AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG013066


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013066 MtrunA17_Chr3g0125801 87.500 64 8 0 1 64 1 64 4.91e-35 119
MsaG013066 MtrunA17_Chr7g0254261 70.370 54 16 0 11 64 84 137 6.77e-24 91.3
MsaG013066 MtrunA17_Chr6g0480581 74.510 51 13 0 14 64 2 52 8.05e-24 89.4
MsaG013066 MtrunA17_Chr4g0042501 74.074 54 14 0 11 64 100 153 3.71e-23 89.7
MsaG013066 MtrunA17_Chr5g0417621 72.222 54 15 0 11 64 129 182 8.98e-23 89.0
MsaG013066 MtrunA17_Chr6g0460671 55.224 67 27 1 1 64 81 147 8.64e-21 82.8
MsaG013066 MtrunA17_Chr6g0460661 66.667 48 16 0 17 64 17 64 1.87e-20 79.0
MsaG013066 MtrunA17_Chr5g0401731 56.250 48 21 0 17 64 16 63 2.00e-14 65.5
MsaG013066 MtrunA17_Chr4g0008551 60.417 48 19 0 17 64 39 86 2.03e-14 65.5
MsaG013066 MtrunA17_Chr5g0429661 58.333 48 20 0 17 64 123 170 8.24e-14 63.5
MsaG013066 MtrunA17_Chr3g0104501 58.333 48 20 0 17 64 134 181 8.82e-14 62.4
MsaG013066 MtrunA17_Chr4g0053431 56.250 48 21 0 17 64 6 53 9.01e-14 63.2
MsaG013066 MtrunA17_Chr5g0437321 54.167 48 22 0 17 64 20 67 1.79e-13 62.4
MsaG013066 MtrunA17_Chr6g0454921 54.167 48 22 0 17 64 16 63 9.29e-13 59.7
MsaG013066 MtrunA17_Chr3g0133601 56.250 48 21 0 17 64 38 85 1.03e-12 59.7
MsaG013066 MtrunA17_Chr4g0058991 48.333 60 31 0 5 64 198 257 2.44e-12 59.7
MsaG013066 MtrunA17_Chr7g0233161 52.083 48 23 0 17 64 300 347 3.06e-11 56.6
MsaG013066 MtrunA17_Chr3g0139671 50.000 48 24 0 17 64 86 133 3.99e-11 56.2
MsaG013066 MtrunA17_Chr3g0117511 52.083 48 23 0 17 64 184 231 5.90e-11 55.8
MsaG013066 MtrunA17_Chr5g0397841 52.174 46 22 0 19 64 113 158 7.19e-11 55.5
MsaG013066 MtrunA17_Chr1g0157731 47.917 48 25 0 17 64 92 139 9.64e-11 55.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013066 AT1G73410.1 78.431 51 11 0 14 64 4 54 2.40e-24 90.9
MsaG013066 AT1G73410.2 78.431 51 11 0 14 64 4 54 7.98e-24 89.0
MsaG013066 AT1G17950.1 76.471 51 12 0 14 64 3 53 8.57e-24 89.7
MsaG013066 AT1G69560.1 76.923 52 12 0 13 64 104 155 1.16e-22 88.2
MsaG013066 AT1G69560.2 76.923 52 12 0 13 64 120 171 1.47e-22 88.2
MsaG013066 AT1G26780.1 81.250 48 9 0 17 64 99 146 2.39e-22 86.7
MsaG013066 AT4G33450.1 71.154 52 15 0 13 64 16 67 4.88e-22 85.1
MsaG013066 AT1G26780.2 81.250 48 9 0 17 64 99 146 6.73e-22 86.3
MsaG013066 AT5G17800.1 67.273 55 18 0 10 64 87 141 1.19e-21 85.1
MsaG013066 AT3G29020.1 64.815 54 19 0 11 64 60 113 1.83e-21 83.2
MsaG013066 AT3G29020.2 64.815 54 19 0 11 64 62 115 5.84e-21 83.2
MsaG013066 AT5G67300.1 56.250 48 21 0 17 64 7 54 1.04e-13 63.5
MsaG013066 AT5G39700.1 51.786 56 27 0 9 64 49 104 2.93e-13 61.2
MsaG013066 AT3G50060.1 54.167 48 22 0 17 64 7 54 5.19e-13 61.6
MsaG013066 AT5G40360.1 54.167 48 22 0 17 64 159 206 6.09e-13 61.6
MsaG013066 AT3G27785.1 54.167 48 22 0 17 64 190 237 9.78e-13 61.2
MsaG013066 AT5G58850.1 54.167 48 22 0 17 64 106 153 2.89e-12 59.7
MsaG013066 AT2G39880.1 54.717 53 24 0 12 64 46 98 3.22e-12 59.7
MsaG013066 AT2G23290.1 52.083 48 23 0 17 64 14 61 5.40e-12 58.9
MsaG013066 AT3G09230.1 54.167 48 22 0 17 64 56 103 5.56e-12 58.9
MsaG013066 AT5G11050.1 54.167 48 22 0 17 64 106 153 6.56e-12 58.9
MsaG013066 AT4G37260.1 52.083 48 23 0 17 64 14 61 6.72e-12 58.5
MsaG013066 AT3G09370.3 54.167 48 22 0 17 64 144 191 1.01e-11 58.2
MsaG013066 AT3G09370.2 54.167 48 22 0 17 64 136 183 1.05e-11 58.2
MsaG013066 AT3G09370.1 54.167 48 22 0 17 64 131 178 1.06e-11 58.2
MsaG013066 AT5G11510.5 52.083 48 23 0 17 64 82 129 1.75e-11 57.8
MsaG013066 AT5G11510.3 52.083 48 23 0 17 64 82 129 1.77e-11 57.8
MsaG013066 AT5G11510.1 52.083 48 23 0 17 64 82 129 1.77e-11 57.8
MsaG013066 AT5G11510.4 52.083 48 23 0 17 64 82 129 1.77e-11 57.8
MsaG013066 AT5G11510.2 52.083 48 23 0 17 64 82 129 1.78e-11 57.4
MsaG013066 AT3G55730.1 54.167 48 22 0 17 64 57 104 3.80e-11 56.6
MsaG013066 AT4G18770.1 54.167 48 22 0 17 64 218 265 4.69e-11 56.2
MsaG013066 AT5G02320.1 50.000 48 24 0 17 64 128 175 9.87e-11 55.5
MsaG013066 AT5G02320.2 50.000 48 24 0 17 64 128 175 9.87e-11 55.5

Find 11 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACAATATGGTGCTCAAAAT+TGG 0.232647 3:-40245128 MsaT013066.1:CDS
CCTCAACTTGTTGAACAATA+TGG 0.300197 3:-40245141 MsaT013066.1:CDS
TAGGGAAACGTTGTAGGTTG+AGG 0.463106 3:-40244849 MsaT013066.1:CDS
AACTTGTAGGGAAACGTTGT+AGG 0.477303 3:-40244855 MsaT013066.1:intron
AGAGTTGTCCATGTGGTCAC+TGG 0.512701 3:-40245188 MsaT013066.1:CDS
GTGACCACATGGACAACTCT+TGG 0.543251 3:+40245191 None:intergenic
CCATATTGTTCAACAAGTTG+AGG 0.564383 3:+40245141 None:intergenic
GGAAACGTTGTAGGTTGAGG+TGG 0.592608 3:-40244846 MsaT013066.1:CDS
GCAGGTCGCCAGTGACCACA+TGG 0.618887 3:+40245180 None:intergenic
ACTTCCATAATCCATATGGA+GGG 0.628080 3:-40245237 None:intergenic
GATACCAAGAGTTGTCCATG+TGG 0.733953 3:-40245195 MsaT013066.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 40244825 40245244 40244825 ID=MsaG013066
Chr3 mRNA 40244825 40245244 40244825 ID=MsaT013066.1;Parent=MsaG013066
Chr3 exon 40244825 40244868 40244825 ID=MsaT013066.1.exon2;Parent=MsaT013066.1
Chr3 CDS 40244825 40244868 40244825 ID=cds.MsaT013066.1;Parent=MsaT013066.1
Chr3 exon 40245094 40245244 40245094 ID=MsaT013066.1.exon1;Parent=MsaT013066.1
Chr3 CDS 40245094 40245244 40245094 ID=cds.MsaT013066.1;Parent=MsaT013066.1
Gene Sequence

>MsaT013066.1

ATGGAGGGTTTTTCTTTTGCAGCTGAAGATACCAAGAGTTGTCCATGTGGTCACTGGCGACCTGCTGAAGATGAAAAACTTCCTCAACTTGTTGAACAATATGGTGCTCAAAATTGGAATTCAATTGCTGAAAAACTTCAAGGAAGACCAGGGAAACGTTGTAGGTTGAGGTGGTTCAATCAGCTAGATCCATGA

Protein sequence

>MsaT013066.1

MEGFSFAAEDTKSCPCGHWRPAEDEKLPQLVEQYGAQNWNSIAEKLQGRPGKRCRLRWFNQLDP*