AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG019433

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019433 MtrunA17_Chr4g0014771 86.441 177 16 3 1 170 1 176 2.61e-101 289
MsaG019433 MtrunA17_Chr3g0087771 80.000 55 9 1 105 157 308 362 9.72e-23 93.6
MsaG019433 MtrunA17_Chr1g0174271 58.228 79 21 2 103 169 282 360 1.30e-22 92.8
MsaG019433 MtrunA17_Chr8g0351881 77.778 54 10 1 105 156 302 355 1.38e-21 90.1
MsaG019433 MtrunA17_Chr4g0032951 76.364 55 11 1 105 157 341 395 2.01e-21 90.1
MsaG019433 MtrunA17_Chr1g0213791 69.492 59 18 0 99 157 247 305 2.48e-21 89.0
MsaG019433 MtrunA17_Chr2g0329041 76.364 55 11 1 105 157 318 372 1.44e-20 87.4
MsaG019433 MtrunA17_Chr7g0258181 72.727 55 13 1 105 157 229 283 1.96e-20 86.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019433 AT1G35460.1 39.109 202 63 5 11 157 25 221 1.57e-29 109
MsaG019433 AT1G35460.2 39.000 200 62 5 11 155 25 219 1.67e-28 105
MsaG019433 AT4G09180.1 76.786 56 13 0 102 157 169 224 1.35e-23 94.0
MsaG019433 AT2G42280.1 87.755 49 6 0 109 157 271 319 7.30e-23 93.6
MsaG019433 AT2G42280.3 87.755 49 6 0 109 157 271 319 7.52e-23 93.6
MsaG019433 AT1G51140.1 73.585 53 14 0 105 157 292 344 1.58e-21 90.1
MsaG019433 AT2G43140.1 80.000 50 10 0 108 157 125 174 1.97e-21 87.0
MsaG019433 AT2G43140.2 80.000 50 10 0 108 157 222 271 6.13e-21 87.8
MsaG019433 AT1G05805.1 73.214 56 12 1 105 157 268 323 2.03e-20 87.0

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTAGGGATGCAACCTGTTTC+TGG 0.121390 4:-28612496 None:intergenic
TATAGCAATTGACCTTAAAA+TGG 0.344917 4:-28610873 MsaT019433.1:CDS
AGCTAAACCTTATCCATGTT+TGG 0.359092 4:+28610603 None:intergenic
GAGTAATAGTCAGATAAATA+TGG 0.359307 4:+28612289 None:intergenic
TAAATTCAGTGTATACATTC+TGG 0.375592 4:+28610098 None:intergenic
CCTGTTTCTGGCGGTGGTGG+TGG 0.399011 4:-28612484 MsaT019433.1:CDS
CTAAGGATTTGTAGTTAAGT+TGG 0.400022 4:+28610072 None:intergenic
CAACTTAACTACAAATCCTT+AGG 0.401211 4:-28610071 None:intergenic
TCTAATAACAACGTTGCTGC+TGG 0.406148 4:-28612340 MsaT019433.1:CDS
CCACCACCACCGCCAGAAAC+AGG 0.428262 4:+28612484 None:intergenic
ACTTGTGCCAAACATGGATA+AGG 0.436150 4:-28610610 MsaT019433.1:intron
GTTTCTGGCGGTGGTGGTGG+TGG 0.448404 4:-28612481 MsaT019433.1:CDS
TCCAAGGAGTATTGCTGAAA+GGG 0.458068 4:-28610789 MsaT019433.1:intron
ACCCTTTCAGCAATACTCCT+TGG 0.458639 4:+28610788 None:intergenic
ATGCAACCTGTTTCTGGCGG+TGG 0.482597 4:-28612490 MsaT019433.1:CDS
CAACCTGTTTCTGGCGGTGG+TGG 0.488753 4:-28612487 MsaT019433.1:CDS
GTGGTGGTGGTGGTTTGACA+CGG 0.498165 4:-28612471 MsaT019433.1:CDS
ATTAGCAACATTGGCAGAAG+TGG 0.515464 4:+28612252 None:intergenic
GGATGAGACTCAGGAGTTGA+AGG 0.519475 4:+28612310 None:intergenic
GATAAATATGGATGAGACTC+AGG 0.521953 4:+28612301 None:intergenic
TTAAAGGGAGTTGATGATAG+TGG 0.524914 4:-28610896 MsaT019433.1:intron
CGCTTTGCTCGAATCTTACA+CGG 0.531001 4:+28610827 None:intergenic
AACGATTCGAACCAACTCGC+TGG 0.532231 4:+28612436 None:intergenic
TTGGCAGAAGTGGGAGTAAG+TGG 0.533595 4:+28612262 None:intergenic
TAGTAAAGTACCTGAGTGAA+AGG 0.536445 4:+28612226 None:intergenic
GAAAGGATTATTAGCAACAT+TGG 0.544623 4:+28612243 None:intergenic
AACAACGTTGCTGCTGGACA+TGG 0.544808 4:-28612334 MsaT019433.1:CDS
ATCCAAGGAGTATTGCTGAA+AGG 0.558668 4:-28610790 MsaT019433.1:CDS
TCAAGAACTTGTGCCAAACA+TGG 0.569135 4:-28610616 MsaT019433.1:CDS
TGCTAATAATCCTTTCACTC+AGG 0.579907 4:-28612236 MsaT019433.1:intron
TGTAAGATTCGAGCAAAGCG+TGG 0.594947 4:-28610824 MsaT019433.1:CDS
TTAGCAACATTGGCAGAAGT+GGG 0.595482 4:+28612253 None:intergenic
TTAACTCAACTCCAGCGAGT+TGG 0.603459 4:-28612447 MsaT019433.1:CDS
TTGTTGTTATGTAGGTTCGG+AGG 0.614896 4:-28610668 MsaT019433.1:intron
GTGGATTTGCTACTCATCCA+AGG 0.634120 4:-28610805 MsaT019433.1:CDS
GGGATGCAACCTGTTTCTGG+CGG 0.639831 4:-28612493 MsaT019433.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 28610072 28612512 28610072 ID=MsaG019433
Chr4 mRNA 28610072 28612512 28610072 ID=MsaT019433.1;Parent=MsaG019433
Chr4 exon 28610072 28610134 28610072 ID=MsaT019433.1.exon4;Parent=MsaT019433.1
Chr4 CDS 28610072 28610134 28610072 ID=cds.MsaT019433.1;Parent=MsaT019433.1
Chr4 exon 28610611 28610676 28610611 ID=MsaT019433.1.exon3;Parent=MsaT019433.1
Chr4 CDS 28610611 28610676 28610611 ID=cds.MsaT019433.1;Parent=MsaT019433.1
Chr4 exon 28610790 28610912 28610790 ID=MsaT019433.1.exon2;Parent=MsaT019433.1
Chr4 CDS 28610790 28610912 28610790 ID=cds.MsaT019433.1;Parent=MsaT019433.1
Chr4 exon 28612237 28612512 28612237 ID=MsaT019433.1.exon1;Parent=MsaT019433.1
Chr4 CDS 28612237 28612512 28612237 ID=cds.MsaT019433.1;Parent=MsaT019433.1
Gene Sequence

>MsaT019433.1

ATGCAACCTGTTTCTGGCGGTGGTGGTGGTGGTTTGACACGGTTTAACTCAACTCCAGCGAGTTGGTTCGAATCGTTTATTCTTAAAGAAGAAGATGAAGTTGATGAAAGACAACAACAAGATCACAACTTAAGTTTTACTCAACTGCTTTCTAATAACAACGTTGCTGCTGGACATGGTCCTTCAACTCCTGAGTCTCATCCATATTTATCTGACTATTACTCTTCACCACTTACTCCCACTTCTGCCAATGTTGCTAATAATCCTTTCACTCAGGGAGTTGATGATAGTGGTATAGCAATTGACCTTAAAATGGACAAAATTTTAGAGGGTTCAGTTCCGTGTAAGATTCGAGCAAAGCGTGGATTTGCTACTCATCCAAGGAGTATTGCTGAAAGGGTTCGGAGGACTCGTATTAGTGATCGCATAAGAAAACTTCAAGAACTTGTGCCAAACATGGATAAGCAATCCGAAAAATGCCAGAATGTATACACTGAATTTAAGTCCAACTTAACTACAAATCCTTAG
Protein sequence

>MsaT019433.1

MQPVSGGGGGGLTRFNSTPASWFESFILKEEDEVDERQQQDHNLSFTQLLSNNNVAAGHGPSTPESHPYLSDYYSSPLTPTSANVANNPFTQGVDDSGIAIDLKMDKILEGSVPCKIRAKRGFATHPRSIAERVRRTRISDRIRKLQELVPNMDKQSEKCQNVYTEFKSNLTTNP*