AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene74579


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene74579.t1 MTR_2g029370 99.554 224 1 0 1 224 1 224 1.07e-165 456
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene74579.t1 AT1G31330 74.107 224 55 2 1 224 1 221 6.00e-119 337

Find 52 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTAGGGTTGAGGTGGGTT+TGG 0.264823 2.3:-60303262 None:intergenic
GTTGGATTGGGTGGGTTGGC+AGG 0.303659 2.3:+60303727 MS.gene74579:CDS
ATGATGTTGGTTGAGAGTTT+TGG 0.311230 2.3:-60303303 None:intergenic
GATTGATTGTTTCTCACGTT+TGG 0.353609 2.3:-60303487 None:intergenic
TGTTCCACTTGCTTCTAGAT+TGG 0.359779 2.3:+60303809 MS.gene74579:CDS
AAAAGAAGGTTTGATAACTA+TGG 0.369761 2.3:+60303591 MS.gene74579:CDS
ATAGTTATCAAACCTTCTTT+TGG 0.372376 2.3:-60303589 None:intergenic
TTGATTCTCTGCATGGTGTT+AGG 0.372807 2.3:-60303455 None:intergenic
TTGTATATTGCTGGTTGGAT+TGG 0.374422 2.3:+60303714 MS.gene74579:CDS
GTGGGTTTGGAGAGGTTAGT+TGG 0.391367 2.3:-60303249 None:intergenic
TGTATATTGCTGGTTGGATT+GGG 0.400227 2.3:+60303715 MS.gene74579:CDS
GCCAGCGCTGGAGCGCTGTC+CGG 0.413463 2.3:-60303543 None:intergenic
ATAATAATCTCTTTCTGTGT+AGG 0.434953 2.3:-60303783 None:intergenic
GCTGGTTGGATTGGGTGGGT+TGG 0.437216 2.3:+60303723 MS.gene74579:CDS
TATTGCTGGTTGGATTGGGT+GGG 0.438882 2.3:+60303719 MS.gene74579:CDS
TCCGGACAGCGCTCCAGCGC+TGG 0.450473 2.3:+60303542 MS.gene74579:CDS
ATATTGCTGGTTGGATTGGG+TGG 0.459491 2.3:+60303718 MS.gene74579:CDS
TAGATTTGAGTTTACATCGT+TGG 0.460617 2.3:-60303355 None:intergenic
CCGGAGATGTCGGCGACAGC+GGG 0.471613 2.3:-60303432 None:intergenic
CCCGCTGTCGCCGACATCTC+CGG 0.482588 2.3:+60303432 MS.gene74579:CDS
GAATGGTGATCAAAGACATT+GGG 0.484178 2.3:+60303662 MS.gene74579:CDS
GGGTTGAGGTGGGTTTGGAG+AGG 0.489158 2.3:-60303257 None:intergenic
AACTCTCTATAAGCAGCAAT+AGG 0.489675 2.3:-60303852 None:intergenic
TGTGCTGCAGTGGATGATGT+TGG 0.507380 2.3:-60303316 None:intergenic
TTCTCTGCATGGTGTTAGGC+CGG 0.509686 2.3:-60303451 None:intergenic
AAAAGAAACTTAGACATCCT+TGG 0.511183 2.3:-60303895 None:intergenic
TTTGGCCTTAGGGTTGAGGT+GGG 0.515042 2.3:-60303267 None:intergenic
TTACCACATTTGATAGTGAA+TGG 0.520029 2.3:+60303645 MS.gene74579:CDS
GTCCGGAGCGTAAAGCTTGA+GGG 0.522158 2.3:-60303526 None:intergenic
GGTTTGTTGTGTGGTGCTGA+TGG 0.525144 2.3:+60303621 MS.gene74579:CDS
TTTGAGTTTACATCGTTGGT+TGG 0.526095 2.3:-60303351 None:intergenic
ATGTCGGCGACAGCGGGGAG+TGG 0.529776 2.3:-60303426 None:intergenic
TGGTGTTAGGCCGGAGATGT+CGG 0.530079 2.3:-60303442 None:intergenic
ATCCCTCAAGCTTTACGCTC+CGG 0.532519 2.3:+60303524 MS.gene74579:CDS
TGGGGTGAGTTTATCACACC+AGG 0.538935 2.3:+60303681 MS.gene74579:CDS
TTTCCTGGTTTGTGCTGCAG+TGG 0.546017 2.3:-60303326 None:intergenic
TGTCCGGAGCGTAAAGCTTG+AGG 0.548573 2.3:-60303527 None:intergenic
GCCGGAGATGTCGGCGACAG+CGG 0.552371 2.3:-60303433 None:intergenic
CAGTTGAGAAAACCAAAAGA+AGG 0.554512 2.3:+60303577 MS.gene74579:CDS
GCTTATAGAGAGTTGTTGAA+TGG 0.572883 2.3:+60303861 MS.gene74579:CDS
CCAAACCCACCTCAACCCTA+AGG 0.583142 2.3:+60303262 MS.gene74579:CDS
TGAATGGTGATCAAAGACAT+TGG 0.591211 2.3:+60303661 MS.gene74579:CDS
AAAACCAATCTAGAAGCAAG+TGG 0.593997 2.3:-60303813 None:intergenic
TTTGATAACTATGGAAAACA+AGG 0.596332 2.3:+60303600 MS.gene74579:CDS
CATCCACTGCAGCACAAACC+AGG 0.598637 2.3:+60303323 MS.gene74579:CDS
CGGGGAGTGGTGATGAGATG+AGG 0.601172 2.3:-60303413 None:intergenic
TCACCATTCACTATCAAATG+TGG 0.665222 2.3:-60303648 None:intergenic
GAATGGTGAACTCATTGCCA+AGG 0.676808 2.3:+60303878 MS.gene74579:CDS
GGAAAACAAGGTTTGTTGTG+TGG 0.679016 2.3:+60303612 MS.gene74579:CDS
GGGGTGAGTTTATCACACCA+GGG 0.698649 2.3:+60303682 MS.gene74579:CDS
AATGGTGATCAAAGACATTG+GGG 0.721922 2.3:+60303663 MS.gene74579:CDS
CGGAGATGTCGGCGACAGCG+GGG 0.724582 2.3:-60303431 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATATTGTTTTTGTATATTGC+TGG + chr2.3:60303705-60303724 MS.gene74579:CDS 20.0%
! ATAATAATCTCTTTCTGTGT+AGG - chr2.3:60303786-60303805 None:intergenic 25.0%
! ATATACAAAAACAATATCCC+TGG - chr2.3:60303702-60303721 None:intergenic 25.0%
!! AAAAGAAGGTTTGATAACTA+TGG + chr2.3:60303591-60303610 MS.gene74579:CDS 25.0%
!! ATAGTTATCAAACCTTCTTT+TGG - chr2.3:60303592-60303611 None:intergenic 25.0%
!! TTTGATAACTATGGAAAACA+AGG + chr2.3:60303600-60303619 MS.gene74579:CDS 25.0%
! TAGATTTGAGTTTACATCGT+TGG - chr2.3:60303358-60303377 None:intergenic 30.0%
!! TGTTTTTGTATATTGCTGGT+TGG + chr2.3:60303709-60303728 MS.gene74579:CDS 30.0%
!! TTACCACATTTGATAGTGAA+TGG + chr2.3:60303645-60303664 MS.gene74579:CDS 30.0%
!!! AATTGTTTTGATTCTCTGCA+TGG - chr2.3:60303465-60303484 None:intergenic 30.0%
!!! CTTCTAGATTGGTTTTTAGA+GGG + chr2.3:60303820-60303839 MS.gene74579:CDS 30.0%
!!! TTTCTCAACTGTTGCTTTTA+TGG - chr2.3:60303568-60303587 None:intergenic 30.0%
!!! TTTGGTTTTTGAGGTAGTTT+TGG - chr2.3:60303288-60303307 None:intergenic 30.0%
AAAACCAATCTAGAAGCAAG+TGG - chr2.3:60303816-60303835 None:intergenic 35.0%
AACTCTCTATAAGCAGCAAT+AGG - chr2.3:60303855-60303874 None:intergenic 35.0%
AATGGTGATCAAAGACATTG+GGG + chr2.3:60303663-60303682 MS.gene74579:CDS 35.0%
CAGTTGAGAAAACCAAAAGA+AGG + chr2.3:60303577-60303596 MS.gene74579:CDS 35.0%
GAATGGTGATCAAAGACATT+GGG + chr2.3:60303662-60303681 MS.gene74579:CDS 35.0%
GCTTATAGAGAGTTGTTGAA+TGG + chr2.3:60303861-60303880 MS.gene74579:CDS 35.0%
TCACCATTCACTATCAAATG+TGG - chr2.3:60303651-60303670 None:intergenic 35.0%
TGAATGGTGATCAAAGACAT+TGG + chr2.3:60303661-60303680 MS.gene74579:CDS 35.0%
! GATTGATTGTTTCTCACGTT+TGG - chr2.3:60303490-60303509 None:intergenic 35.0%
! TGTATATTGCTGGTTGGATT+GGG + chr2.3:60303715-60303734 MS.gene74579:CDS 35.0%
! TTGTATATTGCTGGTTGGAT+TGG + chr2.3:60303714-60303733 MS.gene74579:CDS 35.0%
! TTTGAGTTTACATCGTTGGT+TGG - chr2.3:60303354-60303373 None:intergenic 35.0%
!! ATGATGTTGGTTGAGAGTTT+TGG - chr2.3:60303306-60303325 None:intergenic 35.0%
!!! GCTTCTAGATTGGTTTTTAG+AGG + chr2.3:60303819-60303838 MS.gene74579:CDS 35.0%
!!! GTTGAGAGTTTTGGTTTTTG+AGG - chr2.3:60303297-60303316 None:intergenic 35.0%
TGTTCCACTTGCTTCTAGAT+TGG + chr2.3:60303809-60303828 MS.gene74579:CDS 40.0%
TTGATTCTCTGCATGGTGTT+AGG - chr2.3:60303458-60303477 None:intergenic 40.0%
!! GGAAAACAAGGTTTGTTGTG+TGG + chr2.3:60303612-60303631 MS.gene74579:CDS 40.0%
!! TGGTTTTTAGAGGGTTCAGT+TGG + chr2.3:60303829-60303848 MS.gene74579:CDS 40.0%
!!! TTGAGGTAGTTTTGGCCTTA+GGG - chr2.3:60303280-60303299 None:intergenic 40.0%
!!! TTTGAGGTAGTTTTGGCCTT+AGG - chr2.3:60303281-60303300 None:intergenic 40.0%
GAATGGTGAACTCATTGCCA+AGG + chr2.3:60303878-60303897 MS.gene74579:CDS 45.0%
! ATATTGCTGGTTGGATTGGG+TGG + chr2.3:60303718-60303737 MS.gene74579:CDS 45.0%
! TATTGCTGGTTGGATTGGGT+GGG + chr2.3:60303719-60303738 MS.gene74579:CDS 45.0%
!!! CATCGTTGGTTGGTTTTTCC+TGG - chr2.3:60303344-60303363 None:intergenic 45.0%
!!! TAGTTTTGGCCTTAGGGTTG+AGG - chr2.3:60303274-60303293 None:intergenic 45.0%
ATCCCTCAAGCTTTACGCTC+CGG + chr2.3:60303524-60303543 MS.gene74579:CDS 50.0%
GGGGTGAGTTTATCACACCA+GGG + chr2.3:60303682-60303701 MS.gene74579:CDS 50.0%
GTGGGTTTGGAGAGGTTAGT+TGG - chr2.3:60303252-60303271 None:intergenic 50.0%
TGGGGTGAGTTTATCACACC+AGG + chr2.3:60303681-60303700 MS.gene74579:CDS 50.0%
TGTGCTGCAGTGGATGATGT+TGG - chr2.3:60303319-60303338 None:intergenic 50.0%
! TTCTCTGCATGGTGTTAGGC+CGG - chr2.3:60303454-60303473 None:intergenic 50.0%
! TTTCCTGGTTTGTGCTGCAG+TGG - chr2.3:60303329-60303348 None:intergenic 50.0%
!! GGTTTGTTGTGTGGTGCTGA+TGG + chr2.3:60303621-60303640 MS.gene74579:CDS 50.0%
!! TTTGGCCTTAGGGTTGAGGT+GGG - chr2.3:60303270-60303289 None:intergenic 50.0%
!!! TTTTGGCCTTAGGGTTGAGG+TGG - chr2.3:60303271-60303290 None:intergenic 50.0%
CATCCACTGCAGCACAAACC+AGG + chr2.3:60303323-60303342 MS.gene74579:CDS 55.0%
CCAAACCCACCTCAACCCTA+AGG + chr2.3:60303262-60303281 MS.gene74579:CDS 55.0%
GTCCGGAGCGTAAAGCTTGA+GGG - chr2.3:60303529-60303548 None:intergenic 55.0%
TGTCCGGAGCGTAAAGCTTG+AGG - chr2.3:60303530-60303549 None:intergenic 55.0%
! CCTTAGGGTTGAGGTGGGTT+TGG - chr2.3:60303265-60303284 None:intergenic 55.0%
! TGGTGTTAGGCCGGAGATGT+CGG - chr2.3:60303445-60303464 None:intergenic 55.0%
!!! GTTGCTTTTATGGCCAGCGC+TGG - chr2.3:60303558-60303577 None:intergenic 55.0%
! CGGGGAGTGGTGATGAGATG+AGG - chr2.3:60303416-60303435 None:intergenic 60.0%
! GCTGGTTGGATTGGGTGGGT+TGG + chr2.3:60303723-60303742 MS.gene74579:CDS 60.0%
! GGGTTGAGGTGGGTTTGGAG+AGG - chr2.3:60303260-60303279 None:intergenic 60.0%
!! GTTGGATTGGGTGGGTTGGC+AGG + chr2.3:60303727-60303746 MS.gene74579:CDS 60.0%
ATGTCGGCGACAGCGGGGAG+TGG - chr2.3:60303429-60303448 None:intergenic 70.0%
CCCGCTGTCGCCGACATCTC+CGG + chr2.3:60303432-60303451 MS.gene74579:CDS 70.0%
CCGGAGATGTCGGCGACAGC+GGG - chr2.3:60303435-60303454 None:intergenic 70.0%
CGGAGATGTCGGCGACAGCG+GGG - chr2.3:60303434-60303453 None:intergenic 70.0%
GCCGGAGATGTCGGCGACAG+CGG - chr2.3:60303436-60303455 None:intergenic 70.0%
TCCGGACAGCGCTCCAGCGC+TGG + chr2.3:60303542-60303561 MS.gene74579:CDS 75.0%
!! GCCAGCGCTGGAGCGCTGTC+CGG - chr2.3:60303546-60303565 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 60303234 60303908 60303234 ID=MS.gene74579
chr2.3 mRNA 60303234 60303908 60303234 ID=MS.gene74579.t1;Parent=MS.gene74579
chr2.3 exon 60303234 60303908 60303234 ID=MS.gene74579.t1.exon1;Parent=MS.gene74579.t1
chr2.3 CDS 60303234 60303908 60303234 ID=cds.MS.gene74579.t1;Parent=MS.gene74579.t1
Gene Sequence

>MS.gene74579

ATGTCTCTAACAATTCCAACTAACCTCTCCAAACCCACCTCAACCCTAAGGCCAAAACTACCTCAAAAACCAAAACTCTCAACCAACATCATCCACTGCAGCACAAACCAGGAAAAACCAACCAACGATGTAAACTCAAATCTAAAAGCATTCTCAGCTGCACTAGCACTCTCATCAATCCTCATCTCATCACCACTCCCCGCTGTCGCCGACATCTCCGGCCTAACACCATGCAGAGAATCAAAACAATTCGCCAAACGTGAGAAACAATCAATCAAAAAGCTTGAATCATCCCTCAAGCTTTACGCTCCGGACAGCGCTCCAGCGCTGGCCATAAAAGCAACAGTTGAGAAAACCAAAAGAAGGTTTGATAACTATGGAAAACAAGGTTTGTTGTGTGGTGCTGATGGTTTACCACATTTGATAGTGAATGGTGATCAAAGACATTGGGGTGAGTTTATCACACCAGGGATATTGTTTTTGTATATTGCTGGTTGGATTGGGTGGGTTGGCAGGAGTTACTTGATTGCTATTCGTGACGAGAAGAAACCTACACAGAAAGAGATTATTATTGATGTTCCACTTGCTTCTAGATTGGTTTTTAGAGGGTTCAGTTGGCCTATTGCTGCTTATAGAGAGTTGTTGAATGGTGAACTCATTGCCAAGGATGTCTAA

Protein sequence

>MS.gene74579.t1

MSLTIPTNLSKPTSTLRPKLPQKPKLSTNIIHCSTNQEKPTNDVNSNLKAFSAALALSSILISSPLPAVADISGLTPCRESKQFAKREKQSIKKLESSLKLYAPDSAPALAIKATVEKTKRRFDNYGKQGLLCGADGLPHLIVNGDQRHWGEFITPGILFLYIAGWIGWVGRSYLIAIRDEKKPTQKEIIIDVPLASRLVFRGFSWPIAAYRELLNGELIAKDV