AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1192850


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1192850 MtrunA17_Chr4g0072411 100.000 103 0 0 1 103 59 161 5.39e-69 203
Msa1192850 MtrunA17_Chr5g0425951 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1192850 MtrunA17_Chr4g0030431 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1192850 MtrunA17_Chr3g0100121 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1192850 MtrunA17_Chr3g0113681 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1192850 MtrunA17_Chr2g0327641 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1192850 MtrunA17_Chr3g0103351 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1192850 MtrunA17_Chr8g0352791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1192850 MtrunA17_Chr3g0103821 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1192850 MtrunA17_Chr3g0104031 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1192850 MtrunA17_Chr7g0225731 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1192850 MtrunA17_Chr3g0103801 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1192850 MtrunA17_Chr3g0103881 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1192850 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
Msa1192850 AT3G53730.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1192850 AT1G07820.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1192850 AT1G07820.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1192850 AT5G59690.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1192850 AT3G46320.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1192850 AT2G28740.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1192850 AT1G07660.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1192850 AT3G45930.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1192850 AT5G59970.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1192850 AT5G59970.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1192850 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_1:-38843281 Msa1192850:CDS
GGGAGAACTCTTTACGGTTT+CGG 0.376970 8_1:-38843091 Msa1192850:CDS
TCGCAGGCTTTGTTATTCCT+TGG 0.407291 8_1:+38843293 None:intergenic
AAAATGTCAGGTCGCGGAAA+AGG 0.432832 8_1:-38843376 Msa1192850:CDS
AGACAGGGGAGAACTCTTTA+CGG 0.442868 8_1:-38843097 Msa1192850:CDS
GGAAAAGGAGGAAAAGGATT+AGG 0.458349 8_1:-38843361 Msa1192850:CDS
TGTTTATGCTTTGAAGAGAC+AGG 0.461410 8_1:-38843113 Msa1192850:CDS
AGGAGGAAAAGGATTAGGAA+AGG 0.511643 8_1:-38843356 Msa1192850:CDS
AACAACATCCATGGCGGTAA+CGG 0.516175 8_1:+38843132 None:intergenic
TTACCTACACTGAGCATGCT+AGG 0.525533 8_1:-38843162 Msa1192850:CDS
GGTCGCGGAAAAGGAGGAAA+AGG 0.530282 8_1:-38843367 Msa1192850:CDS
GGAGGAAAAGGATTAGGAAA+GGG 0.534282 8_1:-38843355 Msa1192850:CDS
CGAGCCAAACGACGAATCGC+AGG 0.562444 8_1:+38843277 None:intergenic
GAGGAAAACCGTTACCGCCA+TGG 0.565591 8_1:-38843140 Msa1192850:CDS
AGGAGCGAAGAGGCACAGAA+AGG 0.576961 8_1:-38843332 Msa1192850:CDS
GGAAAAGGATTAGGAAAGGG+AGG 0.577550 8_1:-38843352 Msa1192850:CDS
ATGTCAGGTCGCGGAAAAGG+AGG 0.578066 8_1:-38843373 Msa1192850:CDS
CCTCCTAGCATGCTCAGTGT+AGG 0.581881 8_1:+38843159 None:intergenic
CGTCGTTTGGCTCGAAGAGG+CGG 0.581893 8_1:-38843268 Msa1192850:CDS
GTTTATGCTTTGAAGAGACA+GGG 0.590468 8_1:-38843112 Msa1192850:CDS
AGAACTCTTTACGGTTTCGG+TGG 0.599890 8_1:-38843088 Msa1192850:CDS
ATTCGTCGTTTGGCTCGAAG+AGG 0.608380 8_1:-38843271 Msa1192850:CDS
CAAAGCATAAACAACATCCA+TGG 0.612707 8_1:+38843123 None:intergenic
GTTCTTCGTGACAACATCCA+AGG 0.625870 8_1:-38843310 Msa1192850:CDS
GGCGGTGTGAAGAGAATCAG+TGG 0.634970 8_1:-38843250 Msa1192850:CDS
TTTATGCTTTGAAGAGACAG+GGG 0.664122 8_1:-38843111 Msa1192850:CDS
TAGGAAAGGGAGGAGCGAAG+AGG 0.669088 8_1:-38843342 Msa1192850:CDS
CTTATCTATGAAGAAACTCG+CGG 0.683519 8_1:-38843226 Msa1192850:CDS
CATCACGAATAACGTTCTCG+AGG 0.697048 8_1:+38843188 None:intergenic
CCTACACTGAGCATGCTAGG+AGG 0.705686 8_1:-38843159 Msa1192850:CDS
AGCATAAACAACATCCATGG+CGG 0.725411 8_1:+38843126 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CTTATCTATGAAGAAACTCG+CGG - chr8_1:38843231-38843250 Msa1192850:CDS 35.0%
CAAAGCATAAACAACATCCA+TGG + chr8_1:38843337-38843356 None:intergenic 35.0%
!! TGTTTATGCTTTGAAGAGAC+AGG - chr8_1:38843344-38843363 Msa1192850:CDS 35.0%
!! GTTTATGCTTTGAAGAGACA+GGG - chr8_1:38843345-38843364 Msa1192850:CDS 35.0%
!! TTTATGCTTTGAAGAGACAG+GGG - chr8_1:38843346-38843365 Msa1192850:CDS 35.0%
GGAAAAGGAGGAAAAGGATT+AGG - chr8_1:38843096-38843115 Msa1192850:CDS 40.0%
AGGAGGAAAAGGATTAGGAA+AGG - chr8_1:38843101-38843120 Msa1192850:CDS 40.0%
GGAGGAAAAGGATTAGGAAA+GGG - chr8_1:38843102-38843121 Msa1192850:CDS 40.0%
AGCATAAACAACATCCATGG+CGG + chr8_1:38843334-38843353 None:intergenic 40.0%
GGAAAAGGATTAGGAAAGGG+AGG - chr8_1:38843105-38843124 Msa1192850:CDS 45.0%
GTTCTTCGTGACAACATCCA+AGG - chr8_1:38843147-38843166 Msa1192850:CDS 45.0%
!! TCGCAGGCTTTGTTATTCCT+TGG + chr8_1:38843167-38843186 None:intergenic 45.0%
CATCACGAATAACGTTCTCG+AGG + chr8_1:38843272-38843291 None:intergenic 45.0%
TTACCTACACTGAGCATGCT+AGG - chr8_1:38843295-38843314 Msa1192850:CDS 45.0%
AACAACATCCATGGCGGTAA+CGG + chr8_1:38843328-38843347 None:intergenic 45.0%
AGACAGGGGAGAACTCTTTA+CGG - chr8_1:38843360-38843379 Msa1192850:CDS 45.0%
GGGAGAACTCTTTACGGTTT+CGG - chr8_1:38843366-38843385 Msa1192850:CDS 45.0%
AGAACTCTTTACGGTTTCGG+TGG - chr8_1:38843369-38843388 Msa1192850:CDS 45.0%
AAAGCCTGCGATTCGTCGTT+TGG - chr8_1:38843176-38843195 Msa1192850:CDS 50.0%
! ATTCGTCGTTTGGCTCGAAG+AGG - chr8_1:38843186-38843205 Msa1192850:CDS 50.0%
ATGTCAGGTCGCGGAAAAGG+AGG - chr8_1:38843084-38843103 Msa1192850:CDS 55.0%
GGTCGCGGAAAAGGAGGAAA+AGG - chr8_1:38843090-38843109 Msa1192850:CDS 55.0%
TAGGAAAGGGAGGAGCGAAG+AGG - chr8_1:38843115-38843134 Msa1192850:CDS 55.0%
! AGGAGCGAAGAGGCACAGAA+AGG - chr8_1:38843125-38843144 Msa1192850:CDS 55.0%
GGCGGTGTGAAGAGAATCAG+TGG - chr8_1:38843207-38843226 Msa1192850:CDS 55.0%
CCTCCTAGCATGCTCAGTGT+AGG + chr8_1:38843301-38843320 None:intergenic 55.0%
CCTACACTGAGCATGCTAGG+AGG - chr8_1:38843298-38843317 Msa1192850:CDS 55.0%
GAGGAAAACCGTTACCGCCA+TGG - chr8_1:38843317-38843336 Msa1192850:CDS 55.0%
CGAGCCAAACGACGAATCGC+AGG + chr8_1:38843183-38843202 None:intergenic 60.0%
! CGTCGTTTGGCTCGAAGAGG+CGG - chr8_1:38843189-38843208 Msa1192850:CDS 60.0%
Chromosome Type Strat End Strand Name
chr8_1 gene 38843084 38843395 38843084 ID=Msa1192850;Name=Msa1192850
chr8_1 mRNA 38843084 38843395 38843084 ID=Msa1192850-mRNA-1;Parent=Msa1192850;Name=Msa1192850-mRNA-1;_AED=0.38;_eAED=0.38;_QI=0|-1|0|1|-1|1|1|0|103
chr8_1 exon 38843084 38843395 38843084 ID=Msa1192850-mRNA-1:exon:12710;Parent=Msa1192850-mRNA-1
chr8_1 CDS 38843084 38843395 38843084 ID=Msa1192850-mRNA-1:cds;Parent=Msa1192850-mRNA-1
Gene Sequence

>Msa1192850

ATGTCAGGTCGCGGAAAAGGAGGAAAAGGATTAGGAAAGGGAGGAGCGAAGAGGCACAGAAAGGTTCTTCGTGACAACATCCAAGGAATAACAAAGCCTGCGATTCGTCGTTTGGCTCGAAGAGGCGGTGTGAAGAGAATCAGTGGTCTTATCTATGAAGAAACTCGCGGTGTTCTCAAGATCTTCCTCGAGAACGTTATTCGTGATGCTGTTACCTACACTGAGCATGCTAGGAGGAAAACCGTTACCGCCATGGATGTTGTTTATGCTTTGAAGAGACAGGGGAGAACTCTTTACGGTTTCGGTGGTTGA

Protein sequence

>Msa1192850

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG*