AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016231


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016231 MtrunA17_Chr3g0126381 98.500 200 3 0 130 329 1 200 4.09e-140 394
MsaG016231 MtrunA17_Chr1g0158941 61.468 327 74 13 5 328 15 292 2.62e-108 317
MsaG016231 MtrunA17_Chr3g0126361 96.212 132 5 0 1 132 1 132 7.97e-89 262
MsaG016231 MtrunA17_Chr2g0287761 48.684 228 74 3 101 328 1 185 1.07e-62 197
MsaG016231 MtrunA17_Chr0c01g0489461 38.434 281 128 7 46 326 152 387 9.88e-50 170
MsaG016231 MtrunA17_Chr3g0132471 35.341 249 121 7 77 324 96 305 1.38e-37 136
MsaG016231 MtrunA17_Chr1g0191571 36.441 236 100 5 99 327 134 326 2.33e-36 134
MsaG016231 MtrunA17_Chr7g0273081 31.544 298 158 7 30 326 49 301 5.12e-36 132
MsaG016231 MtrunA17_Chr8g0366551 37.563 197 82 3 99 295 122 277 6.27e-36 132
MsaG016231 MtrunA17_Chr5g0426851 30.034 293 157 8 19 309 23 269 1.36e-31 120
MsaG016231 MtrunA17_Chr8g0345871 75.000 48 12 0 99 146 179 226 1.76e-19 88.2
MsaG016231 MtrunA17_Chr8g0345871 41.758 91 51 2 239 328 269 358 2.20e-12 67.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016231 AT5G53210.1 57.068 382 93 13 1 329 1 364 1.38e-112 331
MsaG016231 AT5G53210.2 54.420 362 94 13 1 309 1 344 3.44e-95 286
MsaG016231 AT3G06120.1 44.737 228 90 3 101 328 1 192 5.44e-58 186
MsaG016231 AT3G24140.1 39.544 263 114 6 70 328 172 393 6.52e-48 166
MsaG016231 AT3G24140.2 56.122 98 37 2 70 167 172 263 2.72e-28 113
MsaG016231 AT3G24140.2 48.913 92 46 1 237 328 303 393 7.68e-18 84.0
MsaG016231 AT4G01460.1 67.188 64 21 0 99 162 113 176 5.59e-24 100
MsaG016231 AT4G01460.2 67.188 64 21 0 99 162 113 176 5.59e-24 100
MsaG016231 AT5G46690.1 33.051 236 104 6 99 317 86 284 3.04e-23 98.6
MsaG016231 AT1G22490.1 64.062 64 23 0 99 162 113 176 3.11e-23 98.2
MsaG016231 AT1G72210.1 31.441 229 113 6 99 326 123 308 3.56e-23 98.2
MsaG016231 AT5G46690.2 34.463 177 74 4 99 269 86 226 6.31e-23 97.1
MsaG016231 AT1G22490.2 64.062 64 23 0 99 162 113 176 6.47e-23 97.4
MsaG016231 AT1G72210.2 66.102 59 20 0 99 157 123 181 2.96e-22 95.5
MsaG016231 AT3G61950.6 53.247 77 34 1 99 173 125 201 1.46e-21 93.2
MsaG016231 AT3G61950.2 53.247 77 34 1 99 173 125 201 1.89e-21 93.2
MsaG016231 AT3G61950.3 53.247 77 34 1 99 173 176 252 4.05e-21 92.8
MsaG016231 AT3G61950.1 53.247 77 34 1 99 173 176 252 4.49e-21 92.8
MsaG016231 AT2G46810.2 60.317 63 25 0 99 161 119 181 7.28e-21 91.3
MsaG016231 AT2G46810.4 60.317 63 25 0 99 161 119 181 1.26e-20 91.3
MsaG016231 AT2G46810.3 60.317 63 25 0 99 161 179 241 2.02e-20 90.9
MsaG016231 AT2G46810.1 60.317 63 25 0 99 161 191 253 2.37e-20 90.9
MsaG016231 AT5G65320.2 59.016 61 25 0 99 159 100 160 1.73e-16 78.6
MsaG016231 AT5G65320.1 59.016 61 25 0 99 159 100 160 2.41e-16 78.6

Find 50 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGAAGACAGAACAGAATT+TGG 0.163384 3:+95637403 MsaT016231.1:CDS
TGATGATCTCTTTGCCATTT+TGG 0.180476 3:+95637432 MsaT016231.1:CDS
ATGTAGCTTTGTTGCATTCT+TGG 0.204975 3:-95639604 None:intergenic
CTAGTTGGTTGTGGAGTTCT+TGG 0.246531 3:-95639571 None:intergenic
TGTGGAGTTCTTGGACTAAT+TGG 0.288248 3:-95639562 None:intergenic
TTCTTTGTTTCTTAGCTTCA+AGG 0.307021 3:-95639441 None:intergenic
GAAGTGACCTCATTCTCTTT+TGG 0.319139 3:-95637511 None:intergenic
GGAGATCAAGCATCAATAAT+TGG 0.321601 3:+95639373 MsaT016231.1:CDS
GTTTCTTAGCTTCAAGGGCT+TGG 0.330395 3:-95639435 None:intergenic
TGTTGCATTCTTGGCTTGTA+AGG 0.333897 3:-95639595 None:intergenic
CTTGGACTTGGAACTAATCT+TGG 0.340912 3:-95639487 None:intergenic
AACTTGAAACTGAACCTAAA+AGG 0.343348 3:+95637590 MsaT016231.1:CDS
AAGTTTAGTCTTGGACTTAG+AGG 0.354427 3:-95639538 None:intergenic
ATCTTCTAGACTCTCCAAAA+TGG 0.357616 3:-95637446 None:intergenic
GGACTTAGTGGTGAAGGTCT+TGG 0.391894 3:-95639505 None:intergenic
ACTGTTTCTCAACGAATTCC+AGG 0.392508 3:+95639769 MsaT016231.1:CDS
CTTGGCTTGTAAGGACTAGT+TGG 0.398269 3:-95639586 None:intergenic
CTAATTGGCAAGTTTAGTCT+TGG 0.398977 3:-95639547 None:intergenic
TCATATAAGCTTTCTTCCAT+TGG 0.406925 3:-95637376 None:intergenic
TTGACCTCCACGTCAGCAAT+AGG 0.436432 3:-95639718 None:intergenic
ATCTGTTCCTCAAGCAAAGA+TGG 0.472890 3:-95637631 None:intergenic
TCTTTGTTTCTTAGCTTCAA+GGG 0.473972 3:-95639440 None:intergenic
TTTCTTGGACTTAGTGGTGA+AGG 0.477916 3:-95639511 None:intergenic
GAGGAAGTAGAGGAACTAGT+AGG 0.492572 3:-95639652 None:intergenic
CAGTGCTGATGGACAACAAA+GGG 0.493882 3:+95637657 MsaT016231.1:CDS
GTAGAGGAACTAGTAGGAGA+TGG 0.502378 3:-95639646 None:intergenic
ATAATCTTCAAAGCTTGTCC+TGG 0.509002 3:-95639787 None:intergenic
GGTCACTTCGACATCGAGAT+TGG 0.509922 3:+95637525 MsaT016231.1:CDS
AGTGGTGAAGGTCTTGGACT+TGG 0.521437 3:-95639499 None:intergenic
CAAGTTCTTCAGCACTCAGT+TGG 0.524170 3:-95640343 None:intergenic
TTGTAAGGACTAGTTGGTTG+TGG 0.524571 3:-95639580 None:intergenic
TACTACTCCAAAAGAGAATG+AGG 0.530957 3:+95637504 MsaT016231.1:CDS
GTTGAACTCCTTCACTATCA+AGG 0.535634 3:+95639879 MsaT016231.1:CDS
CTAGTAGGAGATGGATCAAG+AGG 0.552519 3:-95639637 None:intergenic
GAACAGATTAACAGTGCTGA+TGG 0.553866 3:+95637646 MsaT016231.1:CDS
GCTTACACCATCTTTGCTTG+AGG 0.567717 3:+95637624 MsaT016231.1:CDS
CTCAGAATCTTGCAGCGAAG+AGG 0.567938 3:-95637563 None:intergenic
TTTAGTCTTGGACTTAGAGG+TGG 0.583231 3:-95639535 None:intergenic
ATCATTGACTGAGGAAGTAG+AGG 0.588412 3:-95639662 None:intergenic
GTCTCCTATTGCTGACGTGG+AGG 0.609724 3:+95639714 MsaT016231.1:CDS
TTACTGTGGAGCGCAACAGA+AGG 0.616988 3:+95637689 MsaT016231.1:CDS
GCTTCAACTTGATTGATGAG+AGG 0.624063 3:-95637481 None:intergenic
AAAGTCTCCTATTGCTGACG+TGG 0.628049 3:+95639711 MsaT016231.1:CDS
AAGTACTATTAATGTTAACA+TGG 0.635453 3:-95639843 None:intergenic
TAAACGTACCTTGATAGTGA+AGG 0.635932 3:-95639887 None:intergenic
ATTGATGTTATCATTGACTG+AGG 0.636012 3:-95639671 None:intergenic
GATCAAGCATCAATAATTGG+AGG 0.643294 3:+95639376 MsaT016231.1:CDS
GATAGTGAAGGAGTTCAACA+TGG 0.664739 3:-95639875 None:intergenic
AAGGGTTTCTCATATTACTG+TGG 0.670712 3:+95637675 MsaT016231.1:CDS
ACAGTGCTGATGGACAACAA+AGG 0.726440 3:+95637656 MsaT016231.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 95637379 95640394 95637379 ID=MsaG016231
Chr3 mRNA 95637379 95640394 95637379 ID=MsaT016231.1;Parent=MsaG016231
Chr3 exon 95637379 95637774 95637379 ID=MsaT016231.1.exon1;Parent=MsaT016231.1
Chr3 CDS 95637379 95637774 95637379 ID=cds.MsaT016231.1;Parent=MsaT016231.1
Chr3 exon 95639373 95639900 95639373 ID=MsaT016231.1.exon2;Parent=MsaT016231.1
Chr3 CDS 95639373 95639900 95639373 ID=cds.MsaT016231.1;Parent=MsaT016231.1
Chr3 exon 95640329 95640394 95640329 ID=MsaT016231.1.exon3;Parent=MsaT016231.1
Chr3 CDS 95640329 95640394 95640329 ID=cds.MsaT016231.1;Parent=MsaT016231.1
Gene Sequence

>MsaT016231.1

ATGGAAGAAAGCTTATATGATATATTTGAAGACAGAACAGAATTTGGAAACAGTGATGATCTCTTTGCCATTTTGGAGAGTCTAGAAGATTTCACTGATTTTCCTCTCATCAATCAAGTTGAAGCTACTACTCCAAAAGAGAATGAGGTCACTTCGACATCGAGATTGGTGTCTCAAAAATCAACCTCTTCGCTGCAAGATTCTGAGACTGAACTTGAAACTGAACCTAAAAGGAAGAGACAGAAGCTTACACCATCTTTGCTTGAGGAACAGATTAACAGTGCTGATGGACAACAAAGGGTTTCTCATATTACTGTGGAGCGCAACAGAAGGAAGCAAATGAATGAGCACTTGTCTGTTTTAAGGTCACTTATGCCTTGCTTTTATGTCAAAAGGGGAGATCAAGCATCAATAATTGGAGGTGTTGTTGATTACATCACAGAGTTGCAACAACTACTCCAAGCCCTTGAAGCTAAGAAACAAAGAAAAGTATACAGTGAAGTTCTAAGTCCAAGATTAGTTCCAAGTCCAAGACCTTCACCACTAAGTCCAAGAAAACCACCTCTAAGTCCAAGACTAAACTTGCCAATTAGTCCAAGAACTCCACAACCAACTAGTCCTTACAAGCCAAGAATGCAACAAAGCTACATTGCACTATCACCTCTTGATCCATCTCCTACTAGTTCCTCTACTTCCTCAGTCAATGATAACATCAATGAGCTTGTTGCTAATTCAAAGTCTCCTATTGCTGACGTGGAGGTCAAGTTTTCAGGTCCTCATGTTCTTTTGAAAACTGTTTCTCAACGAATTCCAGGACAAGCTTTGAAGATTATATCTGCACTTGAAGATCTTGCACTTGAAATTCTCCATGTTAACATTAATAGTACTTCTGATGATACCATGTTGAACTCCTTCACTATCAAGATTGGAATTGAATGCCAACTGAGTGCTGAAGAACTTGCTCAACAAATCCAGCAAACATTCTGCTAA

Protein sequence

>MsaT016231.1

MEESLYDIFEDRTEFGNSDDLFAILESLEDFTDFPLINQVEATTPKENEVTSTSRLVSQKSTSSLQDSETELETEPKRKRQKLTPSLLEEQINSADGQQRVSHITVERNRRKQMNEHLSVLRSLMPCFYVKRGDQASIIGGVVDYITELQQLLQALEAKKQRKVYSEVLSPRLVPSPRPSPLSPRKPPLSPRLNLPISPRTPQPTSPYKPRMQQSYIALSPLDPSPTSSSTSSVNDNINELVANSKSPIADVEVKFSGPHVLLKTVSQRIPGQALKIISALEDLALEILHVNINSTSDDTMLNSFTIKIGIECQLSAEELAQQIQQTFC*