AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG012978

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012978 MtrunA17_Chr7g0270371 73.529 68 11 2 5 72 230 290 4.06e-23 95.1
MsaG012978 MtrunA17_Chr1g0193081 72.059 68 12 2 5 72 230 290 2.73e-22 92.8
MsaG012978 MtrunA17_Chr7g0246591 70.588 68 13 2 5 72 296 356 5.20e-22 92.4
MsaG012978 MtrunA17_Chr2g0277011 70.588 68 13 2 5 72 245 305 7.14e-22 91.7
MsaG012978 MtrunA17_Chr1g0194201 70.588 68 13 2 5 72 230 290 7.30e-22 91.7
MsaG012978 MtrunA17_Chr8g0350311 69.118 68 14 2 5 72 294 354 4.87e-21 89.7
MsaG012978 MtrunA17_Chr2g0320011 67.647 68 15 2 5 72 243 303 2.25e-20 87.4
MsaG012978 MtrunA17_Chr2g0284091 64.706 68 17 2 5 72 195 255 1.45e-19 84.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012978 AT1G09840.11 69.118 68 14 2 5 72 111 171 6.76e-22 90.5
MsaG012978 AT3G05840.2 70.588 68 13 2 5 72 228 288 8.01e-22 91.7
MsaG012978 AT3G05840.1 70.588 68 13 2 5 72 228 288 8.01e-22 91.7
MsaG012978 AT5G26751.1 70.588 68 13 2 5 72 224 284 9.06e-22 91.7
MsaG012978 AT1G57870.1 70.588 68 13 2 5 72 237 297 9.79e-22 91.7
MsaG012978 AT1G57870.4 70.588 68 13 2 5 72 237 297 9.79e-22 91.7
MsaG012978 AT1G57870.2 70.588 68 13 2 5 72 237 297 9.79e-22 91.7
MsaG012978 AT1G57870.3 70.588 68 13 2 5 72 237 297 1.20e-21 91.7
MsaG012978 AT1G09840.3 69.118 68 14 2 5 72 238 298 1.88e-21 90.9
MsaG012978 AT1G09840.7 69.118 68 14 2 5 72 238 298 1.88e-21 90.9
MsaG012978 AT1G09840.10 69.118 68 14 2 5 72 238 298 1.88e-21 90.9
MsaG012978 AT1G09840.6 69.118 68 14 2 5 72 238 298 1.88e-21 90.9
MsaG012978 AT1G09840.4 69.118 68 14 2 5 72 238 298 1.88e-21 90.9
MsaG012978 AT1G09840.1 69.118 68 14 2 5 72 238 298 1.88e-21 90.9
MsaG012978 AT1G09840.9 69.118 68 14 2 5 72 238 298 1.88e-21 90.9
MsaG012978 AT1G09840.5 69.118 68 14 2 5 72 238 298 1.88e-21 90.9
MsaG012978 AT1G09840.8 69.118 68 14 2 5 72 238 298 1.88e-21 90.9
MsaG012978 AT1G09840.2 69.118 68 14 2 5 72 238 298 1.88e-21 90.9
MsaG012978 AT5G14640.1 70.588 68 13 2 5 72 229 289 1.96e-21 90.9
MsaG012978 AT5G14640.2 70.588 68 13 2 5 72 229 289 1.96e-21 90.9
MsaG012978 AT4G18710.2 66.176 68 16 2 5 72 189 249 2.12e-20 86.3
MsaG012978 AT4G00720.1 66.176 68 16 2 5 72 293 353 2.62e-20 87.8
MsaG012978 AT4G18710.1 66.176 68 16 2 5 72 195 255 5.14e-20 86.7
MsaG012978 AT2G30980.1 66.176 68 16 2 5 72 227 287 6.08e-20 86.7
MsaG012978 AT1G06390.2 66.176 68 16 2 5 72 225 285 1.15e-19 85.9
MsaG012978 AT1G06390.1 66.176 68 16 2 5 72 225 285 1.15e-19 85.9
MsaG012978 AT3G61160.3 63.235 68 18 2 5 72 257 317 2.36e-19 84.3
MsaG012978 AT3G61160.5 63.235 68 18 2 5 72 257 317 2.50e-19 84.7
MsaG012978 AT3G61160.6 63.235 68 18 2 5 72 264 324 2.97e-19 84.3
MsaG012978 AT3G61160.1 63.235 68 18 2 5 72 257 317 3.50e-19 84.3
MsaG012978 AT3G61160.2 63.235 68 18 2 5 72 264 324 4.00e-19 84.3
MsaG012978 AT3G61160.4 63.235 68 18 2 5 72 257 317 4.25e-19 84.3
MsaG012978 AT2G46070.3 31.250 144 74 4 14 150 237 362 5.14e-12 63.9
MsaG012978 AT2G46070.1 31.250 144 74 4 14 150 203 328 5.63e-12 63.5
MsaG012978 AT4G10010.1 46.667 60 27 1 14 73 138 192 5.98e-12 63.9
MsaG012978 AT4G10010.2 46.667 60 27 1 14 73 318 372 1.35e-11 62.8
MsaG012978 AT2G46070.2 51.852 54 21 1 14 67 203 251 3.49e-11 61.2

Find 32 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTAAAGTTCAGGCAGTTAT+TGG 0.206518 3:-38212166 MsaT012978.1:CDS
TGCTCAGTTGGTTGCGTACT+TGG 0.314908 3:-38214006 MsaT012978.1:CDS
AGATAAACAATGTGCTCATT+TGG 0.319034 3:-38212348 MsaT012978.1:CDS
CTTTGTATGATGGTTCCTAT+AGG 0.368080 3:-38212135 MsaT012978.1:CDS
TGAGATTTACTCTCCTTCTA+AGG 0.373862 3:-38212059 MsaT012978.1:intron
ATTGATACTGAGAAGATTGT+TGG 0.390696 3:-38211923 MsaT012978.1:CDS
AAACAAATGTAAGATATGTT+TGG 0.414699 3:+38214094 None:intergenic
CTTTGGAAGTTCTAATGTCT+TGG 0.417717 3:-38214217 None:intergenic
GGACCCCATGCTTTGTATGA+TGG 0.435370 3:-38212145 MsaT012978.1:CDS
ATACACAGAAGCTAGTTAAC+TGG 0.448429 3:+38213968 None:intergenic
ACAAACCCTTCTGACCCTAT+AGG 0.451223 3:+38212120 None:intergenic
AGAGCTCCTGAGCTTATATT+CGG 0.474562 3:-38214060 MsaT012978.1:CDS
TCATTTGGTTGATGTAGCTA+AGG 0.482770 3:-38212333 MsaT012978.1:intron
TTTGTATGATGGTTCCTATA+GGG 0.484229 3:-38212134 MsaT012978.1:CDS
GCCATTGACATCTGCTCAGT+TGG 0.486972 3:-38214018 MsaT012978.1:CDS
CAAACTTGTGGAAATTATCA+AGG 0.511188 3:-38213850 MsaT012978.1:intron
AGGAACCATCATACAAAGCA+TGG 0.519567 3:+38212140 None:intergenic
CATCAGTTACATCAGATGCT+TGG 0.530953 3:+38212414 None:intergenic
TACTGAGAAGATTGTTGGCT+CGG 0.541038 3:-38211918 MsaT012978.1:CDS
ATGGTTCCTATAGGGTCAGA+AGG 0.560974 3:-38212126 MsaT012978.1:CDS
GGAACCATCATACAAAGCAT+GGG 0.561104 3:+38212141 None:intergenic
ACCAACTGAGCAGATGTCAA+TGG 0.568677 3:+38214017 None:intergenic
GACTGTTTCACTTGATGATG+AGG 0.575402 3:-38211948 MsaT012978.1:CDS
CCACTGTTTCCTAGTGAGAG+TGG 0.575434 3:-38213879 MsaT012978.1:CDS
TTGTCTACTCCACTCTCACT+AGG 0.578433 3:+38213870 None:intergenic
GTTGCACCGAATATAAGCTC+AGG 0.582148 3:+38214054 None:intergenic
GGTTGATGCTTCGCAGACTG+AGG 0.585844 3:-38211897 MsaT012978.1:CDS
TGAGCAGATGTCAATGGCTG+TGG 0.629813 3:+38214023 None:intergenic
TGGTTCCTATAGGGTCAGAA+GGG 0.640022 3:-38212125 MsaT012978.1:CDS
GAGTGGAGTAGACAAACTTG+TGG 0.646343 3:-38213862 MsaT012978.1:CDS
CCACTCTCACTAGGAAACAG+TGG 0.673051 3:+38213879 None:intergenic
GAACCATCATACAAAGCATG+GGG 0.696724 3:+38212142 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 38211883 38214225 38211883 ID=MsaG012978
Chr3 mRNA 38211883 38214225 38211883 ID=MsaT012978.1;Parent=MsaG012978
Chr3 exon 38211883 38211975 38211883 ID=MsaT012978.1.exon6;Parent=MsaT012978.1
Chr3 CDS 38211883 38211975 38211883 ID=cds.MsaT012978.1;Parent=MsaT012978.1
Chr3 exon 38212060 38212203 38212060 ID=MsaT012978.1.exon5;Parent=MsaT012978.1
Chr3 CDS 38212060 38212203 38212060 ID=cds.MsaT012978.1;Parent=MsaT012978.1
Chr3 exon 38212334 38212450 38212334 ID=MsaT012978.1.exon4;Parent=MsaT012978.1
Chr3 CDS 38212334 38212450 38212334 ID=cds.MsaT012978.1;Parent=MsaT012978.1
Chr3 exon 38213851 38213901 38213851 ID=MsaT012978.1.exon3;Parent=MsaT012978.1
Chr3 CDS 38213851 38213901 38213851 ID=cds.MsaT012978.1;Parent=MsaT012978.1
Chr3 exon 38213972 38214128 38213972 ID=MsaT012978.1.exon2;Parent=MsaT012978.1
Chr3 CDS 38213972 38214128 38213972 ID=cds.MsaT012978.1;Parent=MsaT012978.1
Chr3 exon 38214218 38214225 38214218 ID=MsaT012978.1.exon1;Parent=MsaT012978.1
Chr3 CDS 38214218 38214225 38214218 ID=cds.MsaT012978.1;Parent=MsaT012978.1
Gene Sequence

>MsaT012978.1

ATGTCTTGGTTAGAGGTGAACCAAACATATCTTACATTTGTTTCTATGTACTATAGAGCTCCTGAGCTTATATTCGGTGCAACTAAGTACACCACAGCCATTGACATCTGCTCAGTTGGTTGCGTACTTGGTGAACTTTTGCTTGGCCAGTTAACTAGCTTCTGTCCACTGTTTCCTAGTGAGAGTGGAGTAGACAAACTTGTGGAAATTATCAAGTTTAAGGTTAAACTCCAAGCATCTGATGTAACTGATGATGCAGTGTTTGTTGCTTTTGACACTGACATGGGTTTTCTTCTAGATAAACAATGTGCTCATTTGGTTGATGTAGCTAAGGGGAAGAAGATGCTTTTTAAAGTTCAGGCAGTTATTGGACCCCATGCTTTGTATGATGGTTCCTATAGGGTCAGAAGGGTTTGTATTGATGAAGCTATTATTGAATTGTTTCTCACTGATGATGAGATTTACTCTCCTTCTAAGGCGTTGACTGTTTCACTTGATGATGAGGTTATTGATACTGAGAAGATTGTTGGCTCGGTTGATGCTTCGCAGACTGAGGATTTTGTCTGTTAA
Protein sequence

>MsaT012978.1

MSWLEVNQTYLTFVSMYYRAPELIFGATKYTTAIDICSVGCVLGELLLGQLTSFCPLFPSESGVDKLVEIIKFKVKLQASDVTDDAVFVAFDTDMGFLLDKQCAHLVDVAKGKKMLFKVQAVIGPHALYDGSYRVRRVCIDEAIIELFLTDDEIYSPSKALTVSLDDEVIDTEKIVGSVDASQTEDFVC*