AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene48263

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene48263.t1 MTR_5g045770 89.796 147 15 0 1 147 153 299 3.04e-91 275
MS.gene48263.t1 MTR_4g025970 88.514 148 16 1 1 147 153 300 2.99e-88 267
MS.gene48263.t1 MTR_4g025950 88.194 144 16 1 1 143 153 296 6.55e-87 258
MS.gene48263.t1 MTR_4g025980 74.000 150 38 1 1 150 154 302 1.49e-71 224
MS.gene48263.t1 MTR_4g026070 75.524 143 35 0 1 143 153 295 2.60e-66 205
MS.gene48263.t1 MTR_5g023680 70.667 150 44 0 1 150 129 278 1.70e-65 207
MS.gene48263.t1 MTR_4g026050 68.707 147 46 0 1 147 153 299 9.36e-65 206
MS.gene48263.t1 MTR_4g026030 68.667 150 47 0 1 150 1 150 7.97e-63 197
MS.gene48263.t1 MTR_4g026200 72.000 150 42 0 1 150 153 302 1.18e-62 201
MS.gene48263.t1 MTR_7g012330 55.629 151 66 1 1 150 158 308 1.42e-54 180
MS.gene48263.t1 MTR_7g012860 55.629 151 66 1 1 150 157 307 1.87e-52 174
MS.gene48263.t1 MTR_0287s0060 55.629 151 66 1 1 150 157 307 1.87e-52 174
MS.gene48263.t1 MTR_5g072980 48.408 157 73 3 1 152 157 310 1.23e-43 151
MS.gene48263.t1 MTR_5g072930 48.408 157 73 3 1 152 157 310 1.23e-43 151
MS.gene48263.t1 MTR_5g073020 45.395 152 81 2 1 150 157 308 5.68e-40 141
MS.gene48263.t1 MTR_1g023730 45.679 162 76 4 1 150 156 317 2.27e-38 137
MS.gene48263.t1 MTR_1g023720 43.827 162 79 3 1 150 156 317 4.63e-37 134
MS.gene48263.t1 MTR_1g023700 41.358 162 83 4 1 150 157 318 2.10e-36 132
MS.gene48263.t1 MTR_4g089030 36.478 159 89 6 2 154 175 327 2.29e-24 99.0
MS.gene48263.t1 MTR_4g104550 33.553 152 95 4 1 150 151 298 5.03e-24 97.8
MS.gene48263.t1 MTR_4g089055 36.806 144 81 4 16 154 187 325 3.69e-23 95.5
MS.gene48263.t1 MTR_4g089020 36.111 144 82 4 16 154 165 303 5.27e-22 92.0
MS.gene48263.t1 MTR_4g104540 34.437 151 91 5 2 150 93 237 1.06e-21 90.9
MS.gene48263.t1 MTR_4g104610 32.716 162 92 6 1 150 151 307 4.26e-20 86.7
MS.gene48263.t1 MTR_3g076530 32.168 143 90 3 16 155 176 314 6.65e-19 83.6
MS.gene48263.t1 MTR_4g089025 32.278 158 99 4 1 154 175 328 9.10e-19 83.2
MS.gene48263.t1 MTR_4g104640 33.333 138 87 2 16 150 188 323 1.23e-18 82.8
MS.gene48263.t1 MTR_4g104660 31.410 156 96 5 1 150 169 319 2.48e-17 79.0
MS.gene48263.t1 MTR_3g076560 31.852 135 87 2 16 150 192 321 4.47e-17 78.2
MS.gene48263.t1 MTR_5g021390 32.927 164 88 5 2 152 167 321 6.30e-16 74.7
MS.gene48263.t1 MTR_0022s0290 31.902 163 94 6 1 150 164 322 6.48e-16 74.7
MS.gene48263.t1 MTR_3g076550 31.387 137 91 2 9 143 168 303 3.10e-15 72.8
MS.gene48263.t1 MTR_0638s0020 28.369 141 100 1 9 149 95 234 3.47e-15 72.8
MS.gene48263.t1 MTR_2g065360 26.667 150 109 1 1 150 130 278 5.71e-15 72.0
MS.gene48263.t1 MTR_3g025260 29.193 161 106 4 1 155 155 313 3.94e-14 69.7
MS.gene48263.t1 MTR_3g058240 28.205 156 101 3 1 151 125 274 2.44e-13 67.4
MS.gene48263.t1 MTR_6g462640 29.054 148 94 3 1 143 159 300 4.98e-13 66.6
MS.gene48263.t1 MTR_5g073230 27.451 153 102 4 1 151 151 296 6.20e-13 66.2
MS.gene48263.t1 MTR_8g076290 29.630 162 97 6 1 151 157 312 9.37e-13 65.9
MS.gene48263.t1 MTR_1g035190 26.282 156 102 5 1 150 144 292 1.43e-12 65.1
MS.gene48263.t1 MTR_5g094840 29.139 151 100 3 1 150 168 312 2.08e-12 64.7
MS.gene48263.t1 MTR_4g048580 26.389 144 100 3 9 151 169 307 7.58e-12 63.2
MS.gene48263.t1 MTR_3g058210 28.667 150 96 4 1 145 161 304 1.38e-11 62.4
MS.gene48263.t1 MTR_3g058400 25.806 155 105 3 1 151 161 309 2.16e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene48263.t1 AT4G31500 40.000 150 89 1 1 150 153 301 5.68e-33 122
MS.gene48263.t1 AT4G13770 34.000 150 98 1 1 150 154 302 1.90e-28 110
MS.gene48263.t1 AT5G57260 37.500 152 90 3 1 149 153 302 2.20e-26 104
MS.gene48263.t1 AT3G48310 33.784 148 88 3 10 156 162 300 4.32e-22 92.4
MS.gene48263.t1 AT3G48270 33.094 139 85 2 12 150 163 293 1.78e-21 90.9
MS.gene48263.t1 AT3G26290 30.921 152 99 3 1 149 154 302 5.56e-21 89.4
MS.gene48263.t1 AT3G26290 30.921 152 99 3 1 149 167 315 5.82e-21 89.4
MS.gene48263.t1 AT3G26330 37.013 154 87 4 1 149 154 302 8.79e-21 89.0
MS.gene48263.t1 AT3G48320 32.432 148 90 3 10 156 162 300 1.04e-20 88.6
MS.gene48263.t1 AT3G26320 34.416 154 91 4 1 149 154 302 2.56e-20 87.4
MS.gene48263.t1 AT3G26300 34.868 152 93 3 1 149 154 302 3.86e-20 87.0
MS.gene48263.t1 AT4G20235 41.000 100 58 1 5 104 4 102 2.54e-19 80.1
MS.gene48263.t1 AT3G48280 28.571 147 98 2 10 156 160 299 2.91e-19 84.3
MS.gene48263.t1 AT3G26310 32.237 152 97 3 1 149 153 301 6.95e-19 83.6
MS.gene48263.t1 AT3G26190 31.818 154 98 5 1 149 151 302 2.05e-18 82.0
MS.gene48263.t1 AT1G13110 30.519 154 101 4 1 149 155 307 5.48e-18 80.9
MS.gene48263.t1 AT3G48300 33.099 142 85 4 10 150 159 291 1.40e-17 79.7
MS.gene48263.t1 AT3G48300 33.099 142 85 4 10 150 161 293 1.41e-17 79.7
MS.gene48263.t1 AT3G26200 29.870 154 101 5 1 149 151 302 1.67e-17 79.3
MS.gene48263.t1 AT2G02580 32.895 152 96 3 1 149 154 302 4.47e-17 78.2
MS.gene48263.t1 AT3G26160 33.548 155 95 5 1 149 153 305 6.65e-17 77.8
MS.gene48263.t1 AT3G48290 30.612 147 94 3 10 156 163 301 7.29e-17 77.4
MS.gene48263.t1 AT3G26170 31.613 155 98 5 1 149 153 305 4.27e-16 75.5
MS.gene48263.t1 AT4G13310 32.026 153 96 4 1 150 155 302 7.28e-16 74.3
MS.gene48263.t1 AT4G13310 32.026 153 96 4 1 150 155 302 9.00e-16 74.3
MS.gene48263.t1 AT3G48290 31.034 145 90 4 10 154 163 297 1.01e-15 74.3
MS.gene48263.t1 AT3G44250 30.667 150 96 5 3 149 157 301 1.20e-15 73.9
MS.gene48263.t1 AT3G26210 30.065 153 101 5 1 149 154 304 1.49e-15 73.9
MS.gene48263.t1 AT5G25180 30.405 148 95 4 5 149 156 298 2.33e-15 73.2
MS.gene48263.t1 AT3G26150 32.258 155 97 5 1 149 153 305 2.50e-15 73.2
MS.gene48263.t1 AT5G25140 31.544 149 92 5 5 149 156 298 2.64e-15 73.2
MS.gene48263.t1 AT3G26180 31.169 154 100 5 1 149 153 305 4.68e-15 72.4
MS.gene48263.t1 AT2G24180 29.927 137 91 3 16 149 174 308 8.25e-15 71.6
MS.gene48263.t1 AT5G24950 27.333 150 105 2 1 150 155 300 8.61e-15 71.6
MS.gene48263.t1 AT4G13290 32.061 131 79 4 1 127 156 280 1.00e-14 71.2
MS.gene48263.t1 AT1G13080 29.677 155 100 4 1 149 36 187 2.61e-14 70.1
MS.gene48263.t1 AT1G13080 29.677 155 100 4 1 149 154 305 3.79e-14 69.7
MS.gene48263.t1 AT3G26830 29.870 154 98 4 2 149 152 301 2.00e-13 67.8
MS.gene48263.t1 AT1G13100 28.387 155 104 4 1 149 148 301 7.28e-13 66.2
MS.gene48263.t1 AT1G13090 28.477 151 104 3 2 149 152 301 1.13e-12 65.5
MS.gene48263.t1 AT1G13090 29.167 144 98 3 2 142 152 294 2.60e-12 63.9
MS.gene48263.t1 AT1G11610 25.197 127 90 2 1 127 156 277 3.27e-12 64.3
MS.gene48263.t1 AT1G11610 25.197 127 90 2 1 127 156 277 3.32e-12 64.3
MS.gene48263.t1 AT3G53300 27.451 153 106 5 1 149 151 302 4.30e-12 63.9
MS.gene48263.t1 AT2G30770 27.559 127 87 2 1 127 156 277 1.17e-11 62.4
MS.gene48263.t1 AT2G30750 26.154 130 91 2 21 150 176 300 2.02e-11 62.0

Find 32 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGAATGTTGCATGAGTTTC+AGG 0.195957 4.2:+77209304 MS.gene48263:CDS
TCAACATATCGTATTCTAAA+TGG 0.268142 4.2:-77209804 None:intergenic
GGAGGTTATTGATGAACATT+TGG 0.350779 4.2:+77209445 MS.gene48263:CDS
TCCTTGGAATTTACTCCTCT+TGG 0.361782 4.2:-77209285 None:intergenic
AAACAAATATATTATGGGTA+TGG 0.383469 4.2:+77209767 MS.gene48263:CDS
ATAATTTGTGGGATTGCTTT+CGG 0.395059 4.2:+77209239 MS.gene48263:CDS
TGATCAAAAGTAAGATCAAT+TGG 0.402322 4.2:-77209545 None:intergenic
GAAACTCATGCAACATTCCT+TGG 0.405822 4.2:-77209301 None:intergenic
TTCTGATTATATTCCATTCA+CGG 0.406563 4.2:+77209349 MS.gene48263:CDS
GGTTGGATTGATAAACTATC+TGG 0.423474 4.2:+77209371 MS.gene48263:CDS
CTCTCCAGCACAATAATTTG+TGG 0.425789 4.2:+77209227 MS.gene48263:CDS
TCATCTCCATGTGTTCTACT+TGG 0.431289 4.2:-77209470 None:intergenic
ATTATATTCCATTCACGGGT+TGG 0.433388 4.2:+77209354 MS.gene48263:CDS
TCGTATTCTAAATGGAGGTT+TGG 0.436698 4.2:-77209796 None:intergenic
AACAAATATATTATGGGTAT+GGG 0.466285 4.2:+77209768 MS.gene48263:CDS
TTATCAATCCAACCCGTGAA+TGG 0.473255 4.2:-77209362 None:intergenic
TGCTTTCGGTAGGAGGTATG+AGG 0.479101 4.2:+77209253 MS.gene48263:CDS
TCTGATTATATTCCATTCAC+GGG 0.489810 4.2:+77209350 MS.gene48263:CDS
TCTCCAGCACAATAATTTGT+GGG 0.491882 4.2:+77209228 MS.gene48263:CDS
GTGGGATTGCTTTCGGTAGG+AGG 0.524765 4.2:+77209246 MS.gene48263:CDS
AATGTTCATCAATAACCTCC+TGG 0.531237 4.2:-77209442 None:intergenic
AATCCCACAAATTATTGTGC+TGG 0.550967 4.2:-77209231 None:intergenic
ACATATCGTATTCTAAATGG+AGG 0.574780 4.2:-77209801 None:intergenic
GGTAGGAGGTATGAGGATGA+AGG 0.592206 4.2:+77209260 MS.gene48263:CDS
TCACATTAAAGGAGTCCTCA+TGG 0.609600 4.2:+77209565 MS.gene48263:CDS
AACACATGGAGATGATGAAG+AGG 0.612152 4.2:+77209478 MS.gene48263:CDS
TTTGTGGGATTGCTTTCGGT+AGG 0.617344 4.2:+77209243 MS.gene48263:CDS
TTCGTTCGAGACGTGCACAA+AGG 0.619924 4.2:-77209394 None:intergenic
ACCAAGAGGAGTAAATTCCA+AGG 0.627458 4.2:+77209284 MS.gene48263:CDS
TTGGATCCAAGTAGAACACA+TGG 0.656985 4.2:+77209464 MS.gene48263:CDS
AACAAAGAAAGCTATCAACA+AGG 0.696327 4.2:-77209327 None:intergenic
ATGAGGATGAAGGAACCAAG+AGG 0.706453 4.2:+77209270 MS.gene48263:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTAAAATAAAACCAAAT+TGG - chr4.2:77209598-77209617 None:intergenic 15.0%
!! ATCCAAAAACAAATATATTA+TGG + chr4.2:77209761-77209780 MS.gene48263:CDS 15.0%
!! TCCAAAAACAAATATATTAT+GGG + chr4.2:77209762-77209781 MS.gene48263:CDS 15.0%
!!! ATTTGGTTTTATTTTAGTTT+TGG + chr4.2:77209598-77209617 MS.gene48263:intron 15.0%
!! AAACAAATATATTATGGGTA+TGG + chr4.2:77209767-77209786 MS.gene48263:CDS 20.0%
!! AACAAATATATTATGGGTAT+GGG + chr4.2:77209768-77209787 MS.gene48263:CDS 20.0%
!!! ACCCATAATATATTTGTTTT+TGG - chr4.2:77209766-77209785 None:intergenic 20.0%
! ACAAATAAATGTATCTCTTG+TGG + chr4.2:77209715-77209734 MS.gene48263:intron 25.0%
! TCAACATATCGTATTCTAAA+TGG - chr4.2:77209807-77209826 None:intergenic 25.0%
! TGATCAAAAGTAAGATCAAT+TGG - chr4.2:77209548-77209567 None:intergenic 25.0%
! TTCTGATTATATTCCATTCA+CGG + chr4.2:77209349-77209368 MS.gene48263:CDS 25.0%
!!! CTTACTTTTGATCACATTAA+AGG + chr4.2:77209554-77209573 MS.gene48263:CDS 25.0%
AACAAAGAAAGCTATCAACA+AGG - chr4.2:77209330-77209349 None:intergenic 30.0%
ACATATCGTATTCTAAATGG+AGG - chr4.2:77209804-77209823 None:intergenic 30.0%
TCTGATTATATTCCATTCAC+GGG + chr4.2:77209350-77209369 MS.gene48263:CDS 30.0%
! ATAATTTGTGGGATTGCTTT+CGG + chr4.2:77209239-77209258 MS.gene48263:CDS 30.0%
AATCCCACAAATTATTGTGC+TGG - chr4.2:77209234-77209253 None:intergenic 35.0%
AATGTTCATCAATAACCTCC+TGG - chr4.2:77209445-77209464 None:intergenic 35.0%
ATTATATTCCATTCACGGGT+TGG + chr4.2:77209354-77209373 MS.gene48263:CDS 35.0%
CAAATTGGAAACATACCATG+AGG - chr4.2:77209583-77209602 None:intergenic 35.0%
CTCATGGTATGTTTCCAATT+TGG + chr4.2:77209581-77209600 MS.gene48263:intron 35.0%
GGAGGTTATTGATGAACATT+TGG + chr4.2:77209445-77209464 MS.gene48263:CDS 35.0%
GGTTGGATTGATAAACTATC+TGG + chr4.2:77209371-77209390 MS.gene48263:CDS 35.0%
TCGTATTCTAAATGGAGGTT+TGG - chr4.2:77209799-77209818 None:intergenic 35.0%
! ACGTCTCGAACGAAATTTTA+AGG + chr4.2:77209403-77209422 MS.gene48263:CDS 35.0%
! TCTCCAGCACAATAATTTGT+GGG + chr4.2:77209228-77209247 MS.gene48263:CDS 35.0%
!! CGAACGAAATTTTAAGGAGA+TGG + chr4.2:77209409-77209428 MS.gene48263:CDS 35.0%
!! CTTGCATGAAGTTGATGTAA+TGG - chr4.2:77209631-77209650 None:intergenic 35.0%
AACACATGGAGATGATGAAG+AGG + chr4.2:77209478-77209497 MS.gene48263:CDS 40.0%
ACCAAGAGGAGTAAATTCCA+AGG + chr4.2:77209284-77209303 MS.gene48263:CDS 40.0%
AGGAATGTTGCATGAGTTTC+AGG + chr4.2:77209304-77209323 MS.gene48263:CDS 40.0%
CTCTCCAGCACAATAATTTG+TGG + chr4.2:77209227-77209246 MS.gene48263:CDS 40.0%
GAAACTCATGCAACATTCCT+TGG - chr4.2:77209304-77209323 None:intergenic 40.0%
TCACATTAAAGGAGTCCTCA+TGG + chr4.2:77209565-77209584 MS.gene48263:CDS 40.0%
TCATCTCCATGTGTTCTACT+TGG - chr4.2:77209473-77209492 None:intergenic 40.0%
TCCTTGGAATTTACTCCTCT+TGG - chr4.2:77209288-77209307 None:intergenic 40.0%
TTATCAATCCAACCCGTGAA+TGG - chr4.2:77209365-77209384 None:intergenic 40.0%
TTGGATCCAAGTAGAACACA+TGG + chr4.2:77209464-77209483 MS.gene48263:CDS 40.0%
ATGAGGATGAAGGAACCAAG+AGG + chr4.2:77209270-77209289 MS.gene48263:CDS 45.0%
TTTGTGGGATTGCTTTCGGT+AGG + chr4.2:77209243-77209262 MS.gene48263:CDS 45.0%
! GATGGATGAGTTTTACCAGG+AGG + chr4.2:77209427-77209446 MS.gene48263:CDS 45.0%
! GGAGATGGATGAGTTTTACC+AGG + chr4.2:77209424-77209443 MS.gene48263:CDS 45.0%
TTCGTTCGAGACGTGCACAA+AGG - chr4.2:77209397-77209416 None:intergenic 50.0%
! GGTAGGAGGTATGAGGATGA+AGG + chr4.2:77209260-77209279 MS.gene48263:CDS 50.0%
! TGCTTTCGGTAGGAGGTATG+AGG + chr4.2:77209253-77209272 MS.gene48263:CDS 50.0%
GTGGGATTGCTTTCGGTAGG+AGG + chr4.2:77209246-77209265 MS.gene48263:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 77209158 77209845 77209158 ID=MS.gene48263
chr4.2 mRNA 77209158 77209845 77209158 ID=MS.gene48263.t1;Parent=MS.gene48263
chr4.2 exon 77209158 77209586 77209158 ID=MS.gene48263.t1.exon1;Parent=MS.gene48263.t1
chr4.2 CDS 77209158 77209586 77209158 ID=cds.MS.gene48263.t1;Parent=MS.gene48263.t1
chr4.2 exon 77209744 77209845 77209744 ID=MS.gene48263.t1.exon2;Parent=MS.gene48263.t1
chr4.2 CDS 77209744 77209845 77209744 ID=cds.MS.gene48263.t1;Parent=MS.gene48263.t1
Gene Sequence

>MS.gene48263

ATGATAAAAAATATTTCTAATCATGCTGCTTCTTCAATTCTTACAAACTTGAGTGAGATATTGACTTCTCTCTCCAGCACAATAATTTGTGGGATTGCTTTCGGTAGGAGGTATGAGGATGAAGGAACCAAGAGGAGTAAATTCCAAGGAATGTTGCATGAGTTTCAGGCCTTGTTGATAGCTTTCTTTGTTTCTGATTATATTCCATTCACGGGTTGGATTGATAAACTATCTGGCCTTTGTGCACGTCTCGAACGAAATTTTAAGGAGATGGATGAGTTTTACCAGGAGGTTATTGATGAACATTTGGATCCAAGTAGAACACATGGAGATGATGAAGAGGTCATTGTTGATGTCTTGCTACAATTGAAGAAAGAACGTTTGTTTCCAATTGATCTTACTTTTGATCACATTAAAGGAGTCCTCATGGTATGTTTCCAATTTGGTTTTATTTTAGTTTTGGTTTGAATCCATTACATCAACTTCATGCAAGAATGTTCTAGTGTAAAATTATAGTATTGTTTGCGTTGTGAACTTTTATATATTTGCGATAAAATACAAATAAATGTATCTCTTGTGGTAGCAGCGAGTCGTTGTTGCTGCATCCAAAAACAAATATATTATGGGTATGGGTGCAACCAAACCTCCATTTAGAATACGATATGTTGAAGATTCAAATATAGAATAA
Protein sequence

>MS.gene48263.t1

MIKNISNHAASSILTNLSEILTSLSSTIICGIAFGRRYEDEGTKRSKFQGMLHEFQALLIAFFVSDYIPFTGWIDKLSGLCARLERNFKEMDEFYQEVIDEHLDPSRTHGDDEEVIVDVLLQLKKERLFPIDLTFDHIKGVLMRVVVAASKNKYIMGMGATKPPFRIRYVEDSNIE