AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1327490


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1327490 MtrunA17_Chr4g0072411 100.000 103 0 0 1 103 59 161 5.39e-69 203
Msa1327490 MtrunA17_Chr5g0425951 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1327490 MtrunA17_Chr4g0030431 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1327490 MtrunA17_Chr3g0100121 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1327490 MtrunA17_Chr3g0113681 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1327490 MtrunA17_Chr2g0327641 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1327490 MtrunA17_Chr3g0103351 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1327490 MtrunA17_Chr8g0352791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1327490 MtrunA17_Chr3g0103821 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1327490 MtrunA17_Chr3g0104031 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1327490 MtrunA17_Chr7g0225731 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1327490 MtrunA17_Chr3g0103801 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1327490 MtrunA17_Chr3g0103881 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1327490 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
Msa1327490 AT3G53730.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1327490 AT1G07820.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1327490 AT1G07820.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1327490 AT5G59690.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1327490 AT3G46320.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1327490 AT2G28740.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1327490 AT1G07660.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1327490 AT3G45930.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1327490 AT5G59970.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1327490 AT5G59970.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1327490 AT1G07660.2 83.495 103 0 1 1 103 1 86 4.52e-51 155

Find 31 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGCCTGCGATTCGTCGTT+TGG 0.336158 8_4:-44851338 Msa1327490:CDS
GGGAGAACTCTTTACGGTTT+CGG 0.376970 8_4:-44851148 Msa1327490:CDS
TCGCAGGCTTTGTTATTCCT+TGG 0.407291 8_4:+44851350 None:intergenic
AAAATGTCAGGTCGCGGAAA+AGG 0.432832 8_4:-44851433 Msa1327490:CDS
AGACAGGGGAGAACTCTTTA+CGG 0.442868 8_4:-44851154 Msa1327490:CDS
GGAAAAGGAGGAAAAGGATT+AGG 0.458349 8_4:-44851418 Msa1327490:CDS
TGTTTATGCTTTGAAGAGAC+AGG 0.461410 8_4:-44851170 Msa1327490:CDS
AGGAGGAAAAGGATTAGGAA+AGG 0.511643 8_4:-44851413 Msa1327490:CDS
AACAACATCCATGGCGGTAA+CGG 0.516175 8_4:+44851189 None:intergenic
TTACCTACACTGAGCATGCT+AGG 0.525533 8_4:-44851219 Msa1327490:CDS
GGTCGCGGAAAAGGAGGAAA+AGG 0.530282 8_4:-44851424 Msa1327490:CDS
GGAGGAAAAGGATTAGGAAA+GGG 0.534282 8_4:-44851412 Msa1327490:CDS
CGAGCCAAACGACGAATCGC+AGG 0.562444 8_4:+44851334 None:intergenic
GAGGAAAACCGTTACCGCCA+TGG 0.565591 8_4:-44851197 Msa1327490:CDS
AGGAGCGAAGAGGCACAGAA+AGG 0.576961 8_4:-44851389 Msa1327490:CDS
GGAAAAGGATTAGGAAAGGG+AGG 0.577550 8_4:-44851409 Msa1327490:CDS
ATGTCAGGTCGCGGAAAAGG+AGG 0.578066 8_4:-44851430 Msa1327490:CDS
CCTCCTAGCATGCTCAGTGT+AGG 0.581881 8_4:+44851216 None:intergenic
CGTCGTTTGGCTCGAAGAGG+CGG 0.581893 8_4:-44851325 Msa1327490:CDS
GTTTATGCTTTGAAGAGACA+GGG 0.590468 8_4:-44851169 Msa1327490:CDS
AGAACTCTTTACGGTTTCGG+TGG 0.599890 8_4:-44851145 Msa1327490:CDS
ATTCGTCGTTTGGCTCGAAG+AGG 0.608380 8_4:-44851328 Msa1327490:CDS
CAAAGCATAAACAACATCCA+TGG 0.612707 8_4:+44851180 None:intergenic
GTTCTTCGTGACAACATCCA+AGG 0.625870 8_4:-44851367 Msa1327490:CDS
GGCGGTGTGAAGAGAATCAG+TGG 0.634970 8_4:-44851307 Msa1327490:CDS
TTTATGCTTTGAAGAGACAG+GGG 0.664122 8_4:-44851168 Msa1327490:CDS
TAGGAAAGGGAGGAGCGAAG+AGG 0.669088 8_4:-44851399 Msa1327490:CDS
CTTATCTATGAAGAAACTCG+CGG 0.683519 8_4:-44851283 Msa1327490:CDS
CATCACGAATAACGTTCTCG+AGG 0.697048 8_4:+44851245 None:intergenic
CCTACACTGAGCATGCTAGG+AGG 0.705686 8_4:-44851216 Msa1327490:CDS
AGCATAAACAACATCCATGG+CGG 0.725411 8_4:+44851183 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CTTATCTATGAAGAAACTCG+CGG - chr8_4:44851288-44851307 Msa1327490:CDS 35.0%
CAAAGCATAAACAACATCCA+TGG + chr8_4:44851394-44851413 None:intergenic 35.0%
!! TGTTTATGCTTTGAAGAGAC+AGG - chr8_4:44851401-44851420 Msa1327490:CDS 35.0%
!! GTTTATGCTTTGAAGAGACA+GGG - chr8_4:44851402-44851421 Msa1327490:CDS 35.0%
!! TTTATGCTTTGAAGAGACAG+GGG - chr8_4:44851403-44851422 Msa1327490:CDS 35.0%
GGAAAAGGAGGAAAAGGATT+AGG - chr8_4:44851153-44851172 Msa1327490:CDS 40.0%
AGGAGGAAAAGGATTAGGAA+AGG - chr8_4:44851158-44851177 Msa1327490:CDS 40.0%
GGAGGAAAAGGATTAGGAAA+GGG - chr8_4:44851159-44851178 Msa1327490:CDS 40.0%
AGCATAAACAACATCCATGG+CGG + chr8_4:44851391-44851410 None:intergenic 40.0%
GGAAAAGGATTAGGAAAGGG+AGG - chr8_4:44851162-44851181 Msa1327490:CDS 45.0%
GTTCTTCGTGACAACATCCA+AGG - chr8_4:44851204-44851223 Msa1327490:CDS 45.0%
!! TCGCAGGCTTTGTTATTCCT+TGG + chr8_4:44851224-44851243 None:intergenic 45.0%
CATCACGAATAACGTTCTCG+AGG + chr8_4:44851329-44851348 None:intergenic 45.0%
TTACCTACACTGAGCATGCT+AGG - chr8_4:44851352-44851371 Msa1327490:CDS 45.0%
AACAACATCCATGGCGGTAA+CGG + chr8_4:44851385-44851404 None:intergenic 45.0%
AGACAGGGGAGAACTCTTTA+CGG - chr8_4:44851417-44851436 Msa1327490:CDS 45.0%
GGGAGAACTCTTTACGGTTT+CGG - chr8_4:44851423-44851442 Msa1327490:CDS 45.0%
AGAACTCTTTACGGTTTCGG+TGG - chr8_4:44851426-44851445 Msa1327490:CDS 45.0%
AAAGCCTGCGATTCGTCGTT+TGG - chr8_4:44851233-44851252 Msa1327490:CDS 50.0%
! ATTCGTCGTTTGGCTCGAAG+AGG - chr8_4:44851243-44851262 Msa1327490:CDS 50.0%
ATGTCAGGTCGCGGAAAAGG+AGG - chr8_4:44851141-44851160 Msa1327490:CDS 55.0%
GGTCGCGGAAAAGGAGGAAA+AGG - chr8_4:44851147-44851166 Msa1327490:CDS 55.0%
TAGGAAAGGGAGGAGCGAAG+AGG - chr8_4:44851172-44851191 Msa1327490:CDS 55.0%
! AGGAGCGAAGAGGCACAGAA+AGG - chr8_4:44851182-44851201 Msa1327490:CDS 55.0%
GGCGGTGTGAAGAGAATCAG+TGG - chr8_4:44851264-44851283 Msa1327490:CDS 55.0%
CCTCCTAGCATGCTCAGTGT+AGG + chr8_4:44851358-44851377 None:intergenic 55.0%
CCTACACTGAGCATGCTAGG+AGG - chr8_4:44851355-44851374 Msa1327490:CDS 55.0%
GAGGAAAACCGTTACCGCCA+TGG - chr8_4:44851374-44851393 Msa1327490:CDS 55.0%
CGAGCCAAACGACGAATCGC+AGG + chr8_4:44851240-44851259 None:intergenic 60.0%
! CGTCGTTTGGCTCGAAGAGG+CGG - chr8_4:44851246-44851265 Msa1327490:CDS 60.0%
Chromosome Type Strat End Strand Name
chr8_4 gene 44851141 44851452 44851141 ID=Msa1327490;Name=Msa1327490
chr8_4 mRNA 44851141 44851452 44851141 ID=Msa1327490-mRNA-1;Parent=Msa1327490;Name=Msa1327490-mRNA-1;_AED=0.38;_eAED=0.38;_QI=0|-1|0|1|-1|1|1|0|103
chr8_4 exon 44851141 44851452 44851141 ID=Msa1327490-mRNA-1:exon:12525;Parent=Msa1327490-mRNA-1
chr8_4 CDS 44851141 44851452 44851141 ID=Msa1327490-mRNA-1:cds;Parent=Msa1327490-mRNA-1
Gene Sequence

>Msa1327490

ATGTCAGGTCGCGGAAAAGGAGGAAAAGGATTAGGAAAGGGAGGAGCGAAGAGGCACAGAAAGGTTCTTCGTGACAACATCCAAGGAATAACAAAGCCTGCGATTCGTCGTTTGGCTCGAAGAGGCGGTGTGAAGAGAATCAGTGGTCTTATCTATGAAGAAACTCGCGGTGTTCTCAAGATCTTCCTCGAGAACGTTATTCGTGATGCTGTTACCTACACTGAGCATGCTAGGAGGAAAACCGTTACCGCCATGGATGTTGTTTATGCTTTGAAGAGACAGGGGAGAACTCTTTACGGTTTCGGTGGTTGA

Protein sequence

>Msa1327490

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG*