AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG029459

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029459 MtrunA17_Chr5g0444351 98.969 97 1 0 1 97 49 145 1.90e-66 196
MsaG029459 MtrunA17_Chr7g0225111 79.710 69 14 0 1 69 49 117 1.43e-35 117
MsaG029459 MtrunA17_Chr5g0437571 46.970 66 35 0 1 66 50 115 1.52e-14 65.1
MsaG029459 MtrunA17_Chr3g0106101 35.714 98 59 2 1 97 51 145 5.51e-14 63.9
MsaG029459 MtrunA17_Chr2g0311601 41.935 62 36 0 1 62 57 118 6.77e-13 60.5
MsaG029459 MtrunA17_Chr4g0030001 41.270 63 37 0 1 63 69 131 1.70e-11 57.4
MsaG029459 MtrunA17_Chr3g0114061 40.909 66 39 0 1 66 52 117 2.72e-11 56.6
MsaG029459 MtrunA17_Chr5g0438091 38.095 84 49 1 1 81 83 166 2.97e-11 57.0
MsaG029459 MtrunA17_Chr4g0043421 46.429 56 30 0 1 56 59 114 5.48e-11 55.8
MsaG029459 MtrunA17_Chr3g0129071 42.857 63 36 0 1 63 91 153 6.65e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029459 AT3G26660.1 56.897 58 25 0 1 58 49 106 1.81e-16 69.3
MsaG029459 AT3G26620.1 56.897 58 25 0 1 58 49 106 2.27e-16 68.9
MsaG029459 AT2G30130.1 46.154 65 35 0 1 65 52 116 1.09e-13 63.5
MsaG029459 AT5G63090.4 38.889 72 44 0 1 72 55 126 4.39e-11 56.6
MsaG029459 AT5G63090.3 38.889 72 44 0 1 72 55 126 4.39e-11 56.6
MsaG029459 AT5G63090.2 38.889 72 44 0 1 72 55 126 4.39e-11 56.6
MsaG029459 AT5G63090.1 38.889 72 44 0 1 72 55 126 4.39e-11 56.6
MsaG029459 AT1G07900.1 41.270 63 37 0 1 63 77 139 5.47e-11 56.6
MsaG029459 AT2G28500.1 41.270 63 37 0 2 64 100 162 5.62e-11 57.0

Find 19 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCTTCATATTGTTGATTT+TGG 0.095309 5:+77342754 None:intergenic
AGGATTCAAAATCCTGTTTA+TGG 0.168254 5:-77342870 MsaT029459.1:CDS
AGCAATCTGAGTTTGGATTT+TGG 0.249357 5:+77342788 None:intergenic
AAATCTTAATTGAAGCAATT+AGG 0.335664 5:+77342663 None:intergenic
TATGACAAGCAATCTGAGTT+TGG 0.340516 5:+77342781 None:intergenic
CCAGCTCAGCTTCTGTATCA+TGG 0.391779 5:+77342811 None:intergenic
AAGCAATTAGGAGTTTGATT+AGG 0.413838 5:+77342675 None:intergenic
ATCCCAACACATCCATAAAC+AGG 0.432009 5:+77342858 None:intergenic
TGCTCCATGCTGCTACTTTG+TGG 0.452878 5:+77342708 None:intergenic
CCATGATACAGAAGCTGAGC+TGG 0.490473 5:-77342811 MsaT029459.1:CDS
TGTATTTAGAAGCACAATGT+AGG 0.494601 5:-77342890 MsaT029459.1:CDS
CAAAATCAACAATATGAAGC+TGG 0.506425 5:-77342753 MsaT029459.1:CDS
TGCTACTTTGTGGAGGCAAA+AGG 0.516646 5:+77342718 None:intergenic
AATCCTGTTTATGGATGTGT+TGG 0.538555 5:-77342861 MsaT029459.1:CDS
GCAGCATGGAGCAGTTTCAA+TGG 0.542505 5:-77342698 MsaT029459.1:CDS
ATCCTGTTTATGGATGTGTT+GGG 0.565241 5:-77342860 MsaT029459.1:CDS
GCCTCCACAAAGTAGCAGCA+TGG 0.580606 5:-77342712 MsaT029459.1:CDS
GCTTGTTCTCTTACATAGTG+AGG 0.593122 5:+77342924 None:intergenic
TCCATGCTGCTACTTTGTGG+AGG 0.624030 5:+77342711 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 77342668 77343353 77342668 ID=MsaG029459
Chr5 mRNA 77342668 77343353 77342668 ID=MsaT029459.1;Parent=MsaG029459
Chr5 exon 77342668 77342952 77342668 ID=MsaT029459.1.exon2;Parent=MsaT029459.1
Chr5 CDS 77342668 77342952 77342668 ID=cds.MsaT029459.1;Parent=MsaT029459.1
Chr5 exon 77343345 77343353 77343345 ID=MsaT029459.1.exon1;Parent=MsaT029459.1
Chr5 CDS 77343345 77343353 77343345 ID=cds.MsaT029459.1;Parent=MsaT029459.1
Gene Sequence

>MsaT029459.1

ATGCTTCAGCAATTACCTCACTATGTAAGAGAACAAGCTGCAAATACTTTGTATTTAGAAGCACAATGTAGGATTCAAAATCCTGTTTATGGATGTGTTGGGATTATCTCTAAATTGTATCAACAAATCCATGATACAGAAGCTGAGCTGGCCAAAATCCAAACTCAGATTGCTTGTCATAAGCTCCAAAATCAACAATATGAAGCTGGATCAAACTTCAACCTTTTGCCTCCACAAAGTAGCAGCATGGAGCAGTTTCAATGGCCTAATCAAACTCCTAATTGCTTCAATTAA
Protein sequence

>MsaT029459.1

MLQQLPHYVREQAANTLYLEAQCRIQNPVYGCVGIISKLYQQIHDTEAELAKIQTQIACHKLQNQQYEAGSNFNLLPPQSSSMEQFQWPNQTPNCFN*