AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1037500


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1037500 MtrunA17_Chr7g0276211 48.031 127 24 3 1 87 1 125 6.23e-26 92.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 28 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCTCCAATTCATCCAATT+TGG 0.162116 7_1:-74182924 None:intergenic
CGATCATTGGGGTCCCAAAT+TGG 0.282259 7_1:+74182910 Msa1037500:CDS
TTCTCCAATTCATCCAATTT+GGG 0.339109 7_1:-74182923 None:intergenic
CACTCTGTATAAACGATCAT+TGG 0.347459 7_1:+74182897 Msa1037500:CDS
GGGTCCCAAATTGGATGAAT+TGG 0.357124 7_1:+74182919 Msa1037500:CDS
AGTGGGTATTCAGGCCAATA+TGG 0.382608 7_1:+74182800 Msa1037500:CDS
GCATCATCGAGTGGGTATTC+AGG 0.385134 7_1:+74182791 Msa1037500:CDS
ACTAATCGATGATTCCATAT+TGG 0.431208 7_1:-74182814 None:intergenic
ACTCTGTATAAACGATCATT+GGG 0.435834 7_1:+74182898 Msa1037500:CDS
CCGCCGTGATTGTAGAGAAC+TGG 0.470912 7_1:-74182766 None:intergenic
CTCAGCAGCACACGTTGTCT+TGG 0.473627 7_1:+74182740 Msa1037500:CDS
AGCAGCACACGTTGTCTTGG+CGG 0.509222 7_1:+74182743 Msa1037500:CDS
TAGTGGGTCAGATGTATTGT+GGG 0.536796 7_1:+74182833 Msa1037500:CDS
ATCAAAGAGTATGTTCTGAA+AGG 0.563818 7_1:-74182964 None:intergenic
GAGTATGTTCTGAAAGGTGT+AGG 0.567401 7_1:-74182958 None:intergenic
GTTCTCTACAATCACGGCGG+CGG 0.568781 7_1:+74182769 Msa1037500:CDS
AATATGGAATCATCGATTAG+TGG 0.570871 7_1:+74182816 Msa1037500:CDS
ACGGCGGCGGCATCATCGAG+TGG 0.593713 7_1:+74182782 Msa1037500:CDS
ATATGGAATCATCGATTAGT+GGG 0.595651 7_1:+74182817 Msa1037500:CDS
CGGCCAGTTCTCTACAATCA+CGG 0.600978 7_1:+74182763 Msa1037500:CDS
AATGATCGTTTATACAGAGT+GGG 0.619057 7_1:-74182895 None:intergenic
CAATGATCGTTTATACAGAG+TGG 0.623120 7_1:-74182896 None:intergenic
AAAAGGAAAAGATGTGGTGT+TGG 0.624449 7_1:+74182700 None:intergenic
CGGCGGCGGCATCATCGAGT+GGG 0.630862 7_1:+74182783 Msa1037500:CDS
TTAGTGGGTCAGATGTATTG+TGG 0.640580 7_1:+74182832 Msa1037500:CDS
TGCTGCTGAGATGACAACGT+TGG 0.701374 7_1:-74182727 None:intergenic
CTCTGTATAAACGATCATTG+GGG 0.729290 7_1:+74182899 Msa1037500:CDS
CCAGTTCTCTACAATCACGG+CGG 0.772030 7_1:+74182766 Msa1037500:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACTAATCGATGATTCCATAT+TGG - chr7_1:74182817-74182836 None:intergenic 30.0%
! AATATGGAATCATCGATTAG+TGG + chr7_1:74182816-74182835 Msa1037500:CDS 30.0%
! ATATGGAATCATCGATTAGT+GGG + chr7_1:74182817-74182836 Msa1037500:CDS 30.0%
AATGATCGTTTATACAGAGT+GGG - chr7_1:74182898-74182917 None:intergenic 30.0%
ACTCTGTATAAACGATCATT+GGG + chr7_1:74182898-74182917 Msa1037500:CDS 30.0%
TTCTCCAATTCATCCAATTT+GGG - chr7_1:74182926-74182945 None:intergenic 30.0%
TTTCTCCAATTCATCCAATT+TGG - chr7_1:74182927-74182946 None:intergenic 30.0%
CAATGATCGTTTATACAGAG+TGG - chr7_1:74182899-74182918 None:intergenic 35.0%
CACTCTGTATAAACGATCAT+TGG + chr7_1:74182897-74182916 Msa1037500:CDS 35.0%
CTCTGTATAAACGATCATTG+GGG + chr7_1:74182899-74182918 Msa1037500:CDS 35.0%
! TTAGTGGGTCAGATGTATTG+TGG + chr7_1:74182832-74182851 Msa1037500:CDS 40.0%
! TAGTGGGTCAGATGTATTGT+GGG + chr7_1:74182833-74182852 Msa1037500:CDS 40.0%
!! GAGTATGTTCTGAAAGGTGT+AGG - chr7_1:74182961-74182980 None:intergenic 40.0%
AGTGGGTATTCAGGCCAATA+TGG + chr7_1:74182800-74182819 Msa1037500:CDS 45.0%
GGGTCCCAAATTGGATGAAT+TGG + chr7_1:74182919-74182938 Msa1037500:CDS 45.0%
TGCTGCTGAGATGACAACGT+TGG - chr7_1:74182730-74182749 None:intergenic 50.0%
CGGCCAGTTCTCTACAATCA+CGG + chr7_1:74182763-74182782 Msa1037500:CDS 50.0%
CCAGTTCTCTACAATCACGG+CGG + chr7_1:74182766-74182785 Msa1037500:CDS 50.0%
GCATCATCGAGTGGGTATTC+AGG + chr7_1:74182791-74182810 Msa1037500:CDS 50.0%
CGATCATTGGGGTCCCAAAT+TGG + chr7_1:74182910-74182929 Msa1037500:CDS 50.0%
CTCAGCAGCACACGTTGTCT+TGG + chr7_1:74182740-74182759 Msa1037500:CDS 55.0%
AGCAGCACACGTTGTCTTGG+CGG + chr7_1:74182743-74182762 Msa1037500:CDS 55.0%
CCGCCGTGATTGTAGAGAAC+TGG - chr7_1:74182769-74182788 None:intergenic 55.0%
GTTCTCTACAATCACGGCGG+CGG + chr7_1:74182769-74182788 Msa1037500:CDS 55.0%
ACGGCGGCGGCATCATCGAG+TGG + chr7_1:74182782-74182801 Msa1037500:CDS 70.0%
CGGCGGCGGCATCATCGAGT+GGG + chr7_1:74182783-74182802 Msa1037500:CDS 70.0%
Chromosome Type Strat End Strand Name
chr7_1 gene 74182711 74182985 74182711 ID=Msa1037500;Name=Msa1037500
chr7_1 mRNA 74182711 74182985 74182711 ID=Msa1037500-mRNA-1;Parent=Msa1037500;Name=Msa1037500-mRNA-1;_AED=0.03;_eAED=0.05;_QI=0|0|0|1|0|0|2|0|87
chr7_1 exon 74182711 74182879 74182711 ID=Msa1037500-mRNA-1:exon:18603;Parent=Msa1037500-mRNA-1
chr7_1 exon 74182891 74182985 74182891 ID=Msa1037500-mRNA-1:exon:18604;Parent=Msa1037500-mRNA-1
chr7_1 CDS 74182711 74182879 74182711 ID=Msa1037500-mRNA-1:cds;Parent=Msa1037500-mRNA-1
chr7_1 CDS 74182891 74182985 74182891 ID=Msa1037500-mRNA-1:cds;Parent=Msa1037500-mRNA-1
Gene Sequence

>Msa1037500

ATGTGGTGTTGGTGTTCCAACGTTGTCATCTCAGCAGCACACGTTGTCTTGGCGGCCAGTTCTCTACAATCACGGCGGCGGCATCATCGAGTGGGTATTCAGGCCAATATGGAATCATCGATTAGTGGGTCAGATGTATTGTGGGCATTGCAGAAGAGAGCAAGCACTCATCGCCCACTCTGTATAAACGATCATTGGGGTCCCAAATTGGATGAATTGGAGAAACGTCTTCGTCACCTACACCTTTCAGAACATACTCTTTGA

Protein sequence

>Msa1037500

MWCWCSNVVISAAHVVLAASSLQSRRRHHRVGIQANMESSISGSDVLWALQKRASTHRPLCINDHWGPKLDELEKRLRHLHLSEHTL*