AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene012170

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene012170.t1 MTR_8g074510 94.792 288 15 0 1 288 1 288 0.0 555
MS.gene012170.t1 MTR_8g074450 86.552 290 37 1 1 288 1 290 0.0 511
MS.gene012170.t1 MTR_8g074420 82.414 290 49 1 1 288 1 290 5.82e-166 462
MS.gene012170.t1 MTR_5g023320 67.247 287 82 5 5 288 6 283 5.26e-127 363
MS.gene012170.t1 MTR_5g023550 65.052 289 93 3 1 287 1 283 6.28e-127 363
MS.gene012170.t1 MTR_5g023600 66.084 286 89 3 4 287 5 284 1.74e-126 362
MS.gene012170.t1 MTR_5g023520 63.793 290 98 2 1 288 1 285 3.04e-126 361
MS.gene012170.t1 MTR_5g023370 65.614 285 90 3 5 287 6 284 1.01e-125 360
MS.gene012170.t1 MTR_5g023390 65.263 285 91 3 5 287 6 284 1.39e-125 359
MS.gene012170.t1 MTR_5g023340 64.912 285 92 3 5 287 6 284 2.50e-124 356
MS.gene012170.t1 MTR_5g023350 64.685 286 93 3 4 287 5 284 7.38e-124 355
MS.gene012170.t1 MTR_5g023530 63.415 287 96 4 4 287 5 285 3.37e-121 348
MS.gene012170.t1 MTR_5g023470 62.369 287 99 4 4 287 5 285 5.44e-119 343
MS.gene012170.t1 MTR_5g023580 63.604 283 99 2 5 285 6 286 2.17e-116 339
MS.gene012170.t1 MTR_5g023460 62.500 192 62 3 97 288 11 192 2.34e-76 231
MS.gene012170.t1 MTR_8g074530 45.486 288 151 4 4 287 19 304 1.78e-74 230
MS.gene012170.t1 MTR_5g023290 40.000 300 166 4 2 287 9 308 1.51e-64 205
MS.gene012170.t1 MTR_4g070530 34.256 289 177 5 6 287 13 295 1.83e-44 153
MS.gene012170.t1 MTR_5g023650 32.192 292 184 4 8 287 15 304 9.96e-41 143
MS.gene012170.t1 MTR_8g074380 31.142 289 167 5 8 286 15 281 2.16e-38 138
MS.gene012170.t1 MTR_4g070570 29.412 289 197 3 5 287 15 302 2.89e-38 137
MS.gene012170.t1 MTR_5g023410 66.000 100 32 1 1 98 1 100 1.50e-37 132
MS.gene012170.t1 MTR_3g116950 34.694 294 171 10 5 287 12 295 3.64e-37 134
MS.gene012170.t1 MTR_3g116920 32.990 291 182 8 5 287 12 297 4.15e-37 134
MS.gene012170.t1 MTR_4g070540 31.597 288 188 5 6 288 13 296 1.12e-35 130
MS.gene012170.t1 MTR_4g070590 32.765 293 180 7 6 287 14 300 3.59e-35 129
MS.gene012170.t1 MTR_3g115150 27.597 308 183 10 3 287 25 315 5.93e-24 99.4
MS.gene012170.t1 MTR_1g037820 29.046 241 145 5 49 287 9 225 2.82e-23 95.5
MS.gene012170.t1 MTR_5g023540 48.438 64 29 1 163 226 4 63 5.13e-12 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene012170.t1 AT4G35690 35.570 298 163 6 1 287 4 283 6.45e-53 174
MS.gene012170.t1 AT2G17680 37.785 307 154 8 1 288 4 292 4.93e-47 159
MS.gene012170.t1 AT4G35710 37.838 296 158 9 1 287 4 282 1.12e-44 153
MS.gene012170.t1 AT2G17080 36.458 288 154 8 1 286 1 261 2.90e-42 146
MS.gene012170.t1 AT4G35200 37.193 285 147 10 1 285 1 253 1.29e-39 139
MS.gene012170.t1 AT2G17070 36.713 286 152 9 1 284 1 259 3.68e-38 135
MS.gene012170.t1 AT4G35210 34.035 285 153 9 1 285 1 250 2.03e-34 125
MS.gene012170.t1 AT4G35660 32.180 289 171 8 7 287 16 287 5.61e-29 112
MS.gene012170.t1 AT4G35720 31.429 315 180 10 5 287 14 324 1.01e-25 104
MS.gene012170.t1 AT3G51400 31.399 293 176 10 1 287 1 274 3.52e-21 90.9
MS.gene012170.t1 AT1G76240 27.211 294 194 6 3 288 27 308 6.72e-21 90.9
MS.gene012170.t1 AT4G35680 27.667 300 188 8 8 287 19 309 2.66e-18 83.6
MS.gene012170.t1 AT1G76210 25.778 225 144 3 63 287 24 225 3.11e-16 76.3
MS.gene012170.t1 AT3G51410 29.893 281 155 6 8 287 40 279 2.16e-15 75.1
MS.gene012170.t1 AT1G20520 25.446 224 142 4 65 287 26 225 3.70e-11 62.4

Find 44 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTGGCATGTCTTCAATTT+TGG 0.093147 8.4:-30276990 MS.gene012170:CDS
TTCACTTAAAAGAGTGTTTA+AGG 0.140662 8.4:+30276751 None:intergenic
AAGCAAATGGATAGTAAATT+TGG 0.146612 8.4:-30277007 MS.gene012170:CDS
AGATAGTTCAATGAGAATTT+TGG 0.199075 8.4:-30277203 MS.gene012170:CDS
ATGATTTGGAGAACTTATTT+AGG 0.260717 8.4:-30276652 MS.gene012170:CDS
TGAAACTATTGAGAATGATT+TGG 0.295462 8.4:-30276666 MS.gene012170:CDS
AATATATAAATCATCTATTA+AGG 0.302191 8.4:+30277309 None:intergenic
CAATGCATTTCTCACCTCTA+TGG 0.309012 8.4:+30277236 None:intergenic
AAGCCCTTCACTCTTGTCTA+AGG 0.365459 8.4:-30277129 MS.gene012170:CDS
AGATGATTTATATATTTCAT+TGG 0.368321 8.4:-30277302 MS.gene012170:CDS
ACACTCTAATCAAAGAATAA+AGG 0.396201 8.4:+30276954 None:intergenic
ACATGAAAGATTAGAGGCTT+TGG 0.438324 8.4:-30276699 MS.gene012170:CDS
ACATCATGCTCCATTCATAT+TGG 0.455596 8.4:-30277337 MS.gene012170:CDS
TGGATATTTGTGGCATCACT+AGG 0.456088 8.4:-30277183 MS.gene012170:CDS
AGATCTAGAAGGCAAACTAA+TGG 0.456112 8.4:+30277423 None:intergenic
GGCTGCACATGAAAGATTAG+AGG 0.456678 8.4:-30276705 MS.gene012170:CDS
GATCGCATCTTTGAAGCAAA+TGG 0.471046 8.4:-30277020 MS.gene012170:CDS
ATGGTGAGAAATCACTTGTT+GGG 0.479630 8.4:+30277255 None:intergenic
TATGGTGAGAAATCACTTGT+TGG 0.484011 8.4:+30277254 None:intergenic
TAAGGAAAGACCAATATGAA+TGG 0.496985 8.4:+30277327 None:intergenic
GGATACAATTCTTCAAATCA+AGG 0.500801 8.4:-30277161 MS.gene012170:CDS
TCTTGTCTAAGGAGAAGAAA+AGG 0.505857 8.4:-30277118 MS.gene012170:CDS
GTGCTAGGATGAGATCTAGA+AGG 0.513144 8.4:+30277412 None:intergenic
TTCTCCTTAGACAAGAGTGA+AGG 0.531189 8.4:+30277125 None:intergenic
TCATCTACTCTAATTGTGCT+AGG 0.541777 8.4:+30277397 None:intergenic
ACCATGGCAATCAAGTATCA+TGG 0.555053 8.4:-30277451 MS.gene012170:CDS
TCTCCTTAGACAAGAGTGAA+GGG 0.564139 8.4:+30277126 None:intergenic
ATTGAGAAATTATATTCAAG+AGG 0.564623 8.4:+30276606 None:intergenic
GGATATTTGTGGCATCACTA+GGG 0.577026 8.4:-30277182 MS.gene012170:CDS
AACAAGCTCAAGACATGGGA+AGG 0.580057 8.4:-30277367 MS.gene012170:CDS
AGGTGAGAAATGCATTGAAG+AGG 0.582191 8.4:-30277230 MS.gene012170:CDS
TTGAGAAATTATATTCAAGA+GGG 0.584586 8.4:+30276607 None:intergenic
TAATCAAAGAATAAAGGTGA+TGG 0.595163 8.4:+30276960 None:intergenic
TAGCACAATTAGAGTAGATG+AGG 0.604276 8.4:-30277395 MS.gene012170:CDS
TTTAGCAACAAATTTCCACT+TGG 0.605269 8.4:+30276847 None:intergenic
TACTAATGGAGAAAACATGC+AGG 0.606065 8.4:-30276726 MS.gene012170:CDS
ATTGGATGATCTTCTCAACA+TGG 0.611714 8.4:-30277284 MS.gene012170:CDS
AATTGAACAAGCTCAAGACA+TGG 0.618716 8.4:-30277372 MS.gene012170:CDS
CAAGTGATTTCTCACCATAG+AGG 0.629127 8.4:-30277250 MS.gene012170:CDS
ATTGAACAAGCTCAAGACAT+GGG 0.630590 8.4:-30277371 MS.gene012170:CDS
GTTGCTAAAATGATGCACAA+AGG 0.639952 8.4:-30276833 MS.gene012170:CDS
TTCAAGTGTTGAAAGAAGTG+TGG 0.668403 8.4:-30277092 MS.gene012170:CDS
CAAAGTCAAAGACAACCAAG+TGG 0.668953 8.4:-30276862 MS.gene012170:CDS
ACCATGATACTTGATTGCCA+TGG 0.702181 8.4:+30277450 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATATATAAATCATCTATTA+AGG + chr8.4:30276746-30276765 None:intergenic 10.0%
!! AGATGATTTATATATTTCAT+TGG - chr8.4:30276750-30276769 MS.gene012170:CDS 15.0%
!! ATTGAGAAATTATATTCAAG+AGG + chr8.4:30277449-30277468 None:intergenic 20.0%
!! TTGAGAAATTATATTCAAGA+GGG + chr8.4:30277448-30277467 None:intergenic 20.0%
! AAGCAAATGGATAGTAAATT+TGG - chr8.4:30277045-30277064 MS.gene012170:CDS 25.0%
! ACACTCTAATCAAAGAATAA+AGG + chr8.4:30277101-30277120 None:intergenic 25.0%
! TAATCAAAGAATAAAGGTGA+TGG + chr8.4:30277095-30277114 None:intergenic 25.0%
! TGAAACTATTGAGAATGATT+TGG - chr8.4:30277386-30277405 MS.gene012170:CDS 25.0%
!! AGATAGTTCAATGAGAATTT+TGG - chr8.4:30276849-30276868 MS.gene012170:CDS 25.0%
!! ATGAGAATTTTGGATATTTG+TGG - chr8.4:30276859-30276878 MS.gene012170:CDS 25.0%
!! ATGATTTGGAGAACTTATTT+AGG - chr8.4:30277400-30277419 MS.gene012170:CDS 25.0%
!!! TTAAACACTCTTTTAAGTGA+AGG - chr8.4:30277303-30277322 MS.gene012170:CDS 25.0%
!!! TTCACTTAAAAGAGTGTTTA+AGG + chr8.4:30277304-30277323 None:intergenic 25.0%
GGATACAATTCTTCAAATCA+AGG - chr8.4:30276891-30276910 MS.gene012170:CDS 30.0%
TAAGGAAAGACCAATATGAA+TGG + chr8.4:30276728-30276747 None:intergenic 30.0%
TTTAGCAACAAATTTCCACT+TGG + chr8.4:30277208-30277227 None:intergenic 30.0%
! ATTTGGCATGTCTTCAATTT+TGG - chr8.4:30277062-30277081 MS.gene012170:CDS 30.0%
!!! CTTTTAAGTGAAGGTACTAA+TGG - chr8.4:30277312-30277331 MS.gene012170:CDS 30.0%
AATTGAACAAGCTCAAGACA+TGG - chr8.4:30276680-30276699 MS.gene012170:CDS 35.0%
ACATCATGCTCCATTCATAT+TGG - chr8.4:30276715-30276734 MS.gene012170:CDS 35.0%
ACATGAAAGATTAGAGGCTT+TGG - chr8.4:30277353-30277372 MS.gene012170:CDS 35.0%
AGATCTAGAAGGCAAACTAA+TGG + chr8.4:30276632-30276651 None:intergenic 35.0%
ATGGTGAGAAATCACTTGTT+GGG + chr8.4:30276800-30276819 None:intergenic 35.0%
ATTGAACAAGCTCAAGACAT+GGG - chr8.4:30276681-30276700 MS.gene012170:CDS 35.0%
ATTGGATGATCTTCTCAACA+TGG - chr8.4:30276768-30276787 MS.gene012170:CDS 35.0%
GTTGCTAAAATGATGCACAA+AGG - chr8.4:30277219-30277238 MS.gene012170:CDS 35.0%
TACTAATGGAGAAAACATGC+AGG - chr8.4:30277326-30277345 MS.gene012170:CDS 35.0%
TAGCACAATTAGAGTAGATG+AGG - chr8.4:30276657-30276676 MS.gene012170:CDS 35.0%
TATGGTGAGAAATCACTTGT+TGG + chr8.4:30276801-30276820 None:intergenic 35.0%
TCATCTACTCTAATTGTGCT+AGG + chr8.4:30276658-30276677 None:intergenic 35.0%
TCTTGTCTAAGGAGAAGAAA+AGG - chr8.4:30276934-30276953 MS.gene012170:CDS 35.0%
!! TTCAAGTGTTGAAAGAAGTG+TGG - chr8.4:30276960-30276979 MS.gene012170:CDS 35.0%
AGGTGAGAAATGCATTGAAG+AGG - chr8.4:30276822-30276841 MS.gene012170:CDS 40.0%
CAAAGTCAAAGACAACCAAG+TGG - chr8.4:30277190-30277209 MS.gene012170:CDS 40.0%
CAAGTGATTTCTCACCATAG+AGG - chr8.4:30276802-30276821 MS.gene012170:CDS 40.0%
CAATGCATTTCTCACCTCTA+TGG + chr8.4:30276819-30276838 None:intergenic 40.0%
GGATATTTGTGGCATCACTA+GGG - chr8.4:30276870-30276889 MS.gene012170:CDS 40.0%
TCTCCTTAGACAAGAGTGAA+GGG + chr8.4:30276929-30276948 None:intergenic 40.0%
TGGATATTTGTGGCATCACT+AGG - chr8.4:30276869-30276888 MS.gene012170:CDS 40.0%
TTCTCCTTAGACAAGAGTGA+AGG + chr8.4:30276930-30276949 None:intergenic 40.0%
!! GATCGCATCTTTGAAGCAAA+TGG - chr8.4:30277032-30277051 MS.gene012170:CDS 40.0%
AACAAGCTCAAGACATGGGA+AGG - chr8.4:30276685-30276704 MS.gene012170:CDS 45.0%
AAGCCCTTCACTCTTGTCTA+AGG - chr8.4:30276923-30276942 MS.gene012170:CDS 45.0%
GGCTGCACATGAAAGATTAG+AGG - chr8.4:30277347-30277366 MS.gene012170:CDS 45.0%
GTGCTAGGATGAGATCTAGA+AGG + chr8.4:30276643-30276662 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 30276604 30277470 30276604 ID=MS.gene012170
chr8.4 mRNA 30276604 30277470 30276604 ID=MS.gene012170.t1;Parent=MS.gene012170
chr8.4 exon 30276604 30277470 30276604 ID=MS.gene012170.t1.exon1;Parent=MS.gene012170.t1
chr8.4 CDS 30276604 30277470 30276604 ID=cds.MS.gene012170.t1;Parent=MS.gene012170.t1
Gene Sequence

>MS.gene012170

ATGGCAATCAAGTATCATGGTCGTTCCATTAGTTTGCCTTCTAGATCTCATCCTAGCACAATTAGAGTAGATGAGGAATTGAACAAGCTCAAGACATGGGAAGGAACATCTACATCATGCTCCATTCATATTGGTCTTTCCTTAATAGATGATTTATATATTTCATTGGATGATCTTCTCAACATGGCATCAACCCAACAAGTGATTTCTCACCATAGAGGTGAGAAATGCATTGAAGAGGTGTTAGATAGTTCAATGAGAATTTTGGATATTTGTGGCATCACTAGGGATACAATTCTTCAAATCAAGGAAAATGTTCAAGCCCTTCACTCTTGTCTAAGGAGAAGAAAAGGTGATTCAAGTGTTGAAAGAAGTGTGGTAGAATACAAATTCTTCACAAAAAAGATGAAAAAAAATGTCAACAAGTTGATCGCATCTTTGAAGCAAATGGATAGTAAATTTGGCATGTCTTCAATTTTGGAACTTGACCATCACCTTTATTCTTTGATTAGAGTGTTTAAAAAAGTCATTGCAATGAATTTGTCTATTTTTCAAATCATTTTGTCATTCTTGACTATGTCTTCATCAAAGTCAAAGACAACCAAGTGGAAATTTGTTGCTAAAATGATGCACAAAGGAGTCATAGCATGTGAAGATAACTCAGATAATGTCAATGAGTTTTTGTGTGTTGAAGCTACCTTAAACACTCTTTTAAGTGAAGGTACTAATGGAGAAAACATGCAGGCTGCACATGAAAGATTAGAGGCTTTGGAGAATGCAATTGAAACTATTGAGAATGATTTGGAGAACTTATTTAGGCGCTTAATAAAATCTAGAGCTTCCCTCTTGAATATAATTTCTCAATAG
Protein sequence

>MS.gene012170.t1

MAIKYHGRSISLPSRSHPSTIRVDEELNKLKTWEGTSTSCSIHIGLSLIDDLYISLDDLLNMASTQQVISHHRGEKCIEEVLDSSMRILDICGITRDTILQIKENVQALHSCLRRRKGDSSVERSVVEYKFFTKKMKKNVNKLIASLKQMDSKFGMSSILELDHHLYSLIRVFKKVIAMNLSIFQIILSFLTMSSSKSKTTKWKFVAKMMHKGVIACEDNSDNVNEFLCVEATLNTLLSEGTNGENMQAAHERLEALENAIETIENDLENLFRRLIKSRASLLNIISQ