AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016092

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016092 MtrunA17_Chr3g0124861 95.816 239 6 1 1 239 1 235 2.91e-164 453
MsaG016092 MtrunA17_Chr8g0352871 54.494 178 66 2 19 195 6 169 2.14e-59 185
MsaG016092 MtrunA17_Chr3g0082861 59.477 153 48 2 22 173 4 143 1.92e-58 182
MsaG016092 MtrunA17_Chr7g0256551 54.706 170 58 5 22 186 9 164 2.04e-54 174
MsaG016092 MtrunA17_Chr3g0128691 53.472 144 48 2 23 166 19 143 3.19e-48 156
MsaG016092 MtrunA17_Chr5g0414931 45.455 187 82 5 20 204 14 182 3.63e-48 159
MsaG016092 MtrunA17_Chr3g0118211 50.649 154 53 3 21 173 22 153 9.55e-48 156
MsaG016092 MtrunA17_Chr1g0170741 53.289 152 51 4 20 170 6 138 2.47e-46 152
MsaG016092 MtrunA17_Chr4g0059571 49.351 154 55 3 21 173 25 156 1.09e-44 149
MsaG016092 MtrunA17_Chr4g0021731 47.573 103 32 2 19 121 8 88 1.39e-25 96.3
MsaG016092 MtrunA17_Chr1g0181811 31.034 116 79 1 99 213 131 246 5.45e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016092 AT2G41310.1 58.170 153 49 3 22 173 9 147 4.92e-59 186
MsaG016092 AT3G57040.2 57.051 156 54 3 19 173 6 149 1.95e-56 180
MsaG016092 AT3G57040.1 57.051 156 54 3 19 173 6 149 1.95e-56 180
MsaG016092 AT1G59940.1 47.647 170 66 3 11 179 22 169 4.55e-49 161
MsaG016092 AT3G48100.1 51.592 157 54 3 22 177 25 160 1.51e-47 155
MsaG016092 AT1G59940.2 47.647 170 66 3 11 179 114 261 1.86e-47 159
MsaG016092 AT1G10470.3 50.000 162 58 3 17 177 15 154 4.43e-47 156
MsaG016092 AT5G62920.1 53.947 152 47 3 22 172 25 154 6.29e-47 154
MsaG016092 AT1G10470.1 50.000 162 58 3 17 177 29 168 6.59e-47 156
MsaG016092 AT3G56380.1 51.299 154 53 3 19 171 17 149 2.50e-45 149
MsaG016092 AT1G19050.1 50.327 153 53 3 21 172 23 153 2.98e-45 150
MsaG016092 AT3G56380.2 50.323 155 54 3 19 171 17 150 7.37e-45 147
MsaG016092 AT1G74890.1 48.718 156 57 3 21 175 17 150 2.30e-44 148
MsaG016092 AT2G40670.1 46.835 158 54 3 20 171 27 160 1.31e-41 140
MsaG016092 AT2G40670.2 45.912 159 55 3 20 171 27 161 3.13e-41 139
MsaG016092 AT2G07440.1 53.846 52 24 0 122 173 10 61 8.37e-15 69.3
MsaG016092 AT1G10470.2 36.471 85 53 1 92 175 6 90 1.22e-13 67.4

Find 45 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACCGCCAACCCTTTCATTT+TGG 0.085264 3:+94090886 None:intergenic
CTGCACTGCAGGGATCTTCT+TGG 0.261594 3:-94091436 MsaT016092.1:intron
GATAAGGCTTTGAAATATCT+TGG 0.316965 3:-94093933 MsaT016092.1:CDS
TCTGATGACATAACCACAAC+TGG 0.369928 3:+94091404 None:intergenic
AATTGATATGGAGCTTGCTT+TGG 0.375819 3:-94094258 None:intergenic
ATTGATCTCTCTGGAGGCTC+AGG 0.433469 3:+94090911 None:intergenic
GTCCGAGTCTGTGGTGGTAG+TGG 0.436880 3:+94091015 None:intergenic
ATGACAGATTATTGCATGCC+TGG 0.445954 3:-94092660 MsaT016092.1:CDS
AATGAAAGGGTTGGCGGTGG+TGG 0.458526 3:-94090882 MsaT016092.1:CDS
GCTAATAGGTGCTTGGAAGA+AGG 0.458769 3:-94091151 MsaT016092.1:intron
CTGTGTGGACTCTGGAGATA+AGG 0.474705 3:-94093949 MsaT016092.1:CDS
ACTTACATGCTAATTCTAGA+AGG 0.476558 3:+94091374 None:intergenic
ATTACCTCTTGTAGCTGCAA+TGG 0.489838 3:+94093828 None:intergenic
CTAATAGGTGCTTGGAAGAA+GGG 0.490036 3:-94091150 MsaT016092.1:intron
TAATTTGGCTAATAGGTGCT+TGG 0.497490 3:-94091158 MsaT016092.1:intron
ACAGTTACCTGTGTGGACTC+TGG 0.503672 3:-94093957 MsaT016092.1:intron
CTCTGGAGGCTCAGGAGACA+TGG 0.506463 3:+94090919 None:intergenic
TTGGAAAGATGTTCCAGTTG+TGG 0.523397 3:-94091417 MsaT016092.1:CDS
AGATCAATGCCCAAAATGAA+AGG 0.528945 3:-94090896 MsaT016092.1:CDS
CTTAGAGATTCTTCATGCAA+AGG 0.532173 3:-94094131 MsaT016092.1:intron
TAGATGATAGTGTCATTGAT+AGG 0.538094 3:-94094172 MsaT016092.1:CDS
TTGGGCATTGATCTCTCTGG+AGG 0.540639 3:+94090905 None:intergenic
AAATCATAGCCACTCATCCC+AGG 0.545060 3:+94092642 None:intergenic
GCCCAAAATGAAAGGGTTGG+CGG 0.559802 3:-94090888 MsaT016092.1:CDS
TGCAAATCTGATAACTGAAG+AGG 0.563149 3:+94091106 None:intergenic
GCAAGAACACTTTCATGTGT+TGG 0.563382 3:-94094198 MsaT016092.1:CDS
TTCCACTACCACCACAGACT+CGG 0.564431 3:-94091017 MsaT016092.1:CDS
GATCAATGCCCAAAATGAAA+GGG 0.575333 3:-94090895 MsaT016092.1:CDS
TGACAGATTATTGCATGCCT+GGG 0.579945 3:-94092659 MsaT016092.1:CDS
TGCAATGGTTGTTGAAGAGG+AGG 0.579983 3:+94093843 None:intergenic
AGCTGCAATGGTTGTTGAAG+AGG 0.586818 3:+94093840 None:intergenic
ACATTAATAGTATCAGCAAA+CGG 0.588740 3:-94090946 MsaT016092.1:CDS
TAATAGGTGCTTGGAAGAAG+GGG 0.593866 3:-94091149 MsaT016092.1:intron
GTTGTCGTCGTCCGAGTCTG+TGG 0.598775 3:+94091006 None:intergenic
AATGCCCAAAATGAAAGGGT+TGG 0.602173 3:-94090891 MsaT016092.1:CDS
TTGATAGGATGCTTCTAGAG+AGG 0.609363 3:-94094157 MsaT016092.1:CDS
TAATAGTATCAGCAAACGGA+AGG 0.609687 3:-94090942 MsaT016092.1:CDS
ACAACCATTGCAGCTACAAG+AGG 0.610346 3:-94093832 MsaT016092.1:intron
TATTGCATGCCTGGGATGAG+TGG 0.615464 3:-94092651 MsaT016092.1:CDS
CAAAATGAAAGGGTTGGCGG+TGG 0.616336 3:-94090885 MsaT016092.1:CDS
TGATTTACTTAAAAGAGTCA+AGG 0.620876 3:-94092625 MsaT016092.1:intron
GTCGTCGTCCGAGTCTGTGG+TGG 0.650795 3:+94091009 None:intergenic
TAATATAGAAGACTTTGTTG+AGG 0.651761 3:+94093878 None:intergenic
TGTTAAAACAGTTACCTGTG+TGG 0.666037 3:-94093964 MsaT016092.1:intron
CTTATCTCCAGAGTCCACAC+AGG 0.676893 3:+94093950 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 94090877 94094273 94090877 ID=MsaG016092
Chr3 mRNA 94090877 94094273 94090877 ID=MsaT016092.1;Parent=MsaG016092
Chr3 exon 94090877 94091165 94090877 ID=MsaT016092.1.exon5;Parent=MsaT016092.1
Chr3 CDS 94090877 94091165 94090877 ID=cds.MsaT016092.1;Parent=MsaT016092.1
Chr3 exon 94091380 94091447 94091380 ID=MsaT016092.1.exon4;Parent=MsaT016092.1
Chr3 CDS 94091380 94091447 94091380 ID=cds.MsaT016092.1;Parent=MsaT016092.1
Chr3 exon 94092626 94092703 94092626 ID=MsaT016092.1.exon3;Parent=MsaT016092.1
Chr3 CDS 94092626 94092703 94092626 ID=cds.MsaT016092.1;Parent=MsaT016092.1
Chr3 exon 94093833 94093975 94093833 ID=MsaT016092.1.exon2;Parent=MsaT016092.1
Chr3 CDS 94093833 94093975 94093833 ID=cds.MsaT016092.1;Parent=MsaT016092.1
Chr3 exon 94094132 94094273 94094132 ID=MsaT016092.1.exon1;Parent=MsaT016092.1
Chr3 CDS 94094132 94094273 94094132 ID=cds.MsaT016092.1;Parent=MsaT016092.1
Gene Sequence

>MsaT016092.1

ATGGAGCTTGCTTTGGATAGTAGAAAATTACAATTACAACCACAAAACTTGAAGCAAGAACACTTTCATGTGTTGGCTGTAGATGATAGTGTCATTGATAGGATGCTTCTAGAGAGGCTTCTTAGAGATTCTTCATGCAAAGTTACCTGTGTGGACTCTGGAGATAAGGCTTTGAAATATCTTGGATTGAATATTGATGAAATTGATAATAATTCTTCCTCAACAAAGTCTTCTATATTAGAATCATCATCTCCTCCTCTTCAACAACCATTGCAGCTACAAGAGGGAAGCAAAGTGAATTTGATCATGACAGATTATTGCATGCCTGGGATGAGTGGCTATGATTTACTTAAAAGAGTCAAGGGATCTTCTTGGAAAGATGTTCCAGTTGTGGTTATGTCATCAGAAAATGTACCTTCTAGAATTAGCATGTGCTTGGAAGAAGGGGCAGAAGAGTTTCTAATGAAGCCTCTTCAGTTATCAGATTTGCAGAAGCTTCAACCATACTTCCTAAAATCCCTTGAAAATTCTTCTGATGAGCAAGAATCTGCTAACAGTTCCACTACCACCACAGACTCGGACGACGACAACGATCTCATCGACAGCAACAATAACAATAATGATGATAACATTAATAGTATCAGCAAACGGAAGGCCATGTCTCCTGAGCCTCCAGAGAGATCAATGCCCAAAATGAAAGGGTTGGCGGTGGTGGTGTAA
Protein sequence

>MsaT016092.1

MELALDSRKLQLQPQNLKQEHFHVLAVDDSVIDRMLLERLLRDSSCKVTCVDSGDKALKYLGLNIDEIDNNSSSTKSSILESSSPPLQQPLQLQEGSKVNLIMTDYCMPGMSGYDLLKRVKGSSWKDVPVVVMSSENVPSRISMCLEEGAEEFLMKPLQLSDLQKLQPYFLKSLENSSDEQESANSSTTTTDSDDDNDLIDSNNNNNDDNINSISKRKAMSPEPPERSMPKMKGLAVVV*