AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG013901


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013901 MtrunA17_Chr1g0171741 41.791 134 77 1 36 169 115 247 4.03e-31 116
MsaG013901 MtrunA17_Chr8g0389811 37.037 135 85 0 31 165 61 195 2.05e-28 107
MsaG013901 MtrunA17_Chr1g0203051 35.429 175 106 3 10 183 41 209 1.16e-26 108
MsaG013901 MtrunA17_Chr2g0331371 41.667 132 77 0 34 165 35 166 8.99e-23 93.2
MsaG013901 MtrunA17_Chr6g0473421 45.833 96 52 0 34 129 35 130 2.23e-22 90.5
MsaG013901 MtrunA17_Chr2g0287651 32.222 180 111 4 4 172 14 193 8.98e-17 80.1
MsaG013901 MtrunA17_Chr1g0172931 35.644 101 65 0 36 136 58 158 7.60e-15 70.5
MsaG013901 MtrunA17_Chr1g0198761 37.705 122 66 4 60 172 53 173 1.59e-13 70.5
MsaG013901 MtrunA17_Chr5g0431001 34.959 123 68 4 60 172 67 187 4.85e-12 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013901 AT5G28530.4 35.043 117 71 3 60 173 61 175 1.33e-13 70.9
MsaG013901 AT5G28530.1 35.043 117 71 3 60 173 61 175 1.41e-13 70.9
MsaG013901 AT5G28530.3 35.043 117 71 3 60 173 61 175 1.48e-13 70.9
MsaG013901 AT5G28530.2 35.043 117 71 3 60 173 61 175 1.48e-13 70.9
MsaG013901 AT5G28530.5 35.043 117 71 3 60 173 61 175 1.53e-13 70.9

Find 37 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTGGAATCTTGAAGGTTTC+AGG 0.176757 3:-62969723 MsaT013901.1:CDS
ACTTGTGCATGTAAATTATC+AGG 0.258177 3:+62968138 None:intergenic
GATGAATCATTTGTAATAGA+AGG 0.356869 3:-62969931 MsaT013901.1:CDS
ATATACAGATGACGATGATT+TGG 0.358981 3:-62970004 MsaT013901.1:CDS
ACAACCACTGCTTCTTGAAC+AGG 0.410788 3:+62968089 None:intergenic
GTTGGAACTAATTCTCCATA+TGG 0.427032 3:+62967964 None:intergenic
GATTTGGAAGGAAATTCTAA+TGG 0.445351 3:-62969988 MsaT013901.1:CDS
GTCCGTTGTTGGTTGCTCAT+AGG 0.453521 3:-62969534 MsaT013901.1:CDS
TGTCCCACTCATAATCCATA+TGG 0.453809 3:-62967979 MsaT013901.1:CDS
TTGAAGGTTTCAGGAGAGCC+AGG 0.455285 3:-62969714 MsaT013901.1:CDS
AAAGCAAACTATTGCGATGA+AGG 0.472608 3:-62968165 MsaT013901.1:CDS
TTGATATACTTACACATCGT+TGG 0.473216 3:-62969612 MsaT013901.1:CDS
ACATTTGTGTGGAATCTTGA+AGG 0.479804 3:-62969730 MsaT013901.1:CDS
TCTGTTTGTAATGAACTAGT+TGG 0.490496 3:+62967946 None:intergenic
AATAAAACTCATTGTGGCTG+TGG 0.496939 3:-62969655 MsaT013901.1:CDS
TGTTCAAGAAGCAGTGGTTG+TGG 0.506248 3:-62968087 MsaT013901.1:CDS
AACTATTCTTATGATGGGGC+AGG 0.506261 3:-62970034 None:intergenic
AGCTAGCACGAGCAATGCAA+TGG 0.546315 3:-62968064 MsaT013901.1:CDS
GCTAGCACGAGCAATGCAAT+GGG 0.576609 3:-62968063 MsaT013901.1:CDS
TTATTCAACAAACATTTGTG+TGG 0.584844 3:-62969741 MsaT013901.1:CDS
TGAAGGTTTCAGGAGAGCCA+GGG 0.585503 3:-62969713 MsaT013901.1:CDS
CGTCGGCGATCACAGACGTG+TGG 0.593998 3:-62968036 MsaT013901.1:CDS
TCACAGACGTGTGGGATATG+TGG 0.596443 3:-62968027 MsaT013901.1:CDS
ACGTGTGGGATATGTGGTGC+AGG 0.599744 3:-62968021 MsaT013901.1:CDS
TCTCCATATGGATTATGAGT+GGG 0.601973 3:+62967976 None:intergenic
CCTTCCTGTTCAAGAAGCAG+TGG 0.606883 3:-62968093 MsaT013901.1:CDS
GCAATGCAATGGGTCGCCGT+CGG 0.617751 3:-62968053 MsaT013901.1:CDS
CACACGTCTGTGATCGCCGA+CGG 0.618914 3:+62968037 None:intergenic
ACAGATGACGATGATTTGGA+AGG 0.621924 3:-62970000 MsaT013901.1:CDS
GAAGGTTTCAGGAGAGCCAG+GGG 0.622597 3:-62969712 MsaT013901.1:CDS
TTCTCCATATGGATTATGAG+TGG 0.630064 3:+62967975 None:intergenic
TTCCTATGAGCAACCAACAA+CGG 0.633560 3:+62969532 None:intergenic
GTCGGCGATCACAGACGTGT+GGG 0.644168 3:-62968035 MsaT013901.1:CDS
TGTGGGATATGTGGTGCAGG+TGG 0.666238 3:-62968018 MsaT013901.1:CDS
CCACTGCTTCTTGAACAGGA+AGG 0.669850 3:+62968093 None:intergenic
AAGGTTTCAGGAGAGCCAGG+GGG 0.711991 3:-62969711 MsaT013901.1:CDS
ACAGTAGAGGAACATAAGCG+TGG 0.722735 3:-62969685 MsaT013901.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 62967918 62970043 62967918 ID=MsaG013901
Chr3 mRNA 62967918 62970043 62967918 ID=MsaT013901.1;Parent=MsaG013901
Chr3 exon 62967918 62968216 62967918 ID=MsaT013901.1.exon2;Parent=MsaT013901.1
Chr3 CDS 62967918 62968216 62967918 ID=cds.MsaT013901.1;Parent=MsaT013901.1
Chr3 exon 62969527 62970043 62969527 ID=MsaT013901.1.exon1;Parent=MsaT013901.1
Chr3 CDS 62969527 62970043 62969527 ID=cds.MsaT013901.1;Parent=MsaT013901.1
Gene Sequence

>MsaT013901.1

ATGGGGCAGGAAATTTCATATACAGATGACGATGATTTGGAAGGAAATTCTAATGGTGTGAATGATTCAATATTTTCATATCTAAGTCAAGATGAATCATTTGTAATAGAAGGTGTTGACGATATTGTAAAGATAGATATGTTTTACCTGCAAAATGAAGATGTTTCGAAGTTGCAATTTGAGAGTCTTGATGTTGCCTACAATTTTTATTGTTGGTTTGCAAAGATGAATAATTTTTCTGTGAGGAAAGGTCAAGTTATTAAAAATAAGAATGGAGATGTTATTCAACAAACATTTGTGTGGAATCTTGAAGGTTTCAGGAGAGCCAGGGGGTTAACAGTAGAGGAACATAAGCGTGGTCCGAAAAATAAAACTCATTGTGGCTGTGGAGCGAAATTTATAGTGCATATTGATATACTTACACATCGTTGGTATATCTCAATTTTCACGTTTTATCACAATCATGAAATATTGAGTGAAAAACATTGTCCGTTGTTGGTTGCTCATAGGAAGCTCAAATATCTAACGGATGAACTCAATAGACTTAAAGCAAACTATTGCGATGAAGGTGAACCTGATAATTTACATGCACAAGTCGAATTAGATAACATAATGAATCCTTCCTGTTCAAGAAGCAGTGGTTGTGGAGCTAGCACGAGCAATGCAATGGGTCGCCGTCGGCGATCACAGACGTGTGGGATATGTGGTGCAGGTGGACACAATAGACGATCTTGTCCCACTCATAATCCATATGGAGAATTAGTTCCAACTAGTTCATTACAAACAGAATCATTGCGATTAAGTAATGATATTTAA

Protein sequence

>MsaT013901.1

MGQEISYTDDDDLEGNSNGVNDSIFSYLSQDESFVIEGVDDIVKIDMFYLQNEDVSKLQFESLDVAYNFYCWFAKMNNFSVRKGQVIKNKNGDVIQQTFVWNLEGFRRARGLTVEEHKRGPKNKTHCGCGAKFIVHIDILTHRWYISIFTFYHNHEILSEKHCPLLVAHRKLKYLTDELNRLKANYCDEGEPDNLHAQVELDNIMNPSCSRSSGCGASTSNAMGRRRRSQTCGICGAGGHNRRSCPTHNPYGELVPTSSLQTESLRLSNDI*