AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene005517

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene005517.t1 MTR_1g087040 94.667 150 6 1 1 148 1 150 9.27e-102 288
MS.gene005517.t1 MTR_7g109510 49.660 147 63 2 1 147 1 136 2.21e-32 112
MS.gene005517.t1 MTR_4g070860 36.364 132 69 2 12 128 17 148 1.53e-23 90.1
MS.gene005517.t1 MTR_3g117120 44.211 95 53 0 11 105 16 110 7.46e-23 88.6
MS.gene005517.t1 MTR_1g022495 36.986 146 85 3 9 147 14 159 9.61e-23 88.2
MS.gene005517.t1 MTR_8g086020 37.405 131 76 3 9 136 17 144 2.61e-21 84.7
MS.gene005517.t1 MTR_3g112220 41.772 79 46 0 22 100 1 79 2.01e-15 67.8
MS.gene005517.t1 MTR_7g029400 43.333 90 47 2 8 93 63 152 5.17e-14 66.2
MS.gene005517.t1 MTR_8g015250 41.111 90 49 2 8 93 53 142 7.95e-13 62.8
MS.gene005517.t1 MTR_5g015090 37.931 87 48 1 9 89 39 125 1.93e-12 61.2
MS.gene005517.t1 MTR_3g103360 35.417 96 62 0 9 104 40 135 3.92e-12 60.1
MS.gene005517.t1 MTR_4g097440 32.292 96 62 1 22 117 72 164 1.12e-11 59.7
MS.gene005517.t1 MTR_7g017880 35.780 109 63 2 22 129 84 186 3.70e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene005517.t1 AT3G62420 41.176 136 77 2 1 136 1 133 2.12e-27 99.8
MS.gene005517.t1 AT2G18160 44.554 101 55 1 20 120 26 125 3.78e-24 92.4
MS.gene005517.t1 AT1G75390 40.000 120 68 1 22 137 38 157 3.80e-23 89.7
MS.gene005517.t1 AT4G34590 48.810 84 43 0 22 105 24 107 4.57e-22 86.7
MS.gene005517.t1 AT1G75390 55.882 68 30 0 22 89 38 105 4.98e-19 77.8
MS.gene005517.t1 AT3G30530 38.710 93 51 1 8 94 58 150 1.05e-12 62.4
MS.gene005517.t1 AT5G38800 40.000 90 50 1 8 93 51 140 7.55e-12 60.1
MS.gene005517.t1 AT2G22850 43.038 79 44 1 20 97 123 201 3.85e-11 59.3
MS.gene005517.t1 AT2G22850 43.038 79 44 1 20 97 123 201 3.85e-11 59.3
MS.gene005517.t1 AT5G15830 46.970 66 32 1 3 65 49 114 8.95e-11 57.8

Find 28 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTGATGCCATAGAATAATT+TGG 0.207768 1.1:+64489953 None:intergenic
ACCTTATCCAAATTATTCTA+TGG 0.288233 1.1:-64489960 MS.gene005517:CDS
CCTCCTGAACCTGAACTTAC+AGG 0.316975 1.1:+64490340 None:intergenic
CCGTCTCGCGCGGAGTATTA+AGG 0.331337 1.1:-64490170 MS.gene005517:CDS
ATGATCCTCTTCTCAAACCT+TGG 0.395871 1.1:-64489988 MS.gene005517:CDS
CAGAGCGCAGACTAAAGAAT+TGG 0.417439 1.1:-64490101 MS.gene005517:CDS
ATTCAACGTCCTGTAAGTTC+AGG 0.426014 1.1:-64490349 MS.gene005517:CDS
AAGAATTGGAGGCTCAGTTT+CGG 0.469404 1.1:-64490087 MS.gene005517:CDS
TTTCAATCTACCAGCTTCTC+CGG 0.469740 1.1:+64490204 None:intergenic
CGTCCTGTAAGTTCAGGTTC+AGG 0.469856 1.1:-64490343 MS.gene005517:CDS
GCCATAGAATAATTTGGATA+AGG 0.470081 1.1:+64489959 None:intergenic
TGGATCGTCTTGCAGATTCA+CGG 0.498196 1.1:+64490260 None:intergenic
GAAGATCTGACCGGAGAAGC+TGG 0.509197 1.1:-64490214 MS.gene005517:CDS
GGAGGAAGCGTATGTGAAGA+TGG 0.510835 1.1:-64490143 MS.gene005517:CDS
AGCGCAGACTAAAGAATTGG+AGG 0.533603 1.1:-64490098 MS.gene005517:CDS
CAGATTGAGGAAGCAGCAAA+AGG 0.537553 1.1:-64490239 MS.gene005517:CDS
TTCAGGAGGATCAGACGGTA+TGG 0.542904 1.1:-64490326 MS.gene005517:CDS
CTGCAAGACGATCCAGATTG+AGG 0.544090 1.1:-64490252 MS.gene005517:CDS
CGCGCGGAGTATTAAGGCGA+CGG 0.554524 1.1:-64490164 MS.gene005517:CDS
CCTTAATACTCCGCGCGAGA+CGG 0.575439 1.1:+64490170 None:intergenic
AGAAGAGGATCATCAATCAA+AGG 0.595685 1.1:+64489998 None:intergenic
ATGAACCAAGGTTTGAGAAG+AGG 0.601064 1.1:+64489983 None:intergenic
TTTGGATAAGGTATGAACCA+AGG 0.606535 1.1:+64489971 None:intergenic
CAAAAGGTTGAAGATCTGAC+CGG 0.611430 1.1:-64490223 MS.gene005517:CDS
TAGAGAATGACCGTCTCGCG+CGG 0.619664 1.1:-64490180 MS.gene005517:CDS
TCAGGTTCAGGAGGATCAGA+CGG 0.633722 1.1:-64490331 MS.gene005517:CDS
CCTGTAAGTTCAGGTTCAGG+AGG 0.659516 1.1:-64490340 MS.gene005517:CDS
GCGGAGTATTAAGGCGACGG+AGG 0.691194 1.1:-64490161 MS.gene005517:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ACCTTATCCAAATTATTCTA+TGG - chr1.1:64490332-64490351 MS.gene005517:CDS 25.0%
GCCATAGAATAATTTGGATA+AGG + chr1.1:64490336-64490355 None:intergenic 30.0%
TGTGATGCCATAGAATAATT+TGG + chr1.1:64490342-64490361 None:intergenic 30.0%
AGAAGAGGATCATCAATCAA+AGG + chr1.1:64490297-64490316 None:intergenic 35.0%
TTTGGATAAGGTATGAACCA+AGG + chr1.1:64490324-64490343 None:intergenic 35.0%
AAGAATTGGAGGCTCAGTTT+CGG - chr1.1:64490205-64490224 MS.gene005517:CDS 40.0%
ATGAACCAAGGTTTGAGAAG+AGG + chr1.1:64490312-64490331 None:intergenic 40.0%
ATGATCCTCTTCTCAAACCT+TGG - chr1.1:64490304-64490323 MS.gene005517:CDS 40.0%
ATTCAACGTCCTGTAAGTTC+AGG - chr1.1:64489943-64489962 MS.gene005517:CDS 40.0%
CAAAAGGTTGAAGATCTGAC+CGG - chr1.1:64490069-64490088 MS.gene005517:CDS 40.0%
TTTCAATCTACCAGCTTCTC+CGG + chr1.1:64490091-64490110 None:intergenic 40.0%
AGCGCAGACTAAAGAATTGG+AGG - chr1.1:64490194-64490213 MS.gene005517:CDS 45.0%
CAGAGCGCAGACTAAAGAAT+TGG - chr1.1:64490191-64490210 MS.gene005517:CDS 45.0%
CAGATTGAGGAAGCAGCAAA+AGG - chr1.1:64490053-64490072 MS.gene005517:CDS 45.0%
TGGATCGTCTTGCAGATTCA+CGG + chr1.1:64490035-64490054 None:intergenic 45.0%
!! CTTTTGCTGCTTCCTCAATC+TGG + chr1.1:64490055-64490074 None:intergenic 45.0%
CCTCCTGAACCTGAACTTAC+AGG + chr1.1:64489955-64489974 None:intergenic 50.0%
CTGCAAGACGATCCAGATTG+AGG - chr1.1:64490040-64490059 MS.gene005517:CDS 50.0%
TCAGGTTCAGGAGGATCAGA+CGG - chr1.1:64489961-64489980 MS.gene005517:CDS 50.0%
TTCAGGAGGATCAGACGGTA+TGG - chr1.1:64489966-64489985 MS.gene005517:CDS 50.0%
! CCTGTAAGTTCAGGTTCAGG+AGG - chr1.1:64489952-64489971 MS.gene005517:CDS 50.0%
! CGTCCTGTAAGTTCAGGTTC+AGG - chr1.1:64489949-64489968 MS.gene005517:CDS 50.0%
! GGAGGAAGCGTATGTGAAGA+TGG - chr1.1:64490149-64490168 MS.gene005517:CDS 50.0%
CCTTAATACTCCGCGCGAGA+CGG + chr1.1:64490125-64490144 None:intergenic 55.0%
GAAGATCTGACCGGAGAAGC+TGG - chr1.1:64490078-64490097 MS.gene005517:CDS 55.0%
TAGAGAATGACCGTCTCGCG+CGG - chr1.1:64490112-64490131 MS.gene005517:CDS 55.0%
! CCGTCTCGCGCGGAGTATTA+AGG - chr1.1:64490122-64490141 MS.gene005517:CDS 60.0%
! CGCGCGGAGTATTAAGGCGA+CGG - chr1.1:64490128-64490147 MS.gene005517:CDS 60.0%
! GCGGAGTATTAAGGCGACGG+AGG - chr1.1:64490131-64490150 MS.gene005517:CDS 60.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 64489934 64490380 64489934 ID=MS.gene005517
chr1.1 mRNA 64489934 64490380 64489934 ID=MS.gene005517.t1;Parent=MS.gene005517
chr1.1 exon 64489934 64490380 64489934 ID=MS.gene005517.t1.exon1;Parent=MS.gene005517.t1
chr1.1 CDS 64489934 64490380 64489934 ID=cds.MS.gene005517.t1;Parent=MS.gene005517.t1
Gene Sequence

>MS.gene005517

ATGGCTTCGATTCAACGTCCTGTAAGTTCAGGTTCAGGAGGATCAGACGGTATGGATCTACAAATCGACGAGCGAAAACGCAAGAGAATGCTGTCAAACCGTGAATCTGCAAGACGATCCAGATTGAGGAAGCAGCAAAAGGTTGAAGATCTGACCGGAGAAGCTGGTAGATTGAAAATAGAGAATGACCGTCTCGCGCGGAGTATTAAGGCGACGGAGGAAGCGTATGTGAAGATGGAAGCTGCAAATGATGTTATCAGAGCGCAGACTAAAGAATTGGAGGCTCAGTTTCGGTTTTTGAATTCTGTAATTGATGCTGCTGCTGCTGAAGAGACTAATAGTTTCTCTGTTGATGATGTGCCTTTGATTGATGATCCTCTTCTCAAACCTTGGTTCATACCTTATCCAAATTATTCTATGGCATCACATGAAATGATGCTGCGTTGA
Protein sequence

>MS.gene005517.t1

MASIQRPVSSGSGGSDGMDLQIDERKRKRMLSNRESARRSRLRKQQKVEDLTGEAGRLKIENDRLARSIKATEEAYVKMEAANDVIRAQTKELEAQFRFLNSVIDAAAAEETNSFSVDDVPLIDDPLLKPWFIPYPNYSMASHEMMLR