AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene072447


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene072447.t1 MTR_7g113830 87.423 326 11 5 1 319 14 316 0.0 562
MS.gene072447.t1 MTR_1g082480 56.686 344 101 13 1 316 14 337 1.20e-108 320
MS.gene072447.t1 MTR_3g099620 50.920 326 135 6 1 312 1 315 1.52e-101 301
MS.gene072447.t1 MTR_1g082480 55.096 314 93 13 1 286 14 307 2.56e-89 270
MS.gene072447.t1 MTR_5g064950 44.985 329 134 12 1 314 1 297 2.95e-81 248
MS.gene072447.t1 MTR_8g066770 56.338 213 74 4 115 315 104 309 7.42e-73 228
MS.gene072447.t1 MTR_5g064950 44.518 301 120 12 1 286 1 269 6.81e-70 220
MS.gene072447.t1 MTR_8g024210 53.846 195 86 2 115 309 171 361 6.29e-57 188
MS.gene072447.t1 MTR_0194s0050 44.298 228 102 7 107 315 166 387 1.16e-49 170
MS.gene072447.t1 MTR_2g022280 40.761 184 104 3 125 304 1 183 1.07e-34 125
MS.gene072447.t1 MTR_1g028470 35.111 225 118 5 105 304 69 290 4.69e-31 118
MS.gene072447.t1 MTR_3g090850 33.043 230 104 6 123 304 99 326 2.01e-23 98.6
MS.gene072447.t1 MTR_5g014600 25.463 216 137 7 105 306 128 333 4.04e-13 69.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene072447.t1 AT1G72210 48.358 335 139 8 1 316 1 320 5.20e-83 254
MS.gene072447.t1 AT1G22490 44.923 325 146 9 1 313 1 304 5.90e-73 228
MS.gene072447.t1 AT1G72210 48.185 303 127 7 1 286 1 290 1.03e-71 224
MS.gene072447.t1 AT1G22490 45.333 300 127 9 1 286 1 277 7.12e-62 200
MS.gene072447.t1 AT4G01460 48.309 207 93 3 115 312 105 306 5.76e-56 184
MS.gene072447.t1 AT4G01460 48.309 207 93 3 115 312 105 306 5.76e-56 184
MS.gene072447.t1 AT5G65320 47.980 198 97 3 121 312 98 295 1.22e-52 175
MS.gene072447.t1 AT2G46810 47.150 193 95 3 116 307 112 298 1.86e-51 172
MS.gene072447.t1 AT2G46810 47.150 193 95 3 116 307 172 358 1.01e-50 172
MS.gene072447.t1 AT2G46810 47.150 193 95 3 116 307 184 370 1.56e-50 172
MS.gene072447.t1 AT5G46690 44.828 232 87 5 115 312 78 302 8.48e-50 169
MS.gene072447.t1 AT3G24140 41.850 227 115 3 105 315 177 402 7.23e-49 168
MS.gene072447.t1 AT3G24140 40.343 233 122 3 99 315 171 402 2.18e-48 167
MS.gene072447.t1 AT3G61950 46.154 195 97 2 114 307 116 303 1.37e-47 162
MS.gene072447.t1 AT3G61950 46.154 195 97 2 114 307 167 354 9.39e-47 161
MS.gene072447.t1 AT2G46810 41.629 221 94 4 116 307 112 326 8.73e-46 158
MS.gene072447.t1 AT5G65320 49.708 171 81 2 121 286 98 268 8.90e-46 157
MS.gene072447.t1 AT3G61950 46.875 160 78 1 114 273 116 268 4.85e-40 142
MS.gene072447.t1 AT3G61950 46.875 160 78 1 114 273 167 319 2.89e-39 141
MS.gene072447.t1 AT5G46690 43.689 206 75 5 115 286 78 276 1.36e-38 138
MS.gene072447.t1 AT3G06120 38.095 189 105 3 125 302 1 188 4.77e-32 119
MS.gene072447.t1 AT5G53210 61.538 65 25 0 123 187 100 164 3.10e-20 90.1
MS.gene072447.t1 AT5G53210 61.538 65 25 0 123 187 100 164 4.22e-20 90.1
MS.gene072447.t1 AT3G61950 72.093 43 12 0 114 156 167 209 3.83e-14 70.9
MS.gene072447.t1 AT3G61950 72.093 43 12 0 114 156 167 209 3.83e-14 70.9

Find 43 sgRNAs with CRISPR-Local

Find 69 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAATTATGCTTATGGAAAT+TGG 0.223168 7.3:-3068281 MS.gene072447:CDS
ACCATCTTCAAGAGCTGTTT+TGG 0.261447 7.3:+3067553 None:intergenic
GGTGATCAAGCATCAATTAT+TGG 0.265730 7.3:-3067829 MS.gene072447:CDS
GTTGAATTCTTTCCAACATT+TGG 0.301786 7.3:+3067226 None:intergenic
GAGCAGAAGCTACAATTTCT+TGG 0.311027 7.3:-3067778 MS.gene072447:CDS
GTGATCAAGCATCAATTATT+GGG 0.314095 7.3:-3067828 MS.gene072447:CDS
CATCAGCTGTAGTGACATTA+AGG 0.320979 7.3:+3067494 None:intergenic
ACCCTTTGGACGTAAGATTC+AGG 0.337296 7.3:+3068015 None:intergenic
TTGCTTCAGAATCTGTTAAC+AGG 0.346873 7.3:+3068385 None:intergenic
CAAACAGAGAATTATGCTTA+TGG 0.362320 7.3:-3068288 MS.gene072447:CDS
CTTCTATTCTATCAGCGTTA+AGG 0.373348 7.3:-3067464 MS.gene072447:intron
AAGCATAATTCTCTGTTTGT+TGG 0.375728 7.3:+3068292 None:intergenic
GTTGAAGATGATTGCAAGCT+TGG 0.385709 7.3:-3067279 MS.gene072447:CDS
ACAATCATTGTTGCCACAAA+TGG 0.405629 7.3:-3068223 MS.gene072447:CDS
CCACAAGACCCTTTCACCTA+TGG 0.431613 7.3:-3068435 MS.gene072447:CDS
TTAACAGGTTGTAATTGTAA+TGG 0.451750 7.3:+3068400 None:intergenic
ACCAAAACAGCTCTTGAAGA+TGG 0.460812 7.3:-3067554 MS.gene072447:CDS
ACATTGCTGTAGAACGCAAC+AGG 0.469202 7.3:-3068083 MS.gene072447:CDS
TTCTTACTTTGAGATTTGCA+TGG 0.473698 7.3:+3067587 None:intergenic
GAAATTGAACTATCTAAAGA+TGG 0.481389 7.3:+3068186 None:intergenic
TGTTGAATCCATAGGTGAAA+GGG 0.493303 7.3:+3068427 None:intergenic
AAGATGGTTTCTAGTTTGCA+TGG 0.504712 7.3:-3067538 MS.gene072447:CDS
GGCAACAATGATTGTGGTGG+TGG 0.505665 7.3:+3068231 None:intergenic
TTTGACACTTCATCCATTTG+TGG 0.511454 7.3:+3068210 None:intergenic
TGCCTGAATCTTACGTCCAA+AGG 0.512531 7.3:-3068017 MS.gene072447:CDS
GCCTGAATCTTACGTCCAAA+GGG 0.523230 7.3:-3068016 MS.gene072447:intron
TCTTGTGGATATAGTAGAGT+TGG 0.525531 7.3:+3068450 None:intergenic
AACAATGATTGTGGTGGTGG+TGG 0.531255 7.3:+3068234 None:intergenic
CTGTCACTTGTTGAGTATTG+TGG 0.536473 7.3:+3067694 None:intergenic
TTGTTGAATCCATAGGTGAA+AGG 0.539793 7.3:+3068426 None:intergenic
TAGAGTTGGTTCTAGTGCCA+TGG 0.564316 7.3:+3068464 None:intergenic
CCATAGGTGAAAGGGTCTTG+TGG 0.567251 7.3:+3068435 None:intergenic
ATGGTCTTTGTTGAATCCAT+AGG 0.572517 7.3:+3068419 None:intergenic
TGCAGCTGTATACCAAATGT+TGG 0.583918 7.3:-3067238 MS.gene072447:CDS
TGATTGCAAGCTTGGATCAG+TGG 0.587540 7.3:-3067271 MS.gene072447:CDS
CAGAAGCTACAATTTCTTGG+TGG 0.593039 7.3:-3067775 MS.gene072447:CDS
TGATCAAGCATCAATTATTG+GGG 0.599410 7.3:-3067827 MS.gene072447:CDS
AACCTTCAAAATCAAGAACA+AGG 0.614022 7.3:-3068342 MS.gene072447:CDS
TGCTGATATTGAAGTGACAA+TGG 0.646131 7.3:-3067617 MS.gene072447:CDS
ATTTGTGGCAACAATGATTG+TGG 0.649128 7.3:+3068225 None:intergenic
ACTTGTTGAGTATTGTGGAA+AGG 0.653314 7.3:+3067699 None:intergenic
TGTGGCAACAATGATTGTGG+TGG 0.680500 7.3:+3068228 None:intergenic
GATCAAGCATCAATTATTGG+GGG 0.757063 7.3:-3067826 MS.gene072447:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATTTTATTTTGTAATTTGT+AGG - chr7.3:3068358-3068377 MS.gene072447:CDS 10.0%
!! TTAAGTACTTACAATAATTT+AGG + chr7.3:3068311-3068330 None:intergenic 15.0%
!!! TCATTTTTAAATTGAAATTG+CGG + chr7.3:3067782-3067801 None:intergenic 15.0%
!! AAGAAAAAAAAAAACATGAC+AGG + chr7.3:3068236-3068255 None:intergenic 20.0%
!! AGAAAAAAAAAAACATGACA+GGG + chr7.3:3068235-3068254 None:intergenic 20.0%
!!! CTTCTATTACTTTTAAATTG+TGG - chr7.3:3067668-3067687 MS.gene072447:CDS 20.0%
!!! TTTGATTGATGAATTTTTCA+GGG - chr7.3:3067809-3067828 MS.gene072447:CDS 20.0%
!!! TTTTGATTGATGAATTTTTC+AGG - chr7.3:3067808-3067827 MS.gene072447:CDS 20.0%
! AAAGGTGAAAAATTCAGAAA+AGG + chr7.3:3067945-3067964 None:intergenic 25.0%
! AAGGTGAAAAATTCAGAAAA+GGG + chr7.3:3067944-3067963 None:intergenic 25.0%
! AGAATTATGCTTATGGAAAT+TGG - chr7.3:3067378-3067397 MS.gene072447:intron 25.0%
! GAAATTGAACTATCTAAAGA+TGG + chr7.3:3067476-3067495 None:intergenic 25.0%
! TTAACAGGTTGTAATTGTAA+TGG + chr7.3:3067262-3067281 None:intergenic 25.0%
AACCTTCAAAATCAAGAACA+AGG - chr7.3:3067317-3067336 MS.gene072447:intron 30.0%
AAGCATAATTCTCTGTTTGT+TGG + chr7.3:3067370-3067389 None:intergenic 30.0%
CAAACAGAGAATTATGCTTA+TGG - chr7.3:3067371-3067390 MS.gene072447:intron 30.0%
GCTAAAAAGTGGTTAGAATT+TGG + chr7.3:3068266-3068285 None:intergenic 30.0%
GTGATCAAGCATCAATTATT+GGG - chr7.3:3067831-3067850 MS.gene072447:CDS 30.0%
GTTGAATTCTTTCCAACATT+TGG + chr7.3:3068436-3068455 None:intergenic 30.0%
TGATCAAGCATCAATTATTG+GGG - chr7.3:3067832-3067851 MS.gene072447:CDS 30.0%
TTCAAGAGAAAGCTAAAAAG+TGG + chr7.3:3068277-3068296 None:intergenic 30.0%
! AACCTTGTTCTTGATTTTGA+AGG + chr7.3:3067322-3067341 None:intergenic 30.0%
! TGCATTTTGCCTCAATATAA+AGG + chr7.3:3067716-3067735 None:intergenic 30.0%
!! AAAGTAATAGAAGTACCCTT+TGG + chr7.3:3067661-3067680 None:intergenic 30.0%
!! TTCTTACTTTGAGATTTGCA+TGG + chr7.3:3068075-3068094 None:intergenic 30.0%
!! TTGATTTTGAAGGTTGAAGT+TGG + chr7.3:3067312-3067331 None:intergenic 30.0%
ACAATCATTGTTGCCACAAA+TGG - chr7.3:3067436-3067455 MS.gene072447:intron 35.0%
AGTGGTTAGAATTTGGAAAG+TGG + chr7.3:3068259-3068278 None:intergenic 35.0%
ATGGTCTTTGTTGAATCCAT+AGG + chr7.3:3067243-3067262 None:intergenic 35.0%
ATTTGTGGCAACAATGATTG+TGG + chr7.3:3067437-3067456 None:intergenic 35.0%
CTTCTATTCTATCAGCGTTA+AGG - chr7.3:3068195-3068214 MS.gene072447:CDS 35.0%
GATCAAGCATCAATTATTGG+GGG - chr7.3:3067833-3067852 MS.gene072447:intron 35.0%
GGTGATCAAGCATCAATTAT+TGG - chr7.3:3067830-3067849 MS.gene072447:CDS 35.0%
TCTTGTGGATATAGTAGAGT+TGG + chr7.3:3067212-3067231 None:intergenic 35.0%
TGCTGATATTGAAGTGACAA+TGG - chr7.3:3068042-3068061 MS.gene072447:CDS 35.0%
TGCTGCAAACCTTTATATTG+AGG - chr7.3:3067704-3067723 MS.gene072447:CDS 35.0%
TGGTGTTCAGAAACAAAAAG+AGG - chr7.3:3067904-3067923 MS.gene072447:intron 35.0%
TGTTGAATCCATAGGTGAAA+GGG + chr7.3:3067235-3067254 None:intergenic 35.0%
TTGCTTCAGAATCTGTTAAC+AGG + chr7.3:3067277-3067296 None:intergenic 35.0%
TTGTTGAATCCATAGGTGAA+AGG + chr7.3:3067236-3067255 None:intergenic 35.0%
TTTGACACTTCATCCATTTG+TGG + chr7.3:3067452-3067471 None:intergenic 35.0%
! ACTTGTTGAGTATTGTGGAA+AGG + chr7.3:3067963-3067982 None:intergenic 35.0%
!! AAGATGGTTTCTAGTTTGCA+TGG - chr7.3:3068121-3068140 MS.gene072447:CDS 35.0%
!! GAGAGTTCTGAGACAAAAAT+GGG - chr7.3:3067995-3068014 MS.gene072447:intron 35.0%
!! TGAGAGTTCTGAGACAAAAA+TGG - chr7.3:3067994-3068013 MS.gene072447:intron 35.0%
ACCAAAACAGCTCTTGAAGA+TGG - chr7.3:3068105-3068124 MS.gene072447:CDS 40.0%
AGCGTTAAGGTAATTGTCTG+TGG - chr7.3:3068208-3068227 MS.gene072447:CDS 40.0%
CAGAAGCTACAATTTCTTGG+TGG - chr7.3:3067884-3067903 MS.gene072447:intron 40.0%
CATCAGCTGTAGTGACATTA+AGG + chr7.3:3068168-3068187 None:intergenic 40.0%
CTGCAAGAGAAACGATTCTA+AGG + chr7.3:3067759-3067778 None:intergenic 40.0%
GAGCAGAAGCTACAATTTCT+TGG - chr7.3:3067881-3067900 MS.gene072447:intron 40.0%
GAGGCAAAATGCAGAAATTG+CGG - chr7.3:3067723-3067742 MS.gene072447:CDS 40.0%
GTTGAAGATGATTGCAAGCT+TGG - chr7.3:3068380-3068399 MS.gene072447:CDS 40.0%
TGCAGCTGTATACCAAATGT+TGG - chr7.3:3068421-3068440 MS.gene072447:CDS 40.0%
! ACCATCTTCAAGAGCTGTTT+TGG + chr7.3:3068109-3068128 None:intergenic 40.0%
! CTGTCACTTGTTGAGTATTG+TGG + chr7.3:3067968-3067987 None:intergenic 40.0%
!! AGTTCTGAGACAAAAATGGG+TGG - chr7.3:3067998-3068017 MS.gene072447:intron 40.0%
!!! TGTTTTGACTCTGCGTTTCT+TGG + chr7.3:3067516-3067535 None:intergenic 40.0%
ACATTGCTGTAGAACGCAAC+AGG - chr7.3:3067576-3067595 MS.gene072447:CDS 45.0%
ACCCTTTGGACGTAAGATTC+AGG + chr7.3:3067647-3067666 None:intergenic 45.0%
GCCTGAATCTTACGTCCAAA+GGG - chr7.3:3067643-3067662 MS.gene072447:CDS 45.0%
TGAGACAAAAATGGGTGGTG+AGG - chr7.3:3068003-3068022 MS.gene072447:intron 45.0%
TGATTGCAAGCTTGGATCAG+TGG - chr7.3:3068388-3068407 MS.gene072447:CDS 45.0%
TGCCTGAATCTTACGTCCAA+AGG - chr7.3:3067642-3067661 MS.gene072447:CDS 45.0%
TGTGGCAACAATGATTGTGG+TGG + chr7.3:3067434-3067453 None:intergenic 45.0%
!! AACAATGATTGTGGTGGTGG+TGG + chr7.3:3067428-3067447 None:intergenic 45.0%
CCACAAGACCCTTTCACCTA+TGG - chr7.3:3067224-3067243 MS.gene072447:CDS 50.0%
CCATAGGTGAAAGGGTCTTG+TGG + chr7.3:3067227-3067246 None:intergenic 50.0%
GGCAACAATGATTGTGGTGG+TGG + chr7.3:3067431-3067450 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 3067197 3068484 3067197 ID=MS.gene072447
chr7.3 mRNA 3067197 3068484 3067197 ID=MS.gene072447.t1;Parent=MS.gene072447
chr7.3 exon 3068017 3068484 3068017 ID=MS.gene072447.t1.exon1;Parent=MS.gene072447.t1
chr7.3 CDS 3068017 3068484 3068017 ID=cds.MS.gene072447.t1;Parent=MS.gene072447.t1
chr7.3 exon 3067465 3067851 3067465 ID=MS.gene072447.t1.exon2;Parent=MS.gene072447.t1
chr7.3 CDS 3067465 3067851 3067465 ID=cds.MS.gene072447.t1;Parent=MS.gene072447.t1
chr7.3 exon 3067197 3067301 3067197 ID=MS.gene072447.t1.exon3;Parent=MS.gene072447.t1
chr7.3 CDS 3067197 3067301 3067197 ID=cds.MS.gene072447.t1;Parent=MS.gene072447.t1
Gene Sequence

>MS.gene072447

ATGGCACTAGAACCAACTCTACTATATCCACAAGACCCTTTCACCTATGGATTCAACAAAGACCATTACAATTACAACCTGTTAACAGATTCTGAAGCAAACTTTGACTACACCAACTTCAACCTTCAAAATCAAGAACAAGGTTCTATTTCTACTTTTCTCATCAAGAACCAACAAACAGAGAATTATGCTTATGGAAATTGGAGTAACAATTGTTCATCTTCTTCACCACCACCACCACAATCATTGTTGCCACAAATGGATGAAGTGTCAAATCCATCTTTAGATAGTTCAATTTCAACTCGTTGTTCTCGTTCCAAGAAACGCAGAGTCAAAACAAGTAAGAATAAAGAAGAAATTGAGAATCAGAGAATGACTCACATTGCTGTAGAACGCAACAGGAGAAAACAAATGAATGAGTATCTCTCTGTTCTTAGATCTCTCATGCCTGAATCTTACGTCCAAAGGGTACTTCTATTACTTTTAAATTGTGGTTAATCACATTTTTGCTGCAAACCTTTATATTGAGGCAAAATGCAGAAATTGCGGTTGCAAGAGACCTTAGAATCGTTTCTCTTGCAGCCGCAATTTCAATTTAAAAATGAGTTGTGTTTTGATTGATGAATTTTTCAGGGTGATCAAGCATCAATTATTGGGGGTGCTATTAACTTTGTTAAGAAGCTTGAGCAGAAGCTACAATTTCTTGGTGGTGTTCAGAAACAAAAAGAGGAAAATAAAAACAAGCCCTTTTCTGAATTTTTCACCTTTCCACAATACTCAACAAGTGACAGTGTGTGTGAGAGTTCTGAGACAAAAATGGGTGGTGAGGTTCAATCTCGCAATATTGCTGATATTGAAGTGACAATGGTTGAAAGCCATGCAAATCTCAAAGTAAGAACAAAGAAAAGACCAAAACAGCTCTTGAAGATGGTTTCTAGTTTGCATGGATTGTGTCTCACAATCTTGCACCTTAATGTCACTACAGCTGATGAATTTGTCTTCTATTCTATCAGCGTTAAGGTAATTGTCTGTGGTCCCTGTCATGTTTTTTTTTTTCTTCCACTTTCCAAATTCTAACCACTTTTTAGCTTTCTCTTGAATTTCTTTGCTTCCTAAATTATTGTAAGTACTTAAAGTGAAATTAATGAATGTGTGTTGTTGAATTTTATTTTGTAATTTGTAGGTTGAAGATGATTGCAAGCTTGGATCAGTGGATGAGATAGCTGCAGCTGTATACCAAATGTTGGAAAGAATTCAACAAGAGTCATCAATCAATATATTGAATTAA

Protein sequence

>MS.gene072447.t1

MALEPTLLYPQDPFTYGFNKDHYNYNLLTDSEANFDYTNFNLQNQEQGSISTFLIKNQQTENYAYGNWSNNCSSSSPPPPQSLLPQMDEVSNPSLDSSISTRCSRSKKRRVKTSKNKEEIENQRMTHIAVERNRRKQMNEYLSVLRSLMPESYVQRGDQASIIGGAINFVKKLEQKLQFLGGVQKQKEENKNKPFSEFFTFPQYSTSDSVCESSETKMGGEVQSRNIADIEVTMVESHANLKVRTKKRPKQLLKMVSSLHGLCLTILHLNVTTADEFVFYSISVKVEDDCKLGSVDEIAAAVYQMLERIQQESSINILN