AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene99435


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene99435.t1 MTR_4g017860 88.235 204 17 2 1 197 17 220 6.51e-119 336
MS.gene99435.t1 MTR_5g022710 60.638 188 38 3 10 197 4 155 8.43e-66 199
MS.gene99435.t1 MTR_5g022730 60.106 188 39 3 10 197 4 155 2.41e-65 198
MS.gene99435.t1 MTR_4g032400 56.383 188 47 2 10 197 11 163 5.63e-65 197
MS.gene99435.t1 MTR_3g110048 53.723 188 53 2 10 197 5 158 3.21e-64 195
MS.gene99435.t1 MTR_7g021400 57.979 188 43 3 10 197 5 156 4.11e-62 190
MS.gene99435.t1 MTR_4g032450 56.085 189 46 4 10 197 23 175 1.16e-61 189
MS.gene99435.t1 MTR_7g094150 58.511 188 42 3 10 197 5 156 1.96e-61 188
MS.gene99435.t1 MTR_7g094120 53.723 188 53 3 10 197 6 159 2.24e-60 186
MS.gene99435.t1 MTR_7g094170 58.511 188 42 3 10 197 5 156 3.36e-60 185
MS.gene99435.t1 MTR_4g032510 53.968 189 45 3 10 197 6 153 2.35e-58 180
MS.gene99435.t1 MTR_5g085030 51.872 187 55 2 10 196 4 155 3.26e-58 180
MS.gene99435.t1 MTR_8g468480 50.000 188 59 2 10 197 4 156 6.33e-57 177
MS.gene99435.t1 MTR_8g056060 53.723 188 52 3 10 197 5 157 1.41e-56 176
MS.gene99435.t1 MTR_4g032460 52.660 188 48 1 10 197 4 150 6.18e-56 174
MS.gene99435.t1 MTR_4g032500 51.337 187 50 2 11 197 7 152 2.97e-55 172
MS.gene99435.t1 MTR_7g021380 54.787 188 49 3 10 197 5 156 5.45e-55 172
MS.gene99435.t1 MTR_7g094280 51.064 188 55 4 11 197 7 158 1.73e-54 171
MS.gene99435.t1 MTR_4g033455 48.691 191 62 3 7 197 6 160 1.04e-52 166
MS.gene99435.t1 MTR_7g094310 48.404 188 50 4 11 197 7 148 3.15e-48 154
MS.gene99435.t1 MTR_4g033460 46.328 177 59 3 7 183 6 146 5.49e-45 149
MS.gene99435.t1 MTR_4g033460 46.512 129 26 3 46 174 160 245 1.01e-22 92.0
MS.gene99435.t1 MTR_5g082340 44.681 188 58 3 10 197 4 145 1.53e-42 140
MS.gene99435.t1 MTR_1g099870 51.471 136 33 1 62 197 1 103 1.13e-41 136
MS.gene99435.t1 MTR_4g021390 42.268 194 73 4 4 197 1 155 1.25e-40 135
MS.gene99435.t1 MTR_7g094410 51.974 152 64 5 11 155 7 156 1.66e-37 128
MS.gene99435.t1 MTR_4g032420 43.210 162 43 2 36 197 38 150 2.45e-36 124
MS.gene99435.t1 MTR_7g094360 45.109 184 83 6 11 177 7 189 8.30e-34 119
MS.gene99435.t1 MTR_8g089730 45.912 159 33 2 39 197 1 106 1.93e-33 115
MS.gene99435.t1 MTR_7g094350 44.624 186 83 7 10 177 5 188 2.96e-30 110
MS.gene99435.t1 MTR_4g127240 44.056 143 39 4 41 181 21 124 3.14e-28 102
MS.gene99435.t1 MTR_4g131980 41.566 166 54 4 10 174 4 127 4.30e-27 100
MS.gene99435.t1 MTR_4g119422 38.547 179 69 3 10 187 230 368 3.43e-26 103
MS.gene99435.t1 MTR_7g006370 37.778 180 67 4 4 183 1 135 5.82e-26 97.4
MS.gene99435.t1 MTR_8g056090 38.356 146 39 4 51 195 30 125 4.22e-21 84.7
MS.gene99435.t1 MTR_7g071200 59.420 69 27 1 130 197 4 72 1.58e-20 81.6
MS.gene99435.t1 MTR_2g066010 31.720 186 81 5 13 196 20 161 2.37e-19 82.0
MS.gene99435.t1 MTR_4g032470 72.222 54 14 1 17 70 32 84 7.09e-19 79.0
MS.gene99435.t1 MTR_4g032470 48.000 75 38 1 124 197 60 134 2.62e-16 72.4
MS.gene99435.t1 MTR_2g065720 31.183 186 82 5 13 196 37 178 3.12e-18 79.3
MS.gene99435.t1 MTR_1g112590 30.978 184 77 5 19 187 7 155 3.66e-18 77.8
MS.gene99435.t1 MTR_7g094320 68.519 54 16 1 11 64 7 59 1.08e-17 75.5
MS.gene99435.t1 MTR_7g094320 47.945 73 35 1 128 197 45 117 1.65e-14 67.4
MS.gene99435.t1 MTR_4g032540 55.556 63 27 1 131 192 70 132 1.88e-16 72.8
MS.gene99435.t1 MTR_5g096950 27.273 187 89 3 10 196 3 142 4.25e-13 64.3
MS.gene99435.t1 MTR_8g007205 29.851 134 54 2 55 188 58 151 1.44e-11 62.4
MS.gene99435.t1 MTR_8g007185 29.851 134 54 2 55 188 58 151 1.46e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene99435.t1 AT1G20140 55.080 187 55 3 11 197 6 163 1.96e-61 189
MS.gene99435.t1 AT1G75950 55.319 188 54 2 10 197 3 160 2.26e-61 188
MS.gene99435.t1 AT2G25700 52.941 187 59 2 11 197 6 163 2.43e-61 188
MS.gene99435.t1 AT5G42190 57.754 187 59 3 11 197 5 171 7.54e-61 187
MS.gene99435.t1 AT4G34210 50.532 188 55 4 10 197 3 152 3.28e-57 177
MS.gene99435.t1 AT4G34470 50.000 188 56 4 10 197 3 152 4.46e-56 174
MS.gene99435.t1 AT3G60010 49.474 190 57 3 10 197 2 154 3.68e-51 162
MS.gene99435.t1 AT3G21850 45.789 190 62 4 10 197 3 153 1.65e-48 155
MS.gene99435.t1 AT2G03160 45.833 192 96 4 10 197 3 190 6.78e-46 150
MS.gene99435.t1 AT3G21860 43.386 189 67 3 10 197 3 152 4.38e-45 147
MS.gene99435.t1 AT2G03170 44.444 189 62 4 10 197 3 149 7.93e-45 146
MS.gene99435.t1 AT2G03190 43.386 189 82 4 10 197 3 167 6.09e-44 144
MS.gene99435.t1 AT3G21830 44.444 189 65 4 10 197 3 152 1.23e-42 140
MS.gene99435.t1 AT3G60020 42.564 195 64 5 9 197 1 153 2.68e-41 137
MS.gene99435.t1 AT3G25650 46.073 191 74 6 10 197 3 167 3.57e-41 137
MS.gene99435.t1 AT2G20160 41.489 188 68 3 10 196 3 149 3.25e-39 132
MS.gene99435.t1 AT1G10230 41.053 190 77 3 8 196 1 156 9.93e-37 125
MS.gene99435.t1 AT3G21840 41.935 155 50 3 10 163 3 118 1.98e-26 98.6

Find 44 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGCAAAAGATGATCAAAT+TGG 0.231570 4.2:-83813730 None:intergenic
TGTCGCCGTCGGAACTTATC+AGG 0.254151 4.2:+83813679 None:intergenic
TGGTCTTGTGTATCGTAAAA+AGG 0.263569 4.2:-83813463 MS.gene99435:CDS
CGTTCGGGCTGCGAATTACT+TGG 0.322167 4.2:-83813307 MS.gene99435:CDS
TACGCTGTTTGAACTCGTTC+GGG 0.347745 4.2:-83813322 MS.gene99435:CDS
CTTGGATATTAAGAGCTTGC+TGG 0.358500 4.2:-83813289 MS.gene99435:CDS
TTACGCTGTTTGAACTCGTT+CGG 0.374750 4.2:-83813323 MS.gene99435:CDS
TCGCTGGTTACGTTTGAGAT+AGG 0.416253 4.2:+83813570 None:intergenic
ACTTCTTTCTCTGCAGCCTT+AGG 0.416639 4.2:+83813402 None:intergenic
GGAGGATGAGCTTGAAAAGT+GGG 0.450380 4.2:-83813373 MS.gene99435:CDS
GTGGGATGCTGAATTTGTTA+AGG 0.456238 4.2:-83813355 MS.gene99435:CDS
TGCAGAGAAAGAAGTGAGTA+AGG 0.462604 4.2:-83813394 MS.gene99435:CDS
CTTACTTGTAACACTGTAGC+TGG 0.467258 4.2:-83813264 MS.gene99435:CDS
TGATTTCTCTCCGGAGGAAG+AGG 0.469662 4.2:-83813187 MS.gene99435:CDS
AAGCAAAAGATGATCAAATT+GGG 0.474538 4.2:-83813729 None:intergenic
CGAATCTCTTCCTCTTCCTC+CGG 0.489700 4.2:+83813177 None:intergenic
AGGAGGATGAGCTTGAAAAG+TGG 0.500528 4.2:-83813374 MS.gene99435:CDS
GACATCGGAGCAGATTCGTC+AGG 0.503138 4.2:-83813226 MS.gene99435:CDS
TTGCTGAAGAAGAAAAGCCT+TGG 0.514532 4.2:-83813494 MS.gene99435:CDS
TGTTTGCGATTCTAATGCTA+CGG 0.517651 4.2:+83813638 None:intergenic
GATTCGTAAGGAAAATCAAT+GGG 0.519861 4.2:-83813160 MS.gene99435:CDS
TACGGCTTCGTCGATTTCGA+AGG 0.534173 4.2:+83813656 None:intergenic
GACAATTGCGTGGACGACAC+TGG 0.537246 4.2:-83813597 MS.gene99435:CDS
AGATTCGTAAGGAAAATCAA+TGG 0.542843 4.2:-83813161 MS.gene99435:CDS
AACCAGCGAGATTCTAGCTA+TGG 0.559406 4.2:-83813556 MS.gene99435:CDS
TACCATAGCTAGAATCTCGC+TGG 0.560708 4.2:+83813554 None:intergenic
AGTACCGATGAAAAGAAATC+CGG 0.562161 4.2:-83813435 MS.gene99435:CDS
GATTGCGAATGATTTCTCTC+CGG 0.567371 4.2:-83813196 MS.gene99435:CDS
ATCCGGTGAAGATGTTCCTA+AGG 0.572791 4.2:-83813418 MS.gene99435:CDS
TGCGAATGATTTCTCTCCGG+AGG 0.588529 4.2:-83813193 MS.gene99435:CDS
GGAAGAGGAAGAGATTCGTA+AGG 0.593859 4.2:-83813172 MS.gene99435:CDS
TTACTTGTAACACTGTAGCT+GGG 0.593910 4.2:-83813263 MS.gene99435:CDS
AGCCTTAGGAACATCTTCAC+CGG 0.599023 4.2:+83813416 None:intergenic
GAAAAGCCTTGGAAGTCGGA+TGG 0.616563 4.2:-83813483 MS.gene99435:CDS
ACAAGACCATCCGACTTCCA+AGG 0.617828 4.2:+83813477 None:intergenic
AGAAGAAAAGCCTTGGAAGT+CGG 0.624063 4.2:-83813487 MS.gene99435:CDS
GATTTCGAAGGTGTCGCCGT+CGG 0.632222 4.2:+83813668 None:intergenic
AGAGAAAGAAGTGAGTAAGG+AGG 0.638426 4.2:-83813391 MS.gene99435:CDS
GTCGCCGTCGGAACTTATCA+GGG 0.645078 4.2:+83813680 None:intergenic
CATGATCGAGGACAATTGCG+TGG 0.657097 4.2:-83813607 MS.gene99435:CDS
ATCACCCTGATAAGTTCCGA+CGG 0.660930 4.2:-83813684 MS.gene99435:CDS
AACAATCAAGTACATGATCG+AGG 0.679565 4.2:-83813619 MS.gene99435:CDS
GATTATACGTGGTAAGACAT+CGG 0.685652 4.2:-83813241 MS.gene99435:CDS
ACTGTAGCTGGGATTATACG+TGG 0.729556 4.2:-83813252 MS.gene99435:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGATTCGTAAGGAAAATCAA+TGG - chr4.2:83813708-83813727 MS.gene99435:CDS 30.0%
GATTCGTAAGGAAAATCAAT+GGG - chr4.2:83813709-83813728 MS.gene99435:CDS 30.0%
AACAATCAAGTACATGATCG+AGG - chr4.2:83813250-83813269 MS.gene99435:CDS 35.0%
GATTATACGTGGTAAGACAT+CGG - chr4.2:83813628-83813647 MS.gene99435:CDS 35.0%
TGTTTGCGATTCTAATGCTA+CGG + chr4.2:83813234-83813253 None:intergenic 35.0%
TTACTTGTAACACTGTAGCT+GGG - chr4.2:83813606-83813625 MS.gene99435:CDS 35.0%
! TTCACCGGATTTCTTTTCAT+CGG + chr4.2:83813441-83813460 None:intergenic 35.0%
!! AGTACCGATGAAAAGAAATC+CGG - chr4.2:83813434-83813453 MS.gene99435:CDS 35.0%
!! TGGTCTTGTGTATCGTAAAA+AGG - chr4.2:83813406-83813425 MS.gene99435:CDS 35.0%
AGAAGAAAAGCCTTGGAAGT+CGG - chr4.2:83813382-83813401 MS.gene99435:CDS 40.0%
AGAGAAAGAAGTGAGTAAGG+AGG - chr4.2:83813478-83813497 MS.gene99435:CDS 40.0%
CTTACTTGTAACACTGTAGC+TGG - chr4.2:83813605-83813624 MS.gene99435:CDS 40.0%
CTTGGATATTAAGAGCTTGC+TGG - chr4.2:83813580-83813599 MS.gene99435:CDS 40.0%
GATTGCGAATGATTTCTCTC+CGG - chr4.2:83813673-83813692 MS.gene99435:CDS 40.0%
TGCAGAGAAAGAAGTGAGTA+AGG - chr4.2:83813475-83813494 MS.gene99435:CDS 40.0%
TTACGCTGTTTGAACTCGTT+CGG - chr4.2:83813546-83813565 MS.gene99435:CDS 40.0%
TTGCTGAAGAAGAAAAGCCT+TGG - chr4.2:83813375-83813394 MS.gene99435:CDS 40.0%
!! GTGGGATGCTGAATTTGTTA+AGG - chr4.2:83813514-83813533 MS.gene99435:CDS 40.0%
ACTGTAGCTGGGATTATACG+TGG - chr4.2:83813617-83813636 MS.gene99435:CDS 45.0%
ACTTCTTTCTCTGCAGCCTT+AGG + chr4.2:83813470-83813489 None:intergenic 45.0%
AGCCTTAGGAACATCTTCAC+CGG + chr4.2:83813456-83813475 None:intergenic 45.0%
AGGAGGATGAGCTTGAAAAG+TGG - chr4.2:83813495-83813514 MS.gene99435:CDS 45.0%
ATCACCCTGATAAGTTCCGA+CGG - chr4.2:83813185-83813204 MS.gene99435:CDS 45.0%
ATCCGGTGAAGATGTTCCTA+AGG - chr4.2:83813451-83813470 MS.gene99435:CDS 45.0%
GGAAGAGGAAGAGATTCGTA+AGG - chr4.2:83813697-83813716 MS.gene99435:CDS 45.0%
GGAGGATGAGCTTGAAAAGT+GGG - chr4.2:83813496-83813515 MS.gene99435:CDS 45.0%
TACCATAGCTAGAATCTCGC+TGG + chr4.2:83813318-83813337 None:intergenic 45.0%
TACGCTGTTTGAACTCGTTC+GGG - chr4.2:83813547-83813566 MS.gene99435:CDS 45.0%
! AACCAGCGAGATTCTAGCTA+TGG - chr4.2:83813313-83813332 MS.gene99435:CDS 45.0%
! TCGCTGGTTACGTTTGAGAT+AGG + chr4.2:83813302-83813321 None:intergenic 45.0%
ACAAGACCATCCGACTTCCA+AGG + chr4.2:83813395-83813414 None:intergenic 50.0%
CATGATCGAGGACAATTGCG+TGG - chr4.2:83813262-83813281 MS.gene99435:CDS 50.0%
CGAATCTCTTCCTCTTCCTC+CGG + chr4.2:83813695-83813714 None:intergenic 50.0%
GAAAAGCCTTGGAAGTCGGA+TGG - chr4.2:83813386-83813405 MS.gene99435:CDS 50.0%
TGATTTCTCTCCGGAGGAAG+AGG - chr4.2:83813682-83813701 MS.gene99435:CDS 50.0%
TGCGAATGATTTCTCTCCGG+AGG - chr4.2:83813676-83813695 MS.gene99435:CDS 50.0%
!! TACGGCTTCGTCGATTTCGA+AGG + chr4.2:83813216-83813235 None:intergenic 50.0%
CGTTCGGGCTGCGAATTACT+TGG - chr4.2:83813562-83813581 MS.gene99435:CDS 55.0%
GACAATTGCGTGGACGACAC+TGG - chr4.2:83813272-83813291 MS.gene99435:CDS 55.0%
GACATCGGAGCAGATTCGTC+AGG - chr4.2:83813643-83813662 MS.gene99435:CDS 55.0%
GTCGCCGTCGGAACTTATCA+GGG + chr4.2:83813192-83813211 None:intergenic 55.0%
TGTCGCCGTCGGAACTTATC+AGG + chr4.2:83813193-83813212 None:intergenic 55.0%
!! GATTTCGAAGGTGTCGCCGT+CGG + chr4.2:83813204-83813223 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 83813149 83813742 83813149 ID=MS.gene99435
chr4.2 mRNA 83813149 83813742 83813149 ID=MS.gene99435.t1;Parent=MS.gene99435
chr4.2 exon 83813149 83813742 83813149 ID=MS.gene99435.t1.exon1;Parent=MS.gene99435.t1
chr4.2 CDS 83813149 83813742 83813149 ID=cds.MS.gene99435.t1;Parent=MS.gene99435.t1
Gene Sequence

>MS.gene99435

ATGATCAAATTGGGTAAGCAACAACAATCAAAGAAAATCACCCTGATAAGTTCCGACGGCGACACCTTCGAAATCGACGAAGCCGTAGCATTAGAATCGCAAACAATCAAGTACATGATCGAGGACAATTGCGTGGACGACACTGGAATACCTATCTCAAACGTAACCAGCGAGATTCTAGCTATGGTAATTGAATATTGCAAGAAACATGTTGAAGCTGCTGCGTTTGCTGAAGAAGAAAAGCCTTGGAAGTCGGATGGTCTTGTGTATCGTAAAAAGGTTTCGAGTACCGATGAAAAGAAATCCGGTGAAGATGTTCCTAAGGCTGCAGAGAAAGAAGTGAGTAAGGAGGATGAGCTTGAAAAGTGGGATGCTGAATTTGTTAAGGTTGATAATATTACGCTGTTTGAACTCGTTCGGGCTGCGAATTACTTGGATATTAAGAGCTTGCTGGAGCTTACTTGTAACACTGTAGCTGGGATTATACGTGGTAAGACATCGGAGCAGATTCGTCAGGCTTTTAAGATTGCGAATGATTTCTCTCCGGAGGAAGAGGAAGAGATTCGTAAGGAAAATCAATGGGCTTTTGAATGA

Protein sequence

>MS.gene99435.t1

MIKLGKQQQSKKITLISSDGDTFEIDEAVALESQTIKYMIEDNCVDDTGIPISNVTSEILAMVIEYCKKHVEAAAFAEEEKPWKSDGLVYRKKVSSTDEKKSGEDVPKAAEKEVSKEDELEKWDAEFVKVDNITLFELVRAANYLDIKSLLELTCNTVAGIIRGKTSEQIRQAFKIANDFSPEEEEEIRKENQWAFE