AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009781


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009781 MtrunA17_Chr2g0317031 94.118 68 3 1 18 85 9 75 3.39e-41 129
MsaG009781 MtrunA17_Chr8g0360361 58.621 87 33 2 1 85 95 180 2.36e-26 95.1
MsaG009781 MtrunA17_Chr2g0308321 58.667 75 30 1 2 76 202 275 1.79e-19 80.9
MsaG009781 MtrunA17_Chr7g0258471 72.917 48 13 0 2 49 173 220 3.16e-19 80.1
MsaG009781 MtrunA17_Chr7g0231911 66.071 56 19 0 2 57 180 235 1.84e-18 77.0
MsaG009781 MtrunA17_Chr2g0282521 71.739 46 13 0 2 47 95 140 2.66e-18 73.6
MsaG009781 MtrunA17_Chr4g0061651 75.556 45 11 0 1 45 153 197 2.82e-18 77.4
MsaG009781 MtrunA17_Chr4g0046991 75.556 45 11 0 2 46 104 148 3.46e-18 73.6
MsaG009781 MtrunA17_Chr5g0420051 77.273 44 10 0 2 45 212 255 9.80e-18 75.9
MsaG009781 MtrunA17_Chr2g0302791 59.649 57 23 0 3 59 171 227 4.21e-17 74.3
MsaG009781 MtrunA17_Chr3g0122411 70.455 44 13 0 1 44 195 238 4.48e-17 73.9
MsaG009781 MtrunA17_Chr3g0132091 54.839 62 28 0 2 63 104 165 5.90e-17 73.6
MsaG009781 MtrunA17_Chr1g0194121 64.815 54 19 0 3 56 179 232 1.18e-16 72.8
MsaG009781 MtrunA17_Chr7g0224821 53.968 63 29 0 1 63 107 169 1.52e-16 72.4
MsaG009781 MtrunA17_Chr7g0270541 65.385 52 18 0 3 54 177 228 2.65e-16 72.0
MsaG009781 MtrunA17_Chr8g0334671 70.455 44 13 0 2 45 218 261 3.18e-16 71.2
MsaG009781 MtrunA17_Chr8g0377421 65.909 44 15 0 1 44 162 205 6.73e-16 70.1
MsaG009781 MtrunA17_Chr1g0162871 52.857 70 32 1 9 78 142 210 7.98e-16 70.5
MsaG009781 MtrunA17_Chr8g0377401 67.442 43 14 0 1 43 192 234 7.99e-16 69.3
MsaG009781 MtrunA17_Chr8g0386271 62.264 53 20 0 2 54 130 182 1.74e-15 69.3
MsaG009781 MtrunA17_Chr2g0286661 60.465 43 17 0 2 44 134 176 1.28e-14 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009781 AT3G15270.1 76.923 52 12 0 4 55 96 147 1.23e-21 83.6
MsaG009781 AT1G53160.3 66.129 62 20 1 2 63 85 145 2.73e-21 82.4
MsaG009781 AT1G53160.2 66.129 62 20 1 2 63 85 145 2.99e-21 82.4
MsaG009781 AT1G53160.1 66.129 62 20 1 2 63 85 145 2.99e-21 82.4
MsaG009781 AT2G33810.1 80.000 45 9 0 2 46 85 129 1.15e-19 77.4
MsaG009781 AT3G57920.1 72.917 48 13 0 2 49 90 137 3.44e-18 77.0
MsaG009781 AT2G42200.1 70.000 50 15 0 2 51 105 154 3.61e-18 77.4
MsaG009781 AT3G60030.1 65.517 58 18 1 3 60 159 214 4.30e-18 77.4
MsaG009781 AT1G69170.1 75.556 45 11 0 1 45 154 198 6.50e-18 76.6
MsaG009781 AT5G43270.3 65.385 52 18 0 2 53 200 251 1.67e-17 75.5
MsaG009781 AT5G43270.1 65.385 52 18 0 2 53 200 251 1.67e-17 75.5
MsaG009781 AT5G43270.2 65.385 52 18 0 2 53 200 251 1.67e-17 75.5
MsaG009781 AT1G02065.1 60.345 58 22 1 2 58 219 276 2.30e-17 74.7
MsaG009781 AT2G47070.2 55.224 67 28 1 4 70 10 74 4.59e-17 74.3
MsaG009781 AT2G47070.1 55.224 67 28 1 4 70 139 203 6.19e-17 73.9
MsaG009781 AT1G20980.1 64.815 54 19 0 9 62 158 211 2.10e-16 72.8
MsaG009781 AT1G27370.1 68.182 44 14 0 2 45 207 250 8.53e-16 70.9
MsaG009781 AT1G27370.5 68.182 44 14 0 2 45 207 250 8.53e-16 70.9
MsaG009781 AT1G27370.3 68.182 44 14 0 2 45 207 250 8.53e-16 70.9
MsaG009781 AT1G27370.2 68.182 44 14 0 2 45 207 250 8.53e-16 70.9
MsaG009781 AT1G27370.4 68.182 44 14 0 2 45 207 250 8.53e-16 70.9
MsaG009781 AT1G27370.7 68.182 44 14 0 2 45 207 250 8.53e-16 70.9
MsaG009781 AT1G27370.6 68.182 44 14 0 2 45 207 250 1.05e-15 70.5
MsaG009781 AT5G50570.1 68.889 45 14 0 1 45 131 175 2.00e-15 69.7
MsaG009781 AT5G50570.2 68.889 45 14 0 1 45 131 175 2.00e-15 69.7
MsaG009781 AT5G50670.1 68.889 45 14 0 1 45 131 175 2.00e-15 69.7
MsaG009781 AT5G50670.2 68.889 45 14 0 1 45 131 175 2.00e-15 69.7
MsaG009781 AT1G27360.2 68.182 44 14 0 2 45 206 249 2.34e-15 69.3
MsaG009781 AT1G27360.1 68.182 44 14 0 2 45 206 249 2.34e-15 69.3
MsaG009781 AT1G27360.3 68.182 44 14 0 2 45 206 249 2.34e-15 69.3
MsaG009781 AT1G27360.4 68.182 44 14 0 2 45 206 249 2.34e-15 69.3
MsaG009781 AT1G76580.1 51.515 66 31 1 9 74 152 216 9.05e-15 68.2
MsaG009781 AT1G76580.2 51.515 66 31 1 9 74 152 216 9.44e-15 67.8
MsaG009781 AT1G76580.3 51.515 66 31 1 9 74 152 216 9.63e-15 67.8
MsaG009781 AT5G18830.2 58.140 43 18 0 2 44 169 211 6.67e-14 65.5
MsaG009781 AT5G18830.1 58.140 43 18 0 2 44 169 211 7.51e-14 65.5
MsaG009781 AT5G18830.3 58.140 43 18 0 2 44 169 211 9.87e-14 65.1

Find 13 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACTTCTCATACAATGGTTA+TGG 0.318895 2:-64504794 None:intergenic
AACATAACAAGTAGTTCTTC+TGG 0.372624 2:-64501130 MsaT009781.1:CDS
GATCACACCTGCTACATTGT+TGG 0.396569 2:+64503619 None:intergenic
CATACAATGGTTATGGTTGA+AGG 0.419723 2:-64504787 None:intergenic
AGCAAAATCATGATGGTGAT+TGG 0.426111 2:-64501168 MsaT009781.1:CDS
TGCACTGAAGGAAGCGGTAC+TGG 0.443322 2:-64501193 MsaT009781.1:CDS
TTGTGGTGGTTGCAGGGATA+AGG 0.463071 2:-64503653 MsaT009781.1:intron
CGGCGTCGTAAAAGCACTGC+TGG 0.466987 2:-64501220 MsaT009781.1:CDS
ACTGCTGGAACTTGCACTGA+AGG 0.529046 2:-64501205 MsaT009781.1:CDS
TGGTTGCAGGGATAAGGCAG+AGG 0.586383 2:-64503647 MsaT009781.1:intron
GGAACTTGCACTGAAGGAAG+CGG 0.610870 2:-64501199 MsaT009781.1:CDS
ACTGGCCAGCAAAATCATGA+TGG 0.639807 2:-64501175 MsaT009781.1:CDS
GCTTAGCGCGACACAATGAA+CGG 0.657384 2:-64501240 MsaT009781.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 64501105 64504803 64501105 ID=MsaG009781
Chr2 mRNA 64501105 64504803 64501105 ID=MsaT009781.1;Parent=MsaG009781
Chr2 exon 64501105 64501312 64501105 ID=MsaT009781.1.exon3;Parent=MsaT009781.1
Chr2 CDS 64501105 64501312 64501105 ID=cds.MsaT009781.1;Parent=MsaT009781.1
Chr2 exon 64503627 64503660 64503627 ID=MsaT009781.1.exon2;Parent=MsaT009781.1
Chr2 CDS 64503627 64503660 64503627 ID=cds.MsaT009781.1;Parent=MsaT009781.1
Chr2 exon 64504788 64504803 64504788 ID=MsaT009781.1.exon1;Parent=MsaT009781.1
Chr2 CDS 64504788 64504803 64504788 ID=cds.MsaT009781.1;Parent=MsaT009781.1
Gene Sequence

>MsaT009781.1

ATGGTTATGGTTGAAGGGATAAGGCAGAGGTTTTGCCAACAATGTAGCAGGTTTCATGAGCTTGCAGAGTTTGATGAATCGAAAAGAAGCTGTCGAAGACGCTTAGCGCGACACAATGAACGGCGTCGTAAAAGCACTGCTGGAACTTGCACTGAAGGAAGCGGTACTGGCCAGCAAAATCATGATGGTGATTGGAGACAAATTCATATGAACATAACAAGTAGTTCTTCTGGTCACGATTTTCTGAATTTCAGATGA

Protein sequence

>MsaT009781.1

MVMVEGIRQRFCQQCSRFHELAEFDESKRSCRRRLARHNERRRKSTAGTCTEGSGTGQQNHDGDWRQIHMNITSSSSGHDFLNFR*