AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG046137


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046137 MtrunA17_Chr4g0071811 97.179 390 9 2 1 389 1 389 0.0 768
MsaG046137 MtrunA17_Chr2g0298711 39.175 291 137 9 36 308 43 311 9.16e-41 146
MsaG046137 MtrunA17_Chr5g0431351 47.967 123 59 3 262 384 99 216 6.45e-25 101
MsaG046137 MtrunA17_Chr7g0226451 36.364 165 67 5 255 384 190 351 1.32e-20 92.4
MsaG046137 MtrunA17_Chr1g0209861 45.614 114 50 4 283 384 311 424 1.84e-19 89.7
MsaG046137 MtrunA17_Chr8g0390971 44.444 108 48 1 289 384 293 400 3.26e-18 85.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046137 AT5G57180.2 46.563 451 158 19 1 389 1 430 1.79e-80 254
MsaG046137 AT5G57180.1 46.136 440 154 19 1 378 1 419 2.80e-75 240
MsaG046137 AT4G25990.1 43.632 424 170 18 1 390 1 389 1.01e-71 230
MsaG046137 AT4G25990.2 42.141 439 170 19 1 390 1 404 1.17e-67 220
MsaG046137 AT4G25990.3 42.961 412 166 18 1 378 1 377 6.69e-66 214
MsaG046137 AT5G57180.3 41.837 392 147 19 1 329 1 374 3.60e-45 160
MsaG046137 AT5G57180.4 41.837 392 147 19 1 329 1 374 3.60e-45 160
MsaG046137 AT5G14370.1 46.903 113 39 4 288 384 229 336 1.23e-20 92.4
MsaG046137 AT1G25440.1 38.095 147 74 2 252 384 260 403 2.73e-20 92.4
MsaG046137 AT1G07050.1 51.020 98 41 2 287 384 103 193 9.44e-20 87.0
MsaG046137 AT1G73870.1 46.491 114 47 3 285 384 274 387 6.73e-19 88.2
MsaG046137 AT1G68520.1 38.235 136 59 3 267 384 271 399 5.74e-18 85.5
MsaG046137 AT1G07050.2 48.913 92 40 2 287 378 103 187 1.02e-15 75.9
MsaG046137 AT1G49130.1 45.361 97 38 2 291 384 236 320 6.23e-15 75.9
MsaG046137 AT1G49130.2 45.361 97 38 2 291 384 229 313 6.23e-15 75.5

Find 83 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCACCGACACTGCATATTT+TGG 0.094471 8:-80919702 None:intergenic
TGACATGGTTTCACCGGTTT+TGG 0.239666 8:-80919383 None:intergenic
ATTGATCATACCTTCATTCT+TGG 0.253571 8:-80920914 None:intergenic
GATTTATTATTGTTATTGTT+GGG 0.253877 8:-80919245 None:intergenic
AGCTTCGTTGTAGGTTTGAT+TGG 0.274583 8:-80919162 None:intergenic
TCTCATCCATGGATTGGTTT+TGG 0.279149 8:+80919566 MsaT046137.1:CDS
TTGGCGGGAATTTCGATTTC+CGG 0.294194 8:+80919585 MsaT046137.1:CDS
TGTCACAAATAGATTTGTTA+TGG 0.306145 8:+80920768 MsaT046137.1:CDS
CAATAATAAATCCACCAAAT+TGG 0.309576 8:+80919256 MsaT046137.1:CDS
TTGGGATTGGAGAAGAGGTT+TGG 0.316041 8:-80919209 None:intergenic
GGATTTATTATTGTTATTGT+TGG 0.348745 8:-80919246 None:intergenic
GGGAATTTCGATTTCCGGTT+AGG 0.348859 8:+80919590 MsaT046137.1:CDS
GCCATGTTGATGAAGGAAAT+TGG 0.353307 8:+80919642 MsaT046137.1:CDS
CAGTCCTGTCTCCGATGCTT+CGG 0.355046 8:+80919904 MsaT046137.1:CDS
AATTGAATTACGACGGTGTT+CGG 0.364551 8:+80919843 MsaT046137.1:CDS
GGGCTTGCCGTAAAGTAAAA+AGG 0.371473 8:-80919345 None:intergenic
AGAAAATCACATATCAAGTT+AGG 0.372871 8:+80920870 MsaT046137.1:CDS
AATCATCACCACCATGTTCA+TGG 0.382343 8:+80919033 MsaT046137.1:CDS
GTCACAAATAGATTTGTTAT+GGG 0.395534 8:+80920769 MsaT046137.1:CDS
TGTGGCAGGGACGATTTGTT+AGG 0.406234 8:+80921651 MsaT046137.1:intron
TGGGATTGGAGAAGAGGTTT+GGG 0.408631 8:-80919208 None:intergenic
GAGTGTTGCAGCTTCGTTGT+AGG 0.410073 8:-80919171 None:intergenic
TCTTCTTCTCATCCATGGAT+TGG 0.411520 8:+80919560 MsaT046137.1:CDS
TTTGGCTCCGACTGGAAATC+GGG 0.427983 8:-80919365 None:intergenic
GGTTTGGGTATGCAGTGTTA+AGG 0.430567 8:-80919193 None:intergenic
GCTTCGTTGTAGGTTTGATT+GGG 0.439703 8:-80919161 None:intergenic
TTGTTATGGGAGAATGGAGG+AGG 0.440896 8:+80920782 MsaT046137.1:CDS
CACCTCTCTGTAATCCTAAC+CGG 0.443262 8:-80919604 None:intergenic
ATAGATTTGTTATGGGAGAA+TGG 0.448843 8:+80920776 MsaT046137.1:CDS
GAATGCAGAATTGAAAGAAA+TGG 0.449165 8:+80919787 MsaT046137.1:CDS
CATCGGCGAACGGCGTTCCT+CGG 0.459344 8:-80919880 None:intergenic
CACCATTGAACTAATCTCTC+CGG 0.459584 8:-80919411 None:intergenic
TGGGAGAATGGAGGAGGAAG+TGG 0.459617 8:+80920788 MsaT046137.1:CDS
AGTCCTGTCTCCGATGCTTC+GGG 0.462905 8:+80919905 MsaT046137.1:CDS
ACGTCTCTTCTTCTCATCCA+TGG 0.467379 8:+80919555 MsaT046137.1:CDS
ACGACGGTGTTCGGAAAGCT+TGG 0.468820 8:+80919852 MsaT046137.1:CDS
ATTTATTATTGTTATTGTTG+GGG 0.476105 8:-80919244 None:intergenic
TGAGGTTGGGATTGGAGAAG+AGG 0.481484 8:-80919214 None:intergenic
TTTCCAGTCGGAGCCAAAAC+CGG 0.481789 8:+80919370 MsaT046137.1:CDS
TTTCCCGAAGCATCGGAGAC+AGG 0.498685 8:-80919908 None:intergenic
GGACTCTGACATGGTTTCAC+CGG 0.498907 8:-80919389 None:intergenic
AACATCGTTTCCCGAAGCAT+CGG 0.505047 8:-80919915 None:intergenic
GATTCAGAGATTGTTGAAGA+AGG 0.524561 8:-80919083 None:intergenic
TCCCGGAGAGATTAGTTCAA+TGG 0.528675 8:+80919409 MsaT046137.1:CDS
ACCAATTTCCTTCATCAACA+TGG 0.530695 8:-80919643 None:intergenic
CGGTTAGGATTACAGAGAGG+TGG 0.532921 8:+80919605 MsaT046137.1:CDS
GAATCGCCAAAGTTGAAAAG+TGG 0.536005 8:+80919809 MsaT046137.1:CDS
GCTCTTCGCCATGTTGATGA+AGG 0.541149 8:+80919635 MsaT046137.1:CDS
ACCATTGAACTAATCTCTCC+GGG 0.545916 8:-80919410 None:intergenic
AGAAGGAATTGATAGCATCA+TGG 0.548899 8:+80919505 MsaT046137.1:CDS
GAAGGAATTGATAGCATCAT+GGG 0.550516 8:+80919506 MsaT046137.1:CDS
TTCCCGCCAAAACCAATCCA+TGG 0.558777 8:-80919572 None:intergenic
CTCGACGAGGAAATTGAAGA+AGG 0.561335 8:+80919488 MsaT046137.1:CDS
CGGTGGTAAGACGACGGCGC+CGG 0.566016 8:+80919718 MsaT046137.1:CDS
ATCGGAGACAGGACTGTCAT+CGG 0.567406 8:-80919897 None:intergenic
GACGTGTCCAATACTCTGAA+AGG 0.567728 8:-80919317 None:intergenic
TTCTTTGTAACGCAGCACGC+TGG 0.571082 8:-80920822 None:intergenic
AGATCGACGGCCAAGAATGA+AGG 0.572545 8:+80920904 MsaT046137.1:CDS
GTGAAACCATGTCAGAGTCC+CGG 0.575623 8:+80919392 MsaT046137.1:CDS
AATCACATATCAAGTTAGGA+AGG 0.579412 8:+80920874 MsaT046137.1:CDS
GGAACAGGAGGAAGAACCAT+CGG 0.583201 8:+80918990 MsaT046137.1:CDS
GAACAGGAGGAAGAACCATC+GGG 0.586253 8:+80918991 MsaT046137.1:CDS
ATCTCTCCGGGACTCTGACA+TGG 0.592091 8:-80919398 None:intergenic
AGGAGGAAGAACCATCGGGT+TGG 0.598540 8:+80918995 MsaT046137.1:CDS
TAAGACGACGGCGCCGGTGA+CGG 0.606872 8:+80919724 MsaT046137.1:CDS
CCCAAAATATGCAGTGTCGG+TGG 0.613838 8:+80919701 MsaT046137.1:CDS
ACAGGACTGTCATCGGCGAA+CGG 0.617792 8:-80919890 None:intergenic
CATCATGGGAGGTAGAATTG+AGG 0.620329 8:+80919520 MsaT046137.1:CDS
TCGCCCAAAATATGCAGTGT+CGG 0.623873 8:+80919698 MsaT046137.1:CDS
GATTTGTTATGGGAGAATGG+AGG 0.628311 8:+80920779 MsaT046137.1:CDS
GGAAGGTCAATGCAGATCGA+CGG 0.632746 8:+80920891 MsaT046137.1:CDS
CGGCAAGCCCGATTTCCAGT+CGG 0.636352 8:+80919358 MsaT046137.1:CDS
CGCGGAATCAATACTCGACG+AGG 0.646026 8:+80919475 MsaT046137.1:CDS
TATATCTAAATCCAACCCGA+TGG 0.646645 8:-80919006 None:intergenic
CGGAAAGCTTGGTCTGACCG+AGG 0.657705 8:+80919863 MsaT046137.1:CDS
TTTGTGGTGTAGATTGCAAG+CGG 0.661097 8:-80919116 None:intergenic
GATGTTCGACTCCATGAACA+TGG 0.682341 8:-80919044 None:intergenic
TTGTTGAAATTGAATTACGA+CGG 0.684346 8:+80919836 MsaT046137.1:CDS
GGAATTGATAGCATCATGGG+AGG 0.697923 8:+80919509 MsaT046137.1:CDS
CAGTGTCGGTGGTAAGACGA+CGG 0.700394 8:+80919712 MsaT046137.1:CDS
ATGTTGATGAAGGAAATTGG+TGG 0.707203 8:+80919645 MsaT046137.1:CDS
TTCCGGTTAGGATTACAGAG+AGG 0.714429 8:+80919602 MsaT046137.1:CDS
GTTCGACTCCATGAACATGG+TGG 0.820791 8:-80919041 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 80918972 80921730 80918972 ID=MsaG046137
Chr8 mRNA 80918972 80921730 80918972 ID=MsaT046137.1;Parent=MsaG046137
Chr8 exon 80918972 80919940 80918972 ID=MsaT046137.1.exon1;Parent=MsaT046137.1
Chr8 CDS 80918972 80919940 80918972 ID=cds.MsaT046137.1;Parent=MsaT046137.1
Chr8 exon 80920761 80920925 80920761 ID=MsaT046137.1.exon2;Parent=MsaT046137.1
Chr8 CDS 80920761 80920925 80920761 ID=cds.MsaT046137.1;Parent=MsaT046137.1
Chr8 exon 80921659 80921730 80921659 ID=MsaT046137.1.exon3;Parent=MsaT046137.1
Chr8 CDS 80921659 80921730 80921659 ID=cds.MsaT046137.1;Parent=MsaT046137.1
Gene Sequence

>MsaT046137.1

ATGTCTTCGTGTTTTAGTGGAACAGGAGGAAGAACCATCGGGTTGGATTTAGATATAGTTAAATCATCACCACCATGTTCATGGAGTCGAACATCACAAACATCTTCTTCACCTTCTTCAACAATCTCTGAATCAAGCAATTCACCGCTTGCAATCTACACCACAAAACCCAGAACCCCAAGAAAACGACCCAATCAAACCTACAACGAAGCTGCAACACTCCTTAACACTGCATACCCAAACCTCTTCTCCAATCCCAACCTCAAAACAAACCCCAACAATAACAATAATAAATCCACCAAATTGGAAAAAGCTTATGAATTCGACTCTTCTGAACTTCTTTTACCTTTCAGAGTATTGGACACGTCATCATCCTTTTTACTTTACGGCAAGCCCGATTTCCAGTCGGAGCCAAAACCGGTGAAACCATGTCAGAGTCCCGGAGAGATTAGTTCAATGGTGAATTGTCTTGAATTGAACGATGATGATGATGATGATTTTGACGCGGAATCAATACTCGACGAGGAAATTGAAGAAGGAATTGATAGCATCATGGGAGGTAGAATTGAGGAGAATGAATCTAACGTCTCTTCTTCTCATCCATGGATTGGTTTTGGCGGGAATTTCGATTTCCGGTTAGGATTACAGAGAGGTGGAGTGAGAGCTCTTCGCCATGTTGATGAAGGAAATTGGTGGAATTTTCCGGCGGTTGATATGCTTAAAATTTCGCCCAAAATATGCAGTGTCGGTGGTAAGACGACGGCGCCGGTGACGGAGAAGAAGAAAAAGAAGAAGGTTGTTGCGGTAGAGAGATTGAATGCAGAATTGAAAGAAATGGAATCGCCAAAGTTGAAAAGTGGATTGTTGTTGAAATTGAATTACGACGGTGTTCGGAAAGCTTGGTCTGACCGAGGAACGCCGTTCGCCGATGACAGTCCTGTCTCCGATGCTTCGGGAAACGATGTTAATGCACGGTTGTCACAAATAGATTTGTTATGGGAGAATGGAGGAGGAAGTGGTGTAAGAGAAGCCAGCGTGCTGCGTTACAAAGAAAAGCGTCGTACACGCCTCATCTCTAAGAAAATCACATATCAAGTTAGGAAGGTCAATGCAGATCGACGGCCAAGAATGAAGGGACGATTTGTTAGGAGACTCAATGCTAACTCAATGCTAGCTCAAATGCACACAAATGATAGTAGTTTTTAG

Protein sequence

>MsaT046137.1

MSSCFSGTGGRTIGLDLDIVKSSPPCSWSRTSQTSSSPSSTISESSNSPLAIYTTKPRTPRKRPNQTYNEAATLLNTAYPNLFSNPNLKTNPNNNNNKSTKLEKAYEFDSSELLLPFRVLDTSSSFLLYGKPDFQSEPKPVKPCQSPGEISSMVNCLELNDDDDDDFDAESILDEEIEEGIDSIMGGRIEENESNVSSSHPWIGFGGNFDFRLGLQRGGVRALRHVDEGNWWNFPAVDMLKISPKICSVGGKTTAPVTEKKKKKKVVAVERLNAELKEMESPKLKSGLLLKLNYDGVRKAWSDRGTPFADDSPVSDASGNDVNARLSQIDLLWENGGGSGVREASVLRYKEKRRTRLISKKITYQVRKVNADRRPRMKGRFVRRLNANSMLAQMHTNDSSF*