AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene019462

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene019462.t1 MTR_7g108855 32.231 121 73 3 5 121 53 168 3.26e-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 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCACCATTTGGAAGTAATT+AGG 0.245444 8.1:-68959360 MS.gene019462:CDS
TAATTAAGTAATTACTAAAA+AGG 0.247246 8.1:+68959289 None:intergenic
GGTCTTCTTTAGACCAATAA+AGG 0.247419 8.1:+68959434 None:intergenic
ACTACGATTGCGCCCTTTAT+TGG 0.263600 8.1:-68959447 MS.gene019462:CDS
TTCCCAACTATATTTCTTTC+CGG 0.282733 8.1:-68959606 MS.gene019462:CDS
TGCATACCATGCATGCATTC+TGG 0.324425 8.1:+68959469 None:intergenic
TTCCGCAAGTTGGACACTTA+TGG 0.354700 8.1:+68959407 None:intergenic
AAAGGAGGAAATTGCACTTC+AGG 0.371770 8.1:+68959307 None:intergenic
ACCATTGTCTCAGCACCATT+TGG 0.383855 8.1:-68959371 MS.gene019462:CDS
GATCGGGTGGGTGTCGGAAT+CGG 0.432374 8.1:+68959552 None:intergenic
AGTGTCCAACTTGCGGAATC+CGG 0.438842 8.1:-68959402 MS.gene019462:CDS
TAGTTGGGAATCAGCTTCTT+CGG 0.444538 8.1:+68959619 None:intergenic
CAAATCAGACGACGACCATT+TGG 0.449941 8.1:-68959643 MS.gene019462:CDS
TGAAAGTGGGAAGATGCTTC+CGG 0.459913 8.1:+68959587 None:intergenic
CAAGTTGGACACTTATGGTA+AGG 0.475386 8.1:+68959412 None:intergenic
GTCTTCTTTAGACCAATAAA+GGG 0.478289 8.1:+68959435 None:intergenic
GAGACAATGGTCTTTCAAAC+CGG 0.481043 8.1:+68959383 None:intergenic
TAAGCCTAATTACTTCCAAA+TGG 0.483290 8.1:+68959356 None:intergenic
TGTTACAAGGAGTTCGTAGA+TGG 0.488118 8.1:-68959511 MS.gene019462:CDS
ATCAGCTTCTTCGGACCAAA+TGG 0.489732 8.1:+68959628 None:intergenic
CTTCCGGAAAGAAATATAGT+TGG 0.493805 8.1:+68959603 None:intergenic
GGAAGAGGAGTATGTGAAAG+TGG 0.502649 8.1:+68959573 None:intergenic
GTGGGTGTCGGAATCGGAAG+AGG 0.507812 8.1:+68959558 None:intergenic
TTCCGGAAAGAAATATAGTT+GGG 0.510227 8.1:+68959604 None:intergenic
CACTTCAGGAAAGTTTCTGA+TGG 0.510769 8.1:+68959321 None:intergenic
CGGAGCAAGATCCACCGATC+GGG 0.512178 8.1:+68959536 None:intergenic
TCCAAATGGTGCTGAGACAA+TGG 0.521723 8.1:+68959370 None:intergenic
AGCAAGATCCACCGATCGGG+TGG 0.529965 8.1:+68959539 None:intergenic
GAAGAGGAGTATGTGAAAGT+GGG 0.545248 8.1:+68959574 None:intergenic
ATCTTGCTCCGTCTGTTACA+AGG 0.551982 8.1:-68959524 MS.gene019462:CDS
TCCACCGATCGGGTGGGTGT+CGG 0.559357 8.1:+68959546 None:intergenic
TCAAACCGGATTCCGCAAGT+TGG 0.559868 8.1:+68959397 None:intergenic
TTCAACCAATCAAGCATGGA+TGG 0.568893 8.1:-68959679 None:intergenic
TACCATAAGTGTCCAACTTG+CGG 0.576135 8.1:-68959409 MS.gene019462:CDS
TCCGACACCCACCCGATCGG+TGG 0.579668 8.1:-68959547 MS.gene019462:CDS
TACGAACTCCTTGTAACAGA+CGG 0.602518 8.1:+68959516 None:intergenic
AAGTTGGACACTTATGGTAA+GGG 0.605876 8.1:+68959413 None:intergenic
GATTCCGACACCCACCCGAT+CGG 0.620723 8.1:-68959550 MS.gene019462:CDS
ACGGAGCAAGATCCACCGAT+CGG 0.626627 8.1:+68959535 None:intergenic
ATACTTCCAGAATGCATGCA+TGG 0.632773 8.1:-68959475 MS.gene019462:CDS
GCAAGATCCACCGATCGGGT+GGG 0.657120 8.1:+68959540 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GTCTTCTTTAGACCAATAAA+GGG + chr8.1:68959535-68959554 None:intergenic 30.0%
TAAGCCTAATTACTTCCAAA+TGG + chr8.1:68959614-68959633 None:intergenic 30.0%
TTCCCAACTATATTTCTTTC+CGG - chr8.1:68959361-68959380 MS.gene019462:CDS 30.0%
TTCCGGAAAGAAATATAGTT+GGG + chr8.1:68959366-68959385 None:intergenic 30.0%
AAGTTGGACACTTATGGTAA+GGG + chr8.1:68959557-68959576 None:intergenic 35.0%
AGCACCATTTGGAAGTAATT+AGG - chr8.1:68959607-68959626 MS.gene019462:CDS 35.0%
CTTCCGGAAAGAAATATAGT+TGG + chr8.1:68959367-68959386 None:intergenic 35.0%
GGTCTTCTTTAGACCAATAA+AGG + chr8.1:68959536-68959555 None:intergenic 35.0%
AAAGGAGGAAATTGCACTTC+AGG + chr8.1:68959663-68959682 None:intergenic 40.0%
ATACTTCCAGAATGCATGCA+TGG - chr8.1:68959492-68959511 MS.gene019462:CDS 40.0%
CACTTCAGGAAAGTTTCTGA+TGG + chr8.1:68959649-68959668 None:intergenic 40.0%
GAGACAATGGTCTTTCAAAC+CGG + chr8.1:68959587-68959606 None:intergenic 40.0%
TACCATAAGTGTCCAACTTG+CGG - chr8.1:68959558-68959577 MS.gene019462:CDS 40.0%
TACGAACTCCTTGTAACAGA+CGG + chr8.1:68959454-68959473 None:intergenic 40.0%
TAGTTGGGAATCAGCTTCTT+CGG + chr8.1:68959351-68959370 None:intergenic 40.0%
TGTTACAAGGAGTTCGTAGA+TGG - chr8.1:68959456-68959475 MS.gene019462:CDS 40.0%
! CAAGTTGGACACTTATGGTA+AGG + chr8.1:68959558-68959577 None:intergenic 40.0%
! GAAGAGGAGTATGTGAAAGT+GGG + chr8.1:68959396-68959415 None:intergenic 40.0%
ACCATTGTCTCAGCACCATT+TGG - chr8.1:68959596-68959615 MS.gene019462:CDS 45.0%
ACTACGATTGCGCCCTTTAT+TGG - chr8.1:68959520-68959539 MS.gene019462:CDS 45.0%
ATCAGCTTCTTCGGACCAAA+TGG + chr8.1:68959342-68959361 None:intergenic 45.0%
ATCTTGCTCCGTCTGTTACA+AGG - chr8.1:68959443-68959462 MS.gene019462:CDS 45.0%
CAAATCAGACGACGACCATT+TGG - chr8.1:68959324-68959343 MS.gene019462:CDS 45.0%
TGAAAGTGGGAAGATGCTTC+CGG + chr8.1:68959383-68959402 None:intergenic 45.0%
TGCATACCATGCATGCATTC+TGG + chr8.1:68959501-68959520 None:intergenic 45.0%
! GGAAGAGGAGTATGTGAAAG+TGG + chr8.1:68959397-68959416 None:intergenic 45.0%
! TCCAAATGGTGCTGAGACAA+TGG + chr8.1:68959600-68959619 None:intergenic 45.0%
! TTCCGCAAGTTGGACACTTA+TGG + chr8.1:68959563-68959582 None:intergenic 45.0%
AGTGTCCAACTTGCGGAATC+CGG - chr8.1:68959565-68959584 MS.gene019462:CDS 50.0%
TCAAACCGGATTCCGCAAGT+TGG + chr8.1:68959573-68959592 None:intergenic 50.0%
ACGGAGCAAGATCCACCGAT+CGG + chr8.1:68959435-68959454 None:intergenic 55.0%
AGCAAGATCCACCGATCGGG+TGG + chr8.1:68959431-68959450 None:intergenic 60.0%
CGGAGCAAGATCCACCGATC+GGG + chr8.1:68959434-68959453 None:intergenic 60.0%
GATTCCGACACCCACCCGAT+CGG - chr8.1:68959417-68959436 MS.gene019462:CDS 60.0%
GCAAGATCCACCGATCGGGT+GGG + chr8.1:68959430-68959449 None:intergenic 60.0%
!! GATCGGGTGGGTGTCGGAAT+CGG + chr8.1:68959418-68959437 None:intergenic 60.0%
!! GTGGGTGTCGGAATCGGAAG+AGG + chr8.1:68959412-68959431 None:intergenic 60.0%
TCCACCGATCGGGTGGGTGT+CGG + chr8.1:68959424-68959443 None:intergenic 65.0%
TCCGACACCCACCCGATCGG+TGG - chr8.1:68959420-68959439 MS.gene019462:CDS 70.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 68959303 68959686 68959303 ID=MS.gene019462
chr8.1 mRNA 68959303 68959686 68959303 ID=MS.gene019462.t1;Parent=MS.gene019462
chr8.1 exon 68959303 68959686 68959303 ID=MS.gene019462.t1.exon1;Parent=MS.gene019462.t1
chr8.1 CDS 68959303 68959686 68959303 ID=cds.MS.gene019462.t1;Parent=MS.gene019462.t1
Gene Sequence

>MS.gene019462

ATGGATGGTGATGCTAATAAACAAATCAGACGACGACCATTTGGTCCGAAGAAGCTGATTCCCAACTATATTTCTTTCCGGAAGCATCTTCCCACTTTCACATACTCCTCTTCCGATTCCGACACCCACCCGATCGGTGGATCTTGCTCCGTCTGTTACAAGGAGTTCGTAGATGGTGACAAAGAGTGTATACTTCCAGAATGCATGCATGGTATGCACTACGATTGCGCCCTTTATTGGTCTAAAGAAGACCCTTACCATAAGTGTCCAACTTGCGGAATCCGGTTTGAAAGACCATTGTCTCAGCACCATTTGGAAGTAATTAGGCTTATGAAAGAAACAACCATCAGAAACTTTCCTGAAGTGCAATTTCCTCCTTTTTAG
Protein sequence

>MS.gene019462.t1

MDGDANKQIRRRPFGPKKLIPNYISFRKHLPTFTYSSSDSDTHPIGGSCSVCYKEFVDGDKECILPECMHGMHYDCALYWSKEDPYHKCPTCGIRFERPLSQHHLEVIRLMKETTIRNFPEVQFPPF