AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026843

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026843 MtrunA17_Chr4g0060841 44.628 363 163 8 15 348 1 354 1.20e-92 281
MsaG026843 MtrunA17_Chr5g0417671 96.078 51 2 0 55 105 26 76 1.69e-26 100
MsaG026843 MtrunA17_Chr5g0417661 63.158 76 5 2 5 57 41 116 2.58e-20 85.9
MsaG026843 MtrunA17_Chr3g0134451 27.869 183 95 6 15 169 1 174 3.25e-13 69.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026843 AT2G03060.3 42.636 387 168 8 15 354 1 380 3.65e-83 258
MsaG026843 AT2G03060.7 42.636 387 168 8 15 354 1 380 3.65e-83 258
MsaG026843 AT2G03060.1 42.636 387 168 8 15 354 1 380 3.65e-83 258
MsaG026843 AT2G03060.2 42.636 387 160 9 15 350 1 376 3.89e-83 258
MsaG026843 AT1G18750.4 49.434 265 104 7 15 253 1 261 1.45e-70 225
MsaG026843 AT1G18750.1 49.434 265 104 7 15 253 1 261 1.45e-70 226
MsaG026843 AT1G69540.1 39.782 367 161 15 15 348 1 340 3.67e-65 210
MsaG026843 AT1G69540.2 39.782 367 161 15 15 348 1 340 1.11e-64 210
MsaG026843 AT1G18750.3 43.960 298 104 8 15 253 1 294 8.88e-64 209
MsaG026843 AT1G18750.2 47.032 219 104 5 43 253 1 215 1.01e-54 183
MsaG026843 AT2G03060.6 38.562 306 152 6 78 354 24 322 5.48e-49 167
MsaG026843 AT2G03060.5 38.562 306 152 6 78 354 24 322 5.48e-49 167
MsaG026843 AT2G03060.4 38.562 306 152 6 78 354 24 322 5.48e-49 167
MsaG026843 AT1G69540.3 33.088 272 141 13 92 348 2 247 1.77e-27 108
MsaG026843 AT1G18750.5 38.961 154 82 5 108 253 10 159 5.99e-24 100
MsaG026843 AT1G18750.6 37.908 153 83 5 109 253 23 171 3.56e-22 95.5
MsaG026843 AT1G77980.1 27.919 197 108 7 15 178 1 196 5.06e-13 69.7
MsaG026843 AT1G22130.1 25.510 196 113 6 15 178 1 195 8.66e-11 63.2

Find 58 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATAATTCCATTCTTTCTTT+TGG 0.207827 5:-30104485 None:intergenic
CCGAAATTCATGAGAGATTA+AGG 0.265694 5:+30106661 MsaT026843.1:CDS
AATTAGTAGTGTGGATAAAC+TGG 0.285333 5:+30106834 MsaT026843.1:CDS
GTGAGACTACAACAATTTAA+TGG 0.289219 5:+30109251 MsaT026843.1:CDS
GCAGCTTTCTTGACCAGAAT+TGG 0.312176 5:-30109192 None:intergenic
CCTTAATCTCTCATGAATTT+CGG 0.312515 5:-30106661 None:intergenic
TTGAAATTGTTTGGTATGTA+TGG 0.317670 5:-30109281 None:intergenic
TTCATAATGTTGAAATTGTT+TGG 0.322241 5:-30109290 None:intergenic
AAAACAAACATGTCCAATTC+TGG 0.323546 5:+30109179 MsaT026843.1:CDS
GGAAGCTATGCTAGTTATCT+TGG 0.323605 5:+30109146 MsaT026843.1:CDS
TCTCTGTCTTGGATGGTTAA+TGG 0.333794 5:+30108142 MsaT026843.1:CDS
CATGGTTGGACTTCTAATTC+AGG 0.334226 5:+30109434 MsaT026843.1:CDS
ATGAAGCTCCAACCAGTTAC+AGG 0.341157 5:+30109317 MsaT026843.1:CDS
GACTGATCAAACCCTTGTTT+AGG 0.371489 5:-30109401 None:intergenic
GGCTCAACAAGTTCATCATT+TGG 0.382829 5:+30109125 MsaT026843.1:CDS
ATCATTGCAATGCAATAATC+AGG 0.385364 5:+30107967 MsaT026843.1:CDS
GGATTATTCATCCCTGTAAC+TGG 0.398800 5:-30109329 None:intergenic
CTCAACTAACTTCACAAGAA+AGG 0.420598 5:+30105792 MsaT026843.1:CDS
AGAAGCAAACTTGAGTCTTC+AGG 0.422149 5:-30108187 None:intergenic
AGCATCTTCAATCTCTGTCT+TGG 0.441721 5:+30108131 MsaT026843.1:CDS
ACCTATGCCAAAAGAAAGAA+TGG 0.450298 5:+30104478 MsaT026843.1:CDS
AAAGCTAAAGATAAAGAGGT+TGG 0.455969 5:+30104432 MsaT026843.1:CDS
TAATCAAATTCAAACTCATA+AGG 0.457761 5:+30106888 MsaT026843.1:CDS
TTAAATTGTTGTAGTCTCAC+TGG 0.465422 5:-30109248 None:intergenic
AAATGTACAAAAGCAACAAC+TGG 0.484094 5:+30107943 MsaT026843.1:CDS
AAGAGGTTGGAGAACACAAA+TGG 0.486098 5:+30104445 MsaT026843.1:CDS
CTTCAGGTAACACTAAATTC+TGG 0.489233 5:-30108171 None:intergenic
GATCAGTCTAATAATCATCA+TGG 0.500916 5:+30109416 MsaT026843.1:CDS
AGTCTAATAATCATCATGGT+TGG 0.502518 5:+30109420 MsaT026843.1:CDS
CGCCTCCCTGTGCATAATGA+AGG 0.509179 5:-30104580 None:intergenic
TCAACTAACTTCACAAGAAA+GGG 0.510639 5:+30105793 MsaT026843.1:CDS
CATTATGCACAGGGAGGCGC+AGG 0.512848 5:+30104584 MsaT026843.1:CDS
GATGAACATTTGTATCCTCA+AGG 0.515228 5:+30109479 MsaT026843.1:CDS
TATGAATTTGTAGGATGGGG+AGG 0.530190 5:+30104407 MsaT026843.1:intron
GGGTAAAGCTAAAGATAAAG+AGG 0.530230 5:+30104428 MsaT026843.1:CDS
TCTTCAATCTCTGTCTTGGA+TGG 0.532373 5:+30108135 MsaT026843.1:CDS
TGTGGATAAACTGGGACAGT+TGG 0.534294 5:+30106843 MsaT026843.1:CDS
GATACGCTTATGTAAAAGCT+TGG 0.535960 5:-30106637 None:intergenic
GGAAAACCTTCATTATGCAC+AGG 0.541969 5:+30104574 MsaT026843.1:CDS
TATTCATCCCTGTAACTGGT+TGG 0.552728 5:-30109325 None:intergenic
TTGCAGTAGTCAAACTGTTG+AGG 0.555876 5:+30106520 MsaT026843.1:intron
AACTTTGAAGCACCTAAACA+AGG 0.556172 5:+30109389 MsaT026843.1:CDS
AATCTATTATAGAGATGTAG+AGG 0.557184 5:+30109103 MsaT026843.1:intron
AACACATTGGTGAGCACTAG+AGG 0.569706 5:-30103983 None:intergenic
ATGAATTTGTAGGATGGGGA+GGG 0.577689 5:+30104408 MsaT026843.1:intron
GTGAATCCAAAATGCACTTG+TGG 0.579613 5:-30109509 None:intergenic
CTTCACAAGAAAGGGCAAAG+AGG 0.603770 5:+30105801 MsaT026843.1:CDS
ACTTTGAAGCACCTAAACAA+GGG 0.617044 5:+30109390 MsaT026843.1:CDS
TGAAGCTCCAACCAGTTACA+GGG 0.625859 5:+30109318 MsaT026843.1:CDS
ACAGTTGGAAAATTCACTCA+AGG 0.626422 5:+30106858 MsaT026843.1:CDS
ATTAGTAGTGTGGATAAACT+GGG 0.628981 5:+30106835 MsaT026843.1:CDS
ACACATTGGTGAGCACTAGA+GGG 0.633190 5:-30103982 None:intergenic
ACTTGTGGAAAATTTCCTTG+AGG 0.647151 5:-30109494 None:intergenic
ATCTATTATAGAGATGTAGA+GGG 0.657788 5:+30109104 MsaT026843.1:intron
TCAAAGATATTAACAGCACA+AGG 0.669359 5:-30109458 None:intergenic
GAAAACCTTCATTATGCACA+GGG 0.671432 5:+30104575 MsaT026843.1:CDS
TGAATGTAGCAACTTTGAAG+AGG 0.695859 5:+30105754 MsaT026843.1:intron
AACCTTCATTATGCACAGGG+AGG 0.717217 5:+30104578 MsaT026843.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 30103962 30109535 30103962 ID=MsaG026843
Chr5 mRNA 30103962 30109535 30103962 ID=MsaT026843.1;Parent=MsaG026843
Chr5 exon 30103962 30104002 30103962 ID=MsaT026843.1.exon1;Parent=MsaT026843.1
Chr5 CDS 30103962 30104002 30103962 ID=cds.MsaT026843.1;Parent=MsaT026843.1
Chr5 exon 30104420 30104517 30104420 ID=MsaT026843.1.exon2;Parent=MsaT026843.1
Chr5 CDS 30104420 30104517 30104420 ID=cds.MsaT026843.1;Parent=MsaT026843.1
Chr5 exon 30104572 30104605 30104572 ID=MsaT026843.1.exon3;Parent=MsaT026843.1
Chr5 CDS 30104572 30104605 30104572 ID=cds.MsaT026843.1;Parent=MsaT026843.1
Chr5 exon 30105763 30105822 30105763 ID=MsaT026843.1.exon4;Parent=MsaT026843.1
Chr5 CDS 30105763 30105822 30105763 ID=cds.MsaT026843.1;Parent=MsaT026843.1
Chr5 exon 30105918 30105936 30105918 ID=MsaT026843.1.exon5;Parent=MsaT026843.1
Chr5 CDS 30105918 30105936 30105918 ID=cds.MsaT026843.1;Parent=MsaT026843.1
Chr5 exon 30106057 30106121 30106057 ID=MsaT026843.1.exon6;Parent=MsaT026843.1
Chr5 CDS 30106057 30106121 30106057 ID=cds.MsaT026843.1;Parent=MsaT026843.1
Chr5 exon 30106526 30106541 30106526 ID=MsaT026843.1.exon7;Parent=MsaT026843.1
Chr5 CDS 30106526 30106541 30106526 ID=cds.MsaT026843.1;Parent=MsaT026843.1
Chr5 exon 30106621 30106682 30106621 ID=MsaT026843.1.exon8;Parent=MsaT026843.1
Chr5 CDS 30106621 30106682 30106621 ID=cds.MsaT026843.1;Parent=MsaT026843.1
Chr5 exon 30106813 30106909 30106813 ID=MsaT026843.1.exon9;Parent=MsaT026843.1
Chr5 CDS 30106813 30106909 30106813 ID=cds.MsaT026843.1;Parent=MsaT026843.1
Chr5 exon 30107941 30107988 30107941 ID=MsaT026843.1.exon10;Parent=MsaT026843.1
Chr5 CDS 30107941 30107988 30107941 ID=cds.MsaT026843.1;Parent=MsaT026843.1
Chr5 exon 30108091 30108215 30108091 ID=MsaT026843.1.exon11;Parent=MsaT026843.1
Chr5 CDS 30108091 30108215 30108091 ID=cds.MsaT026843.1;Parent=MsaT026843.1
Chr5 exon 30109115 30109535 30109115 ID=MsaT026843.1.exon12;Parent=MsaT026843.1
Chr5 CDS 30109115 30109535 30109115 ID=cds.MsaT026843.1;Parent=MsaT026843.1
Gene Sequence

>MsaT026843.1

ATGACCGATTTTTCTGGTCACCCTCTAGTGCTCACCAATGTGATGGGGAGGGTAAAGCTAAAGATAAAGAGGTTGGAGAACACAAATGGACGCCAAGCAACCTATGCCAAAAGAAAGAATGGAATTATGAAGAAAGCAAGTGGAAAACCTTCATTATGCACAGGGAGGCGCAGCAACTTTGAAGAGGTGATTGCAAAGTTTGCTCAACTAACTTCACAAGAAAGGGCAAAGAGGAAATTGGAGAGTCTTGAAGCACTAAAGAAAACATTTAAGAAGTTAGATCATGATGTGAATATACAAGACTTTTATGGCACAAGTAGTCAAACTGTTGAGGATTTGAGTGATCAAGCCAAGCTTTTACATAAGCGTATCTCCGAAATTCATGAGAGATTAAGCAATTGGTCTGACATTGAAAAAATTAGTAGTGTGGATAAACTGGGACAGTTGGAAAATTCACTCAAGGAGTCTCTTAATCAAATTCAAACTCATAAGGAAAATGTACAAAAGCAACAACTGGCATCATTGCAATGCAATAATCAGTTCAATGAATTGCAGCTTCCCTACAAAATGAGTCAGCAACAGCATCTTCAATCTCTGTCTTGGATGGTTAATGGTGACAGCCAGAATTTAGTGTTACCTGAAGACTCAAGTTTGCTTCTCCACAAAGATGTAGAGGGCTCAACAAGTTCATCATTTGGAAGCTATGCTAGTTATCTTGGCTCAAGCACAAAAACAAACATGTCCAATTCTGGTCAAGAAAGCTGCATCATTAATGACATGAGCAATACTACTACTGCTCCAGTGAGACTACAACAATTTAATGGACAAGTTCCATACATACCAAACAATTTCAACATTATGAATGATATGAAGCTCCAACCAGTTACAGGGATGAATAATCCACATGAAAATCAAGTAGATAATTATCATGTCAATGCAAACTTTGAAGCACCTAAACAAGGGTTTGATCAGTCTAATAATCATCATGGTTGGACTTCTAATTCAGGTCCTTGTGCTGTTAATATCTTTGATGAACATTTGTATCCTCAAGGAAATTTTCCACAAGTGCATTTTGGATTCACATAG
Protein sequence

>MsaT026843.1

MTDFSGHPLVLTNVMGRVKLKIKRLENTNGRQATYAKRKNGIMKKASGKPSLCTGRRSNFEEVIAKFAQLTSQERAKRKLESLEALKKTFKKLDHDVNIQDFYGTSSQTVEDLSDQAKLLHKRISEIHERLSNWSDIEKISSVDKLGQLENSLKESLNQIQTHKENVQKQQLASLQCNNQFNELQLPYKMSQQQHLQSLSWMVNGDSQNLVLPEDSSLLLHKDVEGSTSSSFGSYASYLGSSTKTNMSNSGQESCIINDMSNTTTAPVRLQQFNGQVPYIPNNFNIMNDMKLQPVTGMNNPHENQVDNYHVNANFEAPKQGFDQSNNHHGWTSNSGPCAVNIFDEHLYPQGNFPQVHFGFT*