AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027772

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027772 MtrunA17_Chr5g0426851 75.000 324 42 4 1 309 1 300 9.32e-172 478
MsaG027772 MtrunA17_Chr3g0132471 53.172 331 116 10 1 306 1 317 3.57e-99 294
MsaG027772 MtrunA17_Chr7g0273081 43.849 317 148 11 1 306 14 311 3.37e-73 228
MsaG027772 MtrunA17_Chr8g0366551 52.804 214 92 5 98 309 114 320 2.09e-66 211
MsaG027772 MtrunA17_Chr1g0191571 42.378 328 157 9 1 304 14 333 1.74e-64 206
MsaG027772 MtrunA17_Chr8g0345871 44.175 206 92 3 97 297 170 357 3.74e-46 159
MsaG027772 MtrunA17_Chr0c01g0489461 41.395 215 116 5 90 297 177 388 1.95e-43 153
MsaG027772 MtrunA17_Chr2g0287761 38.636 176 104 2 108 283 1 172 4.57e-34 123
MsaG027772 MtrunA17_Chr1g0158941 30.249 281 154 7 46 302 27 289 1.78e-28 111
MsaG027772 MtrunA17_Chr3g0126361 51.515 66 27 2 78 139 68 132 3.74e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027772 AT1G72210.1 48.060 335 124 11 1 304 1 316 5.97e-85 258
MsaG027772 AT1G72210.2 46.429 308 116 10 1 277 1 290 5.56e-73 227
MsaG027772 AT1G22490.1 44.937 316 149 9 1 304 1 303 1.16e-69 219
MsaG027772 AT1G22490.2 42.955 291 138 7 1 277 1 277 3.19e-57 187
MsaG027772 AT5G46690.1 44.538 238 88 8 98 304 78 302 1.13e-42 150
MsaG027772 AT4G01460.1 39.437 213 112 3 98 304 105 306 3.03e-42 148
MsaG027772 AT4G01460.2 39.437 213 112 3 98 304 105 306 3.03e-42 148
MsaG027772 AT5G65320.1 40.097 207 109 2 104 304 98 295 4.06e-42 147
MsaG027772 AT2G46810.2 39.614 207 95 5 99 297 112 296 1.67e-39 140
MsaG027772 AT3G24140.2 38.914 221 119 3 88 297 177 392 2.02e-39 143
MsaG027772 AT3G24140.1 38.914 221 119 3 88 297 177 392 2.06e-39 143
MsaG027772 AT2G46810.1 39.614 207 95 5 99 297 184 368 6.45e-39 141
MsaG027772 AT2G46810.3 39.614 207 95 5 99 297 172 356 6.79e-39 140
MsaG027772 AT3G61950.2 38.462 208 99 6 97 297 116 301 3.91e-38 137
MsaG027772 AT3G61950.1 38.462 208 99 6 97 297 167 352 1.72e-37 137
MsaG027772 AT3G61950.6 39.655 174 78 4 97 264 116 268 3.16e-36 132
MsaG027772 AT5G46690.2 44.076 211 75 7 98 277 78 276 1.14e-35 130
MsaG027772 AT5G65320.2 40.107 187 97 2 104 284 98 275 1.43e-35 130
MsaG027772 AT2G46810.4 41.618 173 73 3 99 264 112 263 1.86e-35 130
MsaG027772 AT3G61950.3 39.655 174 78 4 97 264 167 319 1.99e-35 131
MsaG027772 AT3G06120.1 34.737 190 99 5 108 283 1 179 1.10e-28 109
MsaG027772 AT5G53210.1 58.730 63 26 0 106 168 100 162 3.05e-19 87.4
MsaG027772 AT5G53210.2 58.730 63 26 0 106 168 100 162 3.84e-19 87.0
MsaG027772 AT3G61950.4 65.116 43 15 0 97 139 167 209 7.87e-13 67.0
MsaG027772 AT3G61950.5 65.116 43 15 0 97 139 167 209 7.87e-13 67.0

Find 64 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCATAATCTCCTTTCAAAT+TGG 0.176896 5:-52337482 MsaT027772.1:CDS
TGCCTCCTTCTTATGCAAAA+AGG 0.226402 5:-52337254 MsaT027772.1:CDS
GTGGGAAGAGTGGTAGTTTC+TGG 0.232175 5:+52337450 None:intergenic
CATGTTTCCTCAATACTCTA+TGG 0.258942 5:-52336759 MsaT027772.1:CDS
AAGTCAAGTAATGGCCTTAG+AGG 0.324094 5:-52337658 None:intergenic
CATCCACACTGGAAACATTA+AGG 0.344730 5:+52336558 None:intergenic
TCATAATCTCCTTTCAAATT+GGG 0.357599 5:-52337481 MsaT027772.1:CDS
CCATGCCACGTGACTGATTA+TGG 0.383936 5:+52336702 None:intergenic
TGAGCTATCACGTAGAATTC+AGG 0.385207 5:-52335689 MsaT027772.1:CDS
GTTGTTGGGATTCAAAATCT+TGG 0.395613 5:-52336596 MsaT027772.1:CDS
ACTTGGAGTGGTTTCAACTA+AGG 0.406246 5:+52337581 None:intergenic
ATGTTTCCTCAATACTCTAT+GGG 0.408818 5:-52336758 MsaT027772.1:CDS
TGGGAAGAGTGGTAGTTTCT+GGG 0.409146 5:+52337451 None:intergenic
CGGTGCAATTAACTTCTTGA+AGG 0.418841 5:-52336894 MsaT027772.1:CDS
CCACTCCAAGTGAAGGATCT+TGG 0.429067 5:-52337569 MsaT027772.1:CDS
CAGGTTATGAAGATGGTTGT+TGG 0.441455 5:-52336611 MsaT027772.1:CDS
AGGTTATGAAGATGGTTGTT+GGG 0.442208 5:-52336610 MsaT027772.1:CDS
CCAAGATCCTTCACTTGGAG+TGG 0.454095 5:+52337569 None:intergenic
GTCGTCGTTTGCTCTGACGA+GGG 0.455391 5:+52337394 None:intergenic
CTGTAAATCAATGGATATTG+TGG 0.467398 5:+52337624 None:intergenic
GGCAGATATAGAAGTGACTT+TGG 0.474900 5:-52336681 MsaT027772.1:CDS
TGGCTCCAAGATCCTTCACT+TGG 0.493996 5:+52337564 None:intergenic
TGTTGTGGTGGATGCAAAAG+TGG 0.496117 5:+52337425 None:intergenic
TTTGCTCTGACGAGGGGCTG+TGG 0.500724 5:+52337401 None:intergenic
AATTAATAATAGGTAGAAGA+AGG 0.501607 5:-52335757 MsaT027772.1:intron
CGTGACTGATTATGGTTGGT+AGG 0.510486 5:+52336710 None:intergenic
CTGCAATGTGAGTCATCCTC+TGG 0.511278 5:+52337334 None:intergenic
TGCATAAGAAGGAGGCATCA+AGG 0.514555 5:+52337260 None:intergenic
TCTTTGCAACTGTAAATCAA+TGG 0.515148 5:+52337615 None:intergenic
GGTGATCAAGCGTCAATAGT+TGG 0.522208 5:-52336917 MsaT027772.1:CDS
CCTTGTCTCGGTTAGTGCTA+AGG 0.528899 5:-52336528 MsaT027772.1:intron
AAGGAGGCATCAAGGATTTG+AGG 0.530586 5:+52337268 None:intergenic
ACATAATCTACAACTCATGA+AGG 0.534004 5:-52336864 MsaT027772.1:CDS
TTGTTTGGCAACCGTAGTTG+TGG 0.536558 5:+52337544 None:intergenic
ATTAATAATAGGTAGAAGAA+GGG 0.541316 5:-52335756 MsaT027772.1:intron
AAAAGTGGAAGTGGGAAGAG+TGG 0.541468 5:+52337440 None:intergenic
CAACTACTGAACACAGTGGA+TGG 0.542124 5:-52335730 MsaT027772.1:CDS
AGGGGCTGTGGTTGTTGTGG+TGG 0.542969 5:+52337413 None:intergenic
ACGAGGGGCTGTGGTTGTTG+TGG 0.561823 5:+52337410 None:intergenic
GGTGGATGCAAAAGTGGAAG+TGG 0.562310 5:+52337431 None:intergenic
GGGAAGAGTGGTAGTTTCTG+GGG 0.562790 5:+52337452 None:intergenic
CCATAATCAGTCACGTGGCA+TGG 0.565688 5:-52336702 MsaT027772.1:CDS
CGTCGTCGTTTGCTCTGACG+AGG 0.567064 5:+52337393 None:intergenic
ACAAGGACAGGTTATGAAGA+TGG 0.569307 5:-52336618 MsaT027772.1:CDS
GTGACTGATTATGGTTGGTA+GGG 0.576193 5:+52336711 None:intergenic
GGGAAGAATCCCAATTTGAA+AGG 0.583370 5:+52337472 None:intergenic
GTTGAAACCACTCCAAGTGA+AGG 0.604132 5:-52337576 MsaT027772.1:CDS
GGGTAGCACGTGATGTTCTG+AGG 0.605537 5:+52336731 None:intergenic
TCGTCGTTTGCTCTGACGAG+GGG 0.613990 5:+52337395 None:intergenic
CCTTAGCACTAACCGAGACA+AGG 0.614421 5:+52336528 None:intergenic
GGATGATAATGTCCTTGTCT+CGG 0.618077 5:-52336540 MsaT027772.1:CDS
GGTGCACCCATAGAGTATTG+AGG 0.621516 5:+52336752 None:intergenic
GTGGATGCAAAAGTGGAAGT+GGG 0.621519 5:+52337432 None:intergenic
GGATCTTGGAGCCACAACTA+CGG 0.621648 5:-52337555 MsaT027772.1:CDS
ACACCTTAATGTTTCCAGTG+TGG 0.628319 5:-52336561 MsaT027772.1:CDS
AGGAGGAAATCGAGAGCCAG+AGG 0.636953 5:-52337350 MsaT027772.1:CDS
CATAATCTACAACTCATGAA+GGG 0.646610 5:-52336863 MsaT027772.1:CDS
GCTATCACGTAGAATTCAGG+TGG 0.646782 5:-52335686 MsaT027772.1:CDS
AAGGACATTATCATCCACAC+TGG 0.650900 5:+52336547 None:intergenic
GCCACGTGACTGATTATGGT+TGG 0.656195 5:+52336706 None:intergenic
GATCAAGCGTCAATAGTTGG+CGG 0.662112 5:-52336914 MsaT027772.1:CDS
ACCAACCATAATCAGTCACG+TGG 0.705729 5:-52336707 MsaT027772.1:CDS
TCAAGGATTTGAGGACATCG+AGG 0.738437 5:+52337277 None:intergenic
GTGTCAACTACTGAACACAG+TGG 0.768612 5:-52335734 MsaT027772.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 52335666 52337670 52335666 ID=MsaG027772
Chr5 mRNA 52335666 52337670 52335666 ID=MsaT027772.1;Parent=MsaG027772
Chr5 exon 52335666 52335767 52335666 ID=MsaT027772.1.exon3;Parent=MsaT027772.1
Chr5 CDS 52335666 52335767 52335666 ID=cds.MsaT027772.1;Parent=MsaT027772.1
Chr5 exon 52336529 52336939 52336529 ID=MsaT027772.1.exon2;Parent=MsaT027772.1
Chr5 CDS 52336529 52336939 52336529 ID=cds.MsaT027772.1;Parent=MsaT027772.1
Chr5 exon 52337254 52337670 52337254 ID=MsaT027772.1.exon1;Parent=MsaT027772.1
Chr5 CDS 52337254 52337670 52337254 ID=cds.MsaT027772.1;Parent=MsaT027772.1
Gene Sequence

>MsaT027772.1

ATGGCCTTAGAGGCTATAGTTTTTCCACAATATCCATTGATTTACAGTTGCAAAGACTACTTGTACTCCTTAGTTGAAACCACTCCAAGTGAAGGATCTTGGAGCCACAACTACGGTTGCCAAACAAAAGACGAAGAAGATCTTTTTAAAATCAGCAATAACTTCGATCATAATCTCCTTTCAAATTGGGATTCTTCCCCAGAAACTACCACTCTTCCCACTTCCACTTTTGCATCCACCACAACAACCACAGCCCCTCGTCAGAGCAAACGACGACGCACTGTGAATGCAAAAAATGAGGAGGAAATCGAGAGCCAGAGGATGACTCACATTGCAGTTGAGCGCAATCGAAGAAAACAGATGAATGAGTACCTCGATGTCCTCAAATCCTTGATGCCTCCTTCTTATGCAAAAAGGGGTGATCAAGCGTCAATAGTTGGCGGTGCAATTAACTTCTTGAAGGAGCTAGAACATAATCTACAACTCATGAAGGGACAAAAGAAAATAAACAAAGAAGCTCATGAAAATAGTTTCATTACTTGTTCTTGTTCATCACCACCTTTTACTGAGTTTTTCATGTTTCCTCAATACTCTATGGGTGCACCTCAGAACATCACGTGCTACCCTACCAACCATAATCAGTCACGTGGCATGGCAGATATAGAAGTGACTTTGGTTGATAGTCATACAAATATAAATATAATGTTGAAAAAACGACAAGGACAGGTTATGAAGATGGTTGTTGGGATTCAAAATCTTGGCTTCAACATTCTACACCTTAATGTTTCCAGTGTGGATGATAATGTCCTTGTCTCGGTTAGTGCTAAGGTAGAAGAAGGGTGTCAACTACTGAACACAGTGGATGGAATTGCAGCTGCAGTGAATGAGCTATCACGTAGAATTCAGGTGGAAGATGCTGCTTTGACCTGA
Protein sequence

>MsaT027772.1

MALEAIVFPQYPLIYSCKDYLYSLVETTPSEGSWSHNYGCQTKDEEDLFKISNNFDHNLLSNWDSSPETTTLPTSTFASTTTTTAPRQSKRRRTVNAKNEEEIESQRMTHIAVERNRRKQMNEYLDVLKSLMPPSYAKRGDQASIVGGAINFLKELEHNLQLMKGQKKINKEAHENSFITCSCSSPPFTEFFMFPQYSMGAPQNITCYPTNHNQSRGMADIEVTLVDSHTNINIMLKKRQGQVMKMVVGIQNLGFNILHLNVSSVDDNVLVSVSAKVEEGCQLLNTVDGIAAAVNELSRRIQVEDAALT*