AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene05592


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05592.t1 MTR_3g462990 95.789 95 4 0 1 95 1 95 1.22e-54 164
MS.gene05592.t1 MTR_5g069990 59.016 61 13 1 32 80 32 92 5.23e-17 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05592.t1 AT3G47070 53.125 64 26 2 1 64 2 61 3.53e-15 65.5

Find 30 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGCTTTCTTGATTGGATTCT+TGG 0.189182 3.2:-53860167 MS.gene05592:CDS
AAGAGAAAGGCTTTCTTGAT+TGG 0.313083 3.2:-53860175 MS.gene05592:CDS
AAAGCCTTTCTCTTCTTTGA+TGG 0.353279 3.2:+53860184 None:intergenic
ACTCTAGTTCTAGTAGTTGT+TGG 0.362442 3.2:+53860245 None:intergenic
AACTACTAGAACTAGAGTTT+TGG 0.374057 3.2:-53860240 MS.gene05592:CDS
AAGAAGAAGGGTGGTGGCCT+TGG 0.398087 3.2:-53860026 MS.gene05592:CDS
GGCAAATTAATTGCTTCACT+TGG 0.459171 3.2:+53859992 None:intergenic
AAGAAGGGTGGTGGCCTTGG+TGG 0.460503 3.2:-53860023 MS.gene05592:CDS
AAGCCTTTCTCTTCTTTGAT+GGG 0.471537 3.2:+53860185 None:intergenic
TTTCTTGATTGGATTCTTGG+AGG 0.490486 3.2:-53860164 MS.gene05592:CDS
TTTGGCACCTACTGCAACAA+AGG 0.492740 3.2:-53860222 MS.gene05592:CDS
TCTTCTCCTCCACCTTCTTG+AGG 0.493428 3.2:+53860102 None:intergenic
GTAGTACCCTTTGTTGCAGT+AGG 0.498784 3.2:+53860215 None:intergenic
TCCTCCACCTTCTTGAGGAT+AGG 0.540729 3.2:+53860107 None:intergenic
TTGGCACCTACTGCAACAAA+GGG 0.544612 3.2:-53860221 MS.gene05592:CDS
TGTGCCACCACAAAAGAAGA+AGG 0.556607 3.2:-53860039 MS.gene05592:CDS
GCACCCATCAAAGAAGAGAA+AGG 0.564720 3.2:-53860188 MS.gene05592:CDS
TCCTATCCTCAAGAAGGTGG+AGG 0.573241 3.2:-53860108 MS.gene05592:CDS
AAGAAGGTGGAGGAGAAGAG+TGG 0.587987 3.2:-53860098 MS.gene05592:CDS
CCACAAAAGAAGAAGGGTGG+TGG 0.594602 3.2:-53860032 MS.gene05592:CDS
GACTGATCCTATCCTCAAGA+AGG 0.605338 3.2:-53860114 MS.gene05592:CDS
GATTCTTGGAGGAATGCAGA+AGG 0.616769 3.2:-53860153 MS.gene05592:CDS
TGATCCTATCCTCAAGAAGG+TGG 0.622788 3.2:-53860111 MS.gene05592:CDS
AGTGGAGGAACCGCTAGCAA+CGG 0.633854 3.2:-53860080 MS.gene05592:CDS
AAGGTGGAGGAGAAGAGTGG+AGG 0.646817 3.2:-53860095 MS.gene05592:CDS
GTTCTTGCGACCGTTGCTAG+CGG 0.649660 3.2:+53860070 None:intergenic
GTGCCACCACAAAAGAAGAA+GGG 0.667239 3.2:-53860038 MS.gene05592:CDS
ACTTGGCAAACAAGCCACCA+AGG 0.670213 3.2:+53860009 None:intergenic
CCACCACAAAAGAAGAAGGG+TGG 0.703756 3.2:-53860035 MS.gene05592:CDS
CAACGGTCGCAAGAACACCG+TGG 0.775728 3.2:-53860063 MS.gene05592:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AACTACTAGAACTAGAGTTT+TGG - chr3.2:53860039-53860058 MS.gene05592:CDS 30.0%
AAAGCCTTTCTCTTCTTTGA+TGG + chr3.2:53860098-53860117 None:intergenic 35.0%
AAGAGAAAGGCTTTCTTGAT+TGG - chr3.2:53860104-53860123 MS.gene05592:CDS 35.0%
AAGCCTTTCTCTTCTTTGAT+GGG + chr3.2:53860097-53860116 None:intergenic 35.0%
TAGGATCAGTCTCAAAAAAC+TGG + chr3.2:53860156-53860175 None:intergenic 35.0%
TTTCTTGATTGGATTCTTGG+AGG - chr3.2:53860115-53860134 MS.gene05592:CDS 35.0%
!! ACTCTAGTTCTAGTAGTTGT+TGG + chr3.2:53860037-53860056 None:intergenic 35.0%
GGCTTTCTTGATTGGATTCT+TGG - chr3.2:53860112-53860131 MS.gene05592:CDS 40.0%
GACTGATCCTATCCTCAAGA+AGG - chr3.2:53860165-53860184 MS.gene05592:CDS 45.0%
GATTCTTGGAGGAATGCAGA+AGG - chr3.2:53860126-53860145 MS.gene05592:CDS 45.0%
GCACCCATCAAAGAAGAGAA+AGG - chr3.2:53860091-53860110 MS.gene05592:CDS 45.0%
GTAGTACCCTTTGTTGCAGT+AGG + chr3.2:53860067-53860086 None:intergenic 45.0%
GTGCCACCACAAAAGAAGAA+GGG - chr3.2:53860241-53860260 MS.gene05592:CDS 45.0%
TGATCCTATCCTCAAGAAGG+TGG - chr3.2:53860168-53860187 MS.gene05592:CDS 45.0%
TGTGCCACCACAAAAGAAGA+AGG - chr3.2:53860240-53860259 MS.gene05592:CDS 45.0%
TTGGCACCTACTGCAACAAA+GGG - chr3.2:53860058-53860077 MS.gene05592:CDS 45.0%
TTTGGCACCTACTGCAACAA+AGG - chr3.2:53860057-53860076 MS.gene05592:CDS 45.0%
AAGAAGGTGGAGGAGAAGAG+TGG - chr3.2:53860181-53860200 MS.gene05592:CDS 50.0%
ACTTGGCAAACAAGCCACCA+AGG + chr3.2:53860273-53860292 None:intergenic 50.0%
CCACAAAAGAAGAAGGGTGG+TGG - chr3.2:53860247-53860266 MS.gene05592:CDS 50.0%
CCACCACAAAAGAAGAAGGG+TGG - chr3.2:53860244-53860263 MS.gene05592:CDS 50.0%
TCCTATCCTCAAGAAGGTGG+AGG - chr3.2:53860171-53860190 MS.gene05592:CDS 50.0%
TCCTCCACCTTCTTGAGGAT+AGG + chr3.2:53860175-53860194 None:intergenic 50.0%
TCTTCTCCTCCACCTTCTTG+AGG + chr3.2:53860180-53860199 None:intergenic 50.0%
! CCACCACCCTTCTTCTTTTG+TGG + chr3.2:53860250-53860269 None:intergenic 50.0%
! CCACCCTTCTTCTTTTGTGG+TGG + chr3.2:53860247-53860266 None:intergenic 50.0%
! CTTTTGTGGTGGCACAACCA+CGG + chr3.2:53860236-53860255 None:intergenic 50.0%
AAGGTGGAGGAGAAGAGTGG+AGG - chr3.2:53860184-53860203 MS.gene05592:CDS 55.0%
AGTGGAGGAACCGCTAGCAA+CGG - chr3.2:53860199-53860218 MS.gene05592:CDS 55.0%
GTTCTTGCGACCGTTGCTAG+CGG + chr3.2:53860212-53860231 None:intergenic 55.0%
! AAGAAGAAGGGTGGTGGCCT+TGG - chr3.2:53860253-53860272 MS.gene05592:CDS 55.0%
CAACGGTCGCAAGAACACCG+TGG - chr3.2:53860216-53860235 MS.gene05592:CDS 60.0%
! AAGAAGGGTGGTGGCCTTGG+TGG - chr3.2:53860256-53860275 MS.gene05592:CDS 60.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 53860007 53860294 53860007 ID=MS.gene05592
chr3.2 mRNA 53860007 53860294 53860007 ID=MS.gene05592.t1;Parent=MS.gene05592
chr3.2 exon 53860007 53860294 53860007 ID=MS.gene05592.t1.exon1;Parent=MS.gene05592.t1
chr3.2 CDS 53860007 53860294 53860007 ID=cds.MS.gene05592.t1;Parent=MS.gene05592.t1
Gene Sequence

>MS.gene05592

ATGACTTCATTGTTCATGTCATTTACTCCAACAACTACTAGAACTAGAGTTTTGGCACCTACTGCAACAAAGGGTACTACAAGTGCACCCATCAAAGAAGAGAAAGGCTTTCTTGATTGGATTCTTGGAGGAATGCAGAAGGAAGACCAGTTTTTTGAGACTGATCCTATCCTCAAGAAGGTGGAGGAGAAGAGTGGAGGAACCGCTAGCAACGGTCGCAAGAACACCGTGGTTGTGCCACCACAAAAGAAGAAGGGTGGTGGCCTTGGTGGCTTGTTTGCCAAGTGA

Protein sequence

>MS.gene05592.t1

MTSLFMSFTPTTTRTRVLAPTATKGTTSAPIKEEKGFLDWILGGMQKEDQFFETDPILKKVEEKSGGTASNGRKNTVVVPPQKKKGGGLGGLFAK