AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene052486


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene052486.t1 MTR_4g088920 89.474 152 16 0 1 152 1 152 1.72e-92 287
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene052486.t1 AT1G65070 47.200 125 62 1 28 148 40 164 5.77e-29 111
MS.gene052486.t1 AT1G65070 47.581 124 61 1 28 147 40 163 6.25e-29 111
MS.gene052486.t1 AT1G65070 47.581 124 61 1 28 147 40 163 6.26e-29 111
MS.gene052486.t1 AT1G65070 47.581 124 61 1 28 147 40 163 7.08e-29 111

Find 45 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGAACACTCGCTGCTTCC+AGG 0.290821 4.3:+24062732 MS.gene052486:CDS
ATTCTCTCCGTTGCTGTTTC+CGG 0.310263 4.3:+24062674 MS.gene052486:CDS
AGGTTTGATCGAGAAGCTTT+TGG 0.334460 4.3:-24062589 None:intergenic
AGGGATTGAGGGTTTGTTGA+TGG 0.339868 4.3:-24062384 None:intergenic
GGGATTGAGGGTTTGTTGAT+GGG 0.370731 4.3:-24062383 None:intergenic
AGCATTCACTTCCACTTCAA+TGG 0.372505 4.3:+24062511 MS.gene052486:CDS
AAGGAGAAGCGAGGGATTGA+GGG 0.374390 4.3:-24062395 None:intergenic
ACGGGCGTTGTTGGCGGCGG+AGG 0.376941 4.3:-24062537 None:intergenic
GAGTACGTCCGACGGGTAAA+CGG 0.383430 4.3:-24062556 None:intergenic
GAAGGAGAAGCGAGGGATTG+AGG 0.404110 4.3:-24062396 None:intergenic
CATTCACACAGGTTTGAACT+TGG 0.408717 4.3:+24062797 MS.gene052486:CDS
GACGGGTAAACGGGCGTTGT+TGG 0.416611 4.3:-24062546 None:intergenic
GTAGCAGAAGCAAGGTTTGA+AGG 0.434423 4.3:-24062414 None:intergenic
CTTCGAACGGTGCAAAGCTC+GGG 0.437748 4.3:-24062713 None:intergenic
TGCTGAGAGTTGCTTGCATA+TGG 0.449310 4.3:-24062492 None:intergenic
GCATTCACTTCCACTTCAAT+GGG 0.457389 4.3:+24062512 MS.gene052486:CDS
GGATTGAGGGTTTGTTGATG+GGG 0.474954 4.3:-24062382 None:intergenic
AGTACGTCCGACGGGTAAAC+GGG 0.478043 4.3:-24062555 None:intergenic
GGGTAAACGGGCGTTGTTGG+CGG 0.478868 4.3:-24062543 None:intergenic
TAAACGGGCGTTGTTGGCGG+CGG 0.480719 4.3:-24062540 None:intergenic
TCTTCGAACGGTGCAAAGCT+CGG 0.496479 4.3:-24062714 None:intergenic
GATGGGGATGAAGAGGTTGC+AGG 0.501851 4.3:-24062366 None:intergenic
GTTTGATAGTTTGAAACACT+TGG 0.502558 4.3:+24062760 MS.gene052486:CDS
CAAACTATCAAACAATTCCC+TGG 0.528874 4.3:-24062750 None:intergenic
GTTTGTTGATGGGGATGAAG+AGG 0.545453 4.3:-24062373 None:intergenic
GGATTGGACTGAGTTGGACT+CGG 0.547239 4.3:-24062441 None:intergenic
AAGGTTTGAAGGAGAAGCGA+GGG 0.550811 4.3:-24062403 None:intergenic
TTGTTGTTGAGGAATGAGTC+TGG 0.550825 4.3:-24062618 None:intergenic
GTCTGTTGGAGTACGTCCGA+CGG 0.557543 4.3:-24062564 None:intergenic
AAGAACACTCGCTGCTTCCA+GGG 0.558472 4.3:+24062733 MS.gene052486:CDS
AGGTTGCAGGTGAGTTGCAT+CGG 0.562147 4.3:-24062353 None:intergenic
TCTGTTGGAGTACGTCCGAC+GGG 0.568179 4.3:-24062563 None:intergenic
ATAGCCTCAAAACTCTCGAA+TGG 0.578502 4.3:+24062465 MS.gene052486:CDS
AGGAATGAGTCTGGCAGCGG+AGG 0.579503 4.3:-24062609 None:intergenic
GCTATCGGATTGGACTGAGT+TGG 0.590319 4.3:-24062447 None:intergenic
TTGAGGAATGAGTCTGGCAG+CGG 0.591996 4.3:-24062612 None:intergenic
GGCGGAGGAGCCCATTGAAG+TGG 0.595273 4.3:-24062522 None:intergenic
CTGTATCTAATCATTCACAC+AGG 0.610846 4.3:+24062786 MS.gene052486:CDS
GGGAATAGTCAACAATCTAC+CGG 0.610891 4.3:-24062693 None:intergenic
TCGGTTGAGTAGCAGAAGCA+AGG 0.613416 4.3:-24062422 None:intergenic
AACAACGCCCGTTTACCCGT+CGG 0.621448 4.3:+24062548 MS.gene052486:CDS
CAAGGTTTGAAGGAGAAGCG+AGG 0.631968 4.3:-24062404 None:intergenic
GAAAAGTCGAGTTGTTGTTG+AGG 0.632731 4.3:-24062629 None:intergenic
CAATCTACCGGAAACAGCAA+CGG 0.634527 4.3:-24062681 None:intergenic
AGCAGCGAGTGTTCTTCGAA+CGG 0.642225 4.3:-24062726 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GTTTGATAGTTTGAAACACT+TGG + chr4.3:24062760-24062779 MS.gene052486:CDS 30.0%
CAAACTATCAAACAATTCCC+TGG - chr4.3:24062753-24062772 None:intergenic 35.0%
CTGTATCTAATCATTCACAC+AGG + chr4.3:24062786-24062805 MS.gene052486:CDS 35.0%
AGCATTCACTTCCACTTCAA+TGG + chr4.3:24062511-24062530 MS.gene052486:CDS 40.0%
ATAGCCTCAAAACTCTCGAA+TGG + chr4.3:24062465-24062484 MS.gene052486:CDS 40.0%
CATTCACACAGGTTTGAACT+TGG + chr4.3:24062797-24062816 MS.gene052486:CDS 40.0%
GCATTCACTTCCACTTCAAT+GGG + chr4.3:24062512-24062531 MS.gene052486:CDS 40.0%
GGGAATAGTCAACAATCTAC+CGG - chr4.3:24062696-24062715 None:intergenic 40.0%
! AGGTTTGATCGAGAAGCTTT+TGG - chr4.3:24062592-24062611 None:intergenic 40.0%
! AGTTCCATTCGAGAGTTTTG+AGG - chr4.3:24062472-24062491 None:intergenic 40.0%
! CAACAACAACTCGACTTTTC+TGG + chr4.3:24062632-24062651 MS.gene052486:CDS 40.0%
! GAAAAGTCGAGTTGTTGTTG+AGG - chr4.3:24062632-24062651 None:intergenic 40.0%
! TTGTTGTTGAGGAATGAGTC+TGG - chr4.3:24062621-24062640 None:intergenic 40.0%
!!! TTCGAGAGTTTTGAGGCTAT+CGG - chr4.3:24062465-24062484 None:intergenic 40.0%
AAGGTTTGAAGGAGAAGCGA+GGG - chr4.3:24062406-24062425 None:intergenic 45.0%
CAATCTACCGGAAACAGCAA+CGG - chr4.3:24062684-24062703 None:intergenic 45.0%
GTAGCAGAAGCAAGGTTTGA+AGG - chr4.3:24062417-24062436 None:intergenic 45.0%
TGCTGAGAGTTGCTTGCATA+TGG - chr4.3:24062495-24062514 None:intergenic 45.0%
! GTTTGTTGATGGGGATGAAG+AGG - chr4.3:24062376-24062395 None:intergenic 45.0%
!! AGAAGCTTTTGGCTGTCTGT+TGG - chr4.3:24062581-24062600 None:intergenic 45.0%
!! AGGGATTGAGGGTTTGTTGA+TGG - chr4.3:24062387-24062406 None:intergenic 45.0%
!! ATTCTCTCCGTTGCTGTTTC+CGG + chr4.3:24062674-24062693 MS.gene052486:CDS 45.0%
!! GGATTGAGGGTTTGTTGATG+GGG - chr4.3:24062385-24062404 None:intergenic 45.0%
!! GGGATTGAGGGTTTGTTGAT+GGG - chr4.3:24062386-24062405 None:intergenic 45.0%
!!! GAGTTTTGAGGCTATCGGAT+TGG - chr4.3:24062460-24062479 None:intergenic 45.0%
AAGAACACTCGCTGCTTCCA+GGG + chr4.3:24062733-24062752 MS.gene052486:CDS 50.0%
AAGGAGAAGCGAGGGATTGA+GGG - chr4.3:24062398-24062417 None:intergenic 50.0%
AGCAGCGAGTGTTCTTCGAA+CGG - chr4.3:24062729-24062748 None:intergenic 50.0%
CAAGGTTTGAAGGAGAAGCG+AGG - chr4.3:24062407-24062426 None:intergenic 50.0%
TCGGTTGAGTAGCAGAAGCA+AGG - chr4.3:24062425-24062444 None:intergenic 50.0%
TCTTCGAACGGTGCAAAGCT+CGG - chr4.3:24062717-24062736 None:intergenic 50.0%
TTGAGGAATGAGTCTGGCAG+CGG - chr4.3:24062615-24062634 None:intergenic 50.0%
! GCTATCGGATTGGACTGAGT+TGG - chr4.3:24062450-24062469 None:intergenic 50.0%
! GGATTGGACTGAGTTGGACT+CGG - chr4.3:24062444-24062463 None:intergenic 50.0%
AACAACGCCCGTTTACCCGT+CGG + chr4.3:24062548-24062567 MS.gene052486:CDS 55.0%
AGTACGTCCGACGGGTAAAC+GGG - chr4.3:24062558-24062577 None:intergenic 55.0%
CTTCGAACGGTGCAAAGCTC+GGG - chr4.3:24062716-24062735 None:intergenic 55.0%
GAAGAACACTCGCTGCTTCC+AGG + chr4.3:24062732-24062751 MS.gene052486:CDS 55.0%
GAAGGAGAAGCGAGGGATTG+AGG - chr4.3:24062399-24062418 None:intergenic 55.0%
GAGTACGTCCGACGGGTAAA+CGG - chr4.3:24062559-24062578 None:intergenic 55.0%
GATGGGGATGAAGAGGTTGC+AGG - chr4.3:24062369-24062388 None:intergenic 55.0%
GTCTGTTGGAGTACGTCCGA+CGG - chr4.3:24062567-24062586 None:intergenic 55.0%
TCTGTTGGAGTACGTCCGAC+GGG - chr4.3:24062566-24062585 None:intergenic 55.0%
AGGAATGAGTCTGGCAGCGG+AGG - chr4.3:24062612-24062631 None:intergenic 60.0%
! GACGGGTAAACGGGCGTTGT+TGG - chr4.3:24062549-24062568 None:intergenic 60.0%
! GGGTAAACGGGCGTTGTTGG+CGG - chr4.3:24062546-24062565 None:intergenic 60.0%
! TAAACGGGCGTTGTTGGCGG+CGG - chr4.3:24062543-24062562 None:intergenic 60.0%
GGCGGAGGAGCCCATTGAAG+TGG - chr4.3:24062525-24062544 None:intergenic 65.0%
! ACGGGCGTTGTTGGCGGCGG+AGG - chr4.3:24062540-24062559 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 24062356 24062826 24062356 ID=MS.gene052486
chr4.3 mRNA 24062356 24062826 24062356 ID=MS.gene052486.t1;Parent=MS.gene052486
chr4.3 exon 24062356 24062826 24062356 ID=MS.gene052486.t1.exon1;Parent=MS.gene052486.t1
chr4.3 CDS 24062356 24062826 24062356 ID=cds.MS.gene052486.t1;Parent=MS.gene052486.t1
Gene Sequence

>MS.gene052486

ATGCAACTCACCTGCAACCTCTTCATCCCCATCAACAAACCCTCAATCCCTCGCTTCTCCTTCAAACCTTGCTTCTGCTACTCAACCGAGTCCAACTCAGTCCAATCCGATAGCCTCAAAACTCTCGAATGGAACTCCATATGCAAGCAACTCTCAGCATTCACTTCCACTTCAATGGGCTCCTCCGCCGCCAACAACGCCCGTTTACCCGTCGGACGTACTCCAACAGACAGCCAAAAGCTTCTCGATCAAACCTCCGCTGCCAGACTCATTCCTCAACAACAACTCGACTTTTCTGGAATACATGACTTGACTGACATTCTCTCCGTTGCTGTTTCCGGTAGATTGTTGACTATTCCCGAGCTTTGCACCGTTCGAAGAACACTCGCTGCTTCCAGGGAATTGTTTGATAGTTTGAAACACTTGGCTTCTGTATCTAATCATTCACACAGGTTTGAACTTGGAATCTAA

Protein sequence

>MS.gene052486.t1

MQLTCNLFIPINKPSIPRFSFKPCFCYSTESNSVQSDSLKTLEWNSICKQLSAFTSTSMGSSAANNARLPVGRTPTDSQKLLDQTSAARLIPQQQLDFSGIHDLTDILSVAVSGRLLTIPELCTVRRTLAASRELFDSLKHLASVSNHSHRFELGI