AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1361410


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1361410 MtrunA17_Chr4g0072411 100.000 103 0 0 1 103 59 161 5.39e-69 203
Msa1361410 MtrunA17_Chr5g0425951 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1361410 MtrunA17_Chr4g0030431 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1361410 MtrunA17_Chr3g0100121 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1361410 MtrunA17_Chr3g0113681 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1361410 MtrunA17_Chr2g0327641 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1361410 MtrunA17_Chr3g0103351 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1361410 MtrunA17_Chr8g0352791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1361410 MtrunA17_Chr3g0103821 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1361410 MtrunA17_Chr3g0104031 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1361410 MtrunA17_Chr7g0225731 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1361410 MtrunA17_Chr3g0103801 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1361410 MtrunA17_Chr3g0103881 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1361410 MtrunA17_Chr7g0262791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1361410 AT3G53730.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1361410 AT1G07820.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1361410 AT1G07820.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1361410 AT5G59690.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1361410 AT3G46320.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1361410 AT2G28740.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1361410 AT1G07660.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1361410 AT3G45930.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1361410 AT5G59970.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1361410 AT5G59970.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1361410 AT1G07660.2 83.495 103 0 1 1 103 1 86 4.52e-51 155

Find 31 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGCAGGGAAGGACTCTTTA+TGG 0.247348 tig0017492:-58265 Msa1361410:CDS
GGAAGGACTCTTTATGGATT+TGG 0.297351 tig0017492:-58259 Msa1361410:CDS
TCCTTTGCCTCTTCCTGACA+TGG 0.418595 tig0017492:+58543 None:intergenic
TCTTTATGGATTTGGCGGTT+AGG 0.439485 tig0017492:-58251 None:intergenic
GGCAAAGGAGGAAAGGGTCT+TGG 0.446329 tig0017492:-58529 Msa1361410:CDS
CAAGAATTCACAGCCATGTC+AGG 0.481900 tig0017492:-58556 None:intergenic
CGTTTACGCTCTCAAGAGGC+AGG 0.488613 tig0017492:-58281 Msa1361410:CDS
GGTTCTTCGCGATAACATCC+AGG 0.500175 tig0017492:-58479 Msa1361410:CDS
AGGACTCTTTATGGATTTGG+CGG 0.509079 tig0017492:-58256 Msa1361410:CDS
GGAGGAAAGGGTCTTGGAAA+GGG 0.511441 tig0017492:-58523 Msa1361410:CDS
TCGCAGGCTTCGTGATTCCC+TGG 0.511861 tig0017492:+58461 None:intergenic
AGGAAGAGGCAAAGGAGGAA+AGG 0.518412 tig0017492:-58536 Msa1361410:CDS
GGAAGAGGCAAAGGAGGAAA+GGG 0.527098 tig0017492:-58535 Msa1361410:CDS
CCATCGCAGTAACAGTCTTA+CGG 0.545551 tig0017492:+58308 None:intergenic
GCCATGTCAGGAAGAGGCAA+AGG 0.547501 tig0017492:-58544 Msa1361410:CDS
AGGAGGAAAGGGTCTTGGAA+AGG 0.553664 tig0017492:-58524 Msa1361410:CDS
CCGTAAGACTGTTACTGCGA+TGG 0.561095 tig0017492:-58308 Msa1361410:CDS
CTTGCGAGACGACGAATCGC+AGG 0.571080 tig0017492:+58445 None:intergenic
TTCACAGCCATGTCAGGAAG+AGG 0.573281 tig0017492:-58550 None:intergenic
AGGAGCAAAACGACACCGTA+AGG 0.575994 tig0017492:-58500 Msa1361410:CDS
TGTTATCGCGAAGAACCTTA+CGG 0.576355 tig0017492:+58485 None:intergenic
ATGTCAGGAAGAGGCAAAGG+AGG 0.581057 tig0017492:-58541 Msa1361410:CDS
ACGCTCTCAAGAGGCAGGGA+AGG 0.583359 tig0017492:-58276 Msa1361410:CDS
ACGGCGAGCATGCTCTGTGT+AGG 0.590446 tig0017492:+58327 None:intergenic
GGAAAGGGTCTTGGAAAGGG+AGG 0.621886 tig0017492:-58520 Msa1361410:CDS
ATTCGTCGTCTCGCAAGACG+TGG 0.624267 tig0017492:-58439 Msa1361410:CDS
TTAATCTATGAAGAAACTCG+TGG 0.634992 tig0017492:-58394 Msa1361410:CDS
ATGTCGTTTACGCTCTCAAG+AGG 0.636714 tig0017492:-58285 Msa1361410:CDS
GTTCTTCGCGATAACATCCA+GGG 0.657095 tig0017492:-58478 Msa1361410:CDS
GTTTACGCTCTCAAGAGGCA+GGG 0.663401 tig0017492:-58280 Msa1361410:CDS
GGTGGTGTGAAGCGTATCAG+TGG 0.669421 tig0017492:-58418 Msa1361410:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTAATCTATGAAGAAACTCG+TGG - tig0017492:58399-58418 Msa1361410:CDS 30.0%
TGTTATCGCGAAGAACCTTA+CGG + tig0017492:58311-58330 None:intergenic 40.0%
GGAAGGACTCTTTATGGATT+TGG - tig0017492:58534-58553 Msa1361410:CDS 40.0%
AGGACTCTTTATGGATTTGG+CGG - tig0017492:58537-58556 Msa1361410:CDS 40.0%
GTTCTTCGCGATAACATCCA+GGG - tig0017492:58315-58334 Msa1361410:CDS 45.0%
CCATCGCAGTAACAGTCTTA+CGG + tig0017492:58488-58507 None:intergenic 45.0%
! ATGTCGTTTACGCTCTCAAG+AGG - tig0017492:58508-58527 Msa1361410:CDS 45.0%
ATGTCAGGAAGAGGCAAAGG+AGG - tig0017492:58252-58271 Msa1361410:CDS 50.0%
AGGAAGAGGCAAAGGAGGAA+AGG - tig0017492:58257-58276 Msa1361410:CDS 50.0%
GGAAGAGGCAAAGGAGGAAA+GGG - tig0017492:58258-58277 Msa1361410:CDS 50.0%
AGGAGGAAAGGGTCTTGGAA+AGG - tig0017492:58269-58288 Msa1361410:CDS 50.0%
GGAGGAAAGGGTCTTGGAAA+GGG - tig0017492:58270-58289 Msa1361410:CDS 50.0%
AGGAGCAAAACGACACCGTA+AGG - tig0017492:58293-58312 Msa1361410:CDS 50.0%
GGTTCTTCGCGATAACATCC+AGG - tig0017492:58314-58333 Msa1361410:CDS 50.0%
CCGTAAGACTGTTACTGCGA+TGG - tig0017492:58485-58504 Msa1361410:CDS 50.0%
GTTTACGCTCTCAAGAGGCA+GGG - tig0017492:58513-58532 Msa1361410:CDS 50.0%
AGGCAGGGAAGGACTCTTTA+TGG - tig0017492:58528-58547 Msa1361410:CDS 50.0%
GGCAAAGGAGGAAAGGGTCT+TGG - tig0017492:58264-58283 Msa1361410:CDS 55.0%
GGAAAGGGTCTTGGAAAGGG+AGG - tig0017492:58273-58292 Msa1361410:CDS 55.0%
ATTCGTCGTCTCGCAAGACG+TGG - tig0017492:58354-58373 Msa1361410:CDS 55.0%
GGTGGTGTGAAGCGTATCAG+TGG - tig0017492:58375-58394 Msa1361410:CDS 55.0%
CGTTTACGCTCTCAAGAGGC+AGG - tig0017492:58512-58531 Msa1361410:CDS 55.0%
TCGCAGGCTTCGTGATTCCC+TGG + tig0017492:58335-58354 None:intergenic 60.0%
CTTGCGAGACGACGAATCGC+AGG + tig0017492:58351-58370 None:intergenic 60.0%
ACGGCGAGCATGCTCTGTGT+AGG + tig0017492:58469-58488 None:intergenic 60.0%
ACGCTCTCAAGAGGCAGGGA+AGG - tig0017492:58517-58536 Msa1361410:CDS 60.0%
CGTCGTCTCGCAAGACGTGG+TGG - tig0017492:58357-58376 Msa1361410:CDS 65.0%
Chromosome Type Strat End Strand Name
tig0017492 gene 58252 58563 58252 ID=Msa1361410;Name=Msa1361410
tig0017492 mRNA 58252 58563 58252 ID=Msa1361410-mRNA-1;Parent=Msa1361410;Name=Msa1361410-mRNA-1;_AED=0.34;_eAED=0.34;_QI=0|-1|0|1|-1|1|1|0|103
tig0017492 exon 58252 58563 58252 ID=Msa1361410-mRNA-1:exon:12386;Parent=Msa1361410-mRNA-1
tig0017492 CDS 58252 58563 58252 ID=Msa1361410-mRNA-1:cds;Parent=Msa1361410-mRNA-1
Gene Sequence

>Msa1361410

ATGTCAGGAAGAGGCAAAGGAGGAAAGGGTCTTGGAAAGGGAGGAGCAAAACGACACCGTAAGGTTCTTCGCGATAACATCCAGGGAATCACGAAGCCTGCGATTCGTCGTCTCGCAAGACGTGGTGGTGTGAAGCGTATCAGTGGCTTAATCTATGAAGAAACTCGTGGTGTTCTCAAAATCTTTCTTGAGAATGTGATTCGTGATGCTGTCACCTACACAGAGCATGCTCGCCGTAAGACTGTTACTGCGATGGATGTCGTTTACGCTCTCAAGAGGCAGGGAAGGACTCTTTATGGATTTGGCGGTTAG

Protein sequence

>Msa1361410

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG*