGGGTGTCGGAATCAGAAG+AGG 0.631010 8.4:+63136556 None:intergenic
ATACTTCCAGAATGCATGCA+TGG 0.632773 8.4:-63136473 MS.gene63684:CDS
GCAAGATCCACCGATCGGGT+GGG 0.657120 8.4:+63136538 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GTCTTCTTTAGACCAATAAA+GGG + chr8.4:63136554-63136573 None:intergenic 30.0%
TAAGCCTAATTACTTCCAAA+TGG + chr8.4:63136633-63136652 None:intergenic 30.0%
TTCCCAACTATATTTCTTTC+CGG - chr8.4:63136380-63136399 MS.gene63684:CDS 30.0%
TTCCGGAAAGAAATATAGTT+GGG + chr8.4:63136385-63136404 None:intergenic 30.0%
AAGTTGGACACTTATGGTAA+GGG + chr8.4:63136576-63136595 None:intergenic 35.0%
AGCACCATTTGGAAGTAATT+AGG - chr8.4:63136626-63136645 MS.gene63684:CDS 35.0%
CTTCCGGAAAGAAATATAGT+TGG + chr8.4:63136386-63136405 None:intergenic 35.0%
GGTCTTCTTTAGACCAATAA+AGG + chr8.4:63136555-63136574 None:intergenic 35.0%
ATACTTCCAGAATGCATGCA+TGG - chr8.4:63136511-63136530 MS.gene63684:CDS 40.0%
GAGACAATGGTCTTTCAAAC+CGG + chr8.4:63136606-63136625 None:intergenic 40.0%
TACCATAAGTGTCCAACTTG+CGG - chr8.4:63136577-63136596 MS.gene63684:CDS 40.0%
TACGAACTCCTTGTAACAGA+CGG + chr8.4:63136473-63136492 None:intergenic 40.0%
TAGTTGGGAATCAGCTTCTT+CGG + chr8.4:63136370-63136389 None:intergenic 40.0%
TGTTACAAGGAGTTCGTAGA+TGG - chr8.4:63136475-63136494 MS.gene63684:CDS 40.0%
! AGAAGAGGAGTATGTGAAAG+TGG + chr8.4:63136416-63136435 None:intergenic 40.0%
! CAAGTTGGACACTTATGGTA+AGG + chr8.4:63136577-63136596 None:intergenic 40.0%
! GAAGAGGAGTATGTGAAAGT+GGG + chr8.4:63136415-63136434 None:intergenic 40.0%
ACCATTGTCTCAGCACCATT+TGG - chr8.4:63136615-63136634 MS.gene63684:CDS 45.0%
ACTACGATTGCGCCCTTTAT+TGG - chr8.4:63136539-63136558 MS.gene63684:CDS 45.0%
ATCAGCTTCTTCGGACCAAA+TGG + chr8.4:63136361-63136380 None:intergenic 45.0%
ATCTTGCTCCGTCTGTTACA+AGG - chr8.4:63136462-63136481 MS.gene63684:CDS 45.0%
CAAATCAGACGACGACCATT+TGG - chr8.4:63136343-63136362 MS.gene63684:CDS 45.0%
TGAAAGTGGGAAGATGCTTC+CGG + chr8.4:63136402-63136421 None:intergenic 45.0%
TGCATACCATGCATGCATTC+TGG + chr8.4:63136520-63136539 None:intergenic 45.0%
! TCCAAATGGTGCTGAGACAA+TGG + chr8.4:63136619-63136638 None:intergenic 45.0%
! TTCCGCAAGTTGGACACTTA+TGG + chr8.4:63136582-63136601 None:intergenic 45.0%
AGTGTCCAACTTGCGGAATC+CGG - chr8.4:63136584-63136603 MS.gene63684:CDS 50.0%
TCAAACCGGATTCCGCAAGT+TGG + chr8.4:63136592-63136611 None:intergenic 50.0%
ACGGAGCAAGATCCACCGAT+CGG + chr8.4:63136454-63136473 None:intergenic 55.0%
!! GTGGGTGTCGGAATCAGAAG+AGG + chr8.4:63136431-63136450 None:intergenic 55.0%
AGCAAGATCCACCGATCGGG+TGG + chr8.4:63136450-63136469 None:intergenic 60.0%
CGGAGCAAGATCCACCGATC+GGG + chr8.4:63136453-63136472 None:intergenic 60.0%
GATTCCGACACCCACCCGAT+CGG - chr8.4:63136436-63136455 MS.gene63684:CDS 60.0%
GCAAGATCCACCGATCGGGT+GGG + chr8.4:63136449-63136468 None:intergenic 60.0%
TCCACCGATCGGGTGGGTGT+CGG + chr8.4:63136443-63136462 None:intergenic 65.0%
TCCGACACCCACCCGATCGG+TGG - chr8.4:63136439-63136458 MS.gene63684:CDS 70.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 63136322 63136684 63136322 ID=MS.gene63684
chr8.4 mRNA 63136322 63136684 63136322 ID=MS.gene63684.t1;Parent=MS.gene63684
chr8.4 exon 63136322 63136684 63136322 ID=MS.gene63684.t1.exon1;Parent=MS.gene63684.t1
chr8.4 CDS 63136322 63136684 63136322 ID=cds.MS.gene63684.t1;Parent=MS.gene63684.t1
Gene Sequence

>MS.gene63684

ATGGCTGGTGATGCTAATAAACAAATCAGACGACGACCATTTGGTCCGAAGAAGCTGATTCCCAACTATATTTCTTTCCGGAAGCATCTTCCCACTTTCACATACTCCTCTTCTGATTCCGACACCCACCCGATCGGTGGATCTTGCTCCGTCTGTTACAAGGAGTTCGTAGATGGTGACAAAGAGTGTATACTTCCAGAATGCATGCATGGTATGCACTACGATTGCGCCCTTTATTGGTCTAAAGAAGACCCTTACCATAAGTGTCCAACTTGCGGAATCCGGTTTGAAAGACCATTGTCTCAGCACCATTTGGAAGTAATTAGGCTTATGAAAGAAACAACCATCAGAAACTTTCCTGAA
Protein sequence

>MS.gene63684.t1

MAGDANKQIRRRPFGPKKLIPNYISFRKHLPTFTYSSSDSDTHPIGGSCSVCYKEFVDGDKECILPECMHGMHYDCALYWSKEDPYHKCPTCGIRFERPLSQHHLEVIRLMKETTIRNFPE