AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028930

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028930 MtrunA17_Chr5g0438661 80.000 190 9 1 1 161 387 576 1.86e-99 300
MsaG028930 MtrunA17_Chr7g0258521 32.484 157 77 3 36 163 274 430 8.96e-15 71.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028930 AT4G19650.2 36.508 189 90 2 1 160 365 552 2.27e-31 119
MsaG028930 AT4G19650.1 36.508 189 90 2 1 160 348 535 2.32e-31 119
MsaG028930 AT5G45113.1 36.649 191 86 3 1 160 188 374 1.35e-28 110
MsaG028930 AT5G06811.1 30.000 190 103 3 1 160 350 539 9.96e-15 72.0
MsaG028930 AT5G06810.1 30.645 186 99 3 1 157 356 540 1.45e-14 71.2

Find 46 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAGCAAACATTCGATAAA+AGG 0.208563 5:-70728184 MsaT028930.1:CDS
TTGTGACCCGCTTATTAAAT+TGG 0.211062 5:-70728032 MsaT028930.1:CDS
GTAATGGCTGTGGGTATAAT+TGG 0.242629 5:-70726928 MsaT028930.1:CDS
CTTGCTGAAACTAGGGTATA+TGG 0.266036 5:-70727996 MsaT028930.1:CDS
TTTGAATTACATTTCTCTTC+AGG 0.267697 5:+70727828 None:intergenic
ATTCTGCATAAATCAGCTTT+TGG 0.277612 5:+70728130 None:intergenic
CTCTTCAGGATTAGAATCTT+AGG 0.284996 5:+70727842 None:intergenic
TCCATTGGAGCTTATTAGTT+TGG 0.304432 5:-70728095 MsaT028930.1:CDS
AGAGCGGTTTGTAAGGAGTT+AGG 0.349298 5:-70728157 MsaT028930.1:CDS
TTTAATAAGCGGGTCACAAT+AGG 0.351904 5:+70728036 None:intergenic
AGGGAGAGGTGATCAGTTAC+AGG 0.358936 5:-70727933 MsaT028930.1:CDS
GAAGCAGTAAAATTGTTTCC+AGG 0.374900 5:-70727953 MsaT028930.1:CDS
CTGCCTCGTAGAAGCTGGTT+TGG 0.378167 5:-70727900 MsaT028930.1:CDS
AGGTTATAGAGCGGTTTGTA+AGG 0.431374 5:-70728164 MsaT028930.1:CDS
GGAAAGAGAGGTAATGGCTG+TGG 0.438025 5:-70726938 MsaT028930.1:CDS
CGGCTTTCTTGCTGAAACTA+GGG 0.439594 5:-70728003 MsaT028930.1:CDS
GCTTATTAAATTGGAGAAAA+CGG 0.440222 5:-70728023 MsaT028930.1:CDS
TAATGGCTGTGGGTATAATT+GGG 0.452561 5:-70726927 MsaT028930.1:CDS
TGATCAGTTACAGGAGAGAT+TGG 0.453405 5:-70727924 MsaT028930.1:CDS
ACGGCTTTCTTGCTGAAACT+AGG 0.474798 5:-70728004 MsaT028930.1:CDS
TATATATGCTTAGGCGTCGT+GGG 0.491300 5:-70726987 MsaT028930.1:intron
TTCAATGTATGAGTGGTTGA+AGG 0.494343 5:-70727704 MsaT028930.1:CDS
GCAGAAGGAAAGAGAGGTAA+TGG 0.500082 5:-70726944 MsaT028930.1:CDS
TTGGACTGCCTCGTAGAAGC+TGG 0.500999 5:-70727905 MsaT028930.1:CDS
CTTCTAAACAGAAACATAAG+AGG 0.503889 5:-70728072 MsaT028930.1:CDS
TGTATGAGTGGTTGAAGGAA+AGG 0.504426 5:-70727699 MsaT028930.1:CDS
TATGGAAAACTCTGAGGAGA+TGG 0.511741 5:-70727978 MsaT028930.1:CDS
GTAAAATTGTTTCCAGGGAG+AGG 0.518160 5:-70727947 MsaT028930.1:CDS
AAGCAGTAAAATTGTTTCCA+GGG 0.543083 5:-70727952 MsaT028930.1:CDS
GCCAAACTAATAAGCTCCAA+TGG 0.546201 5:+70728094 None:intergenic
AATCATAAACGATGATCCAT+TGG 0.546725 5:-70728110 MsaT028930.1:CDS
TTGTAGCACTGCGATTAGAA+TGG 0.562098 5:-70727876 MsaT028930.1:CDS
GAAAGAGAGGTAATGGCTGT+GGG 0.572490 5:-70726937 MsaT028930.1:CDS
TGTAACTGATCACCTCTCCC+TGG 0.577413 5:+70727935 None:intergenic
CAGAAACATAAGAGGAGTGG+AGG 0.579021 5:-70728064 MsaT028930.1:CDS
TTATATATGCTTAGGCGTCG+TGG 0.582132 5:-70726988 MsaT028930.1:intron
CGTAATCAAGAGTTTGCAGA+AGG 0.595606 5:-70726959 MsaT028930.1:CDS
GAGTTTGCAGAAGGAAAGAG+AGG 0.604390 5:-70726950 MsaT028930.1:CDS
AAACAGAAACATAAGAGGAG+TGG 0.607869 5:-70728067 MsaT028930.1:CDS
TTCGATAAAAGGTTATAGAG+CGG 0.623688 5:-70728173 MsaT028930.1:CDS
ATATATGCTTAGGCGTCGTG+GGG 0.635143 5:-70726986 MsaT028930.1:intron
AGAAACATAAGAGGAGTGGA+GGG 0.636056 5:-70728063 MsaT028930.1:CDS
CAAGAGTTTCAATGTATGAG+TGG 0.645039 5:-70727711 MsaT028930.1:CDS
AGGGTATATGGAAAACTCTG+AGG 0.686033 5:-70727984 MsaT028930.1:CDS
TATATGCTTAGGCGTCGTGG+GGG 0.721785 5:-70726985 MsaT028930.1:intron
AATCCAAACCAGCTTCTACG+AGG 0.736492 5:+70727897 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 70726910 70728254 70726910 ID=MsaG028930
Chr5 mRNA 70726910 70728254 70726910 ID=MsaT028930.1;Parent=MsaG028930
Chr5 exon 70726910 70726996 70726910 ID=MsaT028930.1.exon3;Parent=MsaT028930.1
Chr5 CDS 70726910 70726996 70726910 ID=cds.MsaT028930.1;Parent=MsaT028930.1
Chr5 exon 70727693 70727752 70727693 ID=MsaT028930.1.exon2;Parent=MsaT028930.1
Chr5 CDS 70727693 70727752 70727693 ID=cds.MsaT028930.1;Parent=MsaT028930.1
Chr5 exon 70727838 70728254 70727838 ID=MsaT028930.1.exon1;Parent=MsaT028930.1
Chr5 CDS 70727838 70728254 70727838 ID=cds.MsaT028930.1;Parent=MsaT028930.1
Gene Sequence

>MsaT028930.1

ATGGAACAAGATGATATTGCACATGTTTTGTCTAACTACATGCATATCTTGAGCAAACATTCGATAAAAGGTTATAGAGCGGTTTGTAAGGAGTTAGGAGTTCCAAAAGCTGATTTATGCAGAATCATAAACGATGATCCATTGGAGCTTATTAGTTTGGCTTCTAAACAGAAACATAAGAGGAGTGGAGGGCAAACCTATTGTGACCCGCTTATTAAATTGGAGAAAACGGCTTTCTTGCTGAAACTAGGGTATATGGAAAACTCTGAGGAGATGGAAGAAGCAGTAAAATTGTTTCCAGGGAGAGGTGATCAGTTACAGGAGAGATTGGACTGCCTCGTAGAAGCTGGTTTGGATTGTAGCACTGCGATTAGAATGGTAAAGCGAGTTCCTAAGATTCTAATCCTGAAGAGAAATGGCGTGGACAGAATGAGTGCAAGAGTTTCAATGTATGAGTGGTTGAAGGAAAGGAATGCAGCGTCGTGGGGGAAGCGTAATCAAGAGTTTGCAGAAGGAAAGAGAGGTAATGGCTGTGGGTATAATTGGGAAGTGTTTGCTAGTTGA
Protein sequence

>MsaT028930.1

MEQDDIAHVLSNYMHILSKHSIKGYRAVCKELGVPKADLCRIINDDPLELISLASKQKHKRSGGQTYCDPLIKLEKTAFLLKLGYMENSEEMEEAVKLFPGRGDQLQERLDCLVEAGLDCSTAIRMVKRVPKILILKRNGVDRMSARVSMYEWLKERNAASWGKRNQEFAEGKRGNGCGYNWEVFAS*