AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33451


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33451.t1 MTR_4g014460 95.413 218 7 1 1 218 1 215 2.32e-151 419
MS.gene33451.t1 MTR_7g070050 65.775 187 56 3 36 215 1 186 1.07e-76 229
MS.gene33451.t1 MTR_5g083270 62.941 170 58 3 42 209 39 205 2.73e-70 213
MS.gene33451.t1 MTR_3g071740 61.988 171 60 4 47 216 64 230 3.95e-69 211
MS.gene33451.t1 MTR_1g028380 45.902 183 94 2 31 213 5 182 6.98e-55 174
MS.gene33451.t1 MTR_5g030500 53.659 164 72 2 49 208 44 207 8.59e-55 174
MS.gene33451.t1 MTR_8g027805 48.171 164 84 1 49 212 18 180 4.59e-54 171
MS.gene33451.t1 MTR_1g016480 52.500 160 72 3 49 206 39 196 5.18e-53 169
MS.gene33451.t1 MTR_3g090980 43.956 182 97 2 32 213 8 184 1.34e-52 168
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33451.t1 AT2G38310 67.052 173 53 2 47 218 37 206 4.41e-73 221
MS.gene33451.t1 AT5G05440 64.815 162 53 2 45 205 41 199 2.15e-70 214
MS.gene33451.t1 AT2G40330 59.064 171 65 3 45 211 44 213 3.36e-66 203
MS.gene33451.t1 AT5G53160 48.485 165 84 1 49 213 19 182 3.33e-56 177
MS.gene33451.t1 AT1G01360 47.531 162 84 1 52 213 24 184 1.37e-55 175
MS.gene33451.t1 AT4G01026 49.068 161 81 1 53 213 27 186 1.07e-53 171
MS.gene33451.t1 AT2G26040 49.398 166 82 1 43 206 16 181 1.57e-53 170
MS.gene33451.t1 AT4G27920 46.667 165 88 0 49 213 14 178 5.11e-52 166
MS.gene33451.t1 AT4G17870 48.810 168 85 1 45 211 13 180 7.61e-52 166
MS.gene33451.t1 AT1G73000 46.199 171 82 4 43 203 31 201 3.37e-44 147
MS.gene33451.t1 AT5G46790 49.412 170 80 3 45 209 40 208 1.05e-43 146
MS.gene33451.t1 AT5G46790 49.412 170 80 3 45 209 40 208 1.05e-43 146
MS.gene33451.t1 AT5G45860 52.055 146 69 1 64 209 12 156 4.35e-42 140
MS.gene33451.t1 AT5G45870 50.676 148 71 1 64 211 12 157 9.77e-42 139
MS.gene33451.t1 AT4G18620 45.963 161 80 2 58 211 4 164 2.16e-34 120
MS.gene33451.t1 AT5G53160 50.495 101 49 1 49 149 19 118 5.59e-32 114

Find 73 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTGAAGACTTTGGTGGATT+TGG 0.227133 4.2:-86741194 None:intergenic
CGTTCGGTGCTGCGTGCAGC+AGG 0.323719 4.2:-86741542 None:intergenic
GGACGACCGCCGAGCATAAT+TGG 0.334740 4.2:-86741367 None:intergenic
TGATAGTGGGCTATAGTATT+AGG 0.336898 4.2:-86741323 None:intergenic
CAGCAGGGAGGCCAGATATA+AGG 0.373259 4.2:-86741526 None:intergenic
TTAGGAATGGTGTTGGTGAC+AGG 0.377606 4.2:-86741305 None:intergenic
TGATGGAGGCGGTTGTCTCT+TGG 0.388404 4.2:-86741388 None:intergenic
TCCACAGAGGGTGACTGTTC+CGG 0.392902 4.2:+86741665 MS.gene33451:CDS
AGGGAGGTCAACCTTATATC+TGG 0.399072 4.2:+86741515 MS.gene33451:CDS
CACTGACCAAACGGCGGTGA+TGG 0.428126 4.2:-86741405 None:intergenic
ATATTGAGTGTGTGTGATAG+TGG 0.451535 4.2:-86741337 None:intergenic
GAAGACTTTGGTGGATTTGG+AGG 0.457214 4.2:-86741191 None:intergenic
CCGCCTCCATCACCGCCGTT+TGG 0.479222 4.2:+86741399 MS.gene33451:CDS
ATCGAGGATCTCAAGGCGTT+CGG 0.483659 4.2:-86741558 None:intergenic
CGTTGGTGGCGACGGTGATG+TGG 0.489155 4.2:+86741484 MS.gene33451:CDS
GCGGCGAACCACTGACCAAA+CGG 0.490188 4.2:-86741414 None:intergenic
CTATGTGGTGGATATTCCTT+CGG 0.490303 4.2:+86741706 MS.gene33451:CDS
GAGGTCGTGGTGGTTGGTGA+TGG 0.514354 4.2:-86741252 None:intergenic
GCCGTGGAGGTCGTGGTGGT+TGG 0.515521 4.2:-86741258 None:intergenic
AGTCTTCACTTCTCCTCCAC+AGG 0.523366 4.2:+86741207 MS.gene33451:CDS
TGTTTGTTGATACAATTGTT+CGG 0.525160 4.2:+86741753 MS.gene33451:CDS
CATCACCGCCGTTTGGTCAG+TGG 0.527329 4.2:+86741406 MS.gene33451:CDS
TATAGTATTAGGAATGGTGT+TGG 0.528924 4.2:-86741312 None:intergenic
AGGAGAAGTGAAGACTTTGG+TGG 0.533916 4.2:-86741200 None:intergenic
ACGGTGATGTGGGCACACTC+AGG 0.539446 4.2:+86741495 MS.gene33451:CDS
CCAAACGGCGGTGATGGAGG+CGG 0.539681 4.2:-86741399 None:intergenic
TGTAACCTCGTTGGTGGCGA+CGG 0.546094 4.2:+86741476 MS.gene33451:CDS
ATCAAGAGTTGTAACCTCGT+TGG 0.547255 4.2:+86741467 MS.gene33451:CDS
GTTGGTGATGGTCGTAGTGG+TGG 0.548645 4.2:-86741240 None:intergenic
CGGTGATGTGGGCACACTCA+GGG 0.556265 4.2:+86741496 MS.gene33451:CDS
GTTCGGTGCTGCGTGCAGCA+GGG 0.556567 4.2:-86741541 None:intergenic
CAACACTAAAACTGATGACA+TGG 0.557856 4.2:-86741589 None:intergenic
GATCCTCATCGAGGATCTCA+AGG 0.566346 4.2:-86741565 None:intergenic
TAGGAATGGTGTTGGTGACA+GGG 0.566710 4.2:-86741304 None:intergenic
AAGAGTTGTAACCTCGTTGG+TGG 0.571438 4.2:+86741470 MS.gene33451:CDS
AGGCTTGTGGTTTGTCGAAG+CGG 0.573243 4.2:-86741433 None:intergenic
GGAACAGTCACCCTCTGTGG+AGG 0.574183 4.2:-86741663 None:intergenic
TGGTGACAGGGTTGATGAAG+AGG 0.574991 4.2:-86741292 None:intergenic
TGGTGGTGTGGTTGATCCTG+TGG 0.579437 4.2:-86741223 None:intergenic
TCCTTCGGAAAATACTAAAG+AGG 0.584494 4.2:+86741721 MS.gene33451:CDS
ATCATCCGACCAATTATGCT+CGG 0.584649 4.2:+86741358 MS.gene33451:CDS
TGACCAAACGGCGGTGATGG+AGG 0.585643 4.2:-86741402 None:intergenic
ACACTTCATCCCTCCACAGA+GGG 0.594198 4.2:+86741653 MS.gene33451:CDS
CGGTTTGTGCAAGTGACTGA+AGG 0.594264 4.2:-86741781 None:intergenic
GGTGACAGGGTTGATGAAGA+GGG 0.596139 4.2:-86741291 None:intergenic
GCCGGAACAGTCACCCTCTG+TGG 0.599614 4.2:-86741666 None:intergenic
GGACTCAACTATCACCGTGC+CGG 0.603129 4.2:-86741684 None:intergenic
GAACAGTCACCCTCTGTGGA+GGG 0.606405 4.2:-86741662 None:intergenic
GACCGCCGAGCATAATTGGT+CGG 0.608055 4.2:-86741363 None:intergenic
GTGGGCTATAGTATTAGGAA+TGG 0.608376 4.2:-86741318 None:intergenic
GTTGGTGGCGACGGTGATGT+GGG 0.610157 4.2:+86741485 MS.gene33451:CDS
CGAAGGAATATCCACCACAT+AGG 0.619850 4.2:-86741705 None:intergenic
TGGAGGAGAAGTGAAGACTT+TGG 0.627794 4.2:-86741203 None:intergenic
ACCAACCACCACGACCTCCA+CGG 0.628316 4.2:+86741257 MS.gene33451:CDS
AGAGGGTGACTGTTCCGGCA+CGG 0.639448 4.2:+86741670 MS.gene33451:CDS
GGAGGGATGAAGTGTAGTAA+CGG 0.646842 4.2:-86741645 None:intergenic
TGATGGTCGTAGTGGTGGTG+TGG 0.646910 4.2:-86741235 None:intergenic
GTGGTTGGTGATGGTCGTAG+TGG 0.657655 4.2:-86741243 None:intergenic
CGGTGCTGCGTGCAGCAGGG+AGG 0.659975 4.2:-86741538 None:intergenic
TATTGAGTGTGTGTGATAGT+GGG 0.661022 4.2:-86741336 None:intergenic
TGGTGTGGTTGATCCTGTGG+AGG 0.662950 4.2:-86741220 None:intergenic
GATGAAGTGTAGTAACGGAA+CGG 0.672049 4.2:-86741640 None:intergenic
ACGCCTTGAGATCCTCGATG+AGG 0.696994 4.2:+86741562 MS.gene33451:CDS
TTTCGCCGTGGAGGTCGTGG+TGG 0.698954 4.2:-86741262 None:intergenic
ATCCGACCAATTATGCTCGG+CGG 0.704061 4.2:+86741361 MS.gene33451:CDS
TTGCTGTGTAATGTTCTCTG+CGG 0.706407 4.2:-86741801 None:intergenic
GATAGTTGAGTCCTATGTGG+TGG 0.708119 4.2:+86741694 MS.gene33451:CDS
GGTGATAGTTGAGTCCTATG+TGG 0.715010 4.2:+86741691 MS.gene33451:CDS
TGATGTGGGCACACTCAGGG+AGG 0.725955 4.2:+86741499 MS.gene33451:CDS
CATCACCGTCGCCACCAACG+AGG 0.726271 4.2:-86741481 None:intergenic
TACACTTCATCCCTCCACAG+AGG 0.732326 4.2:+86741652 MS.gene33451:CDS
TGACATGGCGATCCTCATCG+AGG 0.742190 4.2:-86741574 None:intergenic
GCGAACCACTGACCAAACGG+CGG 0.744614 4.2:-86741411 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACTCTTGATGAAATTTTTGT+AGG - chr4.2:86741456-86741475 None:intergenic 25.0%
!! TGTTTGTTGATACAATTGTT+CGG + chr4.2:86741753-86741772 MS.gene33451:CDS 25.0%
TATAGTATTAGGAATGGTGT+TGG - chr4.2:86741315-86741334 None:intergenic 30.0%
! ATGAAATTTTTGTAGGCTTG+TGG - chr4.2:86741449-86741468 None:intergenic 30.0%
ATATTGAGTGTGTGTGATAG+TGG - chr4.2:86741340-86741359 None:intergenic 35.0%
CAACACTAAAACTGATGACA+TGG - chr4.2:86741592-86741611 None:intergenic 35.0%
TATTGAGTGTGTGTGATAGT+GGG - chr4.2:86741339-86741358 None:intergenic 35.0%
TCCTTCGGAAAATACTAAAG+AGG + chr4.2:86741721-86741740 MS.gene33451:CDS 35.0%
! TCCTCTTTAGTATTTTCCGA+AGG - chr4.2:86741725-86741744 None:intergenic 35.0%
!! ATCAGTTTTAGTGTTGTTGG+TGG + chr4.2:86741596-86741615 MS.gene33451:CDS 35.0%
!! GTCATCAGTTTTAGTGTTGT+TGG + chr4.2:86741593-86741612 MS.gene33451:CDS 35.0%
!! TGATAGTGGGCTATAGTATT+AGG - chr4.2:86741326-86741345 None:intergenic 35.0%
ATCAAGAGTTGTAACCTCGT+TGG + chr4.2:86741467-86741486 MS.gene33451:CDS 40.0%
ATCATCCGACCAATTATGCT+CGG + chr4.2:86741358-86741377 MS.gene33451:CDS 40.0%
TTGCTGTGTAATGTTCTCTG+CGG - chr4.2:86741804-86741823 None:intergenic 40.0%
! GATGAAGTGTAGTAACGGAA+CGG - chr4.2:86741643-86741662 None:intergenic 40.0%
! GTGGGCTATAGTATTAGGAA+TGG - chr4.2:86741321-86741340 None:intergenic 40.0%
!! AGTGAAGACTTTGGTGGATT+TGG - chr4.2:86741197-86741216 None:intergenic 40.0%
!! CTATGTGGTGGATATTCCTT+CGG + chr4.2:86741706-86741725 MS.gene33451:CDS 40.0%
AAGAGTTGTAACCTCGTTGG+TGG + chr4.2:86741470-86741489 MS.gene33451:CDS 45.0%
AGGAGAAGTGAAGACTTTGG+TGG - chr4.2:86741203-86741222 None:intergenic 45.0%
AGGGAGGTCAACCTTATATC+TGG + chr4.2:86741515-86741534 MS.gene33451:CDS 45.0%
CGAAGGAATATCCACCACAT+AGG - chr4.2:86741708-86741727 None:intergenic 45.0%
GATAGTTGAGTCCTATGTGG+TGG + chr4.2:86741694-86741713 MS.gene33451:CDS 45.0%
GGAGGGATGAAGTGTAGTAA+CGG - chr4.2:86741648-86741667 None:intergenic 45.0%
GGTGATAGTTGAGTCCTATG+TGG + chr4.2:86741691-86741710 MS.gene33451:CDS 45.0%
TGGAGGAGAAGTGAAGACTT+TGG - chr4.2:86741206-86741225 None:intergenic 45.0%
!! GAAGACTTTGGTGGATTTGG+AGG - chr4.2:86741194-86741213 None:intergenic 45.0%
!! TAGGAATGGTGTTGGTGACA+GGG - chr4.2:86741307-86741326 None:intergenic 45.0%
!! TTAGGAATGGTGTTGGTGAC+AGG - chr4.2:86741308-86741327 None:intergenic 45.0%
ACACTTCATCCCTCCACAGA+GGG + chr4.2:86741653-86741672 MS.gene33451:CDS 50.0%
AGTCTTCACTTCTCCTCCAC+AGG + chr4.2:86741207-86741226 MS.gene33451:CDS 50.0%
ATCCGACCAATTATGCTCGG+CGG + chr4.2:86741361-86741380 MS.gene33451:CDS 50.0%
CGGTTTGTGCAAGTGACTGA+AGG - chr4.2:86741784-86741803 None:intergenic 50.0%
GATCCTCATCGAGGATCTCA+AGG - chr4.2:86741568-86741587 None:intergenic 50.0%
TACACTTCATCCCTCCACAG+AGG + chr4.2:86741652-86741671 MS.gene33451:CDS 50.0%
! AGGCTTGTGGTTTGTCGAAG+CGG - chr4.2:86741436-86741455 None:intergenic 50.0%
! ATCGAGGATCTCAAGGCGTT+CGG - chr4.2:86741561-86741580 None:intergenic 50.0%
!! GGTGACAGGGTTGATGAAGA+GGG - chr4.2:86741294-86741313 None:intergenic 50.0%
!! TGGTGACAGGGTTGATGAAG+AGG - chr4.2:86741295-86741314 None:intergenic 50.0%
ACGCCTTGAGATCCTCGATG+AGG + chr4.2:86741562-86741581 MS.gene33451:CDS 55.0%
CAGCAGGGAGGCCAGATATA+AGG - chr4.2:86741529-86741548 None:intergenic 55.0%
GAACAGTCACCCTCTGTGGA+GGG - chr4.2:86741665-86741684 None:intergenic 55.0%
GACCGCCGAGCATAATTGGT+CGG - chr4.2:86741366-86741385 None:intergenic 55.0%
GGACTCAACTATCACCGTGC+CGG - chr4.2:86741687-86741706 None:intergenic 55.0%
TCCACAGAGGGTGACTGTTC+CGG + chr4.2:86741665-86741684 MS.gene33451:CDS 55.0%
TGACATGGCGATCCTCATCG+AGG - chr4.2:86741577-86741596 None:intergenic 55.0%
TGATGGAGGCGGTTGTCTCT+TGG - chr4.2:86741391-86741410 None:intergenic 55.0%
TGGTGTGGTTGATCCTGTGG+AGG - chr4.2:86741223-86741242 None:intergenic 55.0%
! TGATGGTCGTAGTGGTGGTG+TGG - chr4.2:86741238-86741257 None:intergenic 55.0%
! TGGTGGTGTGGTTGATCCTG+TGG - chr4.2:86741226-86741245 None:intergenic 55.0%
!! GTGGTTGGTGATGGTCGTAG+TGG - chr4.2:86741246-86741265 None:intergenic 55.0%
!! GTTGGTGATGGTCGTAGTGG+TGG - chr4.2:86741243-86741262 None:intergenic 55.0%
!! TGTAACCTCGTTGGTGGCGA+CGG + chr4.2:86741476-86741495 MS.gene33451:CDS 55.0%
!!! AGAGGGTGTTGTTTTCGCCG+TGG - chr4.2:86741277-86741296 None:intergenic 55.0%
ACCAACCACCACGACCTCCA+CGG + chr4.2:86741257-86741276 MS.gene33451:CDS 60.0%
ACGGTGATGTGGGCACACTC+AGG + chr4.2:86741495-86741514 MS.gene33451:CDS 60.0%
AGAGGGTGACTGTTCCGGCA+CGG + chr4.2:86741670-86741689 MS.gene33451:CDS 60.0%
CACTGACCAAACGGCGGTGA+TGG - chr4.2:86741408-86741427 None:intergenic 60.0%
CATCACCGCCGTTTGGTCAG+TGG + chr4.2:86741406-86741425 MS.gene33451:CDS 60.0%
CGGTGATGTGGGCACACTCA+GGG + chr4.2:86741496-86741515 MS.gene33451:CDS 60.0%
GCGAACCACTGACCAAACGG+CGG - chr4.2:86741414-86741433 None:intergenic 60.0%
GCGGCGAACCACTGACCAAA+CGG - chr4.2:86741417-86741436 None:intergenic 60.0%
GGAACAGTCACCCTCTGTGG+AGG - chr4.2:86741666-86741685 None:intergenic 60.0%
GGACGACCGCCGAGCATAAT+TGG - chr4.2:86741370-86741389 None:intergenic 60.0%
TGATGTGGGCACACTCAGGG+AGG + chr4.2:86741499-86741518 MS.gene33451:CDS 60.0%
! TGACCAAACGGCGGTGATGG+AGG - chr4.2:86741405-86741424 None:intergenic 60.0%
! TGTTTTCGCCGTGGAGGTCG+TGG - chr4.2:86741268-86741287 None:intergenic 60.0%
!! GAGGTCGTGGTGGTTGGTGA+TGG - chr4.2:86741255-86741274 None:intergenic 60.0%
!! GTTGGTGGCGACGGTGATGT+GGG + chr4.2:86741485-86741504 MS.gene33451:CDS 60.0%
!!! GGGTGTTGTTTTCGCCGTGG+AGG - chr4.2:86741274-86741293 None:intergenic 60.0%
CATCACCGTCGCCACCAACG+AGG - chr4.2:86741484-86741503 None:intergenic 65.0%
GCCGGAACAGTCACCCTCTG+TGG - chr4.2:86741669-86741688 None:intergenic 65.0%
TTTCGCCGTGGAGGTCGTGG+TGG - chr4.2:86741265-86741284 None:intergenic 65.0%
!! CCAAACGGCGGTGATGGAGG+CGG - chr4.2:86741402-86741421 None:intergenic 65.0%
!! CGTTGGTGGCGACGGTGATG+TGG + chr4.2:86741484-86741503 MS.gene33451:CDS 65.0%
!! GTTCGGTGCTGCGTGCAGCA+GGG - chr4.2:86741544-86741563 None:intergenic 65.0%
CCGCCTCCATCACCGCCGTT+TGG + chr4.2:86741399-86741418 MS.gene33451:CDS 70.0%
GCCGTGGAGGTCGTGGTGGT+TGG - chr4.2:86741261-86741280 None:intergenic 70.0%
!! CGTTCGGTGCTGCGTGCAGC+AGG - chr4.2:86741545-86741564 None:intergenic 70.0%
!! CGGTGCTGCGTGCAGCAGGG+AGG - chr4.2:86741541-86741560 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 86741188 86741844 86741188 ID=MS.gene33451
chr4.2 mRNA 86741188 86741844 86741188 ID=MS.gene33451.t1;Parent=MS.gene33451
chr4.2 exon 86741188 86741844 86741188 ID=MS.gene33451.t1.exon1;Parent=MS.gene33451.t1
chr4.2 CDS 86741188 86741844 86741188 ID=cds.MS.gene33451.t1;Parent=MS.gene33451.t1
Gene Sequence

>MS.gene33451

ATGCCTCCAAATCCACCAAAGTCTTCACTTCTCCTCCACAGGATCAACCACACCACCACTACGACCATCACCAACCACCACGACCTCCACGGCGAAAACAACACCCTCTTCATCAACCCTGTCACCAACACCATTCCTAATACTATAGCCCACTATCACACACACTCAATATCATCCGACCAATTATGCTCGGCGGTCGTCCAAGAGACAACCGCCTCCATCACCGCCGTTTGGTCAGTGGTTCGCCGCTTCGACAAACCACAAGCCTACAAAAATTTCATCAAGAGTTGTAACCTCGTTGGTGGCGACGGTGATGTGGGCACACTCAGGGAGGTCAACCTTATATCTGGCCTCCCTGCTGCACGCAGCACCGAACGCCTTGAGATCCTCGATGAGGATCGCCATGTCATCAGTTTTAGTGTTGTTGGTGGTGATCACAAGCTTGCTAACTACCGTTCCGTTACTACACTTCATCCCTCCACAGAGGGTGACTGTTCCGGCACGGTGATAGTTGAGTCCTATGTGGTGGATATTCCTTCGGAAAATACTAAAGAGGACACACATGTGTTTGTTGATACAATTGTTCGGTGTAACCTTCAGTCACTTGCACAAACCGCAGAGAACATTACACAGCAAAACAACAAGAGTTGTTCCTGA

Protein sequence

>MS.gene33451.t1

MPPNPPKSSLLLHRINHTTTTTITNHHDLHGENNTLFINPVTNTIPNTIAHYHTHSISSDQLCSAVVQETTASITAVWSVVRRFDKPQAYKNFIKSCNLVGGDGDVGTLREVNLISGLPAARSTERLEILDEDRHVISFSVVGGDHKLANYRSVTTLHPSTEGDCSGTVIVESYVVDIPSENTKEDTHVFVDTIVRCNLQSLAQTAENITQQNNKSCS