AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015297

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015297 MtrunA17_Chr3g0116501 91.500 200 17 0 82 281 1 200 1.29e-136 387
MsaG015297 MtrunA17_Chr4g0058071 51.064 329 150 4 10 328 8 335 2.08e-118 347
MsaG015297 MtrunA17_Chr5g0401281 37.793 299 178 3 17 308 66 363 1.92e-69 222
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015297 AT3G48360.1 46.557 305 142 4 31 314 46 350 7.29e-88 269
MsaG015297 AT5G63160.1 46.224 331 157 6 26 338 32 359 2.62e-86 265
MsaG015297 AT3G48360.2 47.232 271 123 3 31 281 46 316 1.77e-78 244
MsaG015297 AT5G63160.2 47.253 273 127 4 26 281 32 304 5.69e-78 241
MsaG015297 AT3G48360.3 49.590 244 112 3 82 314 1 244 5.62e-74 230
MsaG015297 AT5G63160.3 48.889 270 126 5 78 338 8 274 6.47e-73 228
MsaG015297 AT1G05690.1 38.944 303 173 6 31 325 66 364 7.29e-65 210
MsaG015297 AT5G67480.1 37.542 301 177 6 17 308 59 357 3.87e-62 203
MsaG015297 AT5G67480.3 37.542 301 177 6 17 308 59 357 3.87e-62 203
MsaG015297 AT5G67480.2 37.542 301 177 6 17 308 70 368 4.85e-62 203
MsaG015297 AT4G37610.1 36.913 298 176 7 20 308 57 351 9.17e-61 199

Find 92 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCACCGCTTCAAAATTAT+TGG 0.124222 3:+85288681 None:intergenic
CTCCACATGTCAAGCTTTGC+AGG 0.259755 3:-85288338 MsaT015297.1:CDS
ATGGATATAAATGTAAGTTT+TGG 0.269976 3:+85289368 None:intergenic
AATGCACCTTTGCTTTAGTT+TGG 0.301923 3:+85288810 None:intergenic
CATGCAAGGTTCCTCTTTGC+AGG 0.318663 3:-85288201 MsaT015297.1:intron
TACATTTCATCTACACTTCC+AGG 0.332926 3:-85289109 MsaT015297.1:intron
GTATTATGCCACTGGGAGTA+TGG 0.339417 3:+85289349 None:intergenic
CATTCCCCGTGGTCATGAAT+TGG 0.355331 3:+85288776 None:intergenic
ATCATATGATGTGGAGATTA+CGG 0.355897 3:-85288380 MsaT015297.1:CDS
TCCAGTGCACGCAACCGTTC+TGG 0.358145 3:-85289322 MsaT015297.1:intron
AAGTGAAGCTGTACAATGTT+TGG 0.366740 3:-85288437 MsaT015297.1:CDS
ATGCACCTTTGCTTTAGTTT+GGG 0.372763 3:+85288811 None:intergenic
ACCAGAACGGTTGCGTGCAC+TGG 0.385474 3:+85289321 None:intergenic
ACACACTTGAAGTAGAGATT+TGG 0.400686 3:+85288715 None:intergenic
AACACTTTACCACATGTAAT+AGG 0.401202 3:-85288306 MsaT015297.1:CDS
AGTCAAGAGAGTCTTCTAAT+TGG 0.402862 3:-85287414 MsaT015297.1:CDS
TCATATGATGTGGAGATTAC+GGG 0.403872 3:-85288379 MsaT015297.1:CDS
GAGGAACCTTGCATGTATCT+TGG 0.405123 3:+85288209 None:intergenic
TGGGACTATGCAGGTGCAGC+AGG 0.411993 3:-85288891 MsaT015297.1:intron
CCTTGTCCTTAGCAATTGTA+AGG 0.421710 3:+85287483 None:intergenic
CAAGGAGAGATGAGGTAATT+CGG 0.427024 3:-85287465 MsaT015297.1:CDS
GTCCCCAGTTCTAAAAGAAA+TGG 0.455888 3:-85289192 MsaT015297.1:CDS
GAAGAGAGGAAATAAACATA+GGG 0.473780 3:-85288485 MsaT015297.1:CDS
AGAAGAGAGGAAATAAACAT+AGG 0.475467 3:-85288486 MsaT015297.1:CDS
AACGGTTGCGTGCACTGGAA+AGG 0.491203 3:+85289326 None:intergenic
GAATACTAGAGTAGAGGAAG+AGG 0.495047 3:-85287443 MsaT015297.1:CDS
TGGAAAGGGTATTATGCCAC+TGG 0.495282 3:+85289341 None:intergenic
ACGGTTGCGTGCACTGGAAA+GGG 0.504977 3:+85289327 None:intergenic
CAAGAGAGTCTTCTAATTGG+TGG 0.514114 3:-85287411 MsaT015297.1:CDS
AACGGTAACGTTAAAATATG+TGG 0.514946 3:-85289161 MsaT015297.1:CDS
AAGGCGATGGCTGCATTGGT+TGG 0.517717 3:+85289134 None:intergenic
TCCACATGTCAAGCTTTGCA+GGG 0.524594 3:-85288337 MsaT015297.1:CDS
TTGATCCAATTCATGACCAC+GGG 0.542240 3:-85288781 MsaT015297.1:CDS
TATTGCATAAACATGACCCT+TGG 0.542900 3:-85288639 MsaT015297.1:CDS
TACGAGGTGGAAACAAATAG+TGG 0.546964 3:-85287536 MsaT015297.1:CDS
TACAAAGGCGATGGCTGCAT+TGG 0.548314 3:+85289130 None:intergenic
CCTTACAATTGCTAAGGACA+AGG 0.552243 3:-85287483 MsaT015297.1:CDS
TCTCAACAAAGAACGAGAAT+CGG 0.559033 3:-85288596 MsaT015297.1:intron
ATTCTCGTTCTTTGTTGAGA+CGG 0.562147 3:+85288599 None:intergenic
TGTCTTCCTTACAATTGCTA+AGG 0.563853 3:-85287489 MsaT015297.1:CDS
CCACATGTCAAGCTTTGCAG+GGG 0.564441 3:-85288336 MsaT015297.1:CDS
GATAGCTGAGAAAGAGAACA+AGG 0.575893 3:-85287566 MsaT015297.1:CDS
TTGGAGCATATATGTAGAGA+AGG 0.575989 3:-85288418 MsaT015297.1:CDS
ATGATGTCAACTTCGAGCCA+AGG 0.576653 3:+85288622 None:intergenic
ATCTTGGTTAAAGCAAATGC+AGG 0.578550 3:+85288225 None:intergenic
ATTCATGACCACGGGGAATG+TGG 0.583872 3:-85288773 MsaT015297.1:CDS
TGTAATAGGAGACTCGAGAG+AGG 0.587137 3:-85288292 MsaT015297.1:CDS
TGATGTCAACTTCGAGCCAA+GGG 0.587603 3:+85288623 None:intergenic
AAAGAAATGGTAACGTCCAA+CGG 0.587929 3:-85289179 MsaT015297.1:CDS
TGTGGTGGACGTGTTGCACT+TGG 0.589909 3:-85288755 MsaT015297.1:CDS
ACGAGGTGGAAACAAATAGT+GGG 0.591901 3:-85287535 MsaT015297.1:CDS
CCCCTGCAAAGCTTGACATG+TGG 0.598401 3:+85288336 None:intergenic
TGTTTCGCATACCTGCAAAG+AGG 0.600432 3:+85288190 None:intergenic
CAATGCCCAAACTAAAGCAA+AGG 0.601233 3:-85288816 MsaT015297.1:CDS
TTGTAAGGAAGACATGGCTA+TGG 0.601532 3:+85287498 None:intergenic
GAAGCGGTGAAGGAAACAGA+GGG 0.603513 3:-85288670 MsaT015297.1:CDS
GCTGAGAAAGAGAACAAGGA+AGG 0.604375 3:-85287562 MsaT015297.1:CDS
CAACGTGGCATCATATGATG+TGG 0.607548 3:-85288389 MsaT015297.1:CDS
AATTCGGAATACTAGAGTAG+AGG 0.608608 3:-85287449 MsaT015297.1:CDS
CTCGAGTCTCCTATTACATG+TGG 0.612075 3:+85288297 None:intergenic
GGAGAAAACAGAGAAGCCAT+TGG 0.615463 3:+85289417 None:intergenic
GGAGACTCGAGAGAGGGTGT+AGG 0.617740 3:-85288285 MsaT015297.1:CDS
CTTTAACCAAGATACATGCA+AGG 0.621392 3:-85288215 MsaT015297.1:CDS
GAGAGGAAATAAACATAGGG+AGG 0.621519 3:-85288482 MsaT015297.1:CDS
CTTGATCCAATTCATGACCA+CGG 0.630679 3:-85288782 MsaT015297.1:CDS
CATATGATGTGGAGATTACG+GGG 0.632166 3:-85288378 MsaT015297.1:CDS
CATGACCACGGGGAATGTGG+TGG 0.632280 3:-85288770 MsaT015297.1:CDS
TAGCAATTGTAAGGAAGACA+TGG 0.634002 3:+85287492 None:intergenic
GTAGGTGTTGTAAGTCTATG+TGG 0.636359 3:-85288267 MsaT015297.1:CDS
GTGAAACAGAGGAAGAAGAG+AGG 0.641073 3:-85288499 MsaT015297.1:intron
CGGTGAAGGAAACAGAGGGG+TGG 0.647649 3:-85288666 MsaT015297.1:CDS
AGTGTAGATGAAATGTACAA+AGG 0.647924 3:+85289115 None:intergenic
GGAAAGGGTATTATGCCACT+GGG 0.651960 3:+85289342 None:intergenic
GCTAAGGACAAGGAGAGATG+AGG 0.655281 3:-85287473 MsaT015297.1:CDS
AAAATAGAAGAGTACCAGAA+CGG 0.658371 3:+85289308 None:intergenic
GGGACTATGCAGGTGCAGCA+GGG 0.659269 3:-85288890 MsaT015297.1:intron
ACAAGGAAGGTGATACGAGG+TGG 0.662953 3:-85287549 MsaT015297.1:CDS
CATGTGGAGAATTTAGTACA+CGG 0.664071 3:+85288352 None:intergenic
CACATCATATGATGCCACGT+TGG 0.666948 3:+85288390 None:intergenic
GATGAAATGTACAAAGGCGA+TGG 0.667885 3:+85289121 None:intergenic
GTAATAGGAGACTCGAGAGA+GGG 0.668774 3:-85288291 MsaT015297.1:CDS
TGAAGCGGTGAAGGAAACAG+AGG 0.678822 3:-85288671 MsaT015297.1:CDS
ATTTATATCCATACTCCCAG+TGG 0.683113 3:-85289357 MsaT015297.1:CDS
CGAGGTGGAAACAAATAGTG+GGG 0.698764 3:-85287534 MsaT015297.1:CDS
TAGAGAAGGTTGCACCAACG+TGG 0.699752 3:-85288404 MsaT015297.1:CDS
CACGTCCACCACATTCCCCG+TGG 0.707824 3:+85288765 None:intergenic
AGACGTGCGAGAGTACGAGA+AGG 0.721408 3:+85288842 None:intergenic
ACTATGCAGGTGCAGCAGGG+AGG 0.723689 3:-85288887 MsaT015297.1:intron
AGAACAAGGAAGGTGATACG+AGG 0.743284 3:-85287552 MsaT015297.1:CDS
ATGATGTGGAGATTACGGGG+AGG 0.765492 3:-85288375 MsaT015297.1:CDS
AAGCGGTGAAGGAAACAGAG+GGG 0.769201 3:-85288669 MsaT015297.1:CDS
TGATCCAATTCATGACCACG+GGG 0.774666 3:-85288780 MsaT015297.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 85287378 85289436 85287378 ID=MsaG015297
Chr3 mRNA 85287378 85289436 85287378 ID=MsaT015297.1;Parent=MsaG015297
Chr3 exon 85287378 85287600 85287378 ID=MsaT015297.1.exon5;Parent=MsaT015297.1
Chr3 CDS 85287378 85287600 85287378 ID=cds.MsaT015297.1;Parent=MsaT015297.1
Chr3 exon 85288202 85288512 85288202 ID=MsaT015297.1.exon4;Parent=MsaT015297.1
Chr3 CDS 85288202 85288512 85288202 ID=cds.MsaT015297.1;Parent=MsaT015297.1
Chr3 exon 85288597 85288900 85288597 ID=MsaT015297.1.exon3;Parent=MsaT015297.1
Chr3 CDS 85288597 85288900 85288597 ID=cds.MsaT015297.1;Parent=MsaT015297.1
Chr3 exon 85289110 85289222 85289110 ID=MsaT015297.1.exon2;Parent=MsaT015297.1
Chr3 CDS 85289110 85289222 85289110 ID=cds.MsaT015297.1;Parent=MsaT015297.1
Chr3 exon 85289323 85289436 85289323 ID=MsaT015297.1.exon1;Parent=MsaT015297.1
Chr3 CDS 85289323 85289436 85289323 ID=cds.MsaT015297.1;Parent=MsaT015297.1
Gene Sequence

>MsaT015297.1

ATGGCTTCTCTGTTTTCTCCCATTGTCTCCCCCACCCGCTTTTCCCCCAAAACTTACATTTATATCCATACTCCCAGTGGCATAATACCCTTTCCAGTGCACGCAACCGTTCTGGTTTCAGCGTCCCCAGTTCTAAAAGAAATGGTAACGTCCAACGGTAACGTTAAAATATGTGGTGTTCCAACCAATGCAGCCATCGCCTTTGTACATTTCATCTACACTTCCAGGTGCAGCAGGGAGGATATGAAAAATTATGGAACACACCTTCTCGTACTCTCGCACGTCTTTGCAATGCCCAAACTAAAGCAAAGGTGCATTGTTGACTTGATCCAATTCATGACCACGGGGAATGTGGTGGACGTGTTGCACTTGGCTAAGCTTTGTGATGCACCAAATCTCTACTTCAAGTGTGTCAAGTTAGTTACCAATAATTTTGAAGCGGTGAAGGAAACAGAGGGGTGGAAATTATTGCATAAACATGACCCTTGGCTCGAAGTTGACATCATCCGTCTCAACAAAGAACGAGAATCGAGGAAGAAGAGAGGAAATAAACATAGGGAGGAACAAAAGTTGTTTGTGCAATTAAGTGAAGCTGTACAATGTTTGGAGCATATATGTAGAGAAGGTTGCACCAACGTGGCATCATATGATGTGGAGATTACGGGGAGGCCGTGTACTAAATTCTCCACATGTCAAGCTTTGCAGGGGTTGATCAAACACTTTACCACATGTAATAGGAGACTCGAGAGAGGGTGTAGGTGTTGTAAGTCTATGTGGCAACTACTTAGACTGCACTCCTGCATTTGCTTTAACCAAGATACATGCAAGGTTCCTCTTTGCAGGAAATATCAATTGATAGCTGAGAAAGAGAACAAGGAAGGTGATACGAGGTGGAAACAAATAGTGGGGAAAGTAGCATCAACCATAGCCATGTCTTCCTTACAATTGCTAAGGACAAGGAGAGATGAGGTAATTCGGAATACTAGAGTAGAGGAAGAGGAAGATCAGTCAAGAGAGTCTTCTAATTGGTGGACAAATGCAATTGCATGTTTTCGGTGTATCTAA
Protein sequence

>MsaT015297.1

MASLFSPIVSPTRFSPKTYIYIHTPSGIIPFPVHATVLVSASPVLKEMVTSNGNVKICGVPTNAAIAFVHFIYTSRCSREDMKNYGTHLLVLSHVFAMPKLKQRCIVDLIQFMTTGNVVDVLHLAKLCDAPNLYFKCVKLVTNNFEAVKETEGWKLLHKHDPWLEVDIIRLNKERESRKKRGNKHREEQKLFVQLSEAVQCLEHICREGCTNVASYDVEITGRPCTKFSTCQALQGLIKHFTTCNRRLERGCRCCKSMWQLLRLHSCICFNQDTCKVPLCRKYQLIAEKENKEGDTRWKQIVGKVASTIAMSSLQLLRTRRDEVIRNTRVEEEEDQSRESSNWWTNAIACFRCI*