AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene78075

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78075.t1 MTR_1g059270 98.214 56 1 0 17 72 143 198 3.34e-35 119
MS.gene78075.t1 MTR_1g059270 98.214 56 1 0 17 72 143 198 2.38e-32 114
MS.gene78075.t1 MTR_7g092510 90.741 54 5 0 19 72 158 211 3.71e-29 105
MS.gene78075.t1 MTR_8g062240 88.095 42 5 0 31 72 148 189 1.44e-21 84.7
MS.gene78075.t1 MTR_5g037250 88.095 42 5 0 31 72 109 150 2.69e-21 83.2
MS.gene78075.t1 MTR_7g053410 88.095 42 5 0 31 72 314 355 4.08e-21 85.1
MS.gene78075.t1 MTR_8g012290 88.095 42 5 0 31 72 288 329 4.31e-21 85.1
MS.gene78075.t1 MTR_8g012290 88.095 42 5 0 31 72 288 329 4.40e-21 85.1
MS.gene78075.t1 MTR_7g053410 88.095 42 5 0 31 72 314 355 4.42e-21 85.1
MS.gene78075.t1 MTR_3g116770 85.714 42 6 0 31 72 188 229 3.28e-20 82.4
MS.gene78075.t1 MTR_3g116770 85.714 42 6 0 31 72 188 229 3.29e-20 82.4
MS.gene78075.t1 MTR_4g070320 85.714 42 6 0 31 72 140 181 4.42e-20 81.6
MS.gene78075.t1 MTR_8g065740 85.714 42 6 0 31 72 302 343 1.21e-19 80.9
MS.gene78075.t1 MTR_1g017350 58.209 67 25 1 6 72 235 298 7.32e-19 78.6
MS.gene78075.t1 MTR_1g017350 58.209 67 25 1 6 72 235 298 7.36e-19 78.6
MS.gene78075.t1 MTR_8g099880 74.000 50 11 1 25 72 134 183 7.39e-19 78.2
MS.gene78075.t1 MTR_1g017350 58.209 67 25 1 6 72 235 298 7.48e-19 78.6
MS.gene78075.t1 MTR_1g017350 58.209 67 25 1 6 72 235 298 7.87e-19 78.6
MS.gene78075.t1 MTR_3g498825 80.952 42 8 0 31 72 144 185 2.37e-18 76.6
MS.gene78075.t1 MTR_5g048860 78.571 42 9 0 31 72 362 403 3.17e-18 77.0
MS.gene78075.t1 MTR_6g084120 75.610 41 10 0 32 72 153 193 7.89e-16 69.3
MS.gene78075.t1 MTR_4g131160 67.442 43 14 0 30 72 192 234 1.28e-12 61.2
MS.gene78075.t1 MTR_4g131160 67.442 43 14 0 30 72 195 237 1.34e-12 60.8
MS.gene78075.t1 MTR_1g080890 71.795 39 11 0 34 72 193 231 4.83e-12 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78075.t1 AT2G42300 86.957 46 6 0 27 72 178 223 2.65e-24 90.9
MS.gene78075.t1 AT2G42300 86.957 46 6 0 27 72 178 223 2.65e-24 90.9
MS.gene78075.t1 AT2G42300 86.957 46 6 0 27 72 178 223 2.98e-24 90.9
MS.gene78075.t1 AT3G57800 91.304 46 4 0 27 72 197 242 3.21e-24 93.2
MS.gene78075.t1 AT2G42300 86.957 46 6 0 27 72 178 223 4.80e-24 91.3
MS.gene78075.t1 AT3G57800 91.304 46 4 0 27 72 197 242 6.32e-24 92.8
MS.gene78075.t1 AT2G42300 86.957 46 6 0 27 72 178 223 1.33e-23 90.9
MS.gene78075.t1 AT1G59640 88.095 42 5 0 31 72 133 174 8.05e-22 85.1
MS.gene78075.t1 AT3G07340 88.095 42 5 0 31 72 255 296 3.58e-21 85.1
MS.gene78075.t1 AT3G07340 88.095 42 5 0 31 72 255 296 4.14e-21 85.1
MS.gene78075.t1 AT5G48560 88.095 42 5 0 31 72 298 339 4.84e-21 85.1
MS.gene78075.t1 AT5G48560 88.095 42 5 0 31 72 298 339 5.04e-21 85.1
MS.gene78075.t1 AT1G59640 88.095 42 5 0 31 72 133 174 5.31e-21 84.0
MS.gene78075.t1 AT2G18300 60.294 68 23 1 5 72 160 223 9.31e-21 83.6
MS.gene78075.t1 AT2G18300 60.294 68 23 1 5 72 160 223 9.53e-21 83.2
MS.gene78075.t1 AT3G23690 85.714 42 6 0 31 72 188 229 1.22e-20 83.2
MS.gene78075.t1 AT2G18300 60.294 68 23 1 5 72 160 223 1.43e-20 83.2
MS.gene78075.t1 AT1G26260 53.247 77 29 1 3 72 134 210 1.77e-20 82.8
MS.gene78075.t1 AT1G26260 53.247 77 29 1 3 72 163 239 2.65e-20 82.4
MS.gene78075.t1 AT1G26260 53.247 77 29 1 3 72 185 261 2.82e-20 82.4
MS.gene78075.t1 AT1G26260 53.247 77 29 1 3 72 185 261 2.82e-20 82.4
MS.gene78075.t1 AT1G26260 53.247 77 29 1 3 72 185 261 2.82e-20 82.4
MS.gene78075.t1 AT1G26260 53.247 77 29 1 3 72 185 261 2.82e-20 82.4
MS.gene78075.t1 AT4G34530 76.087 46 11 0 27 72 165 210 6.03e-20 81.3
MS.gene78075.t1 AT1G68920 83.333 42 7 0 31 72 299 340 6.25e-20 82.0
MS.gene78075.t1 AT1G68920 83.333 42 7 0 31 72 300 341 6.38e-20 82.0
MS.gene78075.t1 AT1G68920 83.333 42 7 0 31 72 300 341 6.38e-20 82.0
MS.gene78075.t1 AT1G68920 83.333 42 7 0 31 72 300 341 6.38e-20 82.0
MS.gene78075.t1 AT5G50915 72.549 51 12 1 24 72 124 174 1.07e-19 80.1
MS.gene78075.t1 AT5G50915 72.549 51 12 1 24 72 124 174 1.07e-19 80.1
MS.gene78075.t1 AT4G36540 54.286 70 32 0 3 72 110 179 2.07e-19 79.3
MS.gene78075.t1 AT4G36540 54.286 70 32 0 3 72 110 179 2.27e-19 79.3
MS.gene78075.t1 AT1G10120 58.333 72 26 2 4 72 174 244 2.67e-19 79.7
MS.gene78075.t1 AT1G10120 58.333 72 26 2 4 72 174 244 2.67e-19 79.7
MS.gene78075.t1 AT5G50915 60.606 66 20 2 9 72 113 174 6.56e-19 77.4
MS.gene78075.t1 AT5G50915 60.606 66 20 2 9 72 113 174 6.56e-19 77.4
MS.gene78075.t1 AT5G62610 76.190 42 10 0 31 72 150 191 2.00e-18 76.6
MS.gene78075.t1 AT5G62610 76.190 42 10 0 31 72 150 191 2.00e-18 76.6
MS.gene78075.t1 AT1G25330 82.927 41 7 0 32 72 102 142 4.66e-18 74.7
MS.gene78075.t1 AT1G18400 78.049 41 9 0 32 72 143 183 4.80e-17 72.4
MS.gene78075.t1 AT1G18400 78.049 41 9 0 32 72 143 183 6.49e-17 72.0
MS.gene78075.t1 AT1G73830 77.500 40 9 0 33 72 146 185 1.88e-16 70.9
MS.gene78075.t1 AT1G73830 77.500 40 9 0 33 72 146 185 1.89e-16 70.9
MS.gene78075.t1 AT2G24260 69.231 39 12 0 34 72 35 73 2.44e-12 59.7
MS.gene78075.t1 AT5G58010 71.795 39 11 0 34 72 99 137 3.07e-12 59.7
MS.gene78075.t1 AT4G30980 71.795 39 11 0 34 72 178 216 3.29e-12 60.1
MS.gene78075.t1 AT2G24260 69.231 39 12 0 34 72 138 176 4.04e-12 59.7
MS.gene78075.t1 AT4G30980 71.795 39 11 0 34 72 130 168 1.61e-11 57.8

Find 17 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGAAGCTCCTCGCCGTTGC+CGG 0.341941 1.4:-41707177 None:intergenic
AATGAAACTGTTGCAAGATC+TGG 0.393018 1.4:+41708156 MS.gene78075:CDS
ATCGCCGCCGACGAGAATTC+CGG 0.408348 1.4:+41707158 MS.gene78075:CDS
GACCAAACCTTGTTGCAACC+TGG 0.459346 1.4:-41708181 None:intergenic
TTACCCTTTCTGCTAAGCTA+TGG 0.495150 1.4:-41707241 None:intergenic
ACCAAACCTTGTTGCAACCT+GGG 0.495296 1.4:-41708180 None:intergenic
TAGCCATAGCTTAGCAGAAA+GGG 0.520877 1.4:+41707238 MS.gene78075:CDS
CTGTTGCAAGATCTGGTCCC+AGG 0.536713 1.4:+41708163 MS.gene78075:CDS
GCCGACGAGAATTCCGGCAA+CGG 0.567888 1.4:+41707164 MS.gene78075:CDS
GCCGTTGCCGGAATTCTCGT+CGG 0.595821 1.4:-41707165 None:intergenic
ATAGCCATAGCTTAGCAGAA+AGG 0.599793 1.4:+41707237 MS.gene78075:CDS
CGAACTCGAACGTGAACGTA+CGG 0.605120 1.4:-41707197 None:intergenic
TCTCATGTTCTGTGAAACGC+AGG 0.629303 1.4:+41707106 None:intergenic
CGAGAATTCCGGCAACGGCG+AGG 0.633666 1.4:+41707169 MS.gene78075:CDS
TCTGGTCCCAGGTTGCAACA+AGG 0.662336 1.4:+41708174 MS.gene78075:CDS
GTTGCCGGAATTCTCGTCGG+CGG 0.688782 1.4:-41707162 None:intergenic
GTTCACGTTCGAGTTCGACG+AGG 0.757130 1.4:+41707203 MS.gene78075:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATATATATATATATATAT+AGG - chr1.4:41707738-41707719 None:intergenic 0.0%
!! ATATATATATATATATATAT+GGG + chr1.4:41707719-41707738 MS.gene78075:intron 0.0%
!! TATATATATATATATATATA+GGG - chr1.4:41707739-41707720 None:intergenic 0.0%
!! TATATATATATATATATATA+TGG + chr1.4:41707720-41707739 MS.gene78075:intron 0.0%
!! ATAAAAAGTTATGAATTTAA+TGG - chr1.4:41707666-41707685 None:intergenic 10.0%
!! TTAATGTAATAATATATCAT+CGG + chr1.4:41707696-41707715 MS.gene78075:intron 10.0%
!! AAATAAAAAATTGAGTTTAG+TGG + chr1.4:41707525-41707544 MS.gene78075:intron 15.0%
!! AAAAATATTAATTGATACGG+TGG + chr1.4:41707619-41707638 MS.gene78075:intron 20.0%
!! AAAAGTTATGAATTTAATGG+TGG - chr1.4:41707663-41707682 None:intergenic 20.0%
!! TTTCAAAAGATTATATGATG+TGG + chr1.4:41707439-41707458 MS.gene78075:intron 20.0%
!!! TTGCACTTAGAATTAATTTT+AGG + chr1.4:41707393-41707412 MS.gene78075:intron 20.0%
!!! TTTTAATTTGATTGTGTTGT+AGG + chr1.4:41708108-41708127 MS.gene78075:intron 20.0%
!!! TTTTTTTTTGAAGTACGAAA+GGG + chr1.4:41707273-41707292 MS.gene78075:intron 20.0%
!!! TTTTTTTTTTGAAGTACGAA+AGG + chr1.4:41707272-41707291 MS.gene78075:intron 20.0%
! TAAAAAATTGAGTTTAGTGG+TGG + chr1.4:41707528-41707547 MS.gene78075:intron 25.0%
!!! TTTTAATTAGAATACTCCGA+CGG - chr1.4:41707503-41707522 None:intergenic 25.0%
ACACCTTCATAAAAAGTAGT+TGG - chr1.4:41707871-41707890 None:intergenic 30.0%
AGTTATGAATTTAATGGTGG+TGG - chr1.4:41707660-41707679 None:intergenic 30.0%
ATAAAAGACACCTTCACAAA+AGG - chr1.4:41707816-41707835 None:intergenic 30.0%
GTTATGAATTTAATGGTGGT+GGG - chr1.4:41707659-41707678 None:intergenic 30.0%
! ATGATGTGGCAGATTTTTAT+TGG + chr1.4:41707453-41707472 MS.gene78075:intron 30.0%
!!! ACACCAACTACTTTTTATGA+AGG + chr1.4:41707865-41707884 MS.gene78075:intron 30.0%
AAAATTGAGTTTAGTGGTGG+TGG + chr1.4:41707531-41707550 MS.gene78075:intron 35.0%
AAAGTGAAAATCACACCTTG+AGG + chr1.4:41707914-41707933 MS.gene78075:intron 35.0%
AATGAAACTGTTGCAAGATC+TGG + chr1.4:41708156-41708175 MS.gene78075:CDS 35.0%
ATTTGATTGTGTTGTAGGCT+AGG + chr1.4:41708113-41708132 MS.gene78075:intron 35.0%
CACCTTCATAAAAAGTAGTG+TGG - chr1.4:41707959-41707978 None:intergenic 35.0%
! ATAGAAGACACCTTTTGTGA+AGG + chr1.4:41707803-41707822 MS.gene78075:intron 35.0%
! TTTTATCAAGTCACACCTCA+AGG - chr1.4:41707932-41707951 None:intergenic 35.0%
!!! CACCACACTACTTTTTATGA+AGG + chr1.4:41707954-41707973 MS.gene78075:intron 35.0%
ATAGCCATAGCTTAGCAGAA+AGG + chr1.4:41707237-41707256 MS.gene78075:CDS 40.0%
TAGCCATAGCTTAGCAGAAA+GGG + chr1.4:41707238-41707257 MS.gene78075:CDS 40.0%
TTACCCTTTCTGCTAAGCTA+TGG - chr1.4:41707244-41707263 None:intergenic 40.0%
! GTAAAGTGTCTTTACACCGT+CGG + chr1.4:41707484-41707503 MS.gene78075:intron 40.0%
!! ATTTAATGGTGGTGGGTTGA+CGG - chr1.4:41707652-41707671 None:intergenic 40.0%
!! GTTTAGTGGTGGTGGATTGA+CGG + chr1.4:41707539-41707558 MS.gene78075:intron 45.0%
!! ATTAAAAATATTAATTGATA+CGG + chr1.4:41707616-41707635 MS.gene78075:intron 5.0%
CGAACTCGAACGTGAACGTA+CGG - chr1.4:41707200-41707219 None:intergenic 50.0%
CTGTTGCAAGATCTGGTCCC+AGG + chr1.4:41708163-41708182 MS.gene78075:CDS 55.0%
! GTTCACGTTCGAGTTCGACG+AGG + chr1.4:41707203-41707222 MS.gene78075:CDS 55.0%
ATCGCCGCCGACGAGAATTC+CGG + chr1.4:41707158-41707177 MS.gene78075:CDS 60.0%
GCCGACGAGAATTCCGGCAA+CGG + chr1.4:41707164-41707183 MS.gene78075:CDS 60.0%
GCCGTTGCCGGAATTCTCGT+CGG - chr1.4:41707168-41707187 None:intergenic 60.0%
GTTGCCGGAATTCTCGTCGG+CGG - chr1.4:41707165-41707184 None:intergenic 60.0%
CGAGAATTCCGGCAACGGCG+AGG + chr1.4:41707169-41707188 MS.gene78075:CDS 65.0%
CGGAAGCTCCTCGCCGTTGC+CGG - chr1.4:41707180-41707199 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 41707110 41708195 41707110 ID=MS.gene78075
chr1.4 mRNA 41707110 41708195 41707110 ID=MS.gene78075.t1;Parent=MS.gene78075
chr1.4 exon 41707110 41707259 41707110 ID=MS.gene78075.t1.exon1;Parent=MS.gene78075.t1
chr1.4 CDS 41707110 41707259 41707110 ID=cds.MS.gene78075.t1;Parent=MS.gene78075.t1
chr1.4 exon 41708130 41708195 41708130 ID=MS.gene78075.t1.exon2;Parent=MS.gene78075.t1
chr1.4 CDS 41708130 41708195 41708130 ID=cds.MS.gene78075.t1;Parent=MS.gene78075.t1
Gene Sequence

>MS.gene78075

ATGTTCTGTGAAACGCAGGTGAAATTGTCGTCTAAGAAGAGTAAGAGTATCGCCGCCGACGAGAATTCCGGCAACGGCGAGGAGCTTCCGTACGTTCACGTTCGAGTTCGACGAGGTCAAGCTACTGATAGCCATAGCTTAGCAGAAAGGGTAAACTCTTTTTTTTTTTTTTGAAGTACGAAAGGGTAAACTCTTTAATTAATCACTAATTCACTTCTTTAATCACATTTATTTATCATAAAGTTTTCTTCATTTTTTATAAGTATACATGCAGATGAAAGTTTTGCACTTAGAATTAATTTTAGGTTTATTTTTTATTCAATTAACATTTTCAAAAGATTATATGATGTGGCAGATTTTTATTGGATGACTGTGTAAAGTGTCTTTACACCGTCGGAGTATTCTAATTAAAATAAAATAAAAAATTGAGTTTAGTGGTGGTGGATTGACGGTTTAAAACAACTTTACACGCAAAATCAATCAAAACATTTCAAATTGCTAAATAAATTAAAAATATTAATTGATACGGTGGTTCTAGACCGTCAACCCACCACCATTAAATTCATAACTTTTTATAAATTGTTTGTTAATGTAATAATATATCATCGGATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATGGGTTATGATAGAAGACACCTTTTGTGAAGGTGTCTTTTATCAAGTTACTCTATGAGCATTTGTTAAAAGACACCAACTACTTTTTATGAAGGTGTCTTTTATCAAAGTTATAACTAAAAAAGTGAAAATCACACCTTGAGGTGTGACTTGATAAAAGACACCACACTACTTTTTATGAAGGTGTCTTGTAACATAACCCTATATATATATATATATATATATATATATATGGATGTGTAAAACTTTTGCACATGAGTGTATATAAATTACACTAACTCATTTTTTAATTAAAAAATTAGTAATATTTTTTCATTTTAATTTGATTGTGTTGTAGGCTAGGAGAGAGAAGATAAATGCTCGAATGAAACTGTTGCAAGATCTGGTCCCAGGTTGCAACAAG
Protein sequence

>MS.gene78075.t1

MFCETQVKLSSKKSKSIAADENSGNGEELPYVHVRVRRGQATDSHSLAERARREKINARMKLLQDLVPGCNK