AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene69357


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69357.t1 MTR_3g114850 98.802 167 2 0 1 167 1 167 3.88e-118 331
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69357.t1 AT1G20340 65.868 167 57 0 1 167 1 167 7.48e-73 216
MS.gene69357.t1 AT1G76100 64.327 171 57 2 1 167 1 171 1.28e-72 216
MS.gene69357.t1 AT1G76100 64.327 171 57 2 1 167 37 207 2.45e-72 216

Find 50 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTCAGGCATGGAAATTT+TGG 0.145348 3.3:+93696726 None:intergenic
CTTTGCTTGCGTTTGCCTTA+AGG 0.331286 3.3:+93697040 None:intergenic
GCGTTCACTGTGAAATTGTT+TGG 0.355945 3.3:+93696838 None:intergenic
TCCATCATTCACAGGCCTTA+AGG 0.363430 3.3:-93697055 MS.gene69357:CDS
CTTGCAGTTGAAGTGTTGCT+TGG 0.408427 3.3:-93696889 MS.gene69357:CDS
CAGCAACTCCAAAGTCTTTG+AGG 0.421507 3.3:+93696953 None:intergenic
AGAGCTTCCCTCAAAGACTT+TGG 0.423979 3.3:-93696961 MS.gene69357:CDS
GCATTGAGAAGATCTTCTTC+AGG 0.435974 3.3:+93696712 None:intergenic
GAAGATCTTCTCAATGCTCC+TGG 0.437678 3.3:-93696706 MS.gene69357:CDS
CAGCGTTACTTTGGATGCTA+AGG 0.446131 3.3:-93696674 MS.gene69357:CDS
GGCAATTGAGAAGTTGAAGT+TGG 0.447601 3.3:+93696997 None:intergenic
AGGTGAACAGTAGAATTTGT+AGG 0.459706 3.3:+93696648 None:intergenic
GGAGACTTACAGCGTTACTT+TGG 0.478413 3.3:-93696683 MS.gene69357:CDS
TGTTGCTTGGTGCTAGTGAT+GGG 0.479693 3.3:-93696876 MS.gene69357:CDS
GTGTTGCTTGGTGCTAGTGA+TGG 0.482949 3.3:-93696877 MS.gene69357:CDS
ACCTCACGCAGGAGCTGGTA+TGG 0.490163 3.3:-93696629 MS.gene69357:CDS
GCCTTAAGGCCTGTGAATGA+TGG 0.494140 3.3:+93697054 None:intergenic
ATTACATTCAAGAACAATGC+TGG 0.496557 3.3:-93696805 MS.gene69357:CDS
AGCATTGTTCTTGAATGTAA+TGG 0.506572 3.3:+93696807 None:intergenic
AAGATCTTCTCAATGCTCCT+GGG 0.518214 3.3:-93696705 MS.gene69357:CDS
AGCAACTCCAAAGTCTTTGA+GGG 0.521503 3.3:+93696954 None:intergenic
CTTCAACTTCTCAATTGCCA+AGG 0.523550 3.3:-93696993 MS.gene69357:CDS
TGTTCACCTCACGCAGGAGC+TGG 0.531287 3.3:-93696634 MS.gene69357:CDS
TTGGCTGCATCAACCCCGCT+TGG 0.532446 3.3:+93696745 None:intergenic
GAGAAGATCTTCTTCAGGCA+TGG 0.537563 3.3:+93696717 None:intergenic
CACGCAGGAGCTGGTATGGT+TGG 0.542139 3.3:-93696625 MS.gene69357:CDS
AACAATTTCACAGTGAACGC+TGG 0.547209 3.3:-93696835 MS.gene69357:CDS
TAACAATGCACTTGCAGCAG+TGG 0.551331 3.3:+93696924 None:intergenic
AGCAACGGTGGTGGAAGTAA+CGG 0.554653 3.3:+93697080 None:intergenic
CAAAGTTAATGCCATAGCTA+AGG 0.556491 3.3:-93697022 MS.gene69357:CDS
GAAGCTCTGACACAAAGCCT+TGG 0.567176 3.3:+93696976 None:intergenic
GTTGCTATTCCATCATTCAC+AGG 0.569968 3.3:-93697063 MS.gene69357:CDS
TGAAGTTGGAACCTTAGCTA+TGG 0.578592 3.3:+93697011 None:intergenic
GTTGCTTGGTGCTAGTGATG+GGG 0.579404 3.3:-93696875 MS.gene69357:CDS
AGCGTTACTTTGGATGCTAA+GGG 0.580511 3.3:-93696673 MS.gene69357:CDS
GTAACGCTGTAAGTCTCCCC+AGG 0.594723 3.3:+93696688 None:intergenic
TGATGGAATAGCAACGGTGG+TGG 0.597217 3.3:+93697071 None:intergenic
CAAGCAACACTTCAACTGCA+AGG 0.598151 3.3:+93696890 None:intergenic
TTGCTTGGTGCTAGTGATGG+GGG 0.603056 3.3:-93696874 MS.gene69357:CDS
ATGAAGACGAGATTCCAAGC+GGG 0.608107 3.3:-93696759 MS.gene69357:CDS
AAGCAACACTTCAACTGCAA+GGG 0.614894 3.3:+93696891 None:intergenic
ACCATACCAGCTCCTGCGTG+AGG 0.641555 3.3:+93696628 None:intergenic
TCATCGAAGATAACGTTGTG+AGG 0.653170 3.3:+93696778 None:intergenic
TGAAGACGAGATTCCAAGCG+GGG 0.662660 3.3:-93696758 MS.gene69357:CDS
AGATCTTCTCAATGCTCCTG+GGG 0.672138 3.3:-93696704 MS.gene69357:CDS
AACGGTGGTGGAAGTAACGG+TGG 0.682356 3.3:+93697083 None:intergenic
TTCTACTGTTCACCTCACGC+AGG 0.697342 3.3:-93696640 MS.gene69357:CDS
TGTGAATGATGGAATAGCAA+CGG 0.697370 3.3:+93697065 None:intergenic
GATGAAGACGAGATTCCAAG+CGG 0.752965 3.3:-93696760 MS.gene69357:CDS
GAATGATGGAATAGCAACGG+TGG 0.782143 3.3:+93697068 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGCATTGTTCTTGAATGTAA+TGG + chr3.3:93696889-93696908 None:intergenic 30.0%
ATTACATTCAAGAACAATGC+TGG - chr3.3:93696888-93696907 MS.gene69357:CDS 30.0%
AGGTGAACAGTAGAATTTGT+AGG + chr3.3:93697048-93697067 None:intergenic 35.0%
CAAAGTTAATGCCATAGCTA+AGG - chr3.3:93696671-93696690 MS.gene69357:CDS 35.0%
! TGTGAATGATGGAATAGCAA+CGG + chr3.3:93696631-93696650 None:intergenic 35.0%
! TTCTTCAGGCATGGAAATTT+TGG + chr3.3:93696970-93696989 None:intergenic 35.0%
AACAATTTCACAGTGAACGC+TGG - chr3.3:93696858-93696877 MS.gene69357:CDS 40.0%
AAGATCTTCTCAATGCTCCT+GGG - chr3.3:93696988-93697007 MS.gene69357:CDS 40.0%
AAGCAACACTTCAACTGCAA+GGG + chr3.3:93696805-93696824 None:intergenic 40.0%
AGCAACTCCAAAGTCTTTGA+GGG + chr3.3:93696742-93696761 None:intergenic 40.0%
CTTCAACTTCTCAATTGCCA+AGG - chr3.3:93696700-93696719 MS.gene69357:CDS 40.0%
GCATTGAGAAGATCTTCTTC+AGG + chr3.3:93696984-93697003 None:intergenic 40.0%
GCGTTCACTGTGAAATTGTT+TGG + chr3.3:93696858-93696877 None:intergenic 40.0%
GGCAATTGAGAAGTTGAAGT+TGG + chr3.3:93696699-93696718 None:intergenic 40.0%
TCATCGAAGATAACGTTGTG+AGG + chr3.3:93696918-93696937 None:intergenic 40.0%
TGAAGTTGGAACCTTAGCTA+TGG + chr3.3:93696685-93696704 None:intergenic 40.0%
! AGCGTTACTTTGGATGCTAA+GGG - chr3.3:93697020-93697039 MS.gene69357:CDS 40.0%
! GTTGCTATTCCATCATTCAC+AGG - chr3.3:93696630-93696649 MS.gene69357:CDS 40.0%
AGAGCTTCCCTCAAAGACTT+TGG - chr3.3:93696732-93696751 MS.gene69357:CDS 45.0%
AGATCTTCTCAATGCTCCTG+GGG - chr3.3:93696989-93697008 MS.gene69357:CDS 45.0%
ATGAAGACGAGATTCCAAGC+GGG - chr3.3:93696934-93696953 MS.gene69357:CDS 45.0%
CAAGCAACACTTCAACTGCA+AGG + chr3.3:93696806-93696825 None:intergenic 45.0%
CAGCAACTCCAAAGTCTTTG+AGG + chr3.3:93696743-93696762 None:intergenic 45.0%
CTTTGCTTGCGTTTGCCTTA+AGG + chr3.3:93696656-93696675 None:intergenic 45.0%
GAAGATCTTCTCAATGCTCC+TGG - chr3.3:93696987-93697006 MS.gene69357:CDS 45.0%
GAGAAGATCTTCTTCAGGCA+TGG + chr3.3:93696979-93696998 None:intergenic 45.0%
GATGAAGACGAGATTCCAAG+CGG - chr3.3:93696933-93696952 MS.gene69357:CDS 45.0%
GGAGACTTACAGCGTTACTT+TGG - chr3.3:93697010-93697029 MS.gene69357:CDS 45.0%
TAACAATGCACTTGCAGCAG+TGG + chr3.3:93696772-93696791 None:intergenic 45.0%
TCCATCATTCACAGGCCTTA+AGG - chr3.3:93696638-93696657 MS.gene69357:CDS 45.0%
! CAGCGTTACTTTGGATGCTA+AGG - chr3.3:93697019-93697038 MS.gene69357:CDS 45.0%
! GAATGATGGAATAGCAACGG+TGG + chr3.3:93696628-93696647 None:intergenic 45.0%
!! CTTGCAGTTGAAGTGTTGCT+TGG - chr3.3:93696804-93696823 MS.gene69357:CDS 45.0%
!! TGTTGCTTGGTGCTAGTGAT+GGG - chr3.3:93696817-93696836 MS.gene69357:CDS 45.0%
GCCTTAAGGCCTGTGAATGA+TGG + chr3.3:93696642-93696661 None:intergenic 50.0%
TGAAGACGAGATTCCAAGCG+GGG - chr3.3:93696935-93696954 MS.gene69357:CDS 50.0%
TGATGGAATAGCAACGGTGG+TGG + chr3.3:93696625-93696644 None:intergenic 50.0%
TTCTACTGTTCACCTCACGC+AGG - chr3.3:93697053-93697072 MS.gene69357:CDS 50.0%
! GAAGCTCTGACACAAAGCCT+TGG + chr3.3:93696720-93696739 None:intergenic 50.0%
!! AGCAACGGTGGTGGAAGTAA+CGG + chr3.3:93696616-93696635 None:intergenic 50.0%
!! GTGTTGCTTGGTGCTAGTGA+TGG - chr3.3:93696816-93696835 MS.gene69357:CDS 50.0%
!! GTTGCTTGGTGCTAGTGATG+GGG - chr3.3:93696818-93696837 MS.gene69357:CDS 50.0%
!! TTGCTTGGTGCTAGTGATGG+GGG - chr3.3:93696819-93696838 MS.gene69357:CDS 50.0%
GTAACGCTGTAAGTCTCCCC+AGG + chr3.3:93697008-93697027 None:intergenic 55.0%
! TGGTGCTAGTGATGGGGGTT+TGG - chr3.3:93696824-93696843 MS.gene69357:CDS 55.0%
!! AACGGTGGTGGAAGTAACGG+TGG + chr3.3:93696613-93696632 None:intergenic 55.0%
ACCATACCAGCTCCTGCGTG+AGG + chr3.3:93697068-93697087 None:intergenic 60.0%
ACCTCACGCAGGAGCTGGTA+TGG - chr3.3:93697064-93697083 MS.gene69357:CDS 60.0%
CACGCAGGAGCTGGTATGGT+TGG - chr3.3:93697068-93697087 MS.gene69357:CDS 60.0%
TGTTCACCTCACGCAGGAGC+TGG - chr3.3:93697059-93697078 MS.gene69357:CDS 60.0%
TTGGCTGCATCAACCCCGCT+TGG + chr3.3:93696951-93696970 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr3.3 gene 93696606 93697109 93696606 ID=MS.gene69357
chr3.3 mRNA 93696606 93697109 93696606 ID=MS.gene69357.t1;Parent=MS.gene69357
chr3.3 exon 93696606 93697109 93696606 ID=MS.gene69357.t1.exon1;Parent=MS.gene69357.t1
chr3.3 CDS 93696606 93697109 93696606 ID=cds.MS.gene69357.t1;Parent=MS.gene69357.t1
Gene Sequence

>MS.gene69357

ATGGCCACCGTTACTTCCACCACCGTTGCTATTCCATCATTCACAGGCCTTAAGGCAAACGCAAGCAAAGTTAATGCCATAGCTAAGGTTCCAACTTCAACTTCTCAATTGCCAAGGCTTTGTGTCAGAGCTTCCCTCAAAGACTTTGGAGTTGCTGTTGTTGCCACTGCTGCAAGTGCATTGTTAGCTAGCAATGCCCTTGCAGTTGAAGTGTTGCTTGGTGCTAGTGATGGGGGTTTGGCTTTTGTTCCAAACAATTTCACAGTGAACGCTGGAGACACCATTACATTCAAGAACAATGCTGGTTTTCCTCACAACGTTATCTTCGATGAAGACGAGATTCCAAGCGGGGTTGATGCAGCCAAAATTTCCATGCCTGAAGAAGATCTTCTCAATGCTCCTGGGGAGACTTACAGCGTTACTTTGGATGCTAAGGGAACCTACAAATTCTACTGTTCACCTCACGCAGGAGCTGGTATGGTTGGACAAGTCACTGTTAATTAA

Protein sequence

>MS.gene69357.t1

MATVTSTTVAIPSFTGLKANASKVNAIAKVPTSTSQLPRLCVRASLKDFGVAVVATAASALLASNALAVEVLLGASDGGLAFVPNNFTVNAGDTITFKNNAGFPHNVIFDEDEIPSGVDAAKISMPEEDLLNAPGETYSVTLDAKGTYKFYCSPHAGAGMVGQVTVN