AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040032

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040032 MtrunA17_Chr7g0265291 99.515 206 1 0 16 221 1 206 1.09e-154 427
MsaG040032 MtrunA17_Chr1g0179781 78.431 204 41 2 16 218 1 202 2.89e-114 325
MsaG040032 MtrunA17_Chr5g0395181 56.098 205 81 4 17 221 16 211 2.14e-76 229
MsaG040032 MtrunA17_Chr5g0411151 58.000 200 78 3 22 218 35 231 3.35e-75 227
MsaG040032 MtrunA17_Chr4g0040071 55.392 204 75 6 22 218 15 209 6.59e-74 223
MsaG040032 MtrunA17_Chr8g0366581 58.333 204 71 5 22 218 33 229 5.02e-73 221
MsaG040032 MtrunA17_Chr2g0320521 39.076 238 97 9 19 217 3 231 1.47e-43 146
MsaG040032 MtrunA17_Chr4g0020811 50.000 146 61 6 16 152 1 143 1.00e-38 131
MsaG040032 MtrunA17_Chr2g0308401 48.951 143 62 5 19 152 1 141 1.46e-38 130
MsaG040032 MtrunA17_Chr2g0297251 35.242 227 112 5 22 218 37 258 3.75e-36 127
MsaG040032 MtrunA17_Chr2g0320561 47.651 149 67 4 19 158 1 147 1.08e-35 126
MsaG040032 MtrunA17_Chr2g0320551 47.183 142 64 3 19 151 1 140 2.06e-35 123
MsaG040032 MtrunA17_Chr7g0230511 42.754 138 74 3 20 157 7 139 2.66e-34 122
MsaG040032 MtrunA17_Chr4g0065041 42.647 136 74 1 22 157 8 139 1.31e-32 118
MsaG040032 MtrunA17_Chr8g0386511 33.333 159 93 4 63 217 4 153 5.40e-21 85.5
MsaG040032 MtrunA17_Chr8g0392151 34.615 156 76 6 24 158 15 165 6.25e-18 79.3
MsaG040032 MtrunA17_Chr4g0052451 43.902 82 40 1 76 151 10 91 1.38e-17 75.1
MsaG040032 MtrunA17_Chr5g0434331 27.363 201 110 6 19 217 40 206 8.74e-17 75.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040032 AT1G32700.1 55.941 202 78 5 22 218 12 207 7.16e-71 215
MsaG040032 AT4G17900.2 53.659 205 76 6 22 218 20 213 2.17e-67 206
MsaG040032 AT4G17900.1 53.659 205 76 6 22 218 34 227 2.93e-67 206
MsaG040032 AT2G27930.1 54.589 207 64 4 22 219 4 189 1.69e-66 203
MsaG040032 AT2G27930.4 54.589 207 64 4 22 219 4 189 1.69e-66 203
MsaG040032 AT1G76590.1 48.918 231 80 6 22 217 18 245 1.82e-66 205
MsaG040032 AT1G21000.2 49.362 235 76 9 22 217 13 243 5.37e-66 204
MsaG040032 AT1G21000.1 49.362 235 76 9 22 217 16 246 6.43e-66 204
MsaG040032 AT1G43000.2 47.465 217 94 7 17 217 11 223 6.10e-62 193
MsaG040032 AT1G43000.1 47.465 217 94 7 17 217 4 216 7.50e-62 192
MsaG040032 AT2G27930.3 66.187 139 36 2 22 151 4 140 7.00e-59 183
MsaG040032 AT2G27930.2 66.187 139 36 2 22 151 4 140 7.00e-59 183
MsaG040032 AT1G32700.2 56.322 174 65 5 50 218 1 168 6.27e-57 178
MsaG040032 AT5G46710.3 48.259 201 96 5 22 217 12 209 6.04e-55 175
MsaG040032 AT5G46710.1 48.259 201 96 5 22 217 28 225 1.42e-54 174
MsaG040032 AT5G46710.2 57.252 131 52 3 22 151 28 155 4.16e-46 150
MsaG040032 AT2G27930.5 52.318 151 44 3 78 219 61 192 1.78e-39 134
MsaG040032 AT2G27930.6 52.318 151 44 3 78 219 61 192 1.78e-39 134
MsaG040032 AT3G60670.1 37.634 186 99 5 22 194 7 188 2.72e-33 120
MsaG040032 AT1G31040.1 34.348 230 111 7 22 217 19 242 1.37e-32 118
MsaG040032 AT2G12646.3 43.796 137 73 2 20 156 1 133 2.36e-32 118
MsaG040032 AT2G12646.1 44.444 135 71 2 22 156 6 136 2.96e-32 118
MsaG040032 AT2G12646.2 44.444 135 71 2 22 156 6 136 2.96e-32 118
MsaG040032 AT2G01818.1 31.905 210 126 4 24 217 13 221 1.30e-25 99.8
MsaG040032 AT2G01818.2 30.667 150 87 4 84 217 9 157 4.02e-12 62.4

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCATTTCGGTTCTGTTCTT+TGG 0.144073 7:-95911368 MsaT040032.1:CDS
GCTACTCCTTTCCCAGATTT+TGG 0.169958 7:+95911427 None:intergenic
TTTCTTCTCCTTGCATTTAA+AGG 0.172328 7:+95910194 None:intergenic
TCATTTCGGTTCTGTTCTTT+GGG 0.305955 7:-95911367 MsaT040032.1:CDS
TTACTACCTGAATGACTTGA+TGG 0.329584 7:+95911844 None:intergenic
GTTAGGCCTCAACCAAAATC+TGG 0.351742 7:-95911439 MsaT040032.1:CDS
CAAAGACCATCAAGTCATTC+AGG 0.358735 7:-95911850 MsaT040032.1:intron
GAAGAAAAGGTATACCTCAT+AGG 0.379000 7:-95910178 MsaT040032.1:CDS
ATACCTCATAGGGCACCTTT+TGG 0.387290 7:-95910167 MsaT040032.1:CDS
GTTCTGTTCTTTGGGTTGTA+AGG 0.391861 7:-95911359 MsaT040032.1:intron
TGGAGATGCAAGCTTTGCTT+TGG 0.396373 7:-95910327 MsaT040032.1:CDS
GGAGCTTGTTGGATTCATTT+CGG 0.401131 7:-95911381 MsaT040032.1:CDS
ACACAGTGTTGGTGCCTCCT+TGG 0.407393 7:-95912013 MsaT040032.1:CDS
CTCCTTGCATTTAAAGGAGG+TGG 0.416107 7:+95910200 None:intergenic
CAGAAAGTGTTGGACATTAG+TGG 0.416506 7:-95911508 MsaT040032.1:CDS
GGAGGTGGAGGAGGCGTGAG+AGG 0.445087 7:+95910215 None:intergenic
GCTCACATTTGTGAGATTTG+TGG 0.456800 7:-95911406 MsaT040032.1:CDS
AGATGCAAGCTTTGCTTTGG+AGG 0.464996 7:-95910324 MsaT040032.1:CDS
GCTTTGGAGGGTAAGAATGA+AGG 0.469335 7:-95910311 MsaT040032.1:CDS
TTAAATGCAAGGAGAAGAAA+AGG 0.487088 7:-95910191 MsaT040032.1:CDS
TTCAACAATGGTTCAAGCCA+AGG 0.490118 7:+95911996 None:intergenic
GCATTTAAAGGAGGTGGAGG+AGG 0.494494 7:+95910206 None:intergenic
CTTCTCCTTGCATTTAAAGG+AGG 0.503493 7:+95910197 None:intergenic
AATGAAGGATTGACAATGGA+AGG 0.518953 7:-95910296 MsaT040032.1:CDS
AAGAAAAGGTATACCTCATA+GGG 0.519252 7:-95910177 MsaT040032.1:CDS
GATGCAAGCTTTGCTTTGGA+GGG 0.525049 7:-95910323 MsaT040032.1:CDS
GATTTGTGGAAGGAGCTTGT+TGG 0.527361 7:-95911392 MsaT040032.1:CDS
GAAGGAATCCCATTAGAATG+AGG 0.534651 7:+95910142 None:intergenic
CTCCACCTCCTTTAAATGCA+AGG 0.542768 7:-95910202 MsaT040032.1:CDS
CTTGCATTTAAAGGAGGTGG+AGG 0.548902 7:+95910203 None:intergenic
TTAGGCCTCAACCAAAATCT+GGG 0.556600 7:-95911438 MsaT040032.1:CDS
CATTAGAATGAGGAACCAAA+AGG 0.564563 7:+95910152 None:intergenic
GAACCAAAAGGTGCCCTATG+AGG 0.572485 7:+95910164 None:intergenic
TAAGAATGAAGGATTGACAA+TGG 0.573703 7:-95910300 MsaT040032.1:CDS
GTCAGAGATTCAGAAAGTGT+TGG 0.588527 7:-95911518 MsaT040032.1:CDS
TATTGCTTAGATTGCAACAA+TGG 0.589105 7:-95911912 MsaT040032.1:CDS
CCTCAACCAAAATCTGGGAA+AGG 0.603599 7:-95911433 MsaT040032.1:CDS
ACATTTGTGAGATTTGTGGA+AGG 0.623549 7:-95911402 MsaT040032.1:CDS
AACAATGGTTCAAGCCAAGG+AGG 0.647379 7:+95911999 None:intergenic
TTAGATTGCAACAATGGTGA+TGG 0.649321 7:-95911906 MsaT040032.1:CDS
TTTGAAACAGGACACAGTGT+TGG 0.663854 7:-95912024 MsaT040032.1:intron
TCAGAAGAAGAATTGCGTGA+AGG 0.679765 7:-95910257 MsaT040032.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 95910154 95912147 95910154 ID=MsaG040032
Chr7 mRNA 95910154 95912147 95910154 ID=MsaT040032.1;Parent=MsaG040032
Chr7 exon 95910154 95910369 95910154 ID=MsaT040032.1.exon4;Parent=MsaT040032.1
Chr7 CDS 95910154 95910369 95910154 ID=cds.MsaT040032.1;Parent=MsaT040032.1
Chr7 exon 95911360 95911575 95911360 ID=MsaT040032.1.exon3;Parent=MsaT040032.1
Chr7 CDS 95911360 95911575 95911360 ID=cds.MsaT040032.1;Parent=MsaT040032.1
Chr7 exon 95911851 95912036 95911851 ID=MsaT040032.1.exon2;Parent=MsaT040032.1
Chr7 CDS 95911851 95912036 95911851 ID=cds.MsaT040032.1;Parent=MsaT040032.1
Chr7 exon 95912100 95912147 95912100 ID=MsaT040032.1.exon1;Parent=MsaT040032.1
Chr7 CDS 95912100 95912147 95912100 ID=cds.MsaT040032.1;Parent=MsaT040032.1
Gene Sequence

>MsaT040032.1

ATGGTATTTAAGTATTTATTTATATATTTTTTTCTTCATTTTTTTGTGGACACAGTGTTGGTGCCTCCTTGGCTTGAACCATTGTTGAAAACACCGTTTTTCAACATTTGTCGGATTCACGCTGATGCAGCTAGAAATGAGTGTAACATGTATTGCTTAGATTGCAACAATGGTGATGGTGCTTTTTGCTTTTATTGTCGTTCTTCAAGACACAAAGACCATCAAGTCATTCAGATAAGAAGATCTTCATATCATGATGTAGTTCGTGTGTCAGAGATTCAGAAAGTGTTGGACATTAGTGGAGTGCAAACATATGTGATAAACAGTGCTAGAGTTTTGTTCTTGAATGTTAGGCCTCAACCAAAATCTGGGAAAGGAGTAGCTCACATTTGTGAGATTTGTGGAAGGAGCTTGTTGGATTCATTTCGGTTCTGTTCTTTGGGTTGTAAGCTTGAAAGAATAAAGAAAAATGGAGATGCAAGCTTTGCTTTGGAGGGTAAGAATGAAGGATTGACAATGGAAGGAGTGTCAAGTAGTAGATCAGAAGAAGAATTGCGTGAAGGCTCAACACAAGATATGTATCCTCTCACGCCTCCTCCACCTCCTTTAAATGCAAGGAGAAGAAAAGGTATACCTCATAGGGCACCTTTTGGTTCCTCATTCTAA
Protein sequence

>MsaT040032.1

MVFKYLFIYFFLHFFVDTVLVPPWLEPLLKTPFFNICRIHADAARNECNMYCLDCNNGDGAFCFYCRSSRHKDHQVIQIRRSSYHDVVRVSEIQKVLDISGVQTYVINSARVLFLNVRPQPKSGKGVAHICEICGRSLLDSFRFCSLGCKLERIKKNGDASFALEGKNEGLTMEGVSSSRSEEELREGSTQDMYPLTPPPPPLNARRRKGIPHRAPFGSSF*