AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG008156

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008156 MtrunA17_Chr2g0300511 93.989 366 11 4 2 366 1 356 0.0 694
MsaG008156 MtrunA17_Chr4g0070591 63.333 390 97 14 1 366 1 368 1.05e-147 422
MsaG008156 MtrunA17_Chr8g0343881 45.272 349 157 12 4 335 7 338 2.68e-70 223
MsaG008156 MtrunA17_Chr4g0021261 40.805 348 148 13 8 349 25 320 2.01e-59 195
MsaG008156 MtrunA17_Chr1g0152191 57.983 119 42 2 6 120 142 256 8.50e-41 152
MsaG008156 MtrunA17_Chr5g0409471 60.177 113 29 2 8 120 16 112 1.76e-40 145
MsaG008156 MtrunA17_Chr7g0265931 54.198 131 45 4 5 126 68 192 2.48e-35 133
MsaG008156 MtrunA17_Chr3g0127641 48.246 114 37 3 8 121 112 203 1.71e-27 113
MsaG008156 MtrunA17_Chr8g0351521 37.975 158 73 4 4 159 50 184 8.28e-23 99.0
MsaG008156 MtrunA17_Chr8g0351521 47.761 67 34 1 76 141 302 368 6.81e-13 69.7
MsaG008156 MtrunA17_Chr8g0351291 64.103 39 14 0 76 114 51 89 1.13e-12 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008156 AT3G13960.1 71.681 113 28 2 8 120 16 124 2.05e-55 187
MsaG008156 AT2G06200.1 64.167 120 36 2 6 118 4 123 2.59e-47 161
MsaG008156 AT2G06200.2 61.600 125 41 2 1 118 38 162 3.04e-47 162
MsaG008156 AT4G37740.1 58.120 117 41 4 6 121 162 271 6.77e-39 145
MsaG008156 AT2G36400.1 56.198 121 50 2 9 128 77 195 5.80e-37 138
MsaG008156 AT2G22840.1 54.545 121 47 4 1 120 126 239 4.80e-34 132
MsaG008156 AT3G52910.1 55.172 116 44 4 9 120 83 194 2.62e-33 127
MsaG008156 AT2G06200.3 92.157 51 2 1 70 118 1 51 2.96e-26 103
MsaG008156 AT5G53660.1 48.246 114 38 2 7 120 58 150 1.02e-25 106
MsaG008156 AT4G24150.3 44.444 117 55 2 9 120 112 223 8.28e-24 102
MsaG008156 AT4G24150.2 44.444 117 55 2 9 120 150 261 1.20e-23 102
MsaG008156 AT4G24150.1 40.288 139 54 3 9 120 150 286 3.70e-23 100
MsaG008156 AT2G45480.2 40.496 121 55 3 4 117 19 129 7.60e-19 86.3
MsaG008156 AT2G45480.3 40.496 121 55 3 4 117 19 129 3.62e-18 85.9
MsaG008156 AT2G45480.3 52.308 65 27 2 56 120 289 349 7.73e-13 69.7
MsaG008156 AT2G45480.1 40.496 121 55 3 4 117 17 127 3.82e-18 85.9
MsaG008156 AT2G45480.1 52.308 65 27 2 56 120 287 347 8.12e-13 69.7

Find 54 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATAAAGGATTGTTGCAAAT+TGG 0.210488 2:+29354326 None:intergenic
TGCCATTGTGATGGAGTAAA+AGG 0.243712 2:+29355477 None:intergenic
CTTTCACAATATTTAGAATC+TGG 0.287060 2:+29354564 None:intergenic
CAGTGTTGGTGTTGTTGATT+AGG 0.322488 2:+29355333 None:intergenic
ATTTACAAGTACATGGCTTC+TGG 0.322552 2:-29355432 MsaT008156.1:CDS
GAGAGATCAATGGCTTGATT+TGG 0.343166 2:-29353218 MsaT008156.1:CDS
TTTGATGAATGGCCACATAA+AGG 0.368324 2:-29353241 MsaT008156.1:CDS
AACTATCTGCAAATGGGTTT+AGG 0.375973 2:-29354663 MsaT008156.1:CDS
GCATTCTTCAAAGAACCTTC+TGG 0.390445 2:-29353484 MsaT008156.1:CDS
ATTAATAATGCTTCATCACT+TGG 0.397780 2:-29354459 MsaT008156.1:CDS
TCAACTTTGTCATCTGGTAT+TGG 0.398620 2:-29354282 MsaT008156.1:CDS
GAAGAACAGATGGAAAGAAA+TGG 0.403362 2:-29354608 MsaT008156.1:CDS
CTCAGAATAACACTGATTAC+AGG 0.412282 2:-29354206 MsaT008156.1:intron
TTGATGAATGGCCACATAAA+GGG 0.413091 2:-29353240 MsaT008156.1:CDS
GAAGAATTAGTTAATGATGC+AGG 0.421290 2:+29354411 None:intergenic
TTCATCGCTTCTTTGATGAA+TGG 0.422547 2:-29353252 MsaT008156.1:CDS
TCAAGGTCAACTTTGTCATC+TGG 0.430096 2:-29354288 MsaT008156.1:CDS
TGTATCCTCATACAACTTCA+AGG 0.438634 2:-29354305 MsaT008156.1:CDS
AAGCTTCTCTGCTTCATCAA+TGG 0.443492 2:-29353446 MsaT008156.1:CDS
CTTCTACATCTACCTGGCTC+TGG 0.445022 2:+29354627 None:intergenic
TGGATGGAACTATCTGCAAA+TGG 0.447963 2:-29354670 MsaT008156.1:CDS
TCGATTTCGATTCCATCCTC+TGG 0.461357 2:-29353169 MsaT008156.1:CDS
CTTCCACAGGCTTTCTTGAA+CGG 0.472599 2:+29354520 None:intergenic
TATCCTCAAAATTCTTGCTA+TGG 0.474491 2:-29354351 MsaT008156.1:CDS
CATTGATCTCTCCCTTTATG+TGG 0.488068 2:+29353229 None:intergenic
GTTGACCTTGAAGTTGTATG+AGG 0.489086 2:+29354300 None:intergenic
AAAAGGAACAGGTATGTGTA+TGG 0.489899 2:-29353532 MsaT008156.1:intron
CTAATGGTGAAAAGAAGATC+AGG 0.491170 2:+29355396 None:intergenic
AGTTGTATGAGGATACATAA+AGG 0.504350 2:+29354311 None:intergenic
GTATTTCTAGAAGTGAAAGT+TGG 0.508645 2:+29353136 None:intergenic
AGAAAGATAGATCCAGAGCC+AGG 0.511253 2:-29354639 MsaT008156.1:CDS
GGATGGAACTATCTGCAAAT+GGG 0.512539 2:-29354669 MsaT008156.1:CDS
CATCAATGGAACATGATCCT+TGG 0.521187 2:-29353432 MsaT008156.1:CDS
AGCTCTTATTTACAAGTACA+TGG 0.521532 2:-29355439 MsaT008156.1:CDS
CAAAGAAGTAGAAGATGATG+AGG 0.529690 2:+29353381 None:intergenic
CACATAAAGGGAGAGATCAA+TGG 0.535742 2:-29353228 MsaT008156.1:CDS
GTAAGTGGTGTTAGTTGCCA+AGG 0.556427 2:+29353415 None:intergenic
GGTAGATGTAGAAGAACAGA+TGG 0.565829 2:-29354618 MsaT008156.1:CDS
TCAAGTTCTTGCCATTGTGA+TGG 0.567945 2:+29355468 None:intergenic
AAGAATTAGTTAATGATGCA+GGG 0.570085 2:+29354412 None:intergenic
GAGGAAGAACTCATAGTAAG+TGG 0.573735 2:+29353400 None:intergenic
TCTGTTCTTCTACATCTACC+TGG 0.588963 2:+29354621 None:intergenic
GCTGCTTTGAGTGTTCACTA+AGG 0.590411 2:+29353302 None:intergenic
TGTGAAAGACACATGCATAG+AGG 0.590712 2:-29354549 MsaT008156.1:CDS
GGAAAATCATGACCAGAGGA+TGG 0.595251 2:+29353157 None:intergenic
TTCATAGTACTGCTACCAGA+AGG 0.597595 2:+29353469 None:intergenic
TTCACTTCTAGAAATACCCA+TGG 0.600872 2:-29353130 MsaT008156.1:intron
AGAATTGCTATCAAGAAACA+AGG 0.601977 2:+29354233 None:intergenic
ATGGTGAAAAGAAGATCAGG+TGG 0.634192 2:+29355399 None:intergenic
AATCGAAATCGATAATTGAG+TGG 0.635985 2:+29353180 None:intergenic
AGAGAAAGGACTTACAGTGT+TGG 0.638023 2:+29355319 None:intergenic
AAACCGTTCAAGAAAGCCTG+TGG 0.641388 2:-29354523 MsaT008156.1:CDS
AGTTGGAAAATCATGACCAG+AGG 0.663324 2:+29353153 None:intergenic
GAATTGCTATCAAGAAACAA+GGG 0.694882 2:+29354234 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 29352779 29355520 29352779 ID=MsaG008156
Chr2 mRNA 29352779 29355520 29352779 ID=MsaT008156.1;Parent=MsaG008156
Chr2 exon 29352779 29352786 29352779 ID=MsaT008156.1.exon4;Parent=MsaT008156.1
Chr2 CDS 29352779 29352786 29352779 ID=cds.MsaT008156.1;Parent=MsaT008156.1
Chr2 exon 29353131 29353549 29353131 ID=MsaT008156.1.exon3;Parent=MsaT008156.1
Chr2 CDS 29353131 29353549 29353131 ID=cds.MsaT008156.1;Parent=MsaT008156.1
Chr2 exon 29354207 29354693 29354207 ID=MsaT008156.1.exon2;Parent=MsaT008156.1
Chr2 CDS 29354207 29354693 29354207 ID=cds.MsaT008156.1;Parent=MsaT008156.1
Chr2 exon 29355334 29355520 29355334 ID=MsaT008156.1.exon1;Parent=MsaT008156.1
Chr2 CDS 29355334 29355520 29355334 ID=cds.MsaT008156.1;Parent=MsaT008156.1
Gene Sequence

>MsaT008156.1

ATGATGAACAAGAACAAGTTTCCTTTTACTCCATCACAATGGCAAGAACTTGAACATCAAGCTCTTATTTACAAGTACATGGCTTCTGGTATATCTATTCCACCTGATCTTCTTTTCACCATTAGAAAAAGCTATTTGGACTCTCCTCTTTCTTCAAGACTTTTTCCTAATCAACAACACCAACACTTTGGATGGAACTATCTGCAAATGGGTTTAGGAAGAAAGATAGATCCAGAGCCAGGTAGATGTAGAAGAACAGATGGAAAGAAATGGAGATGTTCAAAAGAAGCATATCCAGATTCTAAATATTGTGAAAGACACATGCATAGAGGAAAAAACCGTTCAAGAAAGCCTGTGGAAGTTGTTAAAACTACAACAACAACAACAACAAATACAAATATTAATAATGCTTCATCACTTGGAATTTCATCACTTACCAAAAATAGCCCTGCATCATTAACTAATTCTTCTTCTTTGTCTTTTGAGACTCAACAACATCACCAAAACTATCCTCAAAATTCTTGCTATGGTTCCAATTTGCAACAATCCTTTATGTATCCTCATACAACTTCAAGGTCAACTTTGTCATCTGGTATTGGTTTGTCTTTTGAAGACAATAGTGCTCCCTTGTTTCTTGATAGCAATTCTTGCTCTCAGAATAACACTGATTACAGGAACAGGTATGTGTATGGACAAAAAGAAGAGGTGGATGAGTATGCATTCTTCAAAGAACCTTCTGGTAGCAGTACTATGAAAAGCTTCTCTGCTTCATCAATGGAACATGATCCTTGGCAACTAACACCACTTACTATGAGTTCTTCCTCATCATCTTCTACTTCTTTGAGACAGAGAAGCTTTTCAGCGTTGTCGAATGATTACTCTTGCTTGCAACTTCAGAGCCTTAGTGAACACTCAAAGCAGCATGAGCAAGATGAACCTCAGAAAACTGTTCATCGCTTCTTTGATGAATGGCCACATAAAGGGAGAGATCAATGGCTTGATTTGGATGATAAATCATCTACCACTCAATTATCGATTTCGATTCCATCCTCTGGTCATGATTTTCCAACTTTCACTTCTAGAAATACCCATGATGGTTGA
Protein sequence

>MsaT008156.1

MMNKNKFPFTPSQWQELEHQALIYKYMASGISIPPDLLFTIRKSYLDSPLSSRLFPNQQHQHFGWNYLQMGLGRKIDPEPGRCRRTDGKKWRCSKEAYPDSKYCERHMHRGKNRSRKPVEVVKTTTTTTTNTNINNASSLGISSLTKNSPASLTNSSSLSFETQQHHQNYPQNSCYGSNLQQSFMYPHTTSRSTLSSGIGLSFEDNSAPLFLDSNSCSQNNTDYRNRYVYGQKEEVDEYAFFKEPSGSSTMKSFSASSMEHDPWQLTPLTMSSSSSSSTSLRQRSFSALSNDYSCLQLQSLSEHSKQHEQDEPQKTVHRFFDEWPHKGRDQWLDLDDKSSTTQLSISIPSSGHDFPTFTSRNTHDG*