AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene95251

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95251.t1 MTR_7g053180 98.496 133 2 0 1 133 1 133 5.55e-96 272
MS.gene95251.t1 MTR_7g007920 96.992 133 4 0 1 133 1 133 3.33e-94 268
MS.gene95251.t1 MTR_8g085740 90.977 133 12 0 1 133 1 133 1.35e-87 251
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95251.t1 AT4G18100 87.970 133 16 0 1 133 1 133 1.03e-87 251
MS.gene95251.t1 AT5G46430 85.714 133 19 0 1 133 1 133 1.14e-86 248
MS.gene95251.t1 AT5G46430 85.714 133 19 0 1 133 1 133 1.14e-86 248

Find 31 sgRNAs with CRISPR-Local

Find 106 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTTGAACGTGCAGCTCAAT+TGG 0.326038 8.4:-60614424 MS.gene95251:CDS
TTGATGCCAAACATTGGATA+TGG 0.326130 8.4:-60614685 MS.gene95251:CDS
AGGGTATTGATTCCCGTGTT+AGG 0.396188 8.4:-60614729 MS.gene95251:CDS
ACAAACTTCTTGAATCCATT+TGG 0.404947 8.4:+60614634 None:intergenic
GCGCAACCTGGCGAGCTTGT+TGG 0.407725 8.4:+60614389 None:intergenic
TCTGAGCCATATCCAATGTT+TGG 0.407849 8.4:+60614679 None:intergenic
TGAATCCATTTGGCAGATAG+TGG 0.417879 8.4:+60614644 None:intergenic
TCATCAAAAGTTCTAAATCC+TGG 0.437819 8.4:+60614599 None:intergenic
GTTTGTTGTGCACAATGTCC+AGG 0.477032 8.4:-60614617 MS.gene95251:CDS
GCAAAGCTGGCGTAGGCCAA+AGG 0.477684 8.4:-60614749 MS.gene95251:CDS
TTGTCACCAACAAGCTCGCC+AGG 0.480042 8.4:-60614395 MS.gene95251:CDS
ACACGGGAATCAATACCCTT+TGG 0.483819 8.4:+60614733 None:intergenic
CAAAGCTGGCGTAGGCCAAA+GGG 0.488390 8.4:-60614748 MS.gene95251:CDS
AGCGTGTCAAGAGGTTCATC+AGG 0.489670 8.4:-60615850 MS.gene95251:CDS
ACCCGCCACTATCTGCCAAA+TGG 0.504178 8.4:-60614649 MS.gene95251:CDS
CTTTGAACTTACGCCTAACA+CGG 0.510702 8.4:+60614716 None:intergenic
GTTATGGTATGCAGCAAAGC+TGG 0.513607 8.4:-60614762 MS.gene95251:intron
CGTGTTAGGCGTAAGTTCAA+AGG 0.520936 8.4:-60614715 MS.gene95251:CDS
ACAATGTGTCAACCAGGAAA+AGG 0.530451 8.4:-60614455 MS.gene95251:CDS
GTTACTTTGATGCCAAACAT+TGG 0.535195 8.4:-60614691 MS.gene95251:CDS
TCATCAGGCCTCAAAGTGAC+AGG 0.536054 8.4:-60615835 MS.gene95251:CDS
TCCATTTGGCAGATAGTGGC+GGG 0.540014 8.4:+60614648 None:intergenic
GTCTTCTTGACTGCGCAACC+TGG 0.546687 8.4:+60614377 None:intergenic
ATCCATTTGGCAGATAGTGG+CGG 0.591907 8.4:+60614647 None:intergenic
ATAATCTTCTTAGTTAACAG+AGG 0.592831 8.4:+60615878 None:intergenic
TGACAGGAAAATATGTGTCA+AGG 0.606818 8.4:-60615819 MS.gene95251:intron
TTTGAACTTACGCCTAACAC+GGG 0.609080 8.4:+60614717 None:intergenic
GTATGCAGCAAAGCTGGCGT+AGG 0.627909 8.4:-60614756 MS.gene95251:intron
TGTGTCAACCAGGAAAAGGA+AGG 0.637655 8.4:-60614451 MS.gene95251:CDS
TTATCAAGAAGCGTGTCAAG+AGG 0.643611 8.4:-60615859 MS.gene95251:CDS
TCGCACACAATGTGTCAACC+AGG 0.659311 8.4:-60614461 MS.gene95251:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATTGTCAGTTTTTATTTTT+AGG - chr8.4:60614813-60614832 MS.gene95251:intron 15.0%
!!! ATTGTCAGTTTTTATTTTTA+GGG - chr8.4:60614814-60614833 MS.gene95251:intron 15.0%
!!! ATTTTGTTGTTATGTAAAAT+AGG + chr8.4:60615214-60615233 None:intergenic 15.0%
!!! TATTTTATATGATGTTCATT+TGG - chr8.4:60614739-60614758 MS.gene95251:CDS 15.0%
!! AACATGTAAAAGTAATAAGT+TGG - chr8.4:60614934-60614953 MS.gene95251:intron 20.0%
!! ACATGTAAAAGTAATAAGTT+GGG - chr8.4:60614935-60614954 MS.gene95251:intron 20.0%
!! GAATGAAAGTAAAGAATAAT+AGG + chr8.4:60615396-60615415 None:intergenic 20.0%
!! GTTATAATATAAGTCTTTCA+GGG - chr8.4:60614654-60614673 MS.gene95251:CDS 20.0%
!! TACAAATGCAATAGAAATAT+TGG + chr8.4:60615331-60615350 None:intergenic 20.0%
!! TGTTATAATATAAGTCTTTC+AGG - chr8.4:60614653-60614672 MS.gene95251:CDS 20.0%
!!! ATGTTTTTTTAAGTGTTGTA+AGG - chr8.4:60615109-60615128 MS.gene95251:intron 20.0%
!!! TTGTCAGTTTTTATTTTTAG+GGG - chr8.4:60614815-60614834 MS.gene95251:intron 20.0%
!!! TTTTAACATTGTTACTGTTA+TGG - chr8.4:60615480-60615499 MS.gene95251:intron 20.0%
! AGTAAAGAATAATAGGTAAC+AGG + chr8.4:60615389-60615408 None:intergenic 25.0%
! ATAATCTTCTTAGTTAACAG+AGG + chr8.4:60614383-60614402 None:intergenic 25.0%
! GTAAAGAATAATAGGTAACA+GGG + chr8.4:60615388-60615407 None:intergenic 25.0%
! GTAAGGATAACAAAGTAAAT+TGG - chr8.4:60615126-60615145 MS.gene95251:intron 25.0%
! GTTAAAATATTATAGACCCA+AGG + chr8.4:60615467-60615486 None:intergenic 25.0%
!! CTTTGTTTATTTACATCTTC+AGG - chr8.4:60615758-60615777 MS.gene95251:intron 25.0%
!! TTTTCTGTTTGGAAATTTGT+TGG - chr8.4:60614519-60614538 MS.gene95251:intron 25.0%
!!! AATTTTTTACAAGTTGAAGC+CGG - chr8.4:60614766-60614785 MS.gene95251:intron 25.0%
!!! TTTTGTTTGATTGCTGTTTT+TGG - chr8.4:60614705-60614724 MS.gene95251:CDS 25.0%
ACAAACTTCTTGAATCCATT+TGG + chr8.4:60615627-60615646 None:intergenic 30.0%
CAACAAAATATCCAGATTTC+AGG - chr8.4:60615225-60615244 MS.gene95251:intron 30.0%
CCAAACAGAAAATAAGTCAT+TGG + chr8.4:60614511-60614530 None:intergenic 30.0%
GCAATAGAAATATTGGTACA+AGG + chr8.4:60615290-60615309 None:intergenic 30.0%
TGAAAAAACTTGAGAGGTTT+AGG + chr8.4:60614992-60615011 None:intergenic 30.0%
TGAGAAATCTCAAAACATAC+AGG + chr8.4:60614599-60614618 None:intergenic 30.0%
TTTCACCGTTAAATTGCATT+GGG - chr8.4:60614905-60614924 MS.gene95251:intron 30.0%
! GTTTTGCAAATTGAATCCTT+GGG - chr8.4:60615448-60615467 MS.gene95251:intron 30.0%
! TGTTTTGCAAATTGAATCCT+TGG - chr8.4:60615447-60615466 MS.gene95251:intron 30.0%
! TTTTCACCGTTAAATTGCAT+TGG - chr8.4:60614904-60614923 MS.gene95251:intron 30.0%
!! CCAATGACTTATTTTCTGTT+TGG - chr8.4:60614508-60614527 MS.gene95251:intron 30.0%
!! TCATCAAAAGTTCTAAATCC+TGG + chr8.4:60615662-60615681 None:intergenic 30.0%
!!! AGTTTTTATTTTTAGGGGAG+TGG - chr8.4:60614820-60614839 MS.gene95251:intron 30.0%
AAATAGGCTACATGAGTATG+AGG + chr8.4:60615198-60615217 None:intergenic 35.0%
AACAGGGGCAATAGAAATAT+TGG + chr8.4:60615297-60615316 None:intergenic 35.0%
AATAGGCTACATGAGTATGA+GGG + chr8.4:60615197-60615216 None:intergenic 35.0%
ACTGTGAAAAAAACTCGAGT+GGG - chr8.4:60614872-60614891 MS.gene95251:intron 35.0%
ATTGGTACAAGGACAAAACA+GGG + chr8.4:60615279-60615298 None:intergenic 35.0%
CAATCGTGAAAAAACTTGAG+AGG + chr8.4:60614998-60615017 None:intergenic 35.0%
GATAAAAGCTCAAACATGCA+TGG + chr8.4:60614565-60614584 None:intergenic 35.0%
TAGAGCCCAATGCAATTTAA+CGG + chr8.4:60614913-60614932 None:intergenic 35.0%
TATTGGTACAAGGACAAAAC+AGG + chr8.4:60615280-60615299 None:intergenic 35.0%
TCTCGCCAATTAAAATGCAT+TGG + chr8.4:60614962-60614981 None:intergenic 35.0%
TGACAGGAAAATATGTGTCA+AGG - chr8.4:60614439-60614458 MS.gene95251:CDS 35.0%
TTGATGCCAAACATTGGATA+TGG - chr8.4:60615573-60615592 MS.gene95251:intron 35.0%
! GTTACTTTGATGCCAAACAT+TGG - chr8.4:60615567-60615586 MS.gene95251:intron 35.0%
!! ATTTGCTGTTCTGTATACAC+AGG - chr8.4:60615417-60615436 MS.gene95251:intron 35.0%
!! TGGGTCCAATGCATTTTAAT+TGG - chr8.4:60614954-60614973 MS.gene95251:intron 35.0%
!!! AACTTTTGATGATGCACAAC+AGG - chr8.4:60615670-60615689 MS.gene95251:intron 35.0%
!!! CAAGTTTTTTCACGATTGAG+AGG - chr8.4:60615000-60615019 MS.gene95251:intron 35.0%
!!! CATATTTTCCTGTCACTTTG+AGG + chr8.4:60614434-60614453 None:intergenic 35.0%
!!! GTTTGATTGCTGTTTTTGGA+GGG - chr8.4:60614709-60614728 MS.gene95251:CDS 35.0%
!!! TGTTTGATTGCTGTTTTTGG+AGG - chr8.4:60614708-60614727 MS.gene95251:CDS 35.0%
!!! TTTGATTGCTGTTTTTGGAG+GGG - chr8.4:60614710-60614729 MS.gene95251:CDS 35.0%
AAGTCAGAACTGCAGCTATA+AGG + chr8.4:60615741-60615760 None:intergenic 40.0%
AATAGGTAACAGGGATCAGT+AGG + chr8.4:60615379-60615398 None:intergenic 40.0%
ACAATGTGTCAACCAGGAAA+AGG - chr8.4:60615803-60615822 MS.gene95251:intron 40.0%
AGTCAGAACTGCAGCTATAA+GGG + chr8.4:60615740-60615759 None:intergenic 40.0%
CTATATTCACCACTCTCTTC+CGG + chr8.4:60614788-60614807 None:intergenic 40.0%
CTTTGAACTTACGCCTAACA+CGG + chr8.4:60615545-60615564 None:intergenic 40.0%
GACTGTGAAAAAAACTCGAG+TGG - chr8.4:60614871-60614890 MS.gene95251:intron 40.0%
TCTGAGCCATATCCAATGTT+TGG + chr8.4:60615582-60615601 None:intergenic 40.0%
TGAATCCATTTGGCAGATAG+TGG + chr8.4:60615617-60615636 None:intergenic 40.0%
TTAGAGCTTAGCCTGAAATC+TGG + chr8.4:60615239-60615258 None:intergenic 40.0%
TTGGTACAAGGACAAAACAG+GGG + chr8.4:60615278-60615297 None:intergenic 40.0%
TTTGAACTTACGCCTAACAC+GGG + chr8.4:60615544-60615563 None:intergenic 40.0%
! ATTTGTTGGAGAGACCTCAA+TGG - chr8.4:60614533-60614552 MS.gene95251:intron 40.0%
! TTATCAAGAAGCGTGTCAAG+AGG - chr8.4:60614399-60614418 MS.gene95251:CDS 40.0%
!!! CTCGAGTTTTTTTCACAGTC+AGG + chr8.4:60614871-60614890 None:intergenic 40.0%
ACACGGGAATCAATACCCTT+TGG + chr8.4:60615528-60615547 None:intergenic 45.0%
ACTGCAGCTATAAGGGTCAA+TGG + chr8.4:60615733-60615752 None:intergenic 45.0%
ATGCATGGTGCATACCATTG+AGG + chr8.4:60614550-60614569 None:intergenic 45.0%
CAGTAGGAACATCAGAGAAG+AGG + chr8.4:60615363-60615382 None:intergenic 45.0%
CGTGTTAGGCGTAAGTTCAA+AGG - chr8.4:60615543-60615562 MS.gene95251:intron 45.0%
GATGATGCACAACAGGTAAC+TGG - chr8.4:60615677-60615696 MS.gene95251:intron 45.0%
GCCTGTATGGTTCAACAAAG+CGG + chr8.4:60615175-60615194 None:intergenic 45.0%
GTTATGGTATGCAGCAAAGC+TGG - chr8.4:60615496-60615515 MS.gene95251:intron 45.0%
TGTATGGTTCAACAAAGCGG+AGG + chr8.4:60615172-60615191 None:intergenic 45.0%
TGTGTCAACCAGGAAAAGGA+AGG - chr8.4:60615807-60615826 MS.gene95251:intron 45.0%
! AACGATCTCCTTCCTTTTCC+TGG + chr8.4:60615818-60615837 None:intergenic 45.0%
! ATCCATTTGGCAGATAGTGG+CGG + chr8.4:60615614-60615633 None:intergenic 45.0%
! TCCGCTTTGTTGAACCATAC+AGG - chr8.4:60615171-60615190 MS.gene95251:intron 45.0%
!! AGGGTATTGATTCCCGTGTT+AGG - chr8.4:60615529-60615548 MS.gene95251:intron 45.0%
!! GTTTGTTGTGCACAATGTCC+AGG - chr8.4:60615641-60615660 MS.gene95251:intron 45.0%
!!! ATTGCTGTTTTTGGAGGGGA+TGG - chr8.4:60614714-60614733 MS.gene95251:CDS 45.0%
AAGTTGAAGCCGGAAGAGAG+TGG - chr8.4:60614776-60614795 MS.gene95251:intron 50.0%
AGCGTGTCAAGAGGTTCATC+AGG - chr8.4:60614408-60614427 MS.gene95251:CDS 50.0%
CATGAGTATGAGGGCCTGTA+TGG + chr8.4:60615188-60615207 None:intergenic 50.0%
CGTTGAACGTGCAGCTCAAT+TGG - chr8.4:60615834-60615853 MS.gene95251:CDS 50.0%
TCATCAGGCCTCAAAGTGAC+AGG - chr8.4:60614423-60614442 MS.gene95251:CDS 50.0%
TCGCACACAATGTGTCAACC+AGG - chr8.4:60615797-60615816 MS.gene95251:intron 50.0%
! TCCATTTGGCAGATAGTGGC+GGG + chr8.4:60615613-60615632 None:intergenic 50.0%
ACCCGCCACTATCTGCCAAA+TGG - chr8.4:60615609-60615628 MS.gene95251:intron 55.0%
CAAAGCTGGCGTAGGCCAAA+GGG - chr8.4:60615510-60615529 MS.gene95251:intron 55.0%
GTATGCAGCAAAGCTGGCGT+AGG - chr8.4:60615502-60615521 MS.gene95251:intron 55.0%
GTCTTCTTGACTGCGCAACC+TGG + chr8.4:60615884-60615903 None:intergenic 55.0%
GTTCAACAAAGCGGAGGCGA+GGG + chr8.4:60615166-60615185 None:intergenic 55.0%
TTCAACAAAGCGGAGGCGAG+GGG + chr8.4:60615165-60615184 None:intergenic 55.0%
TTGTCACCAACAAGCTCGCC+AGG - chr8.4:60615863-60615882 MS.gene95251:CDS 55.0%
GCAAAGCTGGCGTAGGCCAA+AGG - chr8.4:60615509-60615528 MS.gene95251:intron 60.0%
GGTTCAACAAAGCGGAGGCG+AGG + chr8.4:60615167-60615186 None:intergenic 60.0%
AACAAAGCGGAGGCGAGGGG+AGG + chr8.4:60615162-60615181 None:intergenic 65.0%
ACAAAGCGGAGGCGAGGGGA+GGG + chr8.4:60615161-60615180 None:intergenic 65.0%
GCGCAACCTGGCGAGCTTGT+TGG + chr8.4:60615872-60615891 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 60614371 60615909 60614371 ID=MS.gene95251
chr8.4 mRNA 60614371 60615909 60614371 ID=MS.gene95251.t1;Parent=MS.gene95251
chr8.4 exon 60615820 60615909 60615820 ID=MS.gene95251.t1.exon1;Parent=MS.gene95251.t1
chr8.4 CDS 60615820 60615909 60615820 ID=cds.MS.gene95251.t1;Parent=MS.gene95251.t1
chr8.4 exon 60614589 60614770 60614589 ID=MS.gene95251.t1.exon2;Parent=MS.gene95251.t1
chr8.4 CDS 60614589 60614770 60614589 ID=cds.MS.gene95251.t1;Parent=MS.gene95251.t1
chr8.4 exon 60614371 60614500 60614371 ID=MS.gene95251.t1.exon3;Parent=MS.gene95251.t1
chr8.4 CDS 60614371 60614500 60614371 ID=cds.MS.gene95251.t1;Parent=MS.gene95251.t1
Gene Sequence

>MS.gene95251

ATGGCTGTTCCTCTGTTAACTAAGAAGATTATCAAGAAGCGTGTCAAGAGGTTCATCAGGCCTCAAAGTGACAGGAAAATATGTGTCAAGGTATGTGTTTCTTTCAATTTATGTCTGCAATGCAAACTATGTTTTATCCAATGACTTATTTTCTGTTTGGAAATTTGTTGGAGAGACCTCAATGGTATGCACCATGCATGTTTGAGCTTTTATCAAAAACAGATTCCTGTATGTTTTGAGATTTCTCATACAGATTCGTAAATGCACTGTAACTAGATTGAATGTTATAATATAAGTCTTTCAGGGTATGTAGAAATGCTTTTCATTTCTTACGTTTTGTTTGATTGCTGTTTTTGGAGGGGATGGCTTATTTTATATGATGTTCATTTGGTTCAAATTTTTTACAAGTTGAAGCCGGAAGAGAGTGGTGAATATAGCGAAAAATTGTCAGTTTTTATTTTTAGGGGAGTGGATTGATGCTGAAATATGAAAATCATCCTGACTGTGAAAAAAACTCGAGTGGGATATGTGAATTTTCACCGTTAAATTGCATTGGGCTCTACAACATGTAAAAGTAATAAGTTGGGTCCAATGCATTTTAATTGGCGAGATCATTCGCCTAAACCTCTCAAGTTTTTTCACGATTGAGAGGATCTGAATCTGTTGCTTTCAAATTATTAATTTTGTTTTGATGCTTACTTTATTGTGTTAATTTAGTTTTTATATATAAAGACAGACATGTTTTTTTAAGTGTTGTAAGGATAACAAAGTAAATTGGTTTTAAAATCCCTCCCCTCGCCTCCGCTTTGTTGAACCATACAGGCCCTCATACTCATGTAGCCTATTTTACATAACAACAAAATATCCAGATTTCAGGCTAAGCTCTAAAGTTTATTGTGTCATTTCCCTGTTTTGTCCTTGTACCAATATTTCTATTGCCCCTGTTTTGTCCTTGTACCAATATTTCTATTGCATTTGTAATACAAAAACCTCTTCTCTGATGTTCCTACTGATCCCTGTTACCTATTATTCTTTACTTTCATTCTATTTGCTGTTCTGTATACACAGGTTGTATATGTTTTGCAAATTGAATCCTTGGGTCTATAATATTTTAACATTGTTACTGTTATGGTATGCAGCAAAGCTGGCGTAGGCCAAAGGGTATTGATTCCCGTGTTAGGCGTAAGTTCAAAGGAGTTACTTTGATGCCAAACATTGGATATGGCTCAGACAAGAAGACCCGCCACTATCTGCCAAATGGATTCAAGAAGTTTGTTGTGCACAATGTCCAGGATTTAGAACTTTTGATGATGCACAACAGGTAACTGGTTTTAGTTTTGCATTTTGATTCTTAATTTTCCATTGACCCTTATAGCTGCAGTTCTGACTTTGTTTATTTACATCTTCAGGACATACTGTGCTGAGATCGCACACAATGTGTCAACCAGGAAAAGGAAGGAGATCGTTGAACGTGCAGCTCAATTGGATGTTGTTGTCACCAACAAGCTCGCCAGGTTGCGCAGTCAAGAAGACGAGTGA
Protein sequence

>MS.gene95251.t1

MAVPLLTKKIIKKRVKRFIRPQSDRKICVKQSWRRPKGIDSRVRRKFKGVTLMPNIGYGSDKKTRHYLPNGFKKFVVHNVQDLELLMMHNRTYCAEIAHNVSTRKRKEIVERAAQLDVVVTNKLARLRSQEDE