AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene22502

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene22502.t1 MTR_7g109510 82.119 151 13 2 1 151 1 137 3.26e-74 218
MS.gene22502.t1 MTR_1g087040 51.370 146 61 3 1 140 1 142 4.07e-39 129
MS.gene22502.t1 MTR_4g070860 48.387 93 47 1 10 101 17 109 1.08e-19 80.5
MS.gene22502.t1 MTR_3g117120 53.012 83 39 0 19 101 27 109 1.13e-19 80.5
MS.gene22502.t1 MTR_1g022495 54.217 83 38 0 19 101 27 109 1.70e-17 74.7
MS.gene22502.t1 MTR_8g086020 40.594 101 55 1 10 105 18 118 8.36e-16 70.5
MS.gene22502.t1 MTR_5g015090 52.857 70 24 1 2 62 32 101 6.42e-13 62.8
MS.gene22502.t1 MTR_4g097440 39.823 113 40 3 7 94 45 154 1.06e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene22502.t1 AT3G62420 46.711 152 70 3 1 149 1 144 1.04e-34 118
MS.gene22502.t1 AT2G18160 44.118 102 52 1 18 119 27 123 1.08e-20 83.6
MS.gene22502.t1 AT1G75390 38.849 139 72 3 19 149 38 171 1.44e-20 83.2
MS.gene22502.t1 AT4G34590 48.810 84 43 0 19 102 24 107 1.47e-19 80.1
MS.gene22502.t1 AT1G75390 49.254 67 34 0 19 85 38 104 5.38e-12 59.7

Find 41 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTCCGAATCAAGCGATTA+AGG 0.283521 7.2:-5593879 MS.gene22502:CDS
GGCGATTGTTGGAGAACATT+AGG 0.296251 7.2:-5594102 MS.gene22502:CDS
CAGATTGGTTCTTGCATTGA+TGG 0.301394 7.2:-5593844 None:intergenic
GGTTCAACGTGTGACGAGTT+CGG 0.348908 7.2:-5594272 MS.gene22502:CDS
GAGCGATGGACGAGAGAAAA+AGG 0.360427 7.2:-5594231 MS.gene22502:CDS
GTTCAACGTGTGACGAGTTC+GGG 0.369000 7.2:-5594271 MS.gene22502:CDS
TGAATCAATTTGAATGGCTT+CGG 0.385700 7.2:-5594293 None:intergenic
GCGATTGTTGGAGAACATTA+GGG 0.409944 7.2:-5594101 MS.gene22502:CDS
CACGGGTTCAGTTGTGGATC+TGG 0.419548 7.2:+5593911 None:intergenic
GTGATCGCCGTGCGGATTCA+CGG 0.422997 7.2:+5594191 None:intergenic
AGTTGTGGATCTGGAATCTT+CGG 0.445106 7.2:+5593920 None:intergenic
AAACGAGAATCGGCGATTGT+TGG 0.446153 7.2:-5594113 MS.gene22502:CDS
AATGCAAACGAAGCCGCTAA+TGG 0.446683 7.2:-5594061 MS.gene22502:CDS
ATCTTCAAGATGAGACAAAC+AGG 0.448219 7.2:-5594141 MS.gene22502:CDS
AACATTAGGGCGAGGGAAGA+AGG 0.454886 7.2:-5594088 MS.gene22502:CDS
ACGTGTGACGAGTTCGGGTT+CGG 0.460336 7.2:-5594266 MS.gene22502:CDS
GACGCCTTAATCGCTTGATT+CGG 0.461919 7.2:+5593875 None:intergenic
AGGCGTCTTCGTCTTCAGAT+TGG 0.488511 7.2:-5593859 MS.gene22502:CDS
TGTCCTCGGAGCTCGGATAC+AGG 0.488969 7.2:-5594038 MS.gene22502:CDS
AAAGCTGAGAGGGAAAAGAA+TGG 0.490064 7.2:-5593959 MS.gene22502:CDS
TCGGGTTCGGACGGTGTGAA+TGG 0.491849 7.2:-5594253 MS.gene22502:CDS
GTGAATCCGCACGGCGATCA+CGG 0.512811 7.2:-5594189 MS.gene22502:CDS
CTAATGGTGTCCTCGGAGCT+CGG 0.524737 7.2:-5594045 MS.gene22502:CDS
TGAATCCGCACGGCGATCAC+GGG 0.531059 7.2:-5594188 MS.gene22502:CDS
ACAGGTTGCGAAACGAGAAT+CGG 0.540937 7.2:-5594123 MS.gene22502:CDS
CCGCACGGCGATCACGGGAG+AGG 0.550454 7.2:-5594183 MS.gene22502:CDS
TGTTGGAGAACATTAGGGCG+AGG 0.554484 7.2:-5594096 MS.gene22502:CDS
ATCTGCCACGGGTTCAGTTG+TGG 0.561631 7.2:+5593905 None:intergenic
AGCTCCGAGGACACCATTAG+CGG 0.564090 7.2:+5594048 None:intergenic
GAAGCCGCTAATGGTGTCCT+CGG 0.572523 7.2:-5594052 MS.gene22502:CDS
TCGGACAAAGCATCTGCCAC+GGG 0.574386 7.2:+5593894 None:intergenic
GTTGGAGAACATTAGGGCGA+GGG 0.586730 7.2:-5594095 MS.gene22502:CDS
GGAGAGGAAGCAGAAACTGA+TGG 0.591146 7.2:-5594167 MS.gene22502:CDS
TTCGGACAAAGCATCTGCCA+CGG 0.597740 7.2:+5593893 None:intergenic
GGACGGTGTGAATGGAGCGA+TGG 0.618123 7.2:-5594245 MS.gene22502:CDS
GTGACGAGTTCGGGTTCGGA+CGG 0.621958 7.2:-5594262 MS.gene22502:CDS
CAGATCCACAACTGAACCCG+TGG 0.655694 7.2:-5593910 MS.gene22502:CDS
TTTCGAACCGTGAATCCGCA+CGG 0.677805 7.2:-5594198 MS.gene22502:CDS
CCTCTCCCGTGATCGCCGTG+CGG 0.684095 7.2:+5594183 None:intergenic
GAGGAAGCAGAAACTGATGG+AGG 0.689697 7.2:-5594164 MS.gene22502:CDS
ATTCCTGTATCCGAGCTCCG+AGG 0.746883 7.2:+5594035 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATCTTCAAGATGAGACAAAC+AGG - chr7.2:5593986-5594005 MS.gene22502:CDS 35.0%
AAAGCTGAGAGGGAAAAGAA+TGG - chr7.2:5594168-5594187 MS.gene22502:CDS 40.0%
GCGATTGTTGGAGAACATTA+GGG - chr7.2:5594026-5594045 MS.gene22502:CDS 40.0%
TGAGAGAGAAAAAGCTGAGA+GGG - chr7.2:5594158-5594177 MS.gene22502:CDS 40.0%
TTGTCCGAATCAAGCGATTA+AGG - chr7.2:5594248-5594267 MS.gene22502:CDS 40.0%
! AGTTGTGGATCTGGAATCTT+CGG + chr7.2:5594210-5594229 None:intergenic 40.0%
AAACGAGAATCGGCGATTGT+TGG - chr7.2:5594014-5594033 MS.gene22502:CDS 45.0%
AATGCAAACGAAGCCGCTAA+TGG - chr7.2:5594066-5594085 MS.gene22502:CDS 45.0%
ACAGGTTGCGAAACGAGAAT+CGG - chr7.2:5594004-5594023 MS.gene22502:CDS 45.0%
CTGAGAGAGAAAAAGCTGAG+AGG - chr7.2:5594157-5594176 MS.gene22502:CDS 45.0%
GACGCCTTAATCGCTTGATT+CGG + chr7.2:5594255-5594274 None:intergenic 45.0%
GGCGATTGTTGGAGAACATT+AGG - chr7.2:5594025-5594044 MS.gene22502:CDS 45.0%
AACATTAGGGCGAGGGAAGA+AGG - chr7.2:5594039-5594058 MS.gene22502:CDS 50.0%
AGGCGTCTTCGTCTTCAGAT+TGG - chr7.2:5594268-5594287 MS.gene22502:CDS 50.0%
GAGCGATGGACGAGAGAAAA+AGG - chr7.2:5593896-5593915 MS.gene22502:CDS 50.0%
GAGGAAGCAGAAACTGATGG+AGG - chr7.2:5593963-5593982 MS.gene22502:CDS 50.0%
GGAGAGGAAGCAGAAACTGA+TGG - chr7.2:5593960-5593979 MS.gene22502:CDS 50.0%
GGTTCAACGTGTGACGAGTT+CGG - chr7.2:5593855-5593874 MS.gene22502:CDS 50.0%
GTTCAACGTGTGACGAGTTC+GGG - chr7.2:5593856-5593875 MS.gene22502:CDS 50.0%
GTTGGAGAACATTAGGGCGA+GGG - chr7.2:5594032-5594051 MS.gene22502:CDS 50.0%
TGTTGGAGAACATTAGGGCG+AGG - chr7.2:5594031-5594050 MS.gene22502:CDS 50.0%
TTTCGAACCGTGAATCCGCA+CGG - chr7.2:5593929-5593948 MS.gene22502:CDS 50.0%
! TTCGGACAAAGCATCTGCCA+CGG + chr7.2:5594237-5594256 None:intergenic 50.0%
AGCTCCGAGGACACCATTAG+CGG + chr7.2:5594082-5594101 None:intergenic 55.0%
ATCTGCCACGGGTTCAGTTG+TGG + chr7.2:5594225-5594244 None:intergenic 55.0%
ATTCCTGTATCCGAGCTCCG+AGG + chr7.2:5594095-5594114 None:intergenic 55.0%
CACGGGTTCAGTTGTGGATC+TGG + chr7.2:5594219-5594238 None:intergenic 55.0%
CAGATCCACAACTGAACCCG+TGG - chr7.2:5594217-5594236 MS.gene22502:CDS 55.0%
CTAATGGTGTCCTCGGAGCT+CGG - chr7.2:5594082-5594101 MS.gene22502:CDS 55.0%
GAAGCCGCTAATGGTGTCCT+CGG - chr7.2:5594075-5594094 MS.gene22502:CDS 55.0%
! ACGTGTGACGAGTTCGGGTT+CGG - chr7.2:5593861-5593880 MS.gene22502:CDS 55.0%
! TCGGACAAAGCATCTGCCAC+GGG + chr7.2:5594236-5594255 None:intergenic 55.0%
GGACGGTGTGAATGGAGCGA+TGG - chr7.2:5593882-5593901 MS.gene22502:CDS 60.0%
GTGAATCCGCACGGCGATCA+CGG - chr7.2:5593938-5593957 MS.gene22502:CDS 60.0%
GTGATCGCCGTGCGGATTCA+CGG + chr7.2:5593939-5593958 None:intergenic 60.0%
TCGGGTTCGGACGGTGTGAA+TGG - chr7.2:5593874-5593893 MS.gene22502:CDS 60.0%
TGAATCCGCACGGCGATCAC+GGG - chr7.2:5593939-5593958 MS.gene22502:CDS 60.0%
TGTCCTCGGAGCTCGGATAC+AGG - chr7.2:5594089-5594108 MS.gene22502:CDS 60.0%
! GTGACGAGTTCGGGTTCGGA+CGG - chr7.2:5593865-5593884 MS.gene22502:CDS 60.0%
CCTCTCCCGTGATCGCCGTG+CGG + chr7.2:5593947-5593966 None:intergenic 70.0%
CCGCACGGCGATCACGGGAG+AGG - chr7.2:5593944-5593963 MS.gene22502:CDS 75.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 5593847 5594302 5593847 ID=MS.gene22502
chr7.2 mRNA 5593847 5594302 5593847 ID=MS.gene22502.t1;Parent=MS.gene22502
chr7.2 exon 5593847 5594302 5593847 ID=MS.gene22502.t1.exon1;Parent=MS.gene22502.t1
chr7.2 CDS 5593847 5594302 5593847 ID=cds.MS.gene22502.t1;Parent=MS.gene22502.t1
Gene Sequence

>MS.gene22502

ATGGCTTCGGTTCAACGTGTGACGAGTTCGGGTTCGGACGGTGTGAATGGAGCGATGGACGAGAGAAAAAGGAAGAGAATGATTTCGAACCGTGAATCCGCACGGCGATCACGGGAGAGGAAGCAGAAACTGATGGAGGATCTTCAAGATGAGACAAACAGGTTGCGAAACGAGAATCGGCGATTGTTGGAGAACATTAGGGCGAGGGAAGAAGGTTTCAATGCAAACGAAGCCGCTAATGGTGTCCTCGGAGCTCGGATACAGGAATTGACAGATCAATTGAAGTTTCTGAACTCAATCATTGAAAAAGCTGAGAGAGAAAAAGCTGAGAGGGAAAAGAATGGATTTTCTGTTGAGATTCCGAAGATTCCAGATCCACAACTGAACCCGTGGCAGATGCTTTGTCCGAATCAAGCGATTAAGGCGTCTTCGTCTTCAGATTGGTTCTTGCATTGA
Protein sequence

>MS.gene22502.t1

MASVQRVTSSGSDGVNGAMDERKRKRMISNRESARRSRERKQKLMEDLQDETNRLRNENRRLLENIRAREEGFNANEAANGVLGARIQELTDQLKFLNSIIEKAEREKAEREKNGFSVEIPKIPDPQLNPWQMLCPNQAIKASSSSDWFLH