AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33384


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33384.t1 MTR_0147s0070 100.000 95 0 0 1 95 1 95 3.99e-65 191
MS.gene33384.t1 MTR_2g101900 96.809 94 3 0 1 94 1 94 1.39e-62 184
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33384.t1 AT1G52300 89.362 94 10 0 1 94 1 94 1.65e-57 172
MS.gene33384.t1 AT3G16080 88.298 94 11 0 1 94 1 94 4.05e-57 171
MS.gene33384.t1 AT1G15250 87.368 95 12 0 1 95 1 95 7.25e-57 170
MS.gene33384.t1 AT1G15250 87.368 95 12 0 1 95 1 95 7.25e-57 170
MS.gene33384.t1 AT3G16080 93.333 45 3 0 1 45 1 45 9.42e-25 89.0

Find 28 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCAGCTGCTCCCTTGTTCC+TGG 0.247813 4.2:+87835482 None:intergenic
ACTGGAGTGAGAAGGCTATT+AGG 0.322324 4.2:-87836504 MS.gene33384:CDS
ATTGTGTGATTTCAGATAAC+TGG 0.324608 4.2:-87836522 MS.gene33384:intron
ATGCTGAGCAGCGACTCTTC+TGG 0.400063 4.2:+87836733 None:intergenic
AGACCCACACACTCTGTGTT+AGG 0.433282 4.2:-87836779 MS.gene33384:CDS
GCAGCTGCTCCCTTGTTCCT+GGG 0.437974 4.2:+87835483 None:intergenic
CTTATCCAGCTGCACGTGTC+AGG 0.448216 4.2:-87836707 MS.gene33384:CDS
GGTAAGGGAACAGGCAGTTT+CGG 0.454393 4.2:-87836816 MS.gene33384:CDS
AGGAGAAAGACCACTGGAAC+TGG 0.467139 4.2:-87836484 MS.gene33384:CDS
CATTTCCTGACACGTGCAGC+TGG 0.473916 4.2:+87836702 None:intergenic
TGAAGCTGCACCCAGGAACA+AGG 0.550050 4.2:-87835493 MS.gene33384:CDS
AGCAGCGACTCTTCTGGAGA+TGG 0.555977 4.2:+87836739 None:intergenic
CACACCTAACACAGAGTGTG+TGG 0.573805 4.2:+87836775 None:intergenic
TTCAAGAGTGGATTCAGAGA+AGG 0.583941 4.2:-87836427 MS.gene33384:intron
TTCAGATAACTGGAGTGAGA+AGG 0.609846 4.2:-87836512 MS.gene33384:intron
CAGGCAGTTTCGGTAAGAGA+AGG 0.615161 4.2:-87836806 MS.gene33384:CDS
CCACTGGAACTGGTAGGATG+AGG 0.619264 4.2:-87836474 MS.gene33384:CDS
GCTATTAGGAGAAAGACCAC+TGG 0.627964 4.2:-87836490 MS.gene33384:CDS
CTGGTAGGATGAGGTACTTG+AGG 0.643276 4.2:-87836465 MS.gene33384:CDS
CACACACTCTGTGTTAGGTG+TGG 0.644280 4.2:-87836774 MS.gene33384:CDS
GAAAGACCACTGGAACTGGT+AGG 0.652178 4.2:-87836480 MS.gene33384:CDS
GAAGCTGCACCCAGGAACAA+GGG 0.652652 4.2:-87835492 MS.gene33384:CDS
TCTGGAGATGGAAACTGCGA+CGG 0.655757 4.2:+87836751 None:intergenic
CCTCATCCTACCAGTTCCAG+TGG 0.656605 4.2:+87836474 None:intergenic
CAGGTACTGAAGCTGCACCC+AGG 0.673244 4.2:-87835500 MS.gene33384:CDS
ACACCTAACACAGAGTGTGT+GGG 0.685746 4.2:+87836776 None:intergenic
GTGCCTCGCAGATTCAAGAG+TGG 0.690811 4.2:-87836439 MS.gene33384:CDS
AATCCACTCTTGAATCTGCG+AGG 0.695196 4.2:+87836436 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAATTTGATTTTTGTATTT+GGG - chr4.2:87835877-87835896 MS.gene33384:intron 10.0%
!! TTGAAAAAACCTAATAAAAA+TGG - chr4.2:87836525-87836544 MS.gene33384:intron 15.0%
!! TTTGTTGATATGATTATTAT+TGG - chr4.2:87836901-87836920 MS.gene33384:intron 15.0%
!!! ATTTTTGTGTTTTTAGATTT+AGG - chr4.2:87835800-87835819 MS.gene33384:intron 15.0%
!!! CAAAATTTGATTTTTGTATT+TGG - chr4.2:87835876-87835895 MS.gene33384:intron 15.0%
!!! TTCTAGAATTATCATTTTTT+TGG - chr4.2:87836195-87836214 MS.gene33384:intron 15.0%
!!! TTTTTGTGTTTTTAGATTTA+GGG - chr4.2:87835801-87835820 MS.gene33384:intron 15.0%
!! ATTTAATTGATTGATCAATC+AGG - chr4.2:87836165-87836184 MS.gene33384:intron 20.0%
!! TACAACTAAATAAAGAGATT+TGG + chr4.2:87836336-87836355 None:intergenic 20.0%
!!! ATTATTGAATGATTTTTGCA+GGG - chr4.2:87835593-87835612 MS.gene33384:intron 20.0%
!!! ATTTTGACATGTTTTACTAT+AGG - chr4.2:87836711-87836730 MS.gene33384:CDS 20.0%
!!! GTTTTTTGATTTTCGAAAAT+GGG - chr4.2:87835846-87835865 MS.gene33384:intron 20.0%
!!! TGTTTTTTGATTTTCGAAAA+TGG - chr4.2:87835845-87835864 MS.gene33384:intron 20.0%
!!! TTTGTTCGATTTTAGAAAAT+GGG - chr4.2:87835760-87835779 MS.gene33384:intron 20.0%
!!! TTTTGTTCGATTTTAGAAAA+TGG - chr4.2:87835759-87835778 MS.gene33384:intron 20.0%
! ATTCACATAAAACAGAGATT+TGG + chr4.2:87836755-87836774 None:intergenic 25.0%
!! GATTATTGAATGATTTTTGC+AGG - chr4.2:87835592-87835611 MS.gene33384:intron 25.0%
!! TGATTATTATTGGTTAAACC+AGG - chr4.2:87836911-87836930 MS.gene33384:intron 25.0%
!!! AGCTTATGACCATTTTTATT+AGG + chr4.2:87836537-87836556 None:intergenic 25.0%
!!! GTTACTAAATGAGTTGATTT+AGG - chr4.2:87836306-87836325 MS.gene33384:intron 25.0%
!!! TTAGTTGTAGCAACTTTTTT+GGG - chr4.2:87836347-87836366 MS.gene33384:intron 25.0%
!!! TTCTGAGTTGTTATTTTTTC+TGG - chr4.2:87836870-87836889 MS.gene33384:intron 25.0%
!!! TTTAGTTGTAGCAACTTTTT+TGG - chr4.2:87836346-87836365 MS.gene33384:intron 25.0%
AATTTAGATCAGTTGGATCT+TGG - chr4.2:87836623-87836642 MS.gene33384:intron 30.0%
ATTGTGTGATTTCAGATAAC+TGG - chr4.2:87835908-87835927 MS.gene33384:intron 30.0%
! AGGTTCTAATTTAGATCAGT+TGG - chr4.2:87836616-87836635 MS.gene33384:intron 30.0%
! CTTTTGTTAGCATGATTGTA+TGG - chr4.2:87836831-87836850 MS.gene33384:intron 30.0%
! TAGATTTAGGGTTTAAGTTC+AGG - chr4.2:87835813-87835832 MS.gene33384:intron 30.0%
GATCTAAATTAGAACCTGCA+TGG + chr4.2:87836613-87836632 None:intergenic 35.0%
GTGCTAGAAAAACTAAACAC+AGG + chr4.2:87836051-87836070 None:intergenic 35.0%
TCAAATAAAGCAATCCATGC+AGG - chr4.2:87836596-87836615 MS.gene33384:intron 35.0%
TCAGACACTGTAATGAAACT+GGG + chr4.2:87835569-87835588 None:intergenic 35.0%
TTCAGACACTGTAATGAAAC+TGG + chr4.2:87835570-87835589 None:intergenic 35.0%
! GAATGATTTTTGCAGGGTAA+GGG - chr4.2:87835599-87835618 MS.gene33384:intron 35.0%
! TAGGGTTTAAGTTCAGGAAA+TGG - chr4.2:87835819-87835838 MS.gene33384:intron 35.0%
! TGAATGATTTTTGCAGGGTA+AGG - chr4.2:87835598-87835617 MS.gene33384:intron 35.0%
CAGACACTGTAATGAAACTG+GGG + chr4.2:87835568-87835587 None:intergenic 40.0%
TTCAGATAACTGGAGTGAGA+AGG - chr4.2:87835918-87835937 MS.gene33384:intron 40.0%
! AGTTGGATCTTGGTTCTTGT+AGG - chr4.2:87836633-87836652 MS.gene33384:intron 40.0%
! CTGTAATGAAACTGGGGTTT+TGG + chr4.2:87835562-87835581 None:intergenic 40.0%
! TTCAAGAGTGGATTCAGAGA+AGG - chr4.2:87836003-87836022 MS.gene33384:intron 40.0%
AATCCACTCTTGAATCTGCG+AGG + chr4.2:87835997-87836016 None:intergenic 45.0%
ACACCTAACACAGAGTGTGT+GGG + chr4.2:87835657-87835676 None:intergenic 45.0%
ACTGGAGTGAGAAGGCTATT+AGG - chr4.2:87835926-87835945 MS.gene33384:intron 45.0%
GCTATTAGGAGAAAGACCAC+TGG - chr4.2:87835940-87835959 MS.gene33384:intron 45.0%
! TTTTTGCAGGGTAAGGGAAC+AGG - chr4.2:87835605-87835624 MS.gene33384:intron 45.0%
!!! AAACTGGGGTTTTGGATCGA+AGG + chr4.2:87835554-87835573 None:intergenic 45.0%
AGACCCACACACTCTGTGTT+AGG - chr4.2:87835651-87835670 MS.gene33384:intron 50.0%
AGAGAGAGAGAGAGAGAGAG+AGG + chr4.2:87835495-87835514 None:intergenic 50.0%
AGGAGAAAGACCACTGGAAC+TGG - chr4.2:87835946-87835965 MS.gene33384:intron 50.0%
CACACACTCTGTGTTAGGTG+TGG - chr4.2:87835656-87835675 MS.gene33384:intron 50.0%
CACACCTAACACAGAGTGTG+TGG + chr4.2:87835658-87835677 None:intergenic 50.0%
CAGGCAGTTTCGGTAAGAGA+AGG - chr4.2:87835624-87835643 MS.gene33384:intron 50.0%
GAAAGACCACTGGAACTGGT+AGG - chr4.2:87835950-87835969 MS.gene33384:intron 50.0%
GGTAAGGGAACAGGCAGTTT+CGG - chr4.2:87835614-87835633 MS.gene33384:intron 50.0%
TCTGGAGATGGAAACTGCGA+CGG + chr4.2:87835682-87835701 None:intergenic 50.0%
! CTGGTAGGATGAGGTACTTG+AGG - chr4.2:87835965-87835984 MS.gene33384:intron 50.0%
ATGCTGAGCAGCGACTCTTC+TGG + chr4.2:87835700-87835719 None:intergenic 55.0%
CATTTCCTGACACGTGCAGC+TGG + chr4.2:87835731-87835750 None:intergenic 55.0%
CCACTGGAACTGGTAGGATG+AGG - chr4.2:87835956-87835975 MS.gene33384:intron 55.0%
CCTCATCCTACCAGTTCCAG+TGG + chr4.2:87835959-87835978 None:intergenic 55.0%
CTTATCCAGCTGCACGTGTC+AGG - chr4.2:87835723-87835742 MS.gene33384:intron 55.0%
GAAGCTGCACCCAGGAACAA+GGG - chr4.2:87836938-87836957 MS.gene33384:intron 55.0%
GTGCCTCGCAGATTCAAGAG+TGG - chr4.2:87835991-87836010 MS.gene33384:intron 55.0%
TGAAGCTGCACCCAGGAACA+AGG - chr4.2:87836937-87836956 MS.gene33384:intron 55.0%
! AGCAGCGACTCTTCTGGAGA+TGG + chr4.2:87835694-87835713 None:intergenic 55.0%
AGCAGCTGCTCCCTTGTTCC+TGG + chr4.2:87836951-87836970 None:intergenic 60.0%
CTGGGTGCAGCTTCAGTACC+TGG + chr4.2:87836932-87836951 None:intergenic 60.0%
GCAGCTGCTCCCTTGTTCCT+GGG + chr4.2:87836950-87836969 None:intergenic 60.0%
!! CAGGTACTGAAGCTGCACCC+AGG - chr4.2:87836930-87836949 MS.gene33384:intron 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 87835473 87836979 87835473 ID=MS.gene33384
chr4.2 mRNA 87835473 87836979 87835473 ID=MS.gene33384.t1;Parent=MS.gene33384
chr4.2 exon 87836977 87836979 87836977 ID=MS.gene33384.t1.exon1;Parent=MS.gene33384.t1
chr4.2 CDS 87836977 87836979 87836977 ID=cds.MS.gene33384.t1;Parent=MS.gene33384.t1
chr4.2 exon 87836703 87836838 87836703 ID=MS.gene33384.t1.exon2;Parent=MS.gene33384.t1
chr4.2 CDS 87836703 87836838 87836703 ID=cds.MS.gene33384.t1;Parent=MS.gene33384.t1
chr4.2 exon 87836428 87836529 87836428 ID=MS.gene33384.t1.exon3;Parent=MS.gene33384.t1
chr4.2 CDS 87836428 87836529 87836428 ID=cds.MS.gene33384.t1;Parent=MS.gene33384.t1
chr4.2 exon 87835473 87835519 87835473 ID=MS.gene33384.t1.exon4;Parent=MS.gene33384.t1
chr4.2 CDS 87835473 87835519 87835473 ID=cds.MS.gene33384.t1;Parent=MS.gene33384.t1
Gene Sequence

>MS.gene33384

ATGGTACTTTGCATTCTCTCTCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCTTCGATCCAAAACCCCAGTTTCATTACAGTGTCTGAATCGATTATTGAATGATTTTTGCAGGGTAAGGGAACAGGCAGTTTCGGTAAGAGAAGGAACAAGACCCACACACTCTGTGTTAGGTGTGGCCGTCGCAGTTTCCATCTCCAGAAGAGTCGCTGCTCAGCATGTGCTTATCCAGCTGCACGTGTCAGGAAATGTAAGTTTTTTTTGTTCGATTTTAGAAAATGGGTTTAGTGTCAAAATTCGATTTTTGTGTTTTTAGATTTAGGGTTTAAGTTCAGGAAATGGAAGTGTTTTTTGATTTTCGAAAATGGGTTTTTGTCAAAATTTGATTTTTGTATTTGGGCGTTTTGTATTGTGTGATTTCAGATAACTGGAGTGAGAAGGCTATTAGGAGAAAGACCACTGGAACTGGTAGGATGAGGTACTTGAGGAACGTGCCTCGCAGATTCAAGAGTGGATTCAGAGAAGGTAATTCTTTCTTTAAACAATTTCCTGTGTTTAGTTTTTCTAGCACGTGCAATGCTTTAAATGTATACTAATTAAGCAATAATTTATGAATCAATAGATGAATAACTGTTAAGTTCATAAAGTAAAATGTTTTGTATTTGATTTAATTGATTGATCAATCAGGATGATTTTTCTAGAATTATCATTTTTTTGGTACGCTAGAATGAGCAACTTTACAATATGATTTAATTGATAATATCATTATCAATAGATGAATGACTGTTAAGCTTAAACTTCTGTGTGTTACTAAATGAGTTGATTTAGGAGAGCCAAATCTCTTTATTTAGTTGTAGCAACTTTTTTGGGTTTGTGTTTTGTTAAAATGATTACAATGACTGCTGCTCATGTATAAGCTTGCATATGCTATTTTTAACAGCAAAAGAAAAAGTAACGTTAAATTATTTTTATATATCGTATAAGTTGTTTTATAAGCTATATTTAAGAAACTTGTGAAAAATAAGTTGAAAAAACCTAATAAAAATGGTCATAAGCTGTTTTCATAAGTTCTCACAACTTATTTTAGTAGATAAGTTCAAATAAAGCAATCCATGCAGGTTCTAATTTAGATCAGTTGGATCTTGGTTCTTGTAGGTGTGTTATTCTGTTTGTATTGAAACATTATTATGATTATAATACGTTAAATGTTAATTTTGACATGTTTTACTATAGGTGTGTTATTTTATAAGCGCCAAATCTCTGTTTTATGTGAATTATTTGTTTGTTTGTGTATTTTGCTAATGTGAGCTCTTTTAGTTCTGTTTTTTTAGCTTTTGTTAGCATGATTGTATGGAAGTAGTTAAATCACTTTCTGAGTTGTTATTTTTTCTGGAATATTTTTTTGTTGATATGATTATTATTGGTTAAACCAGGTACTGAAGCTGCACCCAGGAACAAGGGAGCAGCTGCTTCTACCTAA

Protein sequence

>MS.gene33384.t1

MGKGTGSFGKRRNKTHTLCVRCGRRSFHLQKSRCSACAYPAARVRKYNWSEKAIRRKTTGTGRMRYLRNVPRRFKSGFREGTEAAPRNKGAAAST