AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002073

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002073 MtrunA17_Chr1g0170581 92.308 247 19 0 1 247 1 247 5.04e-167 461
MsaG002073 MtrunA17_Chr1g0170571 88.115 244 21 1 1 244 1 236 2.66e-146 408
MsaG002073 MtrunA17_Chr1g0170591 82.787 244 34 1 1 244 1 236 8.58e-146 407
MsaG002073 MtrunA17_Chr7g0256671 56.972 251 89 7 1 241 1 242 5.57e-65 202
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002073 AT3G56970.1 41.365 249 135 5 1 240 1 247 9.39e-55 177
MsaG002073 AT3G56980.1 39.560 273 115 6 1 242 1 254 3.08e-47 157
MsaG002073 AT2G41240.1 38.000 250 135 5 1 242 1 238 2.77e-45 152
MsaG002073 AT2G41240.2 37.600 250 135 6 1 242 1 237 1.05e-42 145
MsaG002073 AT5G04150.2 45.161 155 83 1 65 219 86 238 1.76e-35 127
MsaG002073 AT5G04150.1 43.429 175 94 3 65 237 86 257 2.19e-35 127

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAACTTGTTTCTGTAATTC+TGG 0.201065 1:-31777470 None:intergenic
TCTTCATCTCAGACCTTTGC+AGG 0.241758 1:+31777734 MsaT002073.1:CDS
TGTAACTATGCTTCTTCCTT+TGG 0.251062 1:-31777571 None:intergenic
CTTCTATAATTTGCATTTCC+AGG 0.265122 1:+31777763 MsaT002073.1:CDS
GTAACTATGCTTCTTCCTTT+GGG 0.307422 1:-31777570 None:intergenic
AGGACTCTTGAAATTGTTGC+TGG 0.367920 1:-31777437 None:intergenic
GATCGCGTTCACTAGCATTA+TGG 0.375108 1:-31777125 None:intergenic
TCTTCCTGTTTCTGATCAAA+TGG 0.413993 1:+31777191 MsaT002073.1:CDS
AGTACCATTTGATCAGAAAC+AGG 0.414053 1:-31777195 None:intergenic
AACAATTGGATGGCCCTTTG+AGG 0.464251 1:+31776951 MsaT002073.1:CDS
TGAAGGACTAAGTAAGAGAA+AGG 0.469978 1:+31777490 MsaT002073.1:CDS
CACATCAAGATCTCAGAAAG+TGG 0.497267 1:-31777677 None:intergenic
AGAATAACCTCTTCTTCTTG+AGG 0.516991 1:-31777536 None:intergenic
CATGCTAAGGTCACTGCTTG+TGG 0.529098 1:-31777088 None:intergenic
TGTAGAATGAATTCTGATGA+TGG 0.529120 1:-31776990 None:intergenic
ACAAATTATTGATCTTCTTG+CGG 0.529574 1:-31777149 None:intergenic
CTTCATCTCAGACCTTTGCA+GGG 0.548412 1:+31777735 MsaT002073.1:CDS
AAGAAGCATAGTTACAACTC+TGG 0.551749 1:+31777578 MsaT002073.1:CDS
ACTTTATCCTCAAGAAGAAG+AGG 0.554683 1:+31777529 MsaT002073.1:CDS
AGTGTAACATGAAATCTGAA+TGG 0.555088 1:-31777642 None:intergenic
GAATTACAGAAACAAGTTGA+AGG 0.556198 1:+31777473 MsaT002073.1:CDS
CATCCAATTGTTGAAAACAT+AGG 0.558093 1:-31776940 None:intergenic
TCTCAGAAAGTGGAATCTTG+TGG 0.569417 1:-31777667 None:intergenic
GCTCTTATCAATAATCGAGA+AGG 0.576892 1:+31778335 MsaT002073.1:CDS
TTGATGTGTTTAGAAAATGA+TGG 0.577722 1:+31777692 MsaT002073.1:CDS
ATAGAAGACTCTCCCTGCAA+AGG 0.579465 1:-31777747 None:intergenic
CCAATTGTTGAAAACATAGG+AGG 0.582074 1:-31776937 None:intergenic
ATGAATTCTGATGATGGGTA+TGG 0.589276 1:-31776984 None:intergenic
GTAGAATGAATTCTGATGAT+GGG 0.591780 1:-31776989 None:intergenic
GTCACTGCTTGTGGATTGTG+AGG 0.596424 1:-31777079 None:intergenic
AGGAAGAAGTGAACGAAGTG+AGG 0.599839 1:-31777175 None:intergenic
CAAGCTTCTTGACCATGCTA+AGG 0.604223 1:-31777101 None:intergenic
CACAAGCAGTGACCTTAGCA+TGG 0.613188 1:+31777089 MsaT002073.1:CDS
TTCTAAGCAAAGAATCCCAA+AGG 0.620328 1:+31777555 MsaT002073.1:CDS
TTATCAATAATCGAGAAGGA+AGG 0.636620 1:+31778339 MsaT002073.1:CDS
TCACTGCTTGTGGATTGTGA+GGG 0.698792 1:-31777078 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 31776922 31778380 31776922 ID=MsaG002073
Chr1 mRNA 31776922 31778380 31776922 ID=MsaT002073.1;Parent=MsaG002073
Chr1 exon 31776922 31777212 31776922 ID=MsaT002073.1.exon1;Parent=MsaT002073.1
Chr1 CDS 31776922 31777212 31776922 ID=cds.MsaT002073.1;Parent=MsaT002073.1
Chr1 exon 31777422 31777784 31777422 ID=MsaT002073.1.exon2;Parent=MsaT002073.1
Chr1 CDS 31777422 31777784 31777422 ID=cds.MsaT002073.1;Parent=MsaT002073.1
Chr1 exon 31778291 31778380 31778291 ID=MsaT002073.1.exon3;Parent=MsaT002073.1
Chr1 CDS 31778291 31778380 31778291 ID=cds.MsaT002073.1;Parent=MsaT002073.1
Gene Sequence

>MsaT002073.1

ATGTTAGCGATATCTCCTCCTATGTTTTCAACAATTGGATGGCCCTTTGAGGAGCCAAAAAGCCATACCCATCATCAGAATTCATTCTACAAAGACACTGTTGATCAATTATTTAATTTTCATGATCAAGTTGAGGCAGAAATTAATTCAACAGATCCCTCACAATCCACAAGCAGTGACCTTAGCATGGTCAAGAAGCTTGTCCATAATGCTAGTGAACGCGATCGCCGCAAGAAGATCAATAATTTGTATTCCTCACTTCGTTCACTTCTTCCTGTTTCTGATCAAATGAAGAAATTGAGCATTCCAGCAACAATTTCAAGAGTCCTAAAATACATACCAGAATTACAGAAACAAGTTGAAGGACTAAGTAAGAGAAAGGATGAGATCTTATTGAGACTTTATCCTCAAGAAGAAGAGGTTATTCTAAGCAAAGAATCCCAAAGGAAGAAGCATAGTTACAACTCTGGTTTTGTAGTTTCAAGTAGTAGGCTCAATGATAGTGAAATTACCATTCAGATTTCATGTTACACTGTCCACAAGATTCCACTTTCTGAGATCTTGATGTGTTTAGAAAATGATGGTTTTTTGCTTCTTAATCTTTCTTCATCTCAGACCTTTGCAGGGAGAGTCTTCTATAATTTGCATTTCCAGGTGGATAAAGCACAGAGATTAGAATCTCATATTCTAAATGAGAAGCTCTTATCAATAATCGAGAAGGAAGGAGAGTTTTTAAAACAATAA
Protein sequence

>MsaT002073.1

MLAISPPMFSTIGWPFEEPKSHTHHQNSFYKDTVDQLFNFHDQVEAEINSTDPSQSTSSDLSMVKKLVHNASERDRRKKINNLYSSLRSLLPVSDQMKKLSIPATISRVLKYIPELQKQVEGLSKRKDEILLRLYPQEEEVILSKESQRKKHSYNSGFVVSSSRLNDSEITIQISCYTVHKIPLSEILMCLENDGFLLLNLSSSQTFAGRVFYNLHFQVDKAQRLESHILNEKLLSIIEKEGEFLKQ*