AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025343

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025343 MtrunA17_Chr5g0400571 94.413 179 5 1 1 174 73 251 3.83e-123 347
MsaG025343 MtrunA17_Chr4g0009461 36.585 164 65 6 5 134 56 214 2.37e-20 85.9
MsaG025343 MtrunA17_Chr2g0315591 40.426 188 73 10 5 168 47 219 1.18e-19 82.4
MsaG025343 MtrunA17_Chr5g0435711 35.025 197 90 7 3 170 42 229 1.86e-19 82.0
MsaG025343 MtrunA17_Chr3g0112181 86.842 38 5 0 5 42 52 89 4.62e-19 81.6
MsaG025343 MtrunA17_Chr1g0184381 80.000 40 8 0 3 42 30 69 1.21e-18 79.0
MsaG025343 MtrunA17_Chr4g0032111 33.333 165 86 4 7 171 20 160 1.29e-14 68.2
MsaG025343 MtrunA17_Chr7g0239441 76.471 34 8 0 8 41 37 70 5.47e-14 65.9
MsaG025343 MtrunA17_Chr1g0184331 45.070 71 35 1 8 78 38 104 7.89e-13 62.4
MsaG025343 MtrunA17_Chr1g0187231 58.333 48 19 1 8 55 18 64 2.70e-12 62.0
MsaG025343 MtrunA17_Chr1g0168181 31.579 171 69 8 8 168 26 158 1.29e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025343 AT4G17810.1 43.243 185 71 6 2 171 38 203 8.14e-33 116
MsaG025343 AT4G17810.2 41.011 178 55 9 2 171 38 173 3.36e-24 93.6
MsaG025343 AT5G06070.1 39.459 185 82 9 5 171 50 222 1.92e-23 92.8
MsaG025343 AT2G42410.2 38.953 172 94 5 5 168 44 212 1.60e-21 87.4
MsaG025343 AT2G42410.1 38.953 172 94 5 5 168 44 212 1.60e-21 87.4
MsaG025343 AT2G42410.3 38.953 172 94 5 5 168 70 238 2.84e-21 87.4
MsaG025343 AT2G37740.1 68.421 57 14 1 2 54 31 87 1.96e-20 86.3
MsaG025343 AT3G23130.1 79.070 43 9 0 1 43 38 80 9.62e-20 82.4
MsaG025343 AT3G09290.1 32.934 167 70 7 8 168 33 163 4.96e-14 66.6
MsaG025343 AT3G53820.1 63.889 36 13 0 7 42 18 53 3.15e-11 58.5

Find 38 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAGAACTATTGTAGTTATT+AGG 0.168276 5:-6911667 None:intergenic
ATTTGCATCATCAAATTATT+TGG 0.195764 5:-6911748 None:intergenic
AGTTATTAGGGTTTGGTAAA+TGG 0.253000 5:-6911654 None:intergenic
TTAACGGTGGTTGGCTTTGA+TGG 0.294750 5:-6911552 None:intergenic
CTTGATCTTGAGCTCCGTTT+AGG 0.296503 5:+6911916 MsaT025343.1:CDS
TAGAACTATTGTAGTTATTA+GGG 0.319087 5:-6911666 None:intergenic
TTGATCTTGAGCTCCGTTTA+GGG 0.364351 5:+6911917 MsaT025343.1:CDS
TACAATAGTTCTAGTCCTAA+TGG 0.373665 5:+6911676 MsaT025343.1:CDS
GAGATTGAGAGAAAAGTAGA+AGG 0.386084 5:-6911706 None:intergenic
GTAGAAGGAGATTCTCCATT+AGG 0.392764 5:-6911691 None:intergenic
TTCATGACCGTTATCATCAA+TGG 0.401936 5:-6911884 None:intergenic
CAAGAGCTTGTTGCTAATGC+TGG 0.417258 5:+6911616 MsaT025343.1:CDS
CTATTGTAGTTATTAGGGTT+TGG 0.420306 5:-6911661 None:intergenic
GTGTTGGCTTGTTCCCTAAA+CGG 0.435644 5:-6911930 None:intergenic
TCCACTTGAAAATTAAAAGA+TGG 0.441538 5:-6911784 None:intergenic
TTCCGGTCAGCTCAAGCTCT+TGG 0.471669 5:+6911490 MsaT025343.1:CDS
GAGATGAATTTAACGGTGGT+TGG 0.484111 5:-6911561 None:intergenic
TGCATCATCAAATTATTTGG+AGG 0.491401 5:-6911745 None:intergenic
GGTTTGGTAAATGGTAAAGA+AGG 0.506848 5:-6911645 None:intergenic
CGGTCAGCTCAAGCTCTTGG+TGG 0.515963 5:+6911493 MsaT025343.1:CDS
GATGGAGACGAGCACGGTCG+CGG 0.516231 5:-6911534 None:intergenic
CACCAAGAGCTTGAGCTGAC+CGG 0.533757 5:-6911492 None:intergenic
TGTGGAGGAATATTTATGAA+TGG 0.545539 5:-6911595 None:intergenic
GAAGGATGAGATGAATTTAA+CGG 0.547030 5:-6911568 None:intergenic
AGGTGCAAGTAGCATGTTGA+TGG 0.551205 5:-6911861 None:intergenic
TGCACCTCCATTGATGATAA+CGG 0.570866 5:+6911877 MsaT025343.1:CDS
GCATTAGCAACAAGCTCTTG+TGG 0.586992 5:-6911613 None:intergenic
GGCTTTGATGGAGACGAGCA+CGG 0.589738 5:-6911540 None:intergenic
ATATTTATGAATGGTGATGA+AGG 0.596989 5:-6911586 None:intergenic
GTGCAGGTATAGGACCTTGG+TGG 0.606792 5:-6911451 None:intergenic
AAAGTGCAGGTATAGGACCT+TGG 0.620732 5:-6911454 None:intergenic
TTCAAGTGGATAATTCAGCT+AGG 0.628424 5:+6911797 MsaT025343.1:CDS
ATGACCGTTATCATCAATGG+AGG 0.643461 5:-6911881 None:intergenic
TGAACACAACATGGCCACCA+AGG 0.646071 5:+6911437 MsaT025343.1:CDS
GGAGACGAGCACGGTCGCGG+CGG 0.650175 5:-6911531 None:intergenic
TTAGCAACAAGCTCTTGTGG+AGG 0.690594 5:-6911610 None:intergenic
GGAATATTATGAACACAACA+TGG 0.697427 5:+6911428 None:intergenic
GGATGAGATGAATTTAACGG+TGG 0.714956 5:-6911565 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 6911436 6911960 6911436 ID=MsaG025343
Chr5 mRNA 6911436 6911960 6911436 ID=MsaT025343.1;Parent=MsaG025343
Chr5 exon 6911436 6911960 6911436 ID=MsaT025343.1.exon1;Parent=MsaT025343.1
Chr5 CDS 6911436 6911960 6911436 ID=cds.MsaT025343.1;Parent=MsaT025343.1
Gene Sequence

>MsaT025343.1

ATGAACACAACATGGCCACCAAGGTCCTATACCTGCACTTTTTGCAGAAGAGAGTTCCGGTCAGCTCAAGCTCTTGGTGGTCACATGAATGTTCACCGCCGCGACCGTGCTCGTCTCCATCAAAGCCAACCACCGTTAAATTCATCTCATCCTTCATCACCATTCATAAATATTCCTCCACAAGAGCTTGTTGCTAATGCTGGATTGTGCCTTCTTTACCATTTACCAAACCCTAATAACTACAATAGTTCTAGTCCTAATGGAGAATCTCCTTCTACTTTTCTCTCAATCTCATCATCAACATCTTATCCTCCAAATAATTTGATGATGCAAATGCAAACTTGTTCTCCATCTTTTAATTTTCAAGTGGATAATTCAGCTAGGTTGATCAATAATAGCATTTCTTCTTTTTCTAGCAAAGTGGACCATCAACATGCTACTTGCACCTCCATTGATGATAACGGTCATGAAATTGAAGAGCTTGATCTTGAGCTCCGTTTAGGGAACAAGCCAACACCAACTTGA
Protein sequence

>MsaT025343.1

MNTTWPPRSYTCTFCRREFRSAQALGGHMNVHRRDRARLHQSQPPLNSSHPSSPFINIPPQELVANAGLCLLYHLPNPNNYNSSSPNGESPSTFLSISSSTSYPPNNLMMQMQTCSPSFNFQVDNSARLINNSISSFSSKVDHQHATCTSIDDNGHEIEELDLELRLGNKPTPT*