AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene63683

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63683.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:-63149222 MS.gene63683:CDS
GGTCTTCTTTAGACCAATAA+AGG 0.247419 8.4:+63149296 None:intergenic
ACTACGATTGCGCCCTTTAT+TGG 0.263600 8.4:-63149309 MS.gene63683:CDS
TTCCCAACTATATTTCTTTC+CGG 0.282733 8.4:-63149468 MS.gene63683:CDS
TGCATACCATGCATGCATTC+TGG 0.324425 8.4:+63149331 None:intergenic
TTCCGCAAGTTGGACACTTA+TGG 0.354700 8.4:+63149269 None:intergenic
ACCATTGTCTCAGCACCATT+TGG 0.383855 8.4:-63149233 MS.gene63683:CDS
AGTGTCCAACTTGCGGAATC+CGG 0.438842 8.4:-63149264 MS.gene63683:CDS
AGAAGAGGAGTATGTGAAAG+TGG 0.441950 8.4:+63149435 None:intergenic
TAGTTGGGAATCAGCTTCTT+CGG 0.444538 8.4:+63149481 None:intergenic
CAAATCAGACGACGACCATT+TGG 0.449941 8.4:-63149505 MS.gene63683:CDS
TGAAAGTGGGAAGATGCTTC+CGG 0.459913 8.4:+63149449 None:intergenic
CAAGTTGGACACTTATGGTA+AGG 0.475386 8.4:+63149274 None:intergenic
GTCTTCTTTAGACCAATAAA+GGG 0.478289 8.4:+63149297 None:intergenic
GAGACAATGGTCTTTCAAAC+CGG 0.481043 8.4:+63149245 None:intergenic
TAAGCCTAATTACTTCCAAA+TGG 0.483290 8.4:+63149218 None:intergenic
TGTTACAAGGAGTTCGTAGA+TGG 0.488118 8.4:-63149373 MS.gene63683:CDS
ATCAGCTTCTTCGGACCAAA+TGG 0.489732 8.4:+63149490 None:intergenic
CTTCCGGAAAGAAATATAGT+TGG 0.493805 8.4:+63149465 None:intergenic
GAAGAGGAGTATGTGAAAGT+GGG 0.508595 8.4:+63149436 None:intergenic
TTCCGGAAAGAAATATAGTT+GGG 0.510227 8.4:+63149466 None:intergenic
CACTTCAGGAAAGTTTCTGA+TGG 0.510769 8.4:+63149183 None:intergenic
CGGAGCAAGATCCACCGATC+GGG 0.512178 8.4:+63149398 None:intergenic
TCCAAATGGTGCTGAGACAA+TGG 0.521723 8.4:+63149232 None:intergenic
TTCAACCAATCAACCATGGC+TGG 0.525368 8.4:-63149541 None:intergenic
AGCAAGATCCACCGATCGGG+TGG 0.529965 8.4:+63149401 None:intergenic
TTTATTAGCATCACCAGCCA+TGG 0.546288 8.4:+63149528 None:intergenic
ATCTTGCTCCGTCTGTTACA+AGG 0.551982 8.4:-63149386 MS.gene63683:CDS
TCCACCGATCGGGTGGGTGT+CGG 0.559357 8.4:+63149408 None:intergenic
TCAAACCGGATTCCGCAAGT+TGG 0.559868 8.4:+63149259 None:intergenic
TACCATAAGTGTCCAACTTG+CGG 0.576135 8.4:-63149271 MS.gene63683:CDS
TCCGACACCCACCCGATCGG+TGG 0.579668 8.4:-63149409 MS.gene63683:CDS
TACGAACTCCTTGTAACAGA+CGG 0.602518 8.4:+63149378 None:intergenic
AAGTTGGACACTTATGGTAA+GGG 0.605876 8.4:+63149275 None:intergenic
GATTCCGACACCCACCCGAT+CGG 0.619379 8.4:-63149412 MS.gene63683:CDS
ACGGAGCAAGATCCACCGAT+CGG 0.626627 8.4:+63149397 None:intergenic
GTGGGTGTCGGAATCAGAAG+AGG 0.631010 8.4:+63149420 None:intergenic
ATACTTCCAGAATGCATGCA+TGG 0.632773 8.4:-63149337 MS.gene63683:CDS
GCAAGATCCACCGATCGGGT+GGG 0.657120 8.4:+63149402 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GTCTTCTTTAGACCAATAAA+GGG + chr8.4:63149418-63149437 None:intergenic 30.0%
TAAGCCTAATTACTTCCAAA+TGG + chr8.4:63149497-63149516 None:intergenic 30.0%
TTCCCAACTATATTTCTTTC+CGG - chr8.4:63149244-63149263 MS.gene63683:CDS 30.0%
TTCCGGAAAGAAATATAGTT+GGG + chr8.4:63149249-63149268 None:intergenic 30.0%
AAGTTGGACACTTATGGTAA+GGG + chr8.4:63149440-63149459 None:intergenic 35.0%
AGCACCATTTGGAAGTAATT+AGG - chr8.4:63149490-63149509 MS.gene63683:CDS 35.0%
CTTCCGGAAAGAAATATAGT+TGG + chr8.4:63149250-63149269 None:intergenic 35.0%
GGTCTTCTTTAGACCAATAA+AGG + chr8.4:63149419-63149438 None:intergenic 35.0%
ATACTTCCAGAATGCATGCA+TGG - chr8.4:63149375-63149394 MS.gene63683:CDS 40.0%
GAGACAATGGTCTTTCAAAC+CGG + chr8.4:63149470-63149489 None:intergenic 40.0%
TACCATAAGTGTCCAACTTG+CGG - chr8.4:63149441-63149460 MS.gene63683:CDS 40.0%
TACGAACTCCTTGTAACAGA+CGG + chr8.4:63149337-63149356 None:intergenic 40.0%
TAGTTGGGAATCAGCTTCTT+CGG + chr8.4:63149234-63149253 None:intergenic 40.0%
TGTTACAAGGAGTTCGTAGA+TGG - chr8.4:63149339-63149358 MS.gene63683:CDS 40.0%
! AGAAGAGGAGTATGTGAAAG+TGG + chr8.4:63149280-63149299 None:intergenic 40.0%
! CAAGTTGGACACTTATGGTA+AGG + chr8.4:63149441-63149460 None:intergenic 40.0%
! GAAGAGGAGTATGTGAAAGT+GGG + chr8.4:63149279-63149298 None:intergenic 40.0%
ACCATTGTCTCAGCACCATT+TGG - chr8.4:63149479-63149498 MS.gene63683:CDS 45.0%
ACTACGATTGCGCCCTTTAT+TGG - chr8.4:63149403-63149422 MS.gene63683:CDS 45.0%
ATCAGCTTCTTCGGACCAAA+TGG + chr8.4:63149225-63149244 None:intergenic 45.0%
ATCTTGCTCCGTCTGTTACA+AGG - chr8.4:63149326-63149345 MS.gene63683:CDS 45.0%
CAAATCAGACGACGACCATT+TGG - chr8.4:63149207-63149226 MS.gene63683:CDS 45.0%
TGAAAGTGGGAAGATGCTTC+CGG + chr8.4:63149266-63149285 None:intergenic 45.0%
TGCATACCATGCATGCATTC+TGG + chr8.4:63149384-63149403 None:intergenic 45.0%
! TCCAAATGGTGCTGAGACAA+TGG + chr8.4:63149483-63149502 None:intergenic 45.0%
! TTCCGCAAGTTGGACACTTA+TGG + chr8.4:63149446-63149465 None:intergenic 45.0%
AGTGTCCAACTTGCGGAATC+CGG - chr8.4:63149448-63149467 MS.gene63683:CDS 50.0%
TCAAACCGGATTCCGCAAGT+TGG + chr8.4:63149456-63149475 None:intergenic 50.0%
ACGGAGCAAGATCCACCGAT+CGG + chr8.4:63149318-63149337 None:intergenic 55.0%
!! GTGGGTGTCGGAATCAGAAG+AGG + chr8.4:63149295-63149314 None:intergenic 55.0%
AGCAAGATCCACCGATCGGG+TGG + chr8.4:63149314-63149333 None:intergenic 60.0%
CGGAGCAAGATCCACCGATC+GGG + chr8.4:63149317-63149336 None:intergenic 60.0%
GATTCCGACACCCACCCGAT+CGG - chr8.4:63149300-63149319 MS.gene63683:CDS 60.0%
GCAAGATCCACCGATCGGGT+GGG + chr8.4:63149313-63149332 None:intergenic 60.0%
TCCACCGATCGGGTGGGTGT+CGG + chr8.4:63149307-63149326 None:intergenic 65.0%
TCCGACACCCACCCGATCGG+TGG - chr8.4:63149303-63149322 MS.gene63683:CDS 70.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 63149186 63149548 63149186 ID=MS.gene63683
chr8.4 mRNA 63149186 63149548 63149186 ID=MS.gene63683.t1;Parent=MS.gene63683
chr8.4 exon 63149186 63149548 63149186 ID=MS.gene63683.t1.exon1;Parent=MS.gene63683.t1
chr8.4 CDS 63149186 63149548 63149186 ID=cds.MS.gene63683.t1;Parent=MS.gene63683.t1
Gene Sequence

>MS.gene63683

ATGGCTGGTGATGCTAATAAACAAATCAGACGACGACCATTTGGTCCGAAGAAGCTGATTCCCAACTATATTTCTTTCCGGAAGCATCTTCCCACTTTCACATACTCCTCTTCTGATTCCGACACCCACCCGATCGGTGGATCTTGCTCCGTCTGTTACAAGGAGTTCGTAGATGGTGACAAAGAGTGTATACTTCCAGAATGCATGCATGGTATGCACTACGATTGCGCCCTTTATTGGTCTAAAGAAGACCCTTACCATAAGTGTCCAACTTGCGGAATCCGGTTTGAAAGACCATTGTCTCAGCACCATTTGGAAGTAATTAGGCTTATGAAAGAAACAACCATCAGAAACTTTCCTGAA
Protein sequence

>MS.gene63683.t1

MAGDANKQIRRRPFGPKKLIPNYISFRKHLPTFTYSSSDSDTHPIGGSCSVCYKEFVDGDKECILPECMHGMHYDCALYWSKEDPYHKCPTCGIRFERPLSQHHLEVIRLMKETTIRNFPE