AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36140

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36140.t1 MTR_4g094242 100.000 147 0 0 1 147 1 147 1.02e-101 288
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36140.t1 AT5G64180 79.286 140 29 0 8 147 10 149 1.37e-69 207
MS.gene36140.t1 AT5G64180 79.286 140 29 0 8 147 10 149 1.37e-69 207

Find 25 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCTTCGGCTTGTCGTTTCT+CGG 0.286319 4.2:-18998467 None:intergenic
TGATAATGATATTAAGCTTT+TGG 0.294840 4.2:+18998713 MS.gene36140:CDS
AGCGCGAGCGGCGGCGGTGA+TGG 0.397256 4.2:-18998440 None:intergenic
GGAACGAGCGCGAGCGGCGG+CGG 0.415630 4.2:-18998446 None:intergenic
AGAGGTGTTTGAGTTGCATA+TGG 0.431731 4.2:+18998653 MS.gene36140:intron
GGCGTCGAGTTCTCGTTCTA+AGG 0.445222 4.2:-18998416 None:intergenic
TTTGATAGTGCGGGCTTGAT+CGG 0.446495 4.2:-18998371 None:intergenic
AAGTCGTTGAGAGATGGATT+CGG 0.469234 4.2:+18998210 None:intergenic
AGCGGCTTTCTGTGACGCTT+CGG 0.485423 4.2:-18998482 None:intergenic
GCTATTATCCAAACGCTTGG+TGG 0.487329 4.2:+18998738 MS.gene36140:CDS
GGCTTGATCGGCGGCGAGAG+AGG 0.490699 4.2:-18998359 None:intergenic
ATCGAGGAGTTTGATAGTGC+GGG 0.500242 4.2:-18998380 None:intergenic
CTCGGAACGAGCGCGAGCGG+CGG 0.505434 4.2:-18998449 None:intergenic
GCGAGCGGCGGCGGTGATGG+CGG 0.515286 4.2:-18998437 None:intergenic
GTCGTCGACGAAAACAGCTT+TGG 0.515580 4.2:-18998320 None:intergenic
CGGATTCGAAAGGAGAAAGA+TGG 0.528818 4.2:+18998230 MS.gene36140:CDS
GAAGCTATTATCCAAACGCT+TGG 0.530020 4.2:+18998735 MS.gene36140:CDS
CGAGTTCTCGTTCTAAGGTG+TGG 0.570651 4.2:-18998411 None:intergenic
TTTCTCGGAACGAGCGCGAG+CGG 0.570899 4.2:-18998452 None:intergenic
AGGTGTGGACGCGTTGATCG+AGG 0.581765 4.2:-18998396 None:intergenic
TTCAAGAGCGCGTAATTCAG+CGG 0.601000 4.2:-18998500 None:intergenic
GATAGTGCGGGCTTGATCGG+CGG 0.606803 4.2:-18998368 None:intergenic
GATCGAGGAGTTTGATAGTG+CGG 0.631084 4.2:-18998381 None:intergenic
TCGAAAGGAGAAAGATGGAG+CGG 0.658226 4.2:+18998235 MS.gene36140:CDS
GAGATGGATTCGGATTCGAA+AGG 0.675806 4.2:+18998220 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CGAAATTAGGATTAATAATT+AGG - chr4.2:18998568-18998587 None:intergenic 20.0%
!!! GGTTTCTGATTTTTTTAATA+CGG + chr4.2:18998629-18998648 MS.gene36140:intron 20.0%
!!! TGATAATGATATTAAGCTTT+TGG + chr4.2:18998713-18998732 MS.gene36140:CDS 20.0%
! CAATAACTCAATTCGAAATT+AGG - chr4.2:18998581-18998600 None:intergenic 25.0%
!!! TGATTTTTTTAATACGGTAG+AGG + chr4.2:18998635-18998654 MS.gene36140:intron 25.0%
AGGTTAATAGTACTTACTTG+TGG - chr4.2:18998548-18998567 None:intergenic 30.0%
TGATTGGAGAAGTTAATTGA+TGG + chr4.2:18998608-18998627 MS.gene36140:intron 30.0%
GAGTTATTGTGATCTGTGAT+TGG + chr4.2:18998592-18998611 MS.gene36140:intron 35.0%
GAAGCTATTATCCAAACGCT+TGG + chr4.2:18998735-18998754 MS.gene36140:CDS 40.0%
! ATTCTTTTCCACCAAGCGTT+TGG - chr4.2:18998749-18998768 None:intergenic 40.0%
!! AGAGGTGTTTGAGTTGCATA+TGG + chr4.2:18998653-18998672 MS.gene36140:intron 40.0%
!!! TGTGGTGTTTTCGAGTTCTT+TGG - chr4.2:18998530-18998549 None:intergenic 40.0%
CGGATTCGAAAGGAGAAAGA+TGG + chr4.2:18998230-18998249 MS.gene36140:CDS 45.0%
GCTATTATCCAAACGCTTGG+TGG + chr4.2:18998738-18998757 MS.gene36140:CDS 45.0%
TCGAAAGGAGAAAGATGGAG+CGG + chr4.2:18998235-18998254 MS.gene36140:CDS 45.0%
! TTCAAGAGCGCGTAATTCAG+CGG - chr4.2:18998503-18998522 None:intergenic 45.0%
!! ATCGAGGAGTTTGATAGTGC+GGG - chr4.2:18998383-18998402 None:intergenic 45.0%
!! GATCGAGGAGTTTGATAGTG+CGG - chr4.2:18998384-18998403 None:intergenic 45.0%
!! TTTGATAGTGCGGGCTTGAT+CGG - chr4.2:18998374-18998393 None:intergenic 45.0%
GTCGTCGACGAAAACAGCTT+TGG - chr4.2:18998323-18998342 None:intergenic 50.0%
!! CGAGTTCTCGTTCTAAGGTG+TGG - chr4.2:18998414-18998433 None:intergenic 50.0%
AGCGGCTTTCTGTGACGCTT+CGG - chr4.2:18998485-18998504 None:intergenic 55.0%
! CGCTTCGGCTTGTCGTTTCT+CGG - chr4.2:18998470-18998489 None:intergenic 55.0%
! GGCGTCGAGTTCTCGTTCTA+AGG - chr4.2:18998419-18998438 None:intergenic 55.0%
GATAGTGCGGGCTTGATCGG+CGG - chr4.2:18998371-18998390 None:intergenic 60.0%
TTTCTCGGAACGAGCGCGAG+CGG - chr4.2:18998455-18998474 None:intergenic 60.0%
! AGGTGTGGACGCGTTGATCG+AGG - chr4.2:18998399-18998418 None:intergenic 60.0%
GGCTTGATCGGCGGCGAGAG+AGG - chr4.2:18998362-18998381 None:intergenic 70.0%
CTCGGAACGAGCGCGAGCGG+CGG - chr4.2:18998452-18998471 None:intergenic 75.0%
! AGCGCGAGCGGCGGCGGTGA+TGG - chr4.2:18998443-18998462 None:intergenic 80.0%
! GGAACGAGCGCGAGCGGCGG+CGG - chr4.2:18998449-18998468 None:intergenic 80.0%
!! GCGAGCGGCGGCGGTGATGG+CGG - chr4.2:18998440-18998459 None:intergenic 80.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 18998223 18998770 18998223 ID=MS.gene36140
chr4.2 mRNA 18998223 18998770 18998223 ID=MS.gene36140.t1;Parent=MS.gene36140
chr4.2 exon 18998223 18998550 18998223 ID=MS.gene36140.t1.exon1;Parent=MS.gene36140.t1
chr4.2 CDS 18998223 18998550 18998223 ID=cds.MS.gene36140.t1;Parent=MS.gene36140.t1
chr4.2 exon 18998655 18998770 18998655 ID=MS.gene36140.t1.exon2;Parent=MS.gene36140.t1
chr4.2 CDS 18998655 18998770 18998655 ID=cds.MS.gene36140.t1;Parent=MS.gene36140.t1
Gene Sequence

>MS.gene36140

ATGGATTCGGATTCGAAAGGAGAAAGATGGAGCGGAGCGATGACGAATCTATCAGAAATGAGTTCAAATCTCGAATCTCTTCAGAAGCTTCTTCTCACCAAAGCTGTTTTCGTCGACGACGATACTTTCTCTAAAGCCTCTCTCGCCGCCGATCAAGCCCGCACTATCAAACTCCTCGATCAACGCGTCCACACCTTAGAACGAGAACTCGACGCCGCCATCACCGCCGCCGCTCGCGCTCGTTCCGAGAAACGACAAGCCGAAGCGTCACAGAAAGCCGCTGAATTACGCGCTCTTGAAGTCACCAAAGAACTCGAAAACACCACAAGTAAGTACTATTAACCTAATTATTAATCCTAATTTCGAATTGAGTTATTGTGATCTGTGATTGGAGAAGTTAATTGATGGTTTCTGATTTTTTTAATACGGTAGAGGTGTTTGAGTTGCATATGGAAGAACTGCGTGCAAAACAAGAAGAAATTACGAAGCGTGATAATGATATTAAGCTTTTGGAAGCTATTATCCAAACGCTTGGTGGAAAAGAATGA
Protein sequence

>MS.gene36140.t1

MDSDSKGERWSGAMTNLSEMSSNLESLQKLLLTKAVFVDDDTFSKASLAADQARTIKLLDQRVHTLERELDAAITAAARARSEKRQAEASQKAAELRALEVTKELENTTKVFELHMEELRAKQEEITKRDNDIKLLEAIIQTLGGKE