AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene20855

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20855.t1 MTR_1g087040 95.395 152 5 1 1 152 1 150 1.56e-103 293
MS.gene20855.t1 MTR_7g109510 48.344 151 63 2 1 151 1 136 1.37e-31 110
MS.gene20855.t1 MTR_4g070860 36.090 133 70 2 15 132 16 148 1.78e-23 90.1
MS.gene20855.t1 MTR_1g022495 36.076 158 88 4 7 151 2 159 4.47e-23 89.4
MS.gene20855.t1 MTR_3g117120 44.211 95 53 0 15 109 16 110 5.05e-23 89.0
MS.gene20855.t1 MTR_8g086020 37.415 147 82 4 1 140 1 144 3.07e-22 87.0
MS.gene20855.t1 MTR_3g112220 41.772 79 46 0 26 104 1 79 1.97e-15 67.8
MS.gene20855.t1 MTR_7g029400 38.298 94 55 1 7 97 59 152 3.84e-14 66.6
MS.gene20855.t1 MTR_5g015090 36.667 90 53 1 8 93 36 125 2.47e-13 63.9
MS.gene20855.t1 MTR_8g015250 40.217 92 51 2 10 97 51 142 1.24e-12 62.4
MS.gene20855.t1 MTR_4g097440 28.244 131 76 2 6 121 37 164 4.05e-12 60.8
MS.gene20855.t1 MTR_7g017880 36.697 109 62 2 26 133 84 186 6.12e-12 60.8
MS.gene20855.t1 MTR_3g103360 34.375 96 63 0 13 108 40 135 8.27e-12 59.7
MS.gene20855.t1 MTR_1g017570 40.000 85 47 1 28 108 59 143 9.19e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20855.t1 AT3G62420 45.614 114 59 1 27 140 23 133 2.86e-27 99.8
MS.gene20855.t1 AT2G18160 45.545 101 54 1 24 124 26 125 5.17e-25 94.7
MS.gene20855.t1 AT1G75390 40.000 120 68 1 26 141 38 157 2.72e-23 90.1
MS.gene20855.t1 AT4G34590 48.810 84 43 0 26 109 24 107 3.20e-22 87.0
MS.gene20855.t1 AT1G75390 50.000 88 39 2 10 93 19 105 1.33e-19 79.3
MS.gene20855.t1 AT5G38800 38.462 91 56 0 8 98 51 141 4.27e-13 63.5
MS.gene20855.t1 AT3G30530 37.755 98 55 1 7 98 53 150 7.91e-13 62.8
MS.gene20855.t1 AT2G22850 43.038 79 44 1 24 101 123 201 1.91e-11 60.1
MS.gene20855.t1 AT2G22850 43.038 79 44 1 24 101 123 201 1.91e-11 60.1
MS.gene20855.t1 AT5G15830 43.284 67 37 1 3 69 49 114 6.23e-11 58.2
MS.gene20855.t1 AT1G13600 36.364 110 65 2 10 119 67 171 8.68e-11 57.8

Find 32 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTGATGCCATAGAATAATT+TGG 0.207768 1.3:+61581130 None:intergenic
ACCTTATCCAAATTATTCTA+TGG 0.288233 1.3:-61581137 MS.gene20855:CDS
TCAGGTTCAGGTTCAGGTTC+AGG 0.293663 1.3:-61581520 MS.gene20855:CDS
GTAAGTTCAGGTTCAGGTTC+AGG 0.297252 1.3:-61581526 MS.gene20855:CDS
GAACCTGAACCTGAACTTAC+AGG 0.327424 1.3:+61581529 None:intergenic
CCGTCTCGCGCGGAGTATTA+AGG 0.331337 1.3:-61581347 MS.gene20855:CDS
ATGATCCTCTTCTCAAACCT+TGG 0.395871 1.3:-61581165 MS.gene20855:CDS
CAGAGCGCAGACAAAAGAAT+TGG 0.420236 1.3:-61581278 MS.gene20855:CDS
ATTCAACGTCCTGTAAGTTC+AGG 0.426014 1.3:-61581538 MS.gene20855:CDS
CGTCCTGTAAGTTCAGGTTC+AGG 0.436352 1.3:-61581532 MS.gene20855:CDS
AAGAATTGGAGGCTCAGTTT+CGG 0.458820 1.3:-61581264 MS.gene20855:CDS
TTTCAATCTACCGGCTTCTC+CGG 0.462286 1.3:+61581381 None:intergenic
GCCATAGAATAATTTGGATA+AGG 0.470081 1.3:+61581136 None:intergenic
GAGACTGAGGAAGCAACAAC+AGG 0.500140 1.3:-61581416 MS.gene20855:CDS
TTCAGGAGGTTCAGACGGTA+TGG 0.508548 1.3:-61581503 MS.gene20855:CDS
GGAGGAAGCGTATGTGAAGA+TGG 0.510835 1.3:-61581320 MS.gene20855:CDS
TCGATCGTCTCGCGGATTCA+CGG 0.514018 1.3:+61581437 None:intergenic
GAAGATCTGACCGGAGAAGC+CGG 0.539519 1.3:-61581391 MS.gene20855:CDS
AGATGCTGCTGCTGCTGAAG+AGG 0.541104 1.3:-61581224 MS.gene20855:CDS
CGCGCGGAGTATTAAGGCGA+CGG 0.554524 1.3:-61581341 MS.gene20855:CDS
AGCGCAGACAAAAGAATTGG+AGG 0.555181 1.3:-61581275 MS.gene20855:CDS
GGTTCAGGTTCAGGTTCAGG+AGG 0.572738 1.3:-61581517 MS.gene20855:CDS
CCTTAATACTCCGCGCGAGA+CGG 0.575439 1.3:+61581347 None:intergenic
CCGCGAGACGATCGAGACTG+AGG 0.589124 1.3:-61581429 MS.gene20855:CDS
AGAAGAGGATCATCAATCAA+AGG 0.595685 1.3:+61581175 None:intergenic
ATGAACCAAGGTTTGAGAAG+AGG 0.601064 1.3:+61581160 None:intergenic
CCTCAGTCTCGATCGTCTCG+CGG 0.605319 1.3:+61581429 None:intergenic
TTTGGATAAGGTATGAACCA+AGG 0.606535 1.3:+61581148 None:intergenic
TCAGGTTCAGGAGGTTCAGA+CGG 0.613881 1.3:-61581508 MS.gene20855:CDS
TAGAGAATGACCGTCTCGCG+CGG 0.619664 1.3:-61581357 MS.gene20855:CDS
CAACAGGTTGAAGATCTGAC+CGG 0.629630 1.3:-61581400 MS.gene20855:CDS
GCGGAGTATTAAGGCGACGG+AGG 0.691194 1.3:-61581338 MS.gene20855:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ACCTTATCCAAATTATTCTA+TGG - chr1.3:61581521-61581540 MS.gene20855:CDS 25.0%
!! ATTCTCTATTTTCAATCTAC+CGG + chr1.3:61581289-61581308 None:intergenic 25.0%
GCCATAGAATAATTTGGATA+AGG + chr1.3:61581525-61581544 None:intergenic 30.0%
TGTGATGCCATAGAATAATT+TGG + chr1.3:61581531-61581550 None:intergenic 30.0%
AGAAGAGGATCATCAATCAA+AGG + chr1.3:61581486-61581505 None:intergenic 35.0%
TTTGGATAAGGTATGAACCA+AGG + chr1.3:61581513-61581532 None:intergenic 35.0%
AAGAATTGGAGGCTCAGTTT+CGG - chr1.3:61581394-61581413 MS.gene20855:CDS 40.0%
ATGAACCAAGGTTTGAGAAG+AGG + chr1.3:61581501-61581520 None:intergenic 40.0%
ATGATCCTCTTCTCAAACCT+TGG - chr1.3:61581493-61581512 MS.gene20855:CDS 40.0%
ATTCAACGTCCTGTAAGTTC+AGG - chr1.3:61581120-61581139 MS.gene20855:CDS 40.0%
AGCGCAGACAAAAGAATTGG+AGG - chr1.3:61581383-61581402 MS.gene20855:CDS 45.0%
CAGAGCGCAGACAAAAGAAT+TGG - chr1.3:61581380-61581399 MS.gene20855:CDS 45.0%
GAACCTGAACCTGAACTTAC+AGG + chr1.3:61581132-61581151 None:intergenic 45.0%
! CAACAGGTTGAAGATCTGAC+CGG - chr1.3:61581258-61581277 MS.gene20855:CDS 45.0%
! GTAAGTTCAGGTTCAGGTTC+AGG - chr1.3:61581132-61581151 MS.gene20855:CDS 45.0%
!! TTTCAATCTACCGGCTTCTC+CGG + chr1.3:61581280-61581299 None:intergenic 45.0%
GAGACTGAGGAAGCAACAAC+AGG - chr1.3:61581242-61581261 MS.gene20855:CDS 50.0%
TCAGGTTCAGGAGGTTCAGA+CGG - chr1.3:61581150-61581169 MS.gene20855:CDS 50.0%
TTCAGGAGGTTCAGACGGTA+TGG - chr1.3:61581155-61581174 MS.gene20855:CDS 50.0%
! CGTCCTGTAAGTTCAGGTTC+AGG - chr1.3:61581126-61581145 MS.gene20855:CDS 50.0%
! GGAGGAAGCGTATGTGAAGA+TGG - chr1.3:61581338-61581357 MS.gene20855:CDS 50.0%
! TCAGGTTCAGGTTCAGGTTC+AGG - chr1.3:61581138-61581157 MS.gene20855:CDS 50.0%
AGATGCTGCTGCTGCTGAAG+AGG - chr1.3:61581434-61581453 MS.gene20855:CDS 55.0%
CCTTAATACTCCGCGCGAGA+CGG + chr1.3:61581314-61581333 None:intergenic 55.0%
GAAGATCTGACCGGAGAAGC+CGG - chr1.3:61581267-61581286 MS.gene20855:CDS 55.0%
TAGAGAATGACCGTCTCGCG+CGG - chr1.3:61581301-61581320 MS.gene20855:CDS 55.0%
TCGATCGTCTCGCGGATTCA+CGG + chr1.3:61581224-61581243 None:intergenic 55.0%
! GGTTCAGGTTCAGGTTCAGG+AGG - chr1.3:61581141-61581160 MS.gene20855:CDS 55.0%
CCTCAGTCTCGATCGTCTCG+CGG + chr1.3:61581232-61581251 None:intergenic 60.0%
! CCGTCTCGCGCGGAGTATTA+AGG - chr1.3:61581311-61581330 MS.gene20855:CDS 60.0%
! CGCGCGGAGTATTAAGGCGA+CGG - chr1.3:61581317-61581336 MS.gene20855:CDS 60.0%
! GCGGAGTATTAAGGCGACGG+AGG - chr1.3:61581320-61581339 MS.gene20855:CDS 60.0%
CCGCGAGACGATCGAGACTG+AGG - chr1.3:61581229-61581248 MS.gene20855:CDS 65.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 61581111 61581569 61581111 ID=MS.gene20855
chr1.3 mRNA 61581111 61581569 61581111 ID=MS.gene20855.t1;Parent=MS.gene20855
chr1.3 exon 61581111 61581569 61581111 ID=MS.gene20855.t1.exon1;Parent=MS.gene20855.t1
chr1.3 CDS 61581111 61581569 61581111 ID=cds.MS.gene20855.t1;Parent=MS.gene20855.t1
Gene Sequence

>MS.gene20855

ATGGCTTCGATTCAACGTCCTGTAAGTTCAGGTTCAGGTTCAGGTTCAGGAGGTTCAGACGGTATGGATCTACAAATCGACGAACGAAAACGCAAGAGAATGCTGTCAAACCGTGAATCCGCGAGACGATCGAGACTGAGGAAGCAACAACAGGTTGAAGATCTGACCGGAGAAGCCGGTAGATTGAAAATAGAGAATGACCGTCTCGCGCGGAGTATTAAGGCGACGGAGGAAGCGTATGTGAAGATGGAAGCTGCTAATGATGTTATCAGAGCGCAGACAAAAGAATTGGAGGCTCAGTTTCGGTTTTTGAATTCTGTTATAGATGCTGCTGCTGCTGAAGAGGCTAATAGTTTCTCTGTCGATGATGTGCCTTTGATTGATGATCCTCTTCTCAAACCTTGGTTCATACCTTATCCAAATTATTCTATGGCATCACATGAAATGATGCTGCGTTGA
Protein sequence

>MS.gene20855.t1

MASIQRPVSSGSGSGSGGSDGMDLQIDERKRKRMLSNRESARRSRLRKQQQVEDLTGEAGRLKIENDRLARSIKATEEAYVKMEAANDVIRAQTKELEAQFRFLNSVIDAAAAEEANSFSVDDVPLIDDPLLKPWFIPYPNYSMASHEMMLR