AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010439

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010439 MtrunA17_Chr2g0324511 85.276 163 21 1 1 160 1 163 3.29e-96 277
MsaG010439 MtrunA17_Chr4g0040201 64.179 201 57 5 9 201 8 201 1.86e-84 249
MsaG010439 MtrunA17_Chr2g0324571 85.593 118 13 2 46 160 2 118 1.80e-66 201
MsaG010439 MtrunA17_Chr2g0324521 82.609 115 20 0 46 160 2 116 3.63e-65 197
MsaG010439 MtrunA17_Chr2g0282341 37.037 135 79 2 49 181 4 134 1.40e-27 102
MsaG010439 MtrunA17_Chr2g0324531 74.576 59 15 0 159 217 2 60 8.55e-26 95.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010439 AT4G20970.1 38.547 179 96 5 13 180 11 186 4.39e-31 113
MsaG010439 AT1G10585.1 29.050 179 117 4 7 184 8 177 4.46e-15 70.9
MsaG010439 AT1G10586.1 25.824 182 124 5 1 180 1 173 1.44e-11 61.2

Find 45 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATTCTGGGATCTTGAAAT+TGG 0.192948 2:+73451614 MsaT010439.1:CDS
TTTCAATCTCTCGCCTATTT+TGG 0.215651 2:-73451549 None:intergenic
TATCTCTTCAAATTCTTCTT+TGG 0.234992 2:+73449895 MsaT010439.1:CDS
TGGAAACACAACCTCAATTC+TGG 0.245971 2:+73451600 MsaT010439.1:CDS
GGTGGCTGCTCGAGTTCTTC+TGG 0.260572 2:+73449740 MsaT010439.1:CDS
AGAGAAGAAAGAAAGTTTAA+TGG 0.275748 2:+73449697 MsaT010439.1:CDS
CCGCAATCTTTGTTACGATT+TGG 0.283657 2:+73451521 MsaT010439.1:CDS
TCTATTCTTCATCAAGGATT+AGG 0.288350 2:-73451683 None:intergenic
ATCACCTTTGGATCATAGTT+AGG 0.324173 2:-73449174 None:intergenic
GAGAGTTGAGTTTAGAAAAG+AGG 0.353043 2:-73449146 None:intergenic
GAGAAGAAAGAAAGTTTAAT+GGG 0.355968 2:+73449698 MsaT010439.1:CDS
CGATTTGGAGAAACCAAAAT+AGG 0.365801 2:+73451536 MsaT010439.1:CDS
TAGAAAAGAGGATCTTCATT+TGG 0.386590 2:-73449134 None:intergenic
ATTGCCTCATCTACTTGATC+AGG 0.400525 2:-73449632 None:intergenic
TCTTCAAATTCTTCTTTGGC+TGG 0.403407 2:+73449899 MsaT010439.1:CDS
TTGAAATTGGAAGTGAGAGT+TGG 0.404544 2:+73451627 MsaT010439.1:CDS
TAACTTCACAGAAAATAAAA+TGG 0.408004 2:-73449841 None:intergenic
AACGATCTTTCTTTCTACTT+TGG 0.409199 2:-73449094 None:intergenic
CAAACATTATATTTGTCTCT+AGG 0.410779 2:-73449670 None:intergenic
CGAGAGATTGAAAGCATTTG+TGG 0.420058 2:+73451559 MsaT010439.1:CDS
AAAATAGAGATTCATGAAAT+GGG 0.456591 2:+73449779 MsaT010439.1:CDS
TCTACTTTGGTTGAAGAAGA+AGG 0.464564 2:-73449081 None:intergenic
TGAAATTGGAAGTGAGAGTT+GGG 0.469657 2:+73451628 MsaT010439.1:CDS
TCACCTTTGGATCATAGTTA+GGG 0.469862 2:-73449173 None:intergenic
ATTTCAAGATCCCAGAATTG+AGG 0.481933 2:-73451611 None:intergenic
TCAAGGATTAGGTAAACTCT+TGG 0.489378 2:-73451672 None:intergenic
GGAAACACAACCTCAATTCT+GGG 0.497186 2:+73451601 MsaT010439.1:CDS
TCATCTACTTGATCAGGTAA+TGG 0.516045 2:-73449626 None:intergenic
TCTTCATACCGTACATGCTC+AGG 0.517547 2:+73449931 MsaT010439.1:CDS
TTGTGTTTCCACATTGCTCA+CGG 0.538142 2:-73451588 None:intergenic
TATATATACCTGAGCATGTA+CGG 0.538419 2:-73449939 None:intergenic
TACAAGTCATTGTAACATGT+GGG 0.544345 2:+73449810 MsaT010439.1:CDS
AGATTGAAAGCATTTGTGGA+AGG 0.584279 2:+73451563 MsaT010439.1:CDS
CTACAAGTCATTGTAACATG+TGG 0.589705 2:+73449809 MsaT010439.1:CDS
TCTCCCTAACTATGATCCAA+AGG 0.591025 2:+73449170 MsaT010439.1:CDS
CCAAATCGTAACAAAGATTG+CGG 0.605051 2:-73451521 None:intergenic
AATAAGAGATCACGTGATGG+TGG 0.625950 2:+73449722 MsaT010439.1:CDS
TGTTACAATGACTTGTAGAG+TGG 0.628096 2:-73449804 None:intergenic
ATTACCTGATCAAGTAGATG+AGG 0.635272 2:+73449628 MsaT010439.1:CDS
GGAAATAAGAGATCACGTGA+TGG 0.672227 2:+73449719 MsaT010439.1:CDS
ACAAGTCATTGTAACATGTG+GGG 0.680252 2:+73449811 MsaT010439.1:CDS
TAAATGGATCAAAATCAACA+AGG 0.698469 2:+73449051 None:intergenic
ATGGATCAAAATCAACAAGG+AGG 0.707629 2:+73449054 MsaT010439.1:CDS
ACTGCATGAAGAAAACGTCG+AGG 0.726422 2:+73449871 MsaT010439.1:CDS
GGAAGGATCCGTGAGCAATG+TGG 0.734055 2:+73451580 MsaT010439.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 73449054 73451694 73449054 ID=MsaG010439
Chr2 mRNA 73449054 73451694 73449054 ID=MsaT010439.1;Parent=MsaG010439
Chr2 exon 73449054 73449191 73449054 ID=MsaT010439.1.exon1;Parent=MsaT010439.1
Chr2 CDS 73449054 73449191 73449054 ID=cds.MsaT010439.1;Parent=MsaT010439.1
Chr2 exon 73449614 73449952 73449614 ID=MsaT010439.1.exon2;Parent=MsaT010439.1
Chr2 CDS 73449614 73449952 73449614 ID=cds.MsaT010439.1;Parent=MsaT010439.1
Chr2 exon 73451518 73451694 73451518 ID=MsaT010439.1.exon3;Parent=MsaT010439.1
Chr2 CDS 73451518 73451694 73451518 ID=cds.MsaT010439.1;Parent=MsaT010439.1
Gene Sequence

>MsaT010439.1

ATGGATCAAAATCAACAAGGAGGTCAACCTTCTTCTTCAACCAAAGTAGAAAGAAAGATCGTTGAGAAAAATAGAAGAAACCAAATGAAGATCCTCTTTTCTAAACTCAACTCTCTTCTCCCTAACTATGATCCAAAGGAATTAGCGTTACCATTACCTGATCAAGTAGATGAGGCAATAAACTACATAAAGAGCCTAGAGACAAATATAATGTTTGCAAAAGAGAAGAAAGAAAGTTTAATGGGAAATAAGAGATCACGTGATGGTGGCTGCTCGAGTTCTTCTGGAGCAATAAAGTTGCCAAAAATAGAGATTCATGAAATGGGAACCACTCTACAAGTCATTGTAACATGTGGGGTTGATGACCATTTTATTTTCTGTGAAGTTATGAGAATACTGCATGAAGAAAACGTCGAGGTTATCTCTTCAAATTCTTCTTTGGCTGGTGATTCACTTCTTCATACCGTACATGCTCAGATTCCGCAATCTTTGTTACGATTTGGAGAAACCAAAATAGGCGAGAGATTGAAAGCATTTGTGGAAGGATCCGTGAGCAATGTGGAAACACAACCTCAATTCTGGGATCTTGAAATTGGAAGTGAGAGTTGGGAGCTTCTACATTCTGTAGTAACCAAGAGTTTACCTAATCCTTGA
Protein sequence

>MsaT010439.1

MDQNQQGGQPSSSTKVERKIVEKNRRNQMKILFSKLNSLLPNYDPKELALPLPDQVDEAINYIKSLETNIMFAKEKKESLMGNKRSRDGGCSSSSGAIKLPKIEIHEMGTTLQVIVTCGVDDHFIFCEVMRILHEENVEVISSNSSLAGDSLLHTVHAQIPQSLLRFGETKIGERLKAFVEGSVSNVETQPQFWDLEIGSESWELLHSVVTKSLPNP*