AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG020505

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020505 MtrunA17_Chr2g0320884 65.957 94 32 0 63 156 39 132 2.74e-33 122
MsaG020505 MtrunA17_Chr2g0320884 58.824 68 19 3 140 198 259 326 5.43e-13 67.0
MsaG020505 MtrunA17_Chr4g0027191 50.000 94 47 0 63 156 9 102 2.48e-21 90.9
MsaG020505 MtrunA17_Chr4g0027181 46.809 94 50 0 63 156 9 102 5.92e-20 85.5
MsaG020505 MtrunA17_Chr7g0265761 43.373 83 45 1 62 144 4 84 3.35e-15 72.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020505 AT5G22650.2 45.714 70 36 1 84 153 24 91 1.03e-11 63.5
MsaG020505 AT5G22650.1 45.714 70 36 1 84 153 24 91 1.08e-11 63.5
MsaG020505 AT5G03740.1 35.870 92 56 2 62 153 4 92 1.44e-11 63.2

Find 51 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGACATTCACCTCTGAAAA+TGG 0.279756 4:+53200337 MsaT020505.1:intron
AGGACATTCACCTCTGAAAA+TGG 0.279756 4:+53200512 MsaT020505.1:intron
GAAATAAACACTCGCAGTTT+TGG 0.283107 4:-53199686 None:intergenic
CAAACAACCACAGGCTCTTC+TGG 0.322693 4:-53199553 None:intergenic
CTACGGCAAGAGAGTCTTCT+AGG 0.324879 4:-53200391 None:intergenic
GAAGTTTCAGCATCATTGTT+AGG 0.324985 4:-53200202 None:intergenic
TCTTTCTCCAACTCATCATT+TGG 0.333760 4:-53198059 None:intergenic
TGGTGGCCAGAAGATTGTTT+TGG 0.334121 4:+53199585 MsaT020505.1:CDS
TGAATTAGGTGCCGAGGTTA+AGG 0.371872 4:+53199333 MsaT020505.1:intron
GCACTTGGTGCAGCAAATAA+AGG 0.387943 4:+53199526 MsaT020505.1:CDS
TTGTTAGATTCTGAGAAAAC+TGG 0.390338 4:+53200148 MsaT020505.1:intron
TTAGGACCTTTCTTAGAGTC+AGG 0.425080 4:-53200184 None:intergenic
AGGTTCCCAAAACAATCTTC+TGG 0.434819 4:-53199591 None:intergenic
CATGCAGATACGTCACCTTC+AGG 0.438018 4:-53198352 None:intergenic
GATGCTGAAACTTCCAAGTC+TGG 0.441612 4:+53200211 MsaT020505.1:CDS
GCATATACCTGCTGCAACTA+CGG 0.445435 4:-53200408 None:intergenic
AGGAAACATGTATCAGCAAT+TGG 0.446528 4:+53198547 MsaT020505.1:CDS
AGCTGCTATTCACATTTCTC+AGG 0.449259 4:+53199396 MsaT020505.1:CDS
TGTAGGGGTGGAAGATCAAT+AGG 0.449297 4:+53198373 MsaT020505.1:CDS
GCAAGAGAGTCCTCCAGACT+TGG 0.490554 4:-53200224 None:intergenic
AAGCATACCTCTTGCAACTA+CGG 0.494531 4:-53200246 None:intergenic
TATGATTGCTGCAGGAGGAA+TGG 0.507716 4:+53198522 MsaT020505.1:intron
GTGAATAGCAGCTGCATCAT+GGG 0.513124 4:-53199386 None:intergenic
TCTCTTGCCGTAGTTGCAGC+AGG 0.514413 4:+53200401 MsaT020505.1:CDS
GCAGCTGCATCATGGGCATA+CGG 0.515322 4:-53199379 None:intergenic
AAAACGAGGCAAACAACCAC+AGG 0.520382 4:-53199562 None:intergenic
TGTGAATAGCAGCTGCATCA+TGG 0.520591 4:-53199387 None:intergenic
AAGGTGACGTATCTGCATGT+AGG 0.523428 4:+53198356 MsaT020505.1:CDS
GCAATTCCTGACTCTAAGAA+AGG 0.524303 4:+53200178 MsaT020505.1:CDS
GAGTCTTCTAGGAGCATGCT+TGG 0.529371 4:-53200380 None:intergenic
TGGATTGCAAGAACATATGA+AGG 0.530216 4:+53200357 MsaT020505.1:CDS
AGGTGACGTATCTGCATGTA+GGG 0.532548 4:+53198357 MsaT020505.1:CDS
CAGCTGCATCATGGGCATAC+GGG 0.543400 4:-53199378 None:intergenic
GCAGATATCTCAAGCCTCAA+GGG 0.554540 4:+53198294 MsaT020505.1:CDS
GTTACTTTATAGGTAGCACT+TGG 0.555076 4:+53199511 MsaT020505.1:intron
TTAGGTGCCGAGGTTAAGGT+TGG 0.557285 4:+53199337 MsaT020505.1:intron
AGCAGATATCTCAAGCCTCA+AGG 0.569658 4:+53198293 MsaT020505.1:CDS
GATATAATTCTACATGACAT+AGG 0.573476 4:+53198083 MsaT020505.1:CDS
GACGTATCTGCATGTAGGGG+TGG 0.611704 4:+53198361 MsaT020505.1:CDS
GGTGATGCCAAATGATGAGT+TGG 0.622182 4:+53198052 None:intergenic
TCTCTTGCCGTAGTTGCAAG+AGG 0.628928 4:+53200239 MsaT020505.1:CDS
AGTTTCTCCAACCTTAACCT+CGG 0.633677 4:-53199344 None:intergenic
ATAGTATTAAAAGTTATCTG+AGG 0.642805 4:-53199631 None:intergenic
CAGATATCTCAAGCCTCAAG+GGG 0.653166 4:+53198295 MsaT020505.1:CDS
AGTCTAGAAAGATTGCCTGA+AGG 0.654009 4:+53198337 MsaT020505.1:CDS
GATCTTTGAATTAGGTGCCG+AGG 0.658816 4:+53199327 MsaT020505.1:intron
GCTGAAACTTCCAAGTCTGG+AGG 0.660898 4:+53200214 MsaT020505.1:CDS
CTGATGACAACAACCCCTTG+AGG 0.667303 4:-53198308 None:intergenic
AGGCATACCAGAAGAGCCTG+TGG 0.681779 4:+53199546 MsaT020505.1:CDS
TTGCTGCAGGAGGAATGGAA+AGG 0.711974 4:+53198527 MsaT020505.1:intron
GGTGACGTATCTGCATGTAG+GGG 0.773785 4:+53198358 MsaT020505.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 53198056 53200553 53198056 ID=MsaG020505
Chr4 mRNA 53198056 53200553 53198056 ID=MsaT020505.1;Parent=MsaG020505
Chr4 exon 53198056 53198104 53198056 ID=MsaT020505.1.exon1;Parent=MsaT020505.1
Chr4 CDS 53198056 53198104 53198056 ID=cds.MsaT020505.1;Parent=MsaT020505.1
Chr4 exon 53198290 53198394 53198290 ID=MsaT020505.1.exon2;Parent=MsaT020505.1
Chr4 CDS 53198290 53198394 53198290 ID=cds.MsaT020505.1;Parent=MsaT020505.1
Chr4 exon 53198536 53198568 53198536 ID=MsaT020505.1.exon3;Parent=MsaT020505.1
Chr4 CDS 53198536 53198568 53198536 ID=cds.MsaT020505.1;Parent=MsaT020505.1
Chr4 exon 53199341 53199417 53199341 ID=MsaT020505.1.exon4;Parent=MsaT020505.1
Chr4 CDS 53199341 53199417 53199341 ID=cds.MsaT020505.1;Parent=MsaT020505.1
Chr4 exon 53199523 53199697 53199523 ID=MsaT020505.1.exon5;Parent=MsaT020505.1
Chr4 CDS 53199523 53199697 53199523 ID=cds.MsaT020505.1;Parent=MsaT020505.1
Chr4 exon 53200155 53200260 53200155 ID=MsaT020505.1.exon6;Parent=MsaT020505.1
Chr4 CDS 53200155 53200260 53200155 ID=cds.MsaT020505.1;Parent=MsaT020505.1
Chr4 exon 53200339 53200422 53200339 ID=MsaT020505.1.exon7;Parent=MsaT020505.1
Chr4 CDS 53200339 53200422 53200339 ID=cds.MsaT020505.1;Parent=MsaT020505.1
Chr4 exon 53200514 53200553 53200514 ID=MsaT020505.1.exon8;Parent=MsaT020505.1
Chr4 CDS 53200514 53200553 53200514 ID=cds.MsaT020505.1;Parent=MsaT020505.1
Gene Sequence

>MsaT020505.1

ATGCCAAATGATGAGTTGGAGAAAGATGATATAATTCTACATGACATAGCGAAGCAGATATCTCAAGCCTCAAGGGGTTGTTGTCATCAGTTTGAGAGTCTAGAAAGATTGCCTGAAGGTGACGTATCTGCATGTAGGGGTGGAAGATCAATAGGAGGAATGGAAAGGAAACATGTATCAGCAATTGGTGCCGAGGTTAAGGTTGGAGAAACTATCAAGATTGACCCGTATGCCCATGATGCAGCTGCTATTCACATTTCTCAGGTAGCACTTGGTGCAGCAAATAAAGGCATACCAGAAGAGCCTGTGGTTGTTTGCCTCGTTTTTGGTGGCCAGAAGATTGTTTTGGGAACCTTAGTCAGGGACAAAATTCCTCAGATAACTTTTAATACTATTCTTGAAAAGGAATTTGAGCTTTCTCACGATTCCAAAACTGCGAATTCTGAGAAAACTGGACATACAGCAATTCCTGACTCTAAGAAAGGTCCTAACAATGATGCTGAAACTTCCAAGTCTGGAGGACTCTCTTGCCGTAGTTGCAAGAGGACATTCACCTCTGAAAATGGATTGCAAGAACATATGAAGGCCAAGCATGCTCCTAGAAGACTCTCTTGCCGTAGTTGCAGCAGGACATTCACCTCTGAAAATGGATTGCAAGCATGCTGCTAA
Protein sequence

>MsaT020505.1

MPNDELEKDDIILHDIAKQISQASRGCCHQFESLERLPEGDVSACRGGRSIGGMERKHVSAIGAEVKVGETIKIDPYAHDAAAIHISQVALGAANKGIPEEPVVVCLVFGGQKIVLGTLVRDKIPQITFNTILEKEFELSHDSKTANSEKTGHTAIPDSKKGPNNDAETSKSGGLSCRSCKRTFTSENGLQEHMKAKHAPRRLSCRSCSRTFTSENGLQACC*