AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002110

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002110 MtrunA17_Chr1g0170871 96.996 233 7 0 1 233 1 233 3.48e-172 473
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002110 AT2G39020.1 67.117 222 70 2 12 232 15 234 3.33e-105 304
MsaG002110 AT2G39030.1 60.811 222 85 1 7 228 3 222 1.63e-100 291

Find 70 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGACTCACTGGGGAGAATT+TGG 0.144921 1:+32526218 MsaT002110.1:CDS
TGGCGTGGGAGGGCGGTTTC+TGG 0.146318 1:-32525613 None:intergenic
TCCTTCTCTGGGTCATCAAT+TGG 0.238251 1:-32525907 None:intergenic
GCGGTTTCTGGCATGGTTGA+TGG 0.245127 1:-32525601 None:intergenic
AAACGGATGCGGGTGAAAAC+TGG 0.312751 1:-32525637 None:intergenic
TGAAAACTGGGTGGCGTGGG+AGG 0.320227 1:-32525624 None:intergenic
CCTTCTCTGGGTCATCAATT+GGG 0.321412 1:-32525906 None:intergenic
GGGGAGAATTTGGAGGCTTA+TGG 0.326367 1:+32526228 MsaT002110.1:CDS
TGCGAAACAAGCTGTGAAAA+TGG 0.330688 1:+32526095 MsaT002110.1:CDS
TTTGTGATGGGTTTGTAAAA+TGG 0.346829 1:-32525865 None:intergenic
CGGTTTCTGGCATGGTTGAT+GGG 0.367929 1:-32525600 None:intergenic
GGTTCTGTCGGTGGTGGTGG+CGG 0.375662 1:-32525577 None:intergenic
TTGAATGGGTTGTTCTTGAT+TGG 0.376314 1:+32526130 MsaT002110.1:CDS
GTTATAGAAGGAAAGGGTTT+GGG 0.376869 1:+32526052 MsaT002110.1:CDS
AGAGACTTCGAGGATGAGTA+TGG 0.377377 1:-32525806 None:intergenic
AAAATGGGTCGTTGTCGAAA+TGG 0.382151 1:-32525849 None:intergenic
GGTTTCTGGCATGGTTGATG+GGG 0.387609 1:-32525599 None:intergenic
TTGTGATGGGTTTGTAAAAT+GGG 0.394107 1:-32525864 None:intergenic
TGTTATAGAAGGAAAGGGTT+TGG 0.394466 1:+32526051 MsaT002110.1:CDS
TGGAGGCTTTGCAGACTCAC+TGG 0.419524 1:+32526207 MsaT002110.1:CDS
GGAGAAGAGAGTGGTGGAGT+AGG 0.423379 1:-32525755 None:intergenic
TGGGAGGGCGGTTTCTGGCA+TGG 0.425483 1:-32525608 None:intergenic
GGCGGTGCTGCGGAGGCCAT+TGG 0.427189 1:-32525559 None:intergenic
AGAGAGTGTTATAGAAGGAA+AGG 0.429394 1:+32526045 MsaT002110.1:CDS
CGTCAGAAGGGGTGGCTAAA+CGG 0.432073 1:-32525654 None:intergenic
TTGTGAGAGAGTGTTATAGA+AGG 0.433799 1:+32526040 MsaT002110.1:CDS
CCATTTGATGCATTAGTTTG+TGG 0.444519 1:-32525687 None:intergenic
GAGTATGGTGGTGGAATGGA+AGG 0.447086 1:-32525791 None:intergenic
AAATGGGTCGTTGTCGAAAT+GGG 0.450614 1:-32525848 None:intergenic
AACTGGGTGGCGTGGGAGGG+CGG 0.457571 1:-32525620 None:intergenic
GTCGAAATGGGTATCGGTGA+AGG 0.459643 1:-32525836 None:intergenic
GCGAAACAAGCTGTGAAAAT+GGG 0.467825 1:+32526096 MsaT002110.1:CDS
TGGTGGTGGCGGTGCTGCGG+AGG 0.474664 1:-32525566 None:intergenic
GAGAGTGTTATAGAAGGAAA+GGG 0.477940 1:+32526046 MsaT002110.1:CDS
CCACAAACTAATGCATCAAA+TGG 0.477989 1:+32525687 MsaT002110.1:CDS
GAAAACTGGGTGGCGTGGGA+GGG 0.490294 1:-32525623 None:intergenic
AAGGGGTGGCTAAACGGATG+CGG 0.495061 1:-32525648 None:intergenic
CGGGTGAAAACTGGGTGGCG+TGG 0.497983 1:-32525628 None:intergenic
TGGGGTATGGAAGAGTTGAA+TGG 0.498138 1:+32526115 MsaT002110.1:CDS
AGGGGTGGCTAAACGGATGC+GGG 0.502459 1:-32525647 None:intergenic
GGAGGCTTTGCAGACTCACT+GGG 0.510969 1:+32526208 MsaT002110.1:CDS
GGGGTATGGAAGAGTTGAAT+GGG 0.513899 1:+32526116 MsaT002110.1:CDS
ACTCACTGGGGAGAATTTGG+AGG 0.518312 1:+32526221 MsaT002110.1:CDS
TGGATGTAGGGAACGTCAGA+AGG 0.520404 1:-32525667 None:intergenic
GGGTGAAAACTGGGTGGCGT+GGG 0.521670 1:-32525627 None:intergenic
CGGTGGTGGTGGCGGTGCTG+CGG 0.522277 1:-32525569 None:intergenic
TGCATTAGTTTGTGGATGTA+GGG 0.523176 1:-32525679 None:intergenic
ATGCATTAGTTTGTGGATGT+AGG 0.527995 1:-32525680 None:intergenic
CAAGCTGTGAAAATGGGGTA+TGG 0.543716 1:+32526102 MsaT002110.1:CDS
TTCGAGGATGAGTATGGTGG+TGG 0.544978 1:-32525800 None:intergenic
AACGGATGCGGGTGAAAACT+GGG 0.545290 1:-32525636 None:intergenic
GGATGAGTATGGTGGTGGAA+TGG 0.551232 1:-32525795 None:intergenic
ATGTGTGAGTTGTTCGAAAA+CGG 0.552949 1:-32525710 None:intergenic
TCGAAATGGGTATCGGTGAA+GGG 0.559274 1:-32525835 None:intergenic
GTAGGGAACGTCAGAAGGGG+TGG 0.560276 1:-32525662 None:intergenic
TTCAGGGGAGAAGAGAGTGG+TGG 0.564694 1:-32525761 None:intergenic
GTCGTTGTCGAAATGGGTAT+CGG 0.570206 1:-32525842 None:intergenic
GTTTCTGGCATGGTTGATGG+GGG 0.577631 1:-32525598 None:intergenic
CCCAATTGATGACCCAGAGA+AGG 0.579350 1:+32525906 MsaT002110.1:CDS
CGAAATGGGTATCGGTGAAG+GGG 0.588125 1:-32525834 None:intergenic
CGAAACAAGCTGTGAAAATG+GGG 0.605125 1:+32526097 MsaT002110.1:CDS
GGATGTAGGGAACGTCAGAA+GGG 0.612405 1:-32525666 None:intergenic
GATGTAGGGAACGTCAGAAG+GGG 0.626399 1:-32525665 None:intergenic
GGTGGAGTAGGAAGCTTCTG+TGG 0.642533 1:-32525743 None:intergenic
GAAAACTTCAAAACTCAACA+TGG 0.653987 1:+32525928 MsaT002110.1:CDS
GGAGTAGGAAGCTTCTGTGG+CGG 0.687951 1:-32525740 None:intergenic
AGTATGGTGGTGGAATGGAA+GGG 0.693293 1:-32525790 None:intergenic
GACTTCGAGGATGAGTATGG+TGG 0.694705 1:-32525803 None:intergenic
GAGGCTTTGCAGACTCACTG+GGG 0.729456 1:+32526209 MsaT002110.1:CDS
GGATGCGGGTGAAAACTGGG+TGG 0.794166 1:-32525633 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 32525562 32526263 32525562 ID=MsaG002110
Chr1 mRNA 32525562 32526263 32525562 ID=MsaT002110.1;Parent=MsaG002110
Chr1 exon 32525562 32526263 32525562 ID=MsaT002110.1.exon1;Parent=MsaT002110.1
Chr1 CDS 32525562 32526263 32525562 ID=cds.MsaT002110.1;Parent=MsaT002110.1
Gene Sequence

>MsaT002110.1

ATGGCCTCCGCAGCACCGCCACCACCACCGACAGAACCCCCATCAACCATGCCAGAAACCGCCCTCCCACGCCACCCAGTTTTCACCCGCATCCGTTTAGCCACCCCTTCTGACGTTCCCTACATCCACAAACTAATGCATCAAATGGCCGTTTTCGAACAACTCACACATCTCATGACCGCCACAGAAGCTTCCTACTCCACCACTCTCTTCTCCCCTGAAAACAAACCCTTCCATTCCACCACCATACTCATCCTCGAAGTCTCTCAAAACCCCTTCACCGATACCCATTTCGACAACGACCCATTTTACAAACCCATCACAAAAACTGTTAACTTGGATCTCCCAATTGATGACCCAGAGAAGGAAAACTTCAAAACTCAACATGGAAATGAAGTTTTCGTTGCTGGGTTTGTTTTGTTTTTTCCTAACTACTCAACTTTTTTGGGGAAACATGGGTTTTATGTTGAGGATCTGTTTGTGAGAGAGTGTTATAGAAGGAAAGGGTTTGGGAAGATGTTGCTTACTGCTGTTGCGAAACAAGCTGTGAAAATGGGGTATGGAAGAGTTGAATGGGTTGTTCTTGATTGGAATGTTAATGCTATAAAGTTTTATGAAGATATGGGTGCTAAGATTTTGCAGGAATGGAGGCTTTGCAGACTCACTGGGGAGAATTTGGAGGCTTATGGAGCTATTGAGTAA
Protein sequence

>MsaT002110.1

MASAAPPPPPTEPPSTMPETALPRHPVFTRIRLATPSDVPYIHKLMHQMAVFEQLTHLMTATEASYSTTLFSPENKPFHSTTILILEVSQNPFTDTHFDNDPFYKPITKTVNLDLPIDDPEKENFKTQHGNEVFVAGFVLFFPNYSTFLGKHGFYVEDLFVRECYRRKGFGKMLLTAVAKQAVKMGYGRVEWVVLDWNVNAIKFYEDMGAKILQEWRLCRLTGENLEAYGAIE*