AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene82202

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene82202.t1 MTR_4g027440 86.598 388 38 6 1 385 1 377 0.0 521
MS.gene82202.t1 MTR_0160s0030 46.512 430 116 16 2 386 1 361 2.33e-82 256
MS.gene82202.t1 MTR_4g100860 35.433 381 152 12 2 361 1 308 7.81e-52 176
MS.gene82202.t1 MTR_5g012630 31.915 282 118 12 2 251 1 240 9.02e-25 102
MS.gene82202.t1 MTR_1g090703 38.667 150 71 2 229 358 156 304 1.76e-23 100
MS.gene82202.t1 MTR_4g109340 40.341 176 59 8 215 361 335 493 9.41e-23 100
MS.gene82202.t1 MTR_4g109340 45.833 72 38 1 4 75 10 80 7.33e-12 67.0
MS.gene82202.t1 MTR_1g067640 38.158 152 72 6 229 377 38 170 4.17e-21 89.7
MS.gene82202.t1 MTR_1g106730 35.135 148 80 3 211 358 68 199 4.75e-21 91.7
MS.gene82202.t1 MTR_1g067650 40.299 134 59 5 229 359 39 154 6.02e-21 89.4
MS.gene82202.t1 MTR_1g018420 43.750 128 55 3 229 354 81 193 4.79e-20 88.6
MS.gene82202.t1 MTR_4g028610 31.797 217 83 5 198 357 174 382 1.38e-18 87.4
MS.gene82202.t1 MTR_3g102980 36.496 137 71 3 221 354 78 201 2.23e-18 84.0
MS.gene82202.t1 MTR_2g084315 34.375 160 74 3 229 361 125 280 6.86e-18 83.6
MS.gene82202.t1 MTR_2g096540 45.455 99 33 2 215 313 22 99 2.22e-17 78.6
MS.gene82202.t1 MTR_7g100100 37.500 136 64 5 227 360 32 148 5.53e-17 78.2
MS.gene82202.t1 MTR_1g067660 35.915 142 67 6 229 366 35 156 2.00e-16 76.6
MS.gene82202.t1 MTR_4g057230 41.525 118 32 2 229 309 113 230 4.55e-15 75.5
MS.gene82202.t1 MTR_5g099040 38.095 105 42 2 228 309 129 233 1.04e-14 74.3
MS.gene82202.t1 MTR_1g062780 35.897 156 76 5 229 362 120 273 1.06e-14 74.3
MS.gene82202.t1 MTR_7g023560 45.783 83 29 2 229 309 40 108 1.84e-14 71.6
MS.gene82202.t1 MTR_5g062300 47.191 89 40 3 228 309 118 206 3.27e-14 72.0
MS.gene82202.t1 MTR_1g115345 44.578 83 35 3 229 309 45 118 6.30e-14 70.5
MS.gene82202.t1 MTR_3g008310 27.362 307 171 11 7 309 8 266 1.22e-13 70.9
MS.gene82202.t1 MTR_3g408420 26.168 321 173 12 7 317 8 274 1.29e-13 70.9
MS.gene82202.t1 MTR_1g077730 35.256 156 65 6 229 354 44 193 1.56e-12 66.2
MS.gene82202.t1 MTR_1g077700 32.867 143 89 3 172 309 5 145 2.10e-12 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene82202.t1 AT2G45120 38.462 377 143 13 2 360 1 306 5.50e-51 173
MS.gene82202.t1 AT1G02030 32.124 386 111 14 1 360 1 261 2.87e-36 133
MS.gene82202.t1 AT3G60580 47.761 134 48 3 227 360 171 282 1.13e-31 121
MS.gene82202.t1 AT2G28200 37.888 161 58 4 229 358 115 264 5.30e-22 95.1
MS.gene82202.t1 AT3G10470 35.359 181 68 7 229 365 182 357 2.76e-19 89.0
MS.gene82202.t1 AT1G27730 41.781 146 63 7 229 369 80 208 1.12e-18 84.7
MS.gene82202.t1 AT5G04390 34.911 169 72 5 229 359 153 321 1.58e-18 86.7
MS.gene82202.t1 AT3G19580 48.780 82 41 1 229 309 106 187 2.35e-18 84.7
MS.gene82202.t1 AT3G19580 48.780 82 41 1 229 309 106 187 2.35e-18 84.7
MS.gene82202.t1 AT5G67450 44.444 90 41 1 229 309 97 186 2.66e-18 84.0
MS.gene82202.t1 AT5G03510 31.963 219 94 6 192 358 46 261 2.81e-18 84.7
MS.gene82202.t1 AT5G61470 28.863 343 174 12 1 316 4 303 3.14e-18 84.7
MS.gene82202.t1 AT3G49930 42.105 95 52 1 215 309 80 171 9.83e-18 81.6
MS.gene82202.t1 AT5G04340 44.706 85 46 1 229 312 89 173 9.02e-17 79.3
MS.gene82202.t1 AT2G37430 34.667 150 80 4 228 377 46 177 1.29e-16 77.4
MS.gene82202.t1 AT3G53600 33.333 150 77 5 229 378 49 175 6.51e-16 75.5
MS.gene82202.t1 AT4G16610 34.302 172 84 5 1 156 1 159 9.57e-16 75.9
MS.gene82202.t1 AT2G28710 36.620 142 62 4 229 365 34 152 3.59e-15 72.8
MS.gene82202.t1 AT2G17180 45.556 90 38 3 228 309 147 233 8.31e-15 74.3
MS.gene82202.t1 AT5G59820 42.453 106 41 3 229 329 39 129 1.08e-14 71.6
MS.gene82202.t1 AT1G49900 45.238 84 36 2 229 312 750 823 1.28e-14 76.3
MS.gene82202.t1 AT1G49900 36.508 126 66 3 229 347 193 311 1.68e-14 75.9
MS.gene82202.t1 AT4G35280 45.263 95 28 3 228 309 161 244 4.15e-14 72.4
MS.gene82202.t1 AT3G46080 45.679 81 34 1 229 309 37 107 4.94e-14 70.1
MS.gene82202.t1 AT5G43170 41.667 84 34 2 229 312 75 143 2.17e-13 68.9
MS.gene82202.t1 AT3G46090 44.444 81 33 1 229 309 40 108 2.38e-13 68.2
MS.gene82202.t1 AT1G02040 40.000 100 43 2 229 311 150 249 2.11e-12 67.8
MS.gene82202.t1 AT3G46070 41.176 85 34 2 229 309 36 108 1.29e-11 63.2
MS.gene82202.t1 AT1G26610 45.946 74 25 2 285 358 397 455 4.54e-11 64.7

Find 53 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCGACGTCTTCGTCTTCT+TGG 0.155940 4.2:-75796690 None:intergenic
GAAAATTCTCTAAAACAAAT+TGG 0.308229 4.2:-75796988 None:intergenic
ATCAACTTTCTTGACCCGTT+TGG 0.374047 4.2:-75796446 None:intergenic
CATAGGAGAACACATAATAT+TGG 0.390236 4.2:+75797033 MS.gene82202:CDS
GGTGATGACTCAGTTTGTTT+TGG 0.396035 4.2:-75796214 None:intergenic
GTGAATCGAAAGCTTCGCTT+TGG 0.412150 4.2:-75796328 None:intergenic
CTCGCGAAGATAACAACATA+TGG 0.416819 4.2:+75796569 MS.gene82202:CDS
GCTTCATCTCTTTCATCCTA+TGG 0.420837 4.2:+75796292 MS.gene82202:CDS
TGGGCCAGTTGGATTCTTTG+AGG 0.421097 4.2:-75796419 None:intergenic
GAATTTGTCAAACCTCGTTA+AGG 0.433835 4.2:+75797261 MS.gene82202:CDS
TGAACAGTATAAACAACAAC+AGG 0.447158 4.2:+75796651 MS.gene82202:CDS
GGTGCTGCTCGCGGTGGTGG+TGG 0.448690 4.2:-75796238 None:intergenic
GCTGCTCGCGGTGGTGGTGG+TGG 0.452613 4.2:-75796235 None:intergenic
GTTGGTGCTGCTCGCGGTGG+TGG 0.457048 4.2:-75796241 None:intergenic
ACCAGCGTCGATGAATTGAT+TGG 0.461470 4.2:-75796356 None:intergenic
AGAACACATAATATTGGATT+CGG 0.462559 4.2:+75797039 MS.gene82202:CDS
GACGATGTTAGTCAAGTTGA+AGG 0.464054 4.2:+75797219 MS.gene82202:CDS
TGGATTCTCTCTTAGACCAT+AGG 0.471463 4.2:-75796308 None:intergenic
AACTGGCCCACGATCCAAAC+GGG 0.477505 4.2:+75796432 MS.gene82202:CDS
CGTTTGGATCGTGGGCCAGT+TGG 0.485267 4.2:-75796430 None:intergenic
GAGTCCTCAAAGAATCCAAC+TGG 0.487670 4.2:+75796415 MS.gene82202:CDS
TCTTGACCCGTTTGGATCGT+GGG 0.488842 4.2:-75796438 None:intergenic
TTCTGTACTGAGTTCTTCAT+CGG 0.493840 4.2:+75796501 MS.gene82202:CDS
TTCTTGACCCGTTTGGATCG+TGG 0.496085 4.2:-75796439 None:intergenic
CCAGCGTCGATGAATTGATT+GGG 0.505485 4.2:-75796355 None:intergenic
TCATCTTCATCCATCGGAGC+AGG 0.507025 4.2:-75797177 None:intergenic
TCGTCTTCATCTTCATCCAT+CGG 0.513325 4.2:-75797183 None:intergenic
CTTCCTCCTACCTTCTTCAA+CGG 0.516406 4.2:-75796781 None:intergenic
CAAACTATCTCCAACATTCG+CGG 0.520478 4.2:-75797139 None:intergenic
TTCTGTACTGAGTTCTTCAC+CGG 0.522365 4.2:-75796469 None:intergenic
AATAAACAAGTTGCAGAAAG+TGG 0.525050 4.2:+75796880 MS.gene82202:CDS
ACGGGTCAAGAAAGTTGATC+CGG 0.534967 4.2:+75796450 MS.gene82202:CDS
GCTCGAGGTTCCGCGAATGT+TGG 0.535052 4.2:+75797129 MS.gene82202:CDS
AGAACTGAAACCGTTGAAGA+AGG 0.552593 4.2:+75796771 MS.gene82202:CDS
CAACTGGCCCACGATCCAAA+CGG 0.561624 4.2:+75796431 MS.gene82202:CDS
TGAACAGTTGGTGCTGCTCG+CGG 0.566265 4.2:-75796247 None:intergenic
TCGAAACTGAGCTGAACAGT+TGG 0.568717 4.2:-75796259 None:intergenic
CCCAATCAATTCATCGACGC+TGG 0.575794 4.2:+75796355 MS.gene82202:CDS
GAAGATGAAGACGAAGATGA+TGG 0.583213 4.2:+75797192 MS.gene82202:CDS
AGGTTTGACAAATTCAGCAT+CGG 0.585792 4.2:-75797253 None:intergenic
TTTCGTTCATATCAAGCACT+AGG 0.595896 4.2:+75796832 MS.gene82202:CDS
GTCAAGCACTAGGTGGACAT+AGG 0.616154 4.2:+75797016 MS.gene82202:CDS
ACAGTTGGTGCTGCTCGCGG+TGG 0.625858 4.2:-75796244 None:intergenic
TCTAATGGTAGAGCTTTAGG+TGG 0.632905 4.2:+75796163 MS.gene82202:CDS
CTGAAACCGTTGAAGAAGGT+AGG 0.644274 4.2:+75796775 MS.gene82202:CDS
ACAAACGTTGAGGTTGCTCG+AGG 0.649082 4.2:+75797114 MS.gene82202:CDS
CCAAGAAGACGAAGACGTCG+AGG 0.657107 4.2:+75796690 MS.gene82202:CDS
AAACCGTTGAAGAAGGTAGG+AGG 0.658415 4.2:+75796778 MS.gene82202:CDS
CGTTCATATCAAGCACTAGG+TGG 0.659055 4.2:+75796835 MS.gene82202:CDS
TCTTCAGGTCAAGCACTAGG+TGG 0.663302 4.2:+75797009 MS.gene82202:CDS
AAACAAGTTGCAGAAAGTGG+CGG 0.684607 4.2:+75796883 MS.gene82202:CDS
AGCAGCAACAACAACAACGA+TGG 0.688028 4.2:+75797086 MS.gene82202:CDS
GATGGTTAGAACAAACGTTG+AGG 0.711857 4.2:+75797104 MS.gene82202:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GAAAATTCTCTAAAACAAAT+TGG - chr4.2:75796991-75797010 None:intergenic 20.0%
! AGAACACATAATATTGGATT+CGG + chr4.2:75797039-75797058 MS.gene82202:CDS 25.0%
!!! TGTTTTAGAGAATTTTCTTC+AGG + chr4.2:75796994-75797013 MS.gene82202:CDS 25.0%
AATAAACAAGTTGCAGAAAG+TGG + chr4.2:75796880-75796899 MS.gene82202:CDS 30.0%
CATAGGAGAACACATAATAT+TGG + chr4.2:75797033-75797052 MS.gene82202:CDS 30.0%
TGAACAGTATAAACAACAAC+AGG + chr4.2:75796651-75796670 MS.gene82202:CDS 30.0%
! TGTATGAGAAGCTTTTCTAA+TGG + chr4.2:75796148-75796167 MS.gene82202:CDS 30.0%
! TTTTCTAATGGTAGAGCTTT+AGG + chr4.2:75796160-75796179 MS.gene82202:CDS 30.0%
AGGTTTGACAAATTCAGCAT+CGG - chr4.2:75797256-75797275 None:intergenic 35.0%
TTCTGTACTGAGTTCTTCAT+CGG + chr4.2:75796501-75796520 MS.gene82202:CDS 35.0%
TTTCGTTCATATCAAGCACT+AGG + chr4.2:75796832-75796851 MS.gene82202:CDS 35.0%
!!! ATGACTCAGTTTGTTTTGGT+AGG - chr4.2:75796213-75796232 None:intergenic 35.0%
AAACAAGTTGCAGAAAGTGG+CGG + chr4.2:75796883-75796902 MS.gene82202:CDS 40.0%
AGAACTGAAACCGTTGAAGA+AGG + chr4.2:75796771-75796790 MS.gene82202:CDS 40.0%
ATCAACTTTCTTGACCCGTT+TGG - chr4.2:75796449-75796468 None:intergenic 40.0%
CAAACTATCTCCAACATTCG+CGG - chr4.2:75797142-75797161 None:intergenic 40.0%
CTCGCGAAGATAACAACATA+TGG + chr4.2:75796569-75796588 MS.gene82202:CDS 40.0%
GAAGATGAAGACGAAGATGA+TGG + chr4.2:75797192-75797211 MS.gene82202:CDS 40.0%
GATGGTTAGAACAAACGTTG+AGG + chr4.2:75797104-75797123 MS.gene82202:CDS 40.0%
GCTTCATCTCTTTCATCCTA+TGG + chr4.2:75796292-75796311 MS.gene82202:CDS 40.0%
TCGTCTTCATCTTCATCCAT+CGG - chr4.2:75797186-75797205 None:intergenic 40.0%
TGGATTCTCTCTTAGACCAT+AGG - chr4.2:75796311-75796330 None:intergenic 40.0%
TTCTGTACTGAGTTCTTCAC+CGG - chr4.2:75796472-75796491 None:intergenic 40.0%
! TCTAAATTTTCCTGCTCCGA+TGG + chr4.2:75797167-75797186 MS.gene82202:CDS 40.0%
! TTTTCTTCAGGTCAAGCACT+AGG + chr4.2:75797006-75797025 MS.gene82202:CDS 40.0%
!! GACGATGTTAGTCAAGTTGA+AGG + chr4.2:75797219-75797238 MS.gene82202:CDS 40.0%
!! GGTGATGACTCAGTTTGTTT+TGG - chr4.2:75796217-75796236 None:intergenic 40.0%
!! TCTAATGGTAGAGCTTTAGG+TGG + chr4.2:75796163-75796182 MS.gene82202:CDS 40.0%
AAACCGTTGAAGAAGGTAGG+AGG + chr4.2:75796778-75796797 MS.gene82202:CDS 45.0%
AGCAGCAACAACAACAACGA+TGG + chr4.2:75797086-75797105 MS.gene82202:CDS 45.0%
CGTTCATATCAAGCACTAGG+TGG + chr4.2:75796835-75796854 MS.gene82202:CDS 45.0%
CTGAAACCGTTGAAGAAGGT+AGG + chr4.2:75796775-75796794 MS.gene82202:CDS 45.0%
CTTCCTCCTACCTTCTTCAA+CGG - chr4.2:75796784-75796803 None:intergenic 45.0%
GAGTCCTCAAAGAATCCAAC+TGG + chr4.2:75796415-75796434 MS.gene82202:CDS 45.0%
GTGAATCGAAAGCTTCGCTT+TGG - chr4.2:75796331-75796350 None:intergenic 45.0%
TCGAAACTGAGCTGAACAGT+TGG - chr4.2:75796262-75796281 None:intergenic 45.0%
! ACGGGTCAAGAAAGTTGATC+CGG + chr4.2:75796450-75796469 MS.gene82202:CDS 45.0%
!! ACCAGCGTCGATGAATTGAT+TGG - chr4.2:75796359-75796378 None:intergenic 45.0%
!! CCAGCGTCGATGAATTGATT+GGG - chr4.2:75796358-75796377 None:intergenic 45.0%
ACAAACGTTGAGGTTGCTCG+AGG + chr4.2:75797114-75797133 MS.gene82202:CDS 50.0%
CCCAATCAATTCATCGACGC+TGG + chr4.2:75796355-75796374 MS.gene82202:CDS 50.0%
GTCAAGCACTAGGTGGACAT+AGG + chr4.2:75797016-75797035 MS.gene82202:CDS 50.0%
TCATCTTCATCCATCGGAGC+AGG - chr4.2:75797180-75797199 None:intergenic 50.0%
TCTTCAGGTCAAGCACTAGG+TGG + chr4.2:75797009-75797028 MS.gene82202:CDS 50.0%
TCTTGACCCGTTTGGATCGT+GGG - chr4.2:75796441-75796460 None:intergenic 50.0%
TGGGCCAGTTGGATTCTTTG+AGG - chr4.2:75796422-75796441 None:intergenic 50.0%
TTCTTGACCCGTTTGGATCG+TGG - chr4.2:75796442-75796461 None:intergenic 50.0%
AACTGGCCCACGATCCAAAC+GGG + chr4.2:75796432-75796451 MS.gene82202:CDS 55.0%
CAACTGGCCCACGATCCAAA+CGG + chr4.2:75796431-75796450 MS.gene82202:CDS 55.0%
CCAAGAAGACGAAGACGTCG+AGG + chr4.2:75796690-75796709 MS.gene82202:CDS 55.0%
CCTCGACGTCTTCGTCTTCT+TGG - chr4.2:75796693-75796712 None:intergenic 55.0%
!! TGAACAGTTGGTGCTGCTCG+CGG - chr4.2:75796250-75796269 None:intergenic 55.0%
CGTTTGGATCGTGGGCCAGT+TGG - chr4.2:75796433-75796452 None:intergenic 60.0%
GCTCGAGGTTCCGCGAATGT+TGG + chr4.2:75797129-75797148 MS.gene82202:CDS 60.0%
!! ACAGTTGGTGCTGCTCGCGG+TGG - chr4.2:75796247-75796266 None:intergenic 65.0%
!! GTTGGTGCTGCTCGCGGTGG+TGG - chr4.2:75796244-75796263 None:intergenic 70.0%
!! GCTGCTCGCGGTGGTGGTGG+TGG - chr4.2:75796238-75796257 None:intergenic 75.0%
!! GGTGCTGCTCGCGGTGGTGG+TGG - chr4.2:75796241-75796260 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 75796121 75797281 75796121 ID=MS.gene82202
chr4.2 mRNA 75796121 75797281 75796121 ID=MS.gene82202.t1;Parent=MS.gene82202
chr4.2 exon 75796121 75797281 75796121 ID=MS.gene82202.t1.exon1;Parent=MS.gene82202.t1
chr4.2 CDS 75796121 75797281 75796121 ID=cds.MS.gene82202.t1;Parent=MS.gene82202.t1
Gene Sequence

>MS.gene82202

ATGATGGAGAAACACAAGTGCAAATTTTGTATGAGAAGCTTTTCTAATGGTAGAGCTTTAGGTGGACACATGAGATCACACATGATGAACCTACCAAAACAAACTGAGTCATCACCACCACCACCACCGCGAGCAGCACCAACTGTTCAGCTCAGTTTCGAAGCTGAATCAGCTTCATCTCTTTCATCCTATGGTCTAAGAGAGAATCCAAAGCGAAGCTTTCGATTCACAGATCCCAATCAATTCATCGACGCTGGTTCGATAATTCTTCAAGAAGATAGAGAAAGTGAAACTGAGTCCTCAAAGAATCCAACTGGCCCACGATCCAAACGGGTCAAGAAAGTTGATCCGGTGAAGAACTCAGTACAGAATGAGTCTGTTTCTGTACTGAGTTCTTCATCGGATATAACAACTGAAGAAGACGTTGCTTTTTTTCTCATATCACTGTCTCGCGAAGATAACAACATATGGAAAACTCATACACAACATCATGATCAACAACATCAGCAGCATCATGAAGAACAAGAAGATGAACAGTATAAACAACAACAGGTCGAAGAAGATGAAGACCAAGAAGACGAAGACGTCGAGGTTGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAAGTGAAGCTGAATCTGAAGAAGAAGAAGAACTGAAACCGTTGAAGAAGGTAGGAGGAAGATACAAATGCGACACGTGTAACAAAGTGTTTCGTTCATATCAAGCACTAGGTGGACACAGAGCGAGTCACAAGAAAAATAAACAAGTTGCAGAAAGTGGCGGTGATCATTCAATTTCACAACATGATGAAAAAATTAACATTGAAAAAAACATCAATGTTAGTGAAAAGAAAATTCATGAATGTCCAATTTGTTTTAGAGAATTTTCTTCAGGTCAAGCACTAGGTGGACATAGGAGAACACATAATATTGGATTCGGATCAGCATCAGCATCAACATCAGCAGCAGCAACAACAACAACGATGGTTAGAACAAACGTTGAGGTTGCTCGAGGTTCCGCGAATGTTGGAGATAGTTTGTTAGATCTAAATTTTCCTGCTCCGATGGATGAAGATGAAGACGAAGATGATGGTGATGACGATGTTAGTCAAGTTGAAGGTTCTGCTGTTTCCGATGCTGAATTTGTCAAACCTCGTTAA
Protein sequence

>MS.gene82202.t1

MMEKHKCKFCMRSFSNGRALGGHMRSHMMNLPKQTESSPPPPPRAAPTVQLSFEAESASSLSSYGLRENPKRSFRFTDPNQFIDAGSIILQEDRESETESSKNPTGPRSKRVKKVDPVKNSVQNESVSVLSSSSDITTEEDVAFFLISLSREDNNIWKTHTQHHDQQHQQHHEEQEDEQYKQQQVEEDEDQEDEDVEVEEEEEEEEEESEAESEEEEELKPLKKVGGRYKCDTCNKVFRSYQALGGHRASHKKNKQVAESGGDHSISQHDEKINIEKNINVSEKKIHECPICFREFSSGQALGGHRRTHNIGFGSASASTSAAATTTTMVRTNVEVARGSANVGDSLLDLNFPAPMDEDEDEDDGDDDVSQVEGSAVSDAEFVKPR