AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene28915

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene28915.t1 MTR_8g074450 92.414 290 22 0 1 290 1 290 0.0 546
MS.gene28915.t1 MTR_8g074510 85.517 290 40 1 1 290 1 288 0.0 504
MS.gene28915.t1 MTR_8g074420 84.138 290 46 0 1 290 1 290 4.77e-171 475
MS.gene28915.t1 MTR_5g023600 70.629 286 78 2 2 287 3 282 4.58e-135 384
MS.gene28915.t1 MTR_5g023520 67.586 290 89 1 1 290 1 285 7.48e-135 383
MS.gene28915.t1 MTR_5g023550 69.338 287 82 2 1 287 1 281 9.18e-135 383
MS.gene28915.t1 MTR_5g023370 69.930 286 80 2 2 287 3 282 1.68e-134 382
MS.gene28915.t1 MTR_5g023350 69.930 286 80 2 2 287 3 282 2.70e-134 382
MS.gene28915.t1 MTR_5g023340 69.580 286 81 2 2 287 3 282 3.43e-134 381
MS.gene28915.t1 MTR_5g023390 69.231 286 82 2 2 287 3 282 1.52e-133 380
MS.gene28915.t1 MTR_5g023320 69.310 290 79 4 2 290 3 283 2.68e-132 376
MS.gene28915.t1 MTR_5g023530 68.512 289 83 4 1 287 1 283 1.69e-130 372
MS.gene28915.t1 MTR_5g023470 67.820 289 85 4 1 287 1 283 1.02e-128 367
MS.gene28915.t1 MTR_5g023580 66.551 287 94 1 2 288 3 287 2.47e-124 359
MS.gene28915.t1 MTR_8g074530 47.241 290 149 3 2 289 17 304 2.59e-79 243
MS.gene28915.t1 MTR_5g023460 63.021 192 61 3 99 290 11 192 3.64e-77 233
MS.gene28915.t1 MTR_5g023290 42.953 298 158 4 4 289 11 308 9.88e-71 221
MS.gene28915.t1 MTR_4g070530 34.843 287 176 4 6 287 13 293 4.05e-44 152
MS.gene28915.t1 MTR_5g023650 32.990 291 183 4 7 287 14 302 4.45e-43 149
MS.gene28915.t1 MTR_5g023410 73.000 100 27 0 1 100 1 100 4.50e-43 147
MS.gene28915.t1 MTR_8g074380 33.793 290 160 5 7 287 14 280 4.56e-43 150
MS.gene28915.t1 MTR_4g070540 32.632 285 185 4 6 287 13 293 6.58e-38 135
MS.gene28915.t1 MTR_3g116950 35.986 289 172 9 5 287 12 293 4.41e-37 134
MS.gene28915.t1 MTR_3g116920 33.564 289 181 6 5 287 12 295 4.42e-37 134
MS.gene28915.t1 MTR_4g070570 31.034 290 189 5 5 287 15 300 1.29e-36 132
MS.gene28915.t1 MTR_4g070590 34.364 291 176 7 6 287 14 298 2.82e-35 129
MS.gene28915.t1 MTR_3g115150 28.571 301 181 9 5 286 27 312 9.24e-25 101
MS.gene28915.t1 MTR_1g037820 29.707 239 142 5 51 287 9 223 3.04e-24 98.2
MS.gene28915.t1 MTR_5g023540 50.746 67 29 1 165 231 4 66 1.84e-13 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene28915.t1 AT4G35690 40.000 295 156 8 1 289 4 283 4.28e-55 180
MS.gene28915.t1 AT2G17680 40.328 305 151 10 1 290 4 292 2.70e-49 165
MS.gene28915.t1 AT4G35710 38.255 298 159 9 1 289 1 282 2.12e-47 160
MS.gene28915.t1 AT2G17080 36.458 288 154 6 1 287 1 260 1.38e-42 147
MS.gene28915.t1 AT4G35200 35.540 287 151 9 1 287 1 253 5.05e-39 137
MS.gene28915.t1 AT2G17070 35.986 289 152 8 1 286 1 259 1.64e-38 136
MS.gene28915.t1 AT4G35210 33.798 287 153 8 1 287 1 250 1.21e-35 129
MS.gene28915.t1 AT4G35660 34.228 298 155 10 7 289 16 287 3.09e-30 115
MS.gene28915.t1 AT4G35720 32.492 317 176 9 5 289 14 324 2.42e-28 111
MS.gene28915.t1 AT4G35680 29.293 297 191 7 7 289 18 309 3.54e-23 97.1
MS.gene28915.t1 AT1G76240 30.584 291 178 8 5 286 29 304 5.34e-23 96.7
MS.gene28915.t1 AT3G51400 30.847 295 177 10 1 289 1 274 4.52e-21 90.9
MS.gene28915.t1 AT1G76210 26.906 223 140 4 65 287 24 223 9.23e-17 77.8
MS.gene28915.t1 AT3G51410 30.851 282 151 7 7 287 39 277 5.21e-16 76.6
MS.gene28915.t1 AT1G20520 25.620 242 153 6 47 287 8 223 8.07e-11 61.2

Find 44 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTGGCATGTCTTCAATTT+TGG 0.093147 8.2:-30359419 MS.gene28915:CDS
AAGCAAATGGATAGTAAATT+TGG 0.146612 8.2:-30359436 MS.gene28915:CDS
CATTAGTACCTTCACTTAAA+AGG 0.153684 8.2:+30359170 None:intergenic
GGATGGTTCTATGAGAATTT+TGG 0.227811 8.2:-30359632 MS.gene28915:CDS
TTGTTTGATTAGAGTGTTTA+GGG 0.289236 8.2:-30359377 MS.gene28915:CDS
TGAAACTATTGAGAATGATT+TGG 0.295462 8.2:-30359095 MS.gene28915:CDS
ATGATTTGGAGAATTTATTT+AGG 0.300645 8.2:-30359081 MS.gene28915:CDS
CTTGTTTGATTAGAGTGTTT+AGG 0.307790 8.2:-30359378 MS.gene28915:CDS
TACTAATGGAGAAAACTTGC+AGG 0.379519 8.2:-30359155 MS.gene28915:CDS
AAGCCCTTCACTCTTCTCTA+AGG 0.389201 8.2:-30359558 MS.gene28915:CDS
CAAAGTCAAAGACAACAAAA+TGG 0.396471 8.2:-30359291 MS.gene28915:CDS
ATTAGTACCTTCACTTAAAA+GGG 0.427283 8.2:+30359171 None:intergenic
ACATGAAAGATTAGAGGCTT+TGG 0.438324 8.2:-30359128 MS.gene28915:CDS
GATCACATCTTTGAAGCAAA+TGG 0.443039 8.2:-30359449 MS.gene28915:CDS
GGAACATCCACATCCACATC+AGG 0.453856 8.2:-30359781 MS.gene28915:CDS
GGCTGCACATGAAAGATTAG+AGG 0.456678 8.2:-30359134 MS.gene28915:CDS
TATAGGTCTTTCCTTGCTTG+AGG 0.469013 8.2:-30359749 MS.gene28915:CDS
ATGGTGAGAAATCACTTGTT+GGG 0.481727 8.2:+30359684 None:intergenic
TGAGGATTTGTATATGTCAA+TGG 0.487266 8.2:-30359731 MS.gene28915:CDS
ACATCAGGGTCTATTCATAT+AGG 0.495133 8.2:-30359766 MS.gene28915:CDS
GATGGTGAGAAATCACTTGT+TGG 0.504782 8.2:+30359683 None:intergenic
TCTTCTCTAAGGAGAAGAAA+AGG 0.505857 8.2:-30359547 MS.gene28915:CDS
GTACTAGGATGAGATCTAGA+AGG 0.509536 8.2:+30359847 None:intergenic
TCTTCTACTCTAATAGTACT+AGG 0.512252 8.2:+30359832 None:intergenic
TTCTCCTTAGAGAAGAGTGA+AGG 0.531189 8.2:+30359554 None:intergenic
ACACTCTAATCAAACAAGAA+AGG 0.532051 8.2:+30359383 None:intergenic
GTTGAACAAGCTCAAGACTT+GGG 0.547472 8.2:-30359806 MS.gene28915:CDS
AGTTGAACAAGCTCAAGACT+TGG 0.550757 8.2:-30359807 MS.gene28915:CDS
AAAATGTGTGGAAGAGGTGT+TGG 0.559008 8.2:-30359653 MS.gene28915:CDS
ATTGGGAAGTTATATTCAAG+AGG 0.571012 8.2:+30359035 None:intergenic
TGGATATATGTGGTATCACA+AGG 0.577239 8.2:-30359612 MS.gene28915:CDS
AATAGACCCTGATGTGGATG+TGG 0.577845 8.2:+30359774 None:intergenic
AACAAGCTCAAGACTTGGGA+AGG 0.577984 8.2:-30359802 MS.gene28915:CDS
TCTCCTTAGAGAAGAGTGAA+GGG 0.582594 8.2:+30359555 None:intergenic
CAAGTGATTTCTCACCATCA+AGG 0.601182 8.2:-30359679 MS.gene28915:CDS
CATATACAAATCCTCAAGCA+AGG 0.603637 8.2:+30359738 None:intergenic
TTGGGAAGTTATATTCAAGA+GGG 0.624126 8.2:+30359036 None:intergenic
TGTGTGGAAGAGGTGTTGGA+TGG 0.647133 8.2:-30359649 MS.gene28915:CDS
AATGGAAGATCTTCTTAACA+TGG 0.647281 8.2:-30359713 MS.gene28915:CDS
GAACATCCACATCCACATCA+GGG 0.664398 8.2:-30359780 MS.gene28915:CDS
TATATGAATAGACCCTGATG+TGG 0.674746 8.2:+30359768 None:intergenic
GTGACTAAACTGATGCACAA+AGG 0.685825 8.2:-30359262 MS.gene28915:CDS
GGATATATGTGGTATCACAA+GGG 0.686332 8.2:-30359611 MS.gene28915:CDS
TTCAAGTGTTGAAAGAAGTG+TGG 0.711991 8.2:-30359521 MS.gene28915:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATGATTTGGAGAATTTATTT+AGG - chr8.2:30359835-30359854 MS.gene28915:CDS 20.0%
! AAGCAAATGGATAGTAAATT+TGG - chr8.2:30359480-30359499 MS.gene28915:CDS 25.0%
! ATTAGTACCTTCACTTAAAA+GGG + chr8.2:30359748-30359767 None:intergenic 25.0%
! TGAAACTATTGAGAATGATT+TGG - chr8.2:30359821-30359840 MS.gene28915:CDS 25.0%
!! ATGAGAATTTTGGATATATG+TGG - chr8.2:30359294-30359313 MS.gene28915:CDS 25.0%
!! TTGTTTGATTAGAGTGTTTA+GGG - chr8.2:30359539-30359558 MS.gene28915:CDS 25.0%
!!! ATTTTCCTTGATTTGCAAAA+TGG + chr8.2:30359334-30359353 None:intergenic 25.0%
AATGGAAGATCTTCTTAACA+TGG - chr8.2:30359203-30359222 MS.gene28915:CDS 30.0%
ACACTCTAATCAAACAAGAA+AGG + chr8.2:30359536-30359555 None:intergenic 30.0%
ATTGGGAAGTTATATTCAAG+AGG + chr8.2:30359884-30359903 None:intergenic 30.0%
CAAAGTCAAAGACAACAAAA+TGG - chr8.2:30359625-30359644 MS.gene28915:CDS 30.0%
CATTAGTACCTTCACTTAAA+AGG + chr8.2:30359749-30359768 None:intergenic 30.0%
TCTTCTACTCTAATAGTACT+AGG + chr8.2:30359087-30359106 None:intergenic 30.0%
TGAGGATTTGTATATGTCAA+TGG - chr8.2:30359185-30359204 MS.gene28915:CDS 30.0%
TTGGGAAGTTATATTCAAGA+GGG + chr8.2:30359883-30359902 None:intergenic 30.0%
! ATTTGGCATGTCTTCAATTT+TGG - chr8.2:30359497-30359516 MS.gene28915:CDS 30.0%
! CTTGTTTGATTAGAGTGTTT+AGG - chr8.2:30359538-30359557 MS.gene28915:CDS 30.0%
!! TTAAACACCCTTTTAAGTGA+AGG - chr8.2:30359738-30359757 MS.gene28915:CDS 30.0%
!!! CTTTTAAGTGAAGGTACTAA+TGG - chr8.2:30359747-30359766 MS.gene28915:CDS 30.0%
ACATCAGGGTCTATTCATAT+AGG - chr8.2:30359150-30359169 MS.gene28915:CDS 35.0%
ACATGAAAGATTAGAGGCTT+TGG - chr8.2:30359788-30359807 MS.gene28915:CDS 35.0%
ATGGTGAGAAATCACTTGTT+GGG + chr8.2:30359235-30359254 None:intergenic 35.0%
CATATACAAATCCTCAAGCA+AGG + chr8.2:30359181-30359200 None:intergenic 35.0%
GGATATATGTGGTATCACAA+GGG - chr8.2:30359305-30359324 MS.gene28915:CDS 35.0%
TACTAATGGAGAAAACTTGC+AGG - chr8.2:30359761-30359780 MS.gene28915:CDS 35.0%
TATATGAATAGACCCTGATG+TGG + chr8.2:30359151-30359170 None:intergenic 35.0%
TGGATATATGTGGTATCACA+AGG - chr8.2:30359304-30359323 MS.gene28915:CDS 35.0%
! TCTTCTCTAAGGAGAAGAAA+AGG - chr8.2:30359369-30359388 MS.gene28915:CDS 35.0%
!! GATCACATCTTTGAAGCAAA+TGG - chr8.2:30359467-30359486 MS.gene28915:CDS 35.0%
!! GGATGGTTCTATGAGAATTT+TGG - chr8.2:30359284-30359303 MS.gene28915:CDS 35.0%
!! TTCAAGTGTTGAAAGAAGTG+TGG - chr8.2:30359395-30359414 MS.gene28915:CDS 35.0%
AGGTGAAAAATGTGTGGAAG+AGG - chr8.2:30359257-30359276 MS.gene28915:CDS 40.0%
AGTTGAACAAGCTCAAGACT+TGG - chr8.2:30359109-30359128 MS.gene28915:CDS 40.0%
CAAGTGATTTCTCACCATCA+AGG - chr8.2:30359237-30359256 MS.gene28915:CDS 40.0%
CCATCAAGGTGAAAAATGTG+TGG - chr8.2:30359251-30359270 MS.gene28915:CDS 40.0%
GATGGTGAGAAATCACTTGT+TGG + chr8.2:30359236-30359255 None:intergenic 40.0%
GTACTAGGATGAGATCTAGA+AGG + chr8.2:30359072-30359091 None:intergenic 40.0%
GTGACTAAACTGATGCACAA+AGG - chr8.2:30359654-30359673 MS.gene28915:CDS 40.0%
GTTGAACAAGCTCAAGACTT+GGG - chr8.2:30359110-30359129 MS.gene28915:CDS 40.0%
TATAGGTCTTTCCTTGCTTG+AGG - chr8.2:30359167-30359186 MS.gene28915:CDS 40.0%
TCTCCTTAGAGAAGAGTGAA+GGG + chr8.2:30359364-30359383 None:intergenic 40.0%
TTCTCCTTAGAGAAGAGTGA+AGG + chr8.2:30359365-30359384 None:intergenic 40.0%
! AAAATGTGTGGAAGAGGTGT+TGG - chr8.2:30359263-30359282 MS.gene28915:CDS 40.0%
! CCACACATTTTTCACCTTGA+TGG + chr8.2:30359254-30359273 None:intergenic 40.0%
! GGACACCATTTTGCAAATCA+AGG - chr8.2:30359326-30359345 MS.gene28915:CDS 40.0%
AACAAGCTCAAGACTTGGGA+AGG - chr8.2:30359114-30359133 MS.gene28915:CDS 45.0%
AAGCCCTTCACTCTTCTCTA+AGG - chr8.2:30359358-30359377 MS.gene28915:CDS 45.0%
AATAGACCCTGATGTGGATG+TGG + chr8.2:30359145-30359164 None:intergenic 45.0%
GAACATCCACATCCACATCA+GGG - chr8.2:30359136-30359155 MS.gene28915:CDS 45.0%
GGCTGCACATGAAAGATTAG+AGG - chr8.2:30359782-30359801 MS.gene28915:CDS 45.0%
GGAACATCCACATCCACATC+AGG - chr8.2:30359135-30359154 MS.gene28915:CDS 50.0%
!! TGTGTGGAAGAGGTGTTGGA+TGG - chr8.2:30359267-30359286 MS.gene28915:CDS 50.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 30359033 30359905 30359033 ID=MS.gene28915
chr8.2 mRNA 30359033 30359905 30359033 ID=MS.gene28915.t1;Parent=MS.gene28915
chr8.2 exon 30359033 30359905 30359033 ID=MS.gene28915.t1.exon1;Parent=MS.gene28915.t1
chr8.2 CDS 30359033 30359905 30359033 ID=cds.MS.gene28915.t1;Parent=MS.gene28915.t1
Gene Sequence

>MS.gene28915

ATGGCAAACAAGTATCATGTTCGTTCAATTAGTTTGCCTTCTAGATCTCATCCTAGTACTATTAGAGTAGAAGAAGAGTTGAACAAGCTCAAGACTTGGGAAGGAACATCCACATCCACATCAGGGTCTATTCATATAGGTCTTTCCTTGCTTGAGGATTTGTATATGTCAATGGAAGATCTTCTTAACATGGCATCAACCCAACAAGTGATTTCTCACCATCAAGGTGAAAAATGTGTGGAAGAGGTGTTGGATGGTTCTATGAGAATTTTGGATATATGTGGTATCACAAGGGACACCATTTTGCAAATCAAGGAAAATGTTCAAGCCCTTCACTCTTCTCTAAGGAGAAGAAAAGGTGATTCAAGTGTTGAAAGAAGTGTGGCAGAATACAAATTCTTCACAAAAAAGATGAAGAAAAATGTCAACAAGTTGATCACATCTTTGAAGCAAATGGATAGTAAATTTGGCATGTCTTCAATTTTGGAACTTGATCATCACCTTTCTTGTTTGATTAGAGTGTTTAGGGAAGTCATAGTAATGAACTTATCTGTTTTTCAATTCATTTTGTCATTCTTGACTTTGTCTTCATCAAAGTCAAAGACAACAAAATGGAAGTTTGTGACTAAACTGATGCACAAAGGAGTCATAACATGTGAAGATAACTCAGATAGTATTAATGAGTTGCAGTGTGTCAAAGTTACTTTAAACACCCTTTTAAGTGAAGGTACTAATGGAGAAAACTTGCAGGCTGCACATGAAAGATTAGAGGCTTTGGAGAATGCAATTGAAACTATTGAGAATGATTTGGAGAATTTATTTAGGCGCTTGATTAAATCTAGAGCTTCCCTCTTGAATATAACTTCCCAATAG
Protein sequence

>MS.gene28915.t1

MANKYHVRSISLPSRSHPSTIRVEEELNKLKTWEGTSTSTSGSIHIGLSLLEDLYMSMEDLLNMASTQQVISHHQGEKCVEEVLDGSMRILDICGITRDTILQIKENVQALHSSLRRRKGDSSVERSVAEYKFFTKKMKKNVNKLITSLKQMDSKFGMSSILELDHHLSCLIRVFREVIVMNLSVFQFILSFLTLSSSKSKTTKWKFVTKLMHKGVITCEDNSDSINELQCVKVTLNTLLSEGTNGENLQAAHERLEALENAIETIENDLENLFRRLIKSRASLLNITSQ