AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene057018

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057018.t1 MTR_2g100020 88.739 222 17 4 1 222 63 276 1.28e-126 359
MS.gene057018.t1 MTR_8g017090 59.016 61 25 0 1 61 56 116 1.65e-17 79.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057018.t1 AT1G72980 47.222 72 37 1 1 71 57 128 2.76e-15 72.4
MS.gene057018.t1 AT3G13850 43.662 71 40 0 1 71 80 150 1.30e-11 62.8

Find 35 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTGTAAAGGAACATAATT+AGG 0.133443 2.1:+4645019 None:intergenic
AATCAATGAAATGAATTCTT+TGG 0.228002 2.1:-4644852 MS.gene057018:CDS
AAGAATTCATTTCATTGATT+AGG 0.332115 2.1:+4644855 None:intergenic
GACATTGGAGGGTAACAATA+AGG 0.392243 2.1:-4644948 MS.gene057018:CDS
GCAACATGTTCATATTCAAT+TGG 0.430357 2.1:+4645107 None:intergenic
CTTGTAAAGGAACATAATTA+GGG 0.440777 2.1:+4645020 None:intergenic
TCAATCTGATATGCGTGCTA+TGG 0.454015 2.1:-4645398 MS.gene057018:CDS
CAGCAGAAGTAGTATTGATC+CGG 0.456820 2.1:-4644822 MS.gene057018:CDS
ACCGCTGTCGCCGTTGACAT+TGG 0.480229 2.1:-4644963 MS.gene057018:CDS
TAGTATTGATCCGGGGCACC+AGG 0.481958 2.1:-4644813 MS.gene057018:CDS
AATCTATAACAACCACCAAC+AGG 0.483322 2.1:+4645373 None:intergenic
CATAATAATAACGATGATGA+TGG 0.501827 2.1:-4645190 MS.gene057018:CDS
AGCAGAAGTAGTATTGATCC+GGG 0.521215 2.1:-4644821 MS.gene057018:CDS
AATTAACAAACCTGGTGCCC+CGG 0.523440 2.1:+4644803 None:intergenic
GTATTAAAATCCTCTTGTAA+AGG 0.525655 2.1:+4645007 None:intergenic
GAACGTGTTGGTGATGATCA+AGG 0.525830 2.1:-4644902 MS.gene057018:CDS
TGCAGCAGTTGCAGTTGTTG+AGG 0.538937 2.1:+4645076 None:intergenic
TCATCATTATAATGACATGC+AGG 0.554364 2.1:-4645221 MS.gene057018:CDS
ATCAATACTACTTCTGCTGT+TGG 0.557959 2.1:+4644826 None:intergenic
TAATTATGTTCCTTTACAAG+AGG 0.560978 2.1:-4645017 MS.gene057018:CDS
CACCAACTAATTAACAAACC+TGG 0.563620 2.1:+4644795 None:intergenic
TGCAGTTGTTGAGGTTGTTG+AGG 0.566132 2.1:+4645085 None:intergenic
GCTGTCGCCGTTGACATTGG+AGG 0.577848 2.1:-4644960 MS.gene057018:CDS
CTGTCGCCGTTGACATTGGA+GGG 0.585568 2.1:-4644959 MS.gene057018:CDS
CGTGCTATGGATCCTGTTGG+TGG 0.590598 2.1:-4645385 MS.gene057018:CDS
CAATATGTTGTTGATGATGT+CGG 0.594144 2.1:-4645049 MS.gene057018:CDS
GTATGATCTCTAAGATGAGG+TGG 0.598062 2.1:+4645439 None:intergenic
TCCAATGTCAACGGCGACAG+CGG 0.601203 2.1:+4644962 None:intergenic
TTGTTACCCTCCAATGTCAA+CGG 0.604424 2.1:+4644953 None:intergenic
ATAGTATGATCTCTAAGATG+AGG 0.624071 2.1:+4645436 None:intergenic
GAAGAAGATCAAGAACGTGT+TGG 0.630140 2.1:-4644914 MS.gene057018:CDS
ATGCGTGCTATGGATCCTGT+TGG 0.652692 2.1:-4645388 MS.gene057018:CDS
GGTAACAATAAGGAGGAAGA+CGG 0.654532 2.1:-4644938 MS.gene057018:CDS
ATTGGAGGGTAACAATAAGG+AGG 0.667036 2.1:-4644945 MS.gene057018:CDS
GCAGAAGTAGTATTGATCCG+GGG 0.729367 2.1:-4644820 MS.gene057018:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATCAATGAAATGAATTCTT+TGG - chr2.1:4645407-4645426 MS.gene057018:CDS 20.0%
!!! AAGAATTCATTTCATTGATT+AGG + chr2.1:4645407-4645426 None:intergenic 20.0%
! CATAATAATAACGATGATGA+TGG - chr2.1:4645069-4645088 MS.gene057018:CDS 25.0%
! CTTGTAAAGGAACATAATTA+GGG + chr2.1:4645242-4645261 None:intergenic 25.0%
! GTATTAAAATCCTCTTGTAA+AGG + chr2.1:4645255-4645274 None:intergenic 25.0%
! TAATTATGTTCCTTTACAAG+AGG - chr2.1:4645242-4645261 MS.gene057018:CDS 25.0%
! TCTTGTAAAGGAACATAATT+AGG + chr2.1:4645243-4645262 None:intergenic 25.0%
!! TTCATTGATTAGGTCAAAAA+CGG + chr2.1:4645397-4645416 None:intergenic 25.0%
!!! ACAAGAGGATTTTAATACAT+GGG - chr2.1:4645257-4645276 MS.gene057018:CDS 25.0%
!!! TACAAGAGGATTTTAATACA+TGG - chr2.1:4645256-4645275 MS.gene057018:CDS 25.0%
GCAACATGTTCATATTCAAT+TGG + chr2.1:4645155-4645174 None:intergenic 30.0%
TCATCATTATAATGACATGC+AGG - chr2.1:4645038-4645057 MS.gene057018:CDS 30.0%
! TCATTGATTAGGTCAAAAAC+GGG + chr2.1:4645396-4645415 None:intergenic 30.0%
!! ATAGTATGATCTCTAAGATG+AGG + chr2.1:4644826-4644845 None:intergenic 30.0%
!! CAATATGTTGTTGATGATGT+CGG - chr2.1:4645210-4645229 MS.gene057018:CDS 30.0%
AATCTATAACAACCACCAAC+AGG + chr2.1:4644889-4644908 None:intergenic 35.0%
ATCAATACTACTTCTGCTGT+TGG + chr2.1:4645436-4645455 None:intergenic 35.0%
ATTGGAGGGTAACAATAAGG+AGG - chr2.1:4645314-4645333 MS.gene057018:CDS 40.0%
GAAGAAGATCAAGAACGTGT+TGG - chr2.1:4645345-4645364 MS.gene057018:CDS 40.0%
GACATTGGAGGGTAACAATA+AGG - chr2.1:4645311-4645330 MS.gene057018:CDS 40.0%
GGTAACAATAAGGAGGAAGA+CGG - chr2.1:4645321-4645340 MS.gene057018:CDS 40.0%
TCAATCTGATATGCGTGCTA+TGG - chr2.1:4644861-4644880 MS.gene057018:CDS 40.0%
TTGTTACCCTCCAATGTCAA+CGG + chr2.1:4645309-4645328 None:intergenic 40.0%
!! AGCAGAAGTAGTATTGATCC+GGG - chr2.1:4645438-4645457 MS.gene057018:CDS 40.0%
!! CAGCAGAAGTAGTATTGATC+CGG - chr2.1:4645437-4645456 MS.gene057018:CDS 40.0%
!! GTATGATCTCTAAGATGAGG+TGG + chr2.1:4644823-4644842 None:intergenic 40.0%
TGCAGTTGTTGAGGTTGTTG+AGG + chr2.1:4645177-4645196 None:intergenic 45.0%
!! GAACGTGTTGGTGATGATCA+AGG - chr2.1:4645357-4645376 MS.gene057018:CDS 45.0%
!! GCAGAAGTAGTATTGATCCG+GGG - chr2.1:4645439-4645458 MS.gene057018:CDS 45.0%
ATGCGTGCTATGGATCCTGT+TGG - chr2.1:4644871-4644890 MS.gene057018:CDS 50.0%
TGCAGCAGTTGCAGTTGTTG+AGG + chr2.1:4645186-4645205 None:intergenic 50.0%
CGTGCTATGGATCCTGTTGG+TGG - chr2.1:4644874-4644893 MS.gene057018:CDS 55.0%
CTGTCGCCGTTGACATTGGA+GGG - chr2.1:4645300-4645319 MS.gene057018:CDS 55.0%
TCCAATGTCAACGGCGACAG+CGG + chr2.1:4645300-4645319 None:intergenic 55.0%
!! TAGTATTGATCCGGGGCACC+AGG - chr2.1:4645446-4645465 MS.gene057018:CDS 55.0%
ACCGCTGTCGCCGTTGACAT+TGG - chr2.1:4645296-4645315 MS.gene057018:CDS 60.0%
GCTGTCGCCGTTGACATTGG+AGG - chr2.1:4645299-4645318 MS.gene057018:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 4644805 4645476 4644805 ID=MS.gene057018
chr2.1 mRNA 4644805 4645476 4644805 ID=MS.gene057018.t1;Parent=MS.gene057018
chr2.1 exon 4644805 4645476 4644805 ID=MS.gene057018.t1.exon1;Parent=MS.gene057018.t1
chr2.1 CDS 4644805 4645476 4644805 ID=cds.MS.gene057018.t1;Parent=MS.gene057018.t1
Gene Sequence

>MS.gene057018

ATGATCAAGAATGTTCCACCTCATCTTAGAGATCATACTATGAGTTCTATTATTTTTCAATCTGATATGCGTGCTATGGATCCTGTTGGTGGTTGTTATAGATTCATTCAACAGCTTCAATCTCAATATGAATTTTATCAAGCTGAGCTTCATCTTACACGTCAACAAATTGCTATTTGTAAAGCTTCACAATCACAACATCAGCAACAACAACTTGCTGCTGCTGTTAATCATCATCATTATAATGACATGCAGGTCATTAATCATAATAATAACGATGATGATGGTCATAACGATGCTACTTTGAATATTATTAATCATTTTAATCAGCATCATTTTGTTGATGACCAATTGAATATGAACATGTTGCCTCAACAACCTCAACAACTGCAACTGCTGCAGCAGCAATATGTTGTTGATGATGTCGGTATTAACCCTAATTATGTTCCTTTACAAGAGGATTTTAATACATGGGCGAACAATATTAATATACCGCTGTCGCCGTTGACATTGGAGGGTAACAATAAGGAGGAAGACGGTGAAGAAGATCAAGAACGTGTTGGTGATGATCAAGGAAGTGATCAGAAACCCGTTTTTGACCTAATCAATGAAATGAATTCTTTGGATACCAACAGCAGAAGTAGTATTGATCCGGGGCACCAGGTTTGTTAA
Protein sequence

>MS.gene057018.t1

MIKNVPPHLRDHTMSSIIFQSDMRAMDPVGGCYRFIQQLQSQYEFYQAELHLTRQQIAICKASQSQHQQQQLAAAVNHHHYNDMQVINHNNNDDDGHNDATLNIINHFNQHHFVDDQLNMNMLPQQPQQLQLLQQQYVVDDVGINPNYVPLQEDFNTWANNINIPLSPLTLEGNNKEEDGEEDQERVGDDQGSDQKPVFDLINEMNSLDTNSRSSIDPGHQVC