AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG020995

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020995 MtrunA17_Chr4g0033941 75.431 232 27 2 44 247 1 230 9.93e-107 308
MsaG020995 MtrunA17_Chr4g0033951 53.917 217 79 5 1 216 1 197 5.09e-65 201
MsaG020995 MtrunA17_Chr1g0154211 35.897 78 48 1 24 101 36 111 6.13e-11 61.6
MsaG020995 MtrunA17_Chr1g0154161 30.075 133 90 2 24 155 44 174 6.83e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020995 AT3G06220.1 30.851 94 63 1 9 102 8 99 1.68e-11 61.6

Find 44 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCTCTTGGCCGCGATTAT+TGG 0.150855 4:-61608239 None:intergenic
TTCTTTGATGATTGCGAAAA+AGG 0.192611 4:-61607399 None:intergenic
AGTGATGCTTGAAGAGTTAT+TGG 0.212786 4:+61608088 MsaT020995.1:CDS
ATTATTCTGGTAGGCTCTTC+TGG 0.236095 4:+61607981 MsaT020995.1:CDS
ACAAGAGATTGTTATGGATT+TGG 0.243204 4:+61607932 MsaT020995.1:CDS
CATCAATGTTGCTGCAGCTT+TGG 0.244862 4:-61608495 None:intergenic
AATGACATTTATCTGCAAAT+TGG 0.269252 4:+61608038 MsaT020995.1:CDS
TGCAGCAACAATCATGTCTA+TGG 0.269290 4:+61608418 MsaT020995.1:CDS
CAAGAGATTGTTATGGATTT+GGG 0.277836 4:+61607933 MsaT020995.1:CDS
GAAGAATGCATTAATTATTC+TGG 0.319956 4:+61607968 MsaT020995.1:CDS
CAAAGCTGCAGCAACATTGA+TGG 0.380913 4:+61608496 MsaT020995.1:CDS
TGGCCTACCCCTCTTTCTCT+TGG 0.396358 4:-61608252 None:intergenic
TAATGGGGAGAACAAGTTCC+AGG 0.400809 4:+61608121 MsaT020995.1:CDS
CTGGTGAGAGAGTATGCTTC+AGG 0.408630 4:+61608381 MsaT020995.1:CDS
TTCTTAAAGCACTCACTCTC+AGG 0.419431 4:-61608290 None:intergenic
TAGGCTCTTCTGGTGAGAAA+TGG 0.425803 4:+61607991 MsaT020995.1:CDS
GAGAAAATCCTGCTGGTGAG+AGG 0.446423 4:+61608543 MsaT020995.1:CDS
AGTACCACAAGAGATTGTTA+TGG 0.452327 4:+61607926 MsaT020995.1:CDS
CAGTTAACTAAAATAACAAC+TGG 0.461802 4:-61608650 None:intergenic
AGGCTCTTCTGGTGAGAAAT+GGG 0.468490 4:+61607992 MsaT020995.1:CDS
ACATTTATCTGCAAATTGGT+TGG 0.488288 4:+61608042 MsaT020995.1:CDS
TGGATTTGGGTGAAGAGTTG+TGG 0.489164 4:+61607946 MsaT020995.1:CDS
AATGTGGCTAAAAGAAATGA+TGG 0.523938 4:+61608338 MsaT020995.1:CDS
ATGCATACCCTCTCACCAGC+AGG 0.531521 4:-61608551 None:intergenic
AGGCTTGAACATTAACTGCC+TGG 0.536874 4:+61607421 MsaT020995.1:CDS
TAATCGCGGCCAAGAGAAAG+AGG 0.543608 4:+61608243 MsaT020995.1:CDS
ACTAAAATAACAACTGGAGC+AGG 0.545360 4:-61608644 None:intergenic
AATCGTGGCTGAGAGAAAGA+AGG 0.556974 4:+61608604 MsaT020995.1:CDS
AAGCACTCACTCTCAGGAGA+AGG 0.565500 4:-61608284 None:intergenic
AATGCATTAATTATTCTGGT+AGG 0.572311 4:+61607972 MsaT020995.1:CDS
AAGCATACTCTCTCACCAGC+AGG 0.573273 4:-61608377 None:intergenic
TGCAGCAGCTCCAATAATCG+CGG 0.576668 4:+61608229 MsaT020995.1:intron
GCAGCAACAATCATGTCTAT+GGG 0.585892 4:+61608419 MsaT020995.1:CDS
CGGCCAAGAGAAAGAGGGGT+AGG 0.591119 4:+61608249 MsaT020995.1:CDS
AGAAAATCCTGCTGGTGAGA+GGG 0.595818 4:+61608544 MsaT020995.1:CDS
ATTGATGGCTGCGATAAACA+AGG 0.598401 4:+61608511 MsaT020995.1:CDS
AGAACAAGAGAAAATCCTGC+TGG 0.600152 4:+61608536 MsaT020995.1:CDS
AATCGCGGCCAAGAGAAAGA+GGG 0.619676 4:+61608244 MsaT020995.1:CDS
TGAAGTTGCAGCAACAAATG+TGG 0.623525 4:+61608322 MsaT020995.1:CDS
ATCGTGGCTGAGAGAAAGAA+GGG 0.634544 4:+61608605 MsaT020995.1:CDS
AAATCCATAACAATCTCTTG+TGG 0.653407 4:-61607930 None:intergenic
ATCGCGGCCAAGAGAAAGAG+GGG 0.679157 4:+61608245 MsaT020995.1:CDS
AAAATCTGCAGAAACAATCG+TGG 0.680787 4:+61608589 MsaT020995.1:CDS
TTGATGGCTGCGATAAACAA+GGG 0.688503 4:+61608512 MsaT020995.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 61607371 61608673 61607371 ID=MsaG020995
Chr4 mRNA 61607371 61608673 61607371 ID=MsaT020995.1;Parent=MsaG020995
Chr4 exon 61607371 61607442 61607371 ID=MsaT020995.1.exon1;Parent=MsaT020995.1
Chr4 CDS 61607371 61607442 61607371 ID=cds.MsaT020995.1;Parent=MsaT020995.1
Chr4 exon 61607924 61608155 61607924 ID=MsaT020995.1.exon2;Parent=MsaT020995.1
Chr4 CDS 61607924 61608155 61607924 ID=cds.MsaT020995.1;Parent=MsaT020995.1
Chr4 exon 61608234 61608673 61608234 ID=MsaT020995.1.exon3;Parent=MsaT020995.1
Chr4 CDS 61608234 61608673 61608234 ID=cds.MsaT020995.1;Parent=MsaT020995.1
Gene Sequence

>MsaT020995.1

ATGGATTATGATCACCAAGACAAACCATCCTTTTTCGCAATCATCAAAGAAGGCTTGAACATTAACTGCCTGAAAGTACCACAAGAGATTGTTATGGATTTGGGTGAAGAGTTGTGGAAGAATGCATTAATTATTCTGGTAGGCTCTTCTGGTGAGAAATGGGAAGTGAGTATTTTGAAGAAAGGAAATGACATTTATCTGCAAATTGGTTGGCAAAAATTTCTGAAAGACAACACAGTGATGCTTGAAGAGTTATTGGTTTTCACATATAATGGGGAGAACAAGTTCCAGGTGCAAATTTTTGCAGCTCCAATAATCGCGGCCAAGAGAAAGAGGGGTAGGCCAAGAAAATTTCCTTCTCCTGAGAGTGAGTGCTTTAAGAAAGAAAAAGCTGAAGTTGCAGCAACAAATGTGGCTAAAAGAAATGATGGTAGAACAAGAAAAAGTCCTGCTGGTGAGAGAGTATGCTTCAGGAAAAAAGAAGAAGTTGCAGCAACAATCATGTCTATGGGTAAACCAAGAAAAAATCATGTTCGTCAGAGAGTAAGCGTAAAGAAAGAAGAAGCCAAAGCTGCAGCAACATTGATGGCTGCGATAAACAAGGGTAGAACAAGAGAAAATCCTGCTGGTGAGAGGGTATGCATCATGAAAGAAGAAGCAAAATCTGCAGAAACAATCGTGGCTGAGAGAAAGAAGGGTAGACCAAGAAAATATCCTGCTCCAGTTGTTATTTTAGTTAACTGA
Protein sequence

>MsaT020995.1

MDYDHQDKPSFFAIIKEGLNINCLKVPQEIVMDLGEELWKNALIILVGSSGEKWEVSILKKGNDIYLQIGWQKFLKDNTVMLEELLVFTYNGENKFQVQIFAAPIIAAKRKRGRPRKFPSPESECFKKEKAEVAATNVAKRNDGRTRKSPAGERVCFRKKEEVAATIMSMGKPRKNHVRQRVSVKKEEAKAAATLMAAINKGRTRENPAGERVCIMKEEAKSAETIVAERKKGRPRKYPAPVVILVN*