AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene94900

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene94900.t1 MTR_3g101810 93.407 273 15 3 1 272 1 271 1.47e-173 479
MS.gene94900.t1 MTR_5g017210 63.354 161 54 3 91 250 56 212 2.94e-49 163
MS.gene94900.t1 MTR_8g093500 78.022 91 20 0 146 236 87 177 1.67e-46 157
MS.gene94900.t1 MTR_2g100490 54.464 112 50 1 145 255 261 372 9.59e-28 110
MS.gene94900.t1 MTR_8g015450 56.731 104 41 1 145 244 296 399 2.47e-27 109
MS.gene94900.t1 MTR_7g069590 70.370 54 16 0 179 232 32 85 1.44e-21 88.6
MS.gene94900.t1 MTR_5g079500 64.286 56 20 0 180 235 225 280 1.67e-18 84.0
MS.gene94900.t1 MTR_1g018090 62.963 54 20 0 182 235 283 336 1.44e-17 81.6
MS.gene94900.t1 MTR_1g106460 52.239 67 32 0 169 235 234 300 1.69e-17 81.3
MS.gene94900.t1 MTR_1g106470 45.679 81 44 0 182 262 205 285 3.18e-17 79.7
MS.gene94900.t1 MTR_5g005110 46.154 78 42 0 182 259 233 310 6.74e-17 79.3
MS.gene94900.t1 MTR_3g103030 53.968 63 29 0 173 235 229 291 7.66e-16 76.3
MS.gene94900.t1 MTR_4g131160 53.030 66 30 1 180 244 203 268 1.56e-14 73.2
MS.gene94900.t1 MTR_4g131160 53.030 66 30 1 180 244 206 271 1.56e-14 73.2
MS.gene94900.t1 MTR_1g080890 45.000 80 43 1 166 244 186 265 2.36e-14 72.4
MS.gene94900.t1 MTR_1g106480 62.222 45 17 0 191 235 87 131 2.05e-13 66.6
MS.gene94900.t1 MTR_2g067000 47.368 76 33 1 168 236 145 220 5.34e-13 68.2
MS.gene94900.t1 MTR_1g060700 57.407 54 23 0 183 236 357 410 2.74e-12 66.6
MS.gene94900.t1 MTR_4g033295 54.386 57 25 1 183 238 128 184 1.37e-11 62.4
MS.gene94900.t1 MTR_2g089070 51.852 54 26 0 183 236 146 199 1.45e-11 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene94900.t1 AT3G50330 80.000 110 21 1 146 254 92 201 2.21e-46 155
MS.gene94900.t1 AT5G67060 88.298 94 11 0 146 239 83 176 3.78e-46 154
MS.gene94900.t1 AT5G67060 88.298 94 11 0 146 239 95 188 5.65e-46 154
MS.gene94900.t1 AT4G00120 70.787 89 26 0 148 236 87 175 2.06e-37 131
MS.gene94900.t1 AT3G21330 66.304 92 31 0 145 236 241 332 8.52e-37 134
MS.gene94900.t1 AT5G09750 76.667 90 21 0 146 235 92 181 1.86e-34 124
MS.gene94900.t1 AT5G01305 69.492 59 18 0 174 232 38 96 2.72e-21 88.6
MS.gene94900.t1 AT5G43175 50.725 69 34 0 167 235 126 194 2.02e-18 82.0
MS.gene94900.t1 AT4G33880 64.815 54 19 0 182 235 275 328 3.52e-18 83.6
MS.gene94900.t1 AT1G27740 52.941 68 32 0 168 235 162 229 5.83e-18 81.6
MS.gene94900.t1 AT5G37800 53.333 75 28 1 168 235 189 263 6.15e-18 82.0
MS.gene94900.t1 AT1G66470 63.636 55 20 0 181 235 203 257 1.19e-17 81.3
MS.gene94900.t1 AT2G14760 62.963 54 20 0 182 235 246 299 4.21e-17 80.1
MS.gene94900.t1 AT4G30980 51.948 77 36 1 169 244 126 202 6.40e-16 76.6
MS.gene94900.t1 AT2G24260 51.852 81 31 3 171 244 28 107 9.12e-16 75.1
MS.gene94900.t1 AT4G30980 51.948 77 36 1 169 244 174 250 1.20e-15 76.3
MS.gene94900.t1 AT2G24260 48.810 84 36 2 168 244 127 210 1.86e-15 75.5
MS.gene94900.t1 AT5G58010 50.000 76 37 1 170 244 96 171 1.32e-14 72.8
MS.gene94900.t1 AT2G14760 50.746 67 20 1 182 235 246 312 7.67e-14 70.9

Find 55 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGAAAACCATGGTATTAT+TGG 0.168613 8.1:-74629336 None:intergenic
ATCTTCACGTTTCTTCTCTT+TGG 0.198805 8.1:-74629633 None:intergenic
ACAGTTGCTGGTTCAGGATT+AGG 0.254855 8.1:+74629858 MS.gene94900:CDS
TGTTGTTGTTGGAACCTTAA+TGG 0.283073 8.1:-74629438 None:intergenic
GATTCTGGGTCTATGTAAAT+TGG 0.284997 8.1:-74629600 None:intergenic
CCGTTAGATGAAGAAAATTC+AGG 0.301231 8.1:-74629201 None:intergenic
GATCGTAATGTTGATCGTTA+TGG 0.304956 8.1:+74629912 MS.gene94900:CDS
CTTCAGGAGCCAACAGTAAA+AGG 0.313374 8.1:+74629835 MS.gene94900:CDS
CAGTTGCTGGTTCAGGATTA+GGG 0.322129 8.1:+74629859 MS.gene94900:CDS
ACAACTCTACTGCACCATTA+AGG 0.339069 8.1:+74629424 MS.gene94900:CDS
AAAAGGACAGTTGCTGGTTC+AGG 0.344600 8.1:+74629852 MS.gene94900:CDS
TCACTGCAGGAACGTGCTTC+AGG 0.355705 8.1:+74629819 MS.gene94900:CDS
AACCATGGTATTATTGGATT+AGG 0.366504 8.1:-74629330 None:intergenic
CCGTCAGATCAACAATTCTA+TGG 0.368765 8.1:+74629252 MS.gene94900:CDS
GATTGTGTTTGTGTTTGTTA+TGG 0.370441 8.1:-74629388 None:intergenic
TAAGGCTTAGGCAATGAAAC+AGG 0.373028 8.1:-74629885 None:intergenic
CTCGAATTCGAAAACATTAA+CGG 0.373336 8.1:-74629468 None:intergenic
TGGTGCAGTAGAGTTGTTAT+TGG 0.394604 8.1:-74629418 None:intergenic
ATCGTAATGTTGATCGTTAT+GGG 0.398296 8.1:+74629913 MS.gene94900:CDS
CCTCCGAATGCGAACCATTA+CGG 0.398684 8.1:+74629501 MS.gene94900:CDS
ATGATGAAGATGACTTTAAC+TGG 0.403724 8.1:-74629131 None:intergenic
TTCACGTTTCTTCTCTTTGG+TGG 0.406987 8.1:-74629630 None:intergenic
ACGGTGTTGTTTGTTGTTGT+TGG 0.421243 8.1:-74629449 None:intergenic
AACGATCAACATTACGATCT+TGG 0.428866 8.1:-74629908 None:intergenic
AACAGTAAAAGGACAGTTGC+TGG 0.446300 8.1:+74629846 MS.gene94900:CDS
GTACCGTAATGGTTCGCATT+CGG 0.449002 8.1:-74629504 None:intergenic
CATGGTATTATTGGATTAGG+AGG 0.465821 8.1:-74629327 None:intergenic
AAACTCGATGGCGGCGATGA+GGG 0.479160 8.1:+74629548 MS.gene94900:CDS
TGACGGTTGAAATTGATTGA+TGG 0.483851 8.1:-74629235 None:intergenic
CGTTAGATGAAGAAAATTCA+GGG 0.499125 8.1:-74629200 None:intergenic
AATAAGAATACTGCAAAGAA+TGG 0.517132 8.1:+74629713 MS.gene94900:CDS
GGTACCAGGTGGAACTAAGA+TGG 0.521420 8.1:+74629734 MS.gene94900:CDS
ATCGAGTTTATCTTCTCTGA+TGG 0.521681 8.1:-74629534 None:intergenic
TTACGATCTTGGTAAGGCTT+AGG 0.545623 8.1:-74629897 None:intergenic
TGTGTTTGTTATGGATTGTG+AGG 0.557974 8.1:-74629379 None:intergenic
TAAACTCGATGGCGGCGATG+AGG 0.558838 8.1:+74629547 MS.gene94900:CDS
GATGGATACTGCATCAATGT+TGG 0.564818 8.1:+74629752 MS.gene94900:CDS
GTGTTTGTTATGGATTGTGA+GGG 0.568107 8.1:-74629378 None:intergenic
CCGTAATGGTTCGCATTCGG+AGG 0.570332 8.1:-74629501 None:intergenic
TCAACATTACGATCTTGGTA+AGG 0.575828 8.1:-74629903 None:intergenic
GACACAGCTTAAGTCACTGC+AGG 0.580951 8.1:+74629806 MS.gene94900:CDS
ATGGAGATGAAGTACCGTAA+TGG 0.588679 8.1:-74629515 None:intergenic
ATGGTATTATTGGATTAGGA+GGG 0.590824 8.1:-74629326 None:intergenic
CTCCTAATCCAATAATACCA+TGG 0.622724 8.1:+74629328 MS.gene94900:CDS
CCATAGAATTGTTGATCTGA+CGG 0.627985 8.1:-74629252 None:intergenic
GTCATCTTCATCATCATCAG+AGG 0.630073 8.1:+74629140 MS.gene94900:CDS
TTATCTATTAAATCTGCAAG+AGG 0.636966 8.1:-74629303 None:intergenic
ATCAGAGAAGATAAACTCGA+TGG 0.640111 8.1:+74629536 MS.gene94900:CDS
GTATCCATCTTAGTTCCACC+TGG 0.642640 8.1:-74629738 None:intergenic
AAGGCTTAGGCAATGAAACA+GGG 0.655130 8.1:-74629884 None:intergenic
TGTCTAGCTGCAACACTCTG+AGG 0.655671 8.1:-74629666 None:intergenic
ATACTGCAAAGAATGGTACC+AGG 0.680757 8.1:+74629720 MS.gene94900:CDS
AATGATGAAGATGAAAACCA+TGG 0.699647 8.1:-74629345 None:intergenic
CTGCAAAGAATGGTACCAGG+TGG 0.704915 8.1:+74629723 MS.gene94900:CDS
AGAGAAGATAAACTCGATGG+CGG 0.710472 8.1:+74629539 MS.gene94900:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATAAGAATACTGCAAAGAA+TGG + chr8.1:74629713-74629732 MS.gene94900:CDS 25.0%
! TTATCTATTAAATCTGCAAG+AGG - chr8.1:74629306-74629325 None:intergenic 25.0%
AACCATGGTATTATTGGATT+AGG - chr8.1:74629333-74629352 None:intergenic 30.0%
AATGATGAAGATGAAAACCA+TGG - chr8.1:74629348-74629367 None:intergenic 30.0%
ATCGTAATGTTGATCGTTAT+GGG + chr8.1:74629913-74629932 MS.gene94900:CDS 30.0%
ATGATGAAGATGACTTTAAC+TGG - chr8.1:74629134-74629153 None:intergenic 30.0%
CGTTAGATGAAGAAAATTCA+GGG - chr8.1:74629203-74629222 None:intergenic 30.0%
CTCGAATTCGAAAACATTAA+CGG - chr8.1:74629471-74629490 None:intergenic 30.0%
GATGAAAACCATGGTATTAT+TGG - chr8.1:74629339-74629358 None:intergenic 30.0%
! ATGGTATTATTGGATTAGGA+GGG - chr8.1:74629329-74629348 None:intergenic 30.0%
! CCTGAATTTTCTTCATCTAA+CGG + chr8.1:74629201-74629220 MS.gene94900:CDS 30.0%
! GATTGTGTTTGTGTTTGTTA+TGG - chr8.1:74629391-74629410 None:intergenic 30.0%
AACGATCAACATTACGATCT+TGG - chr8.1:74629911-74629930 None:intergenic 35.0%
ATCAGAGAAGATAAACTCGA+TGG + chr8.1:74629536-74629555 MS.gene94900:CDS 35.0%
ATCGAGTTTATCTTCTCTGA+TGG - chr8.1:74629537-74629556 None:intergenic 35.0%
ATCTTCACGTTTCTTCTCTT+TGG - chr8.1:74629636-74629655 None:intergenic 35.0%
CCATAGAATTGTTGATCTGA+CGG - chr8.1:74629255-74629274 None:intergenic 35.0%
CCGTTAGATGAAGAAAATTC+AGG - chr8.1:74629204-74629223 None:intergenic 35.0%
CTCCTAATCCAATAATACCA+TGG + chr8.1:74629328-74629347 MS.gene94900:CDS 35.0%
GATCGTAATGTTGATCGTTA+TGG + chr8.1:74629912-74629931 MS.gene94900:CDS 35.0%
GATTCTGGGTCTATGTAAAT+TGG - chr8.1:74629603-74629622 None:intergenic 35.0%
TCAACATTACGATCTTGGTA+AGG - chr8.1:74629906-74629925 None:intergenic 35.0%
TGACGGTTGAAATTGATTGA+TGG - chr8.1:74629238-74629257 None:intergenic 35.0%
! CATGGTATTATTGGATTAGG+AGG - chr8.1:74629330-74629349 None:intergenic 35.0%
! TGTTGTTGTTGGAACCTTAA+TGG - chr8.1:74629441-74629460 None:intergenic 35.0%
!! GTGTTTGTTATGGATTGTGA+GGG - chr8.1:74629381-74629400 None:intergenic 35.0%
!! TGTGTTTGTTATGGATTGTG+AGG - chr8.1:74629382-74629401 None:intergenic 35.0%
!!! TTGGTGGTTTTACTGATTCT+GGG - chr8.1:74629617-74629636 None:intergenic 35.0%
!!! TTTGGTGGTTTTACTGATTC+TGG - chr8.1:74629618-74629637 None:intergenic 35.0%
AACAGTAAAAGGACAGTTGC+TGG + chr8.1:74629846-74629865 MS.gene94900:CDS 40.0%
AAGGCTTAGGCAATGAAACA+GGG - chr8.1:74629887-74629906 None:intergenic 40.0%
ACAACTCTACTGCACCATTA+AGG + chr8.1:74629424-74629443 MS.gene94900:CDS 40.0%
AGAGAAGATAAACTCGATGG+CGG + chr8.1:74629539-74629558 MS.gene94900:CDS 40.0%
ATACTGCAAAGAATGGTACC+AGG + chr8.1:74629720-74629739 MS.gene94900:CDS 40.0%
CCGTCAGATCAACAATTCTA+TGG + chr8.1:74629252-74629271 MS.gene94900:CDS 40.0%
GATGGATACTGCATCAATGT+TGG + chr8.1:74629752-74629771 MS.gene94900:CDS 40.0%
GTCATCTTCATCATCATCAG+AGG + chr8.1:74629140-74629159 MS.gene94900:CDS 40.0%
TAAGGCTTAGGCAATGAAAC+AGG - chr8.1:74629888-74629907 None:intergenic 40.0%
TGGTGCAGTAGAGTTGTTAT+TGG - chr8.1:74629421-74629440 None:intergenic 40.0%
TTACGATCTTGGTAAGGCTT+AGG - chr8.1:74629900-74629919 None:intergenic 40.0%
TTCACGTTTCTTCTCTTTGG+TGG - chr8.1:74629633-74629652 None:intergenic 40.0%
! AGCAACTGTCCTTTTACTGT+TGG - chr8.1:74629847-74629866 None:intergenic 40.0%
!! ACGGTGTTGTTTGTTGTTGT+TGG - chr8.1:74629452-74629471 None:intergenic 40.0%
!! ATGGAGATGAAGTACCGTAA+TGG - chr8.1:74629518-74629537 None:intergenic 40.0%
CTTCAGGAGCCAACAGTAAA+AGG + chr8.1:74629835-74629854 MS.gene94900:CDS 45.0%
GTACCGTAATGGTTCGCATT+CGG - chr8.1:74629507-74629526 None:intergenic 45.0%
GTATCCATCTTAGTTCCACC+TGG - chr8.1:74629741-74629760 None:intergenic 45.0%
!! AAAAGGACAGTTGCTGGTTC+AGG + chr8.1:74629852-74629871 MS.gene94900:CDS 45.0%
!! ACAGTTGCTGGTTCAGGATT+AGG + chr8.1:74629858-74629877 MS.gene94900:CDS 45.0%
!! CAGTTGCTGGTTCAGGATTA+GGG + chr8.1:74629859-74629878 MS.gene94900:CDS 45.0%
CCTCCGAATGCGAACCATTA+CGG + chr8.1:74629501-74629520 MS.gene94900:CDS 50.0%
CTGCAAAGAATGGTACCAGG+TGG + chr8.1:74629723-74629742 MS.gene94900:CDS 50.0%
GACACAGCTTAAGTCACTGC+AGG + chr8.1:74629806-74629825 MS.gene94900:CDS 50.0%
GGTACCAGGTGGAACTAAGA+TGG + chr8.1:74629734-74629753 MS.gene94900:CDS 50.0%
TGTCTAGCTGCAACACTCTG+AGG - chr8.1:74629669-74629688 None:intergenic 50.0%
CCGTAATGGTTCGCATTCGG+AGG - chr8.1:74629504-74629523 None:intergenic 55.0%
TCACTGCAGGAACGTGCTTC+AGG + chr8.1:74629819-74629838 MS.gene94900:CDS 55.0%
! AAACTCGATGGCGGCGATGA+GGG + chr8.1:74629548-74629567 MS.gene94900:CDS 55.0%
! TAAACTCGATGGCGGCGATG+AGG + chr8.1:74629547-74629566 MS.gene94900:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 74629120 74629938 74629120 ID=MS.gene94900
chr8.1 mRNA 74629120 74629938 74629120 ID=MS.gene94900.t1;Parent=MS.gene94900
chr8.1 exon 74629120 74629938 74629120 ID=MS.gene94900.t1.exon1;Parent=MS.gene94900.t1
chr8.1 CDS 74629120 74629938 74629120 ID=cds.MS.gene94900.t1;Parent=MS.gene94900.t1
Gene Sequence

>MS.gene94900

ATGGACTGTAACCAGTTAAAGTCATCTTCATCATCATCAGAGGATCAAATTGACATGATGTTAATGATGATGATGCAACTCCCTGAATTTTCTTCATCTAACGGTAATAACAACACCATCAATCAATTTCAACCGTCAGATCAACAATTCTATGGCACTTCAAATGCTTCTAACAATACACATCCTCTTGCAGATTTAATAGATAACCCTCCTAATCCAATAATACCATGGTTTTCATCTTCATCATTCATTCACTTACCCTCACAATCCATAACAAACACAAACACAATCTCTTTCACCAATAACAACTCTACTGCACCATTAAGGTTCCAACAACAACAAACAACACCGTTAATGTTTTCGAATTCGAGCAATGAGATTCCTCCGAATGCGAACCATTACGGTACTTCATCTCCATCAGAGAAGATAAACTCGATGGCGGCGATGAGGGAGATGATATTCAGAATAGCAGCGATGCAACCAATTTACATAGACCCAGAATCAGTAAAACCACCAAAGAGAAGAAACGTGAAGATTTCAAAAGATCCTCAGAGTGTTGCAGCTAGACACAGAAGAGAAAGAATAAGCGAGAAAATAAGAATACTGCAAAGAATGGTACCAGGTGGAACTAAGATGGATACTGCATCAATGTTGGATGAAGCTATTCATTATGTTAAGTTTCTCAAGACACAGCTTAAGTCACTGCAGGAACGTGCTTCAGGAGCCAACAGTAAAAGGACAGTTGCTGGTTCAGGATTAGGGTTCCCTGTTTCATTGCCTAAGCCTTACCAAGATCGTAATGTTGATCGTTATGGGTGA
Protein sequence

>MS.gene94900.t1

MDCNQLKSSSSSSEDQIDMMLMMMMQLPEFSSSNGNNNTINQFQPSDQQFYGTSNASNNTHPLADLIDNPPNPIIPWFSSSSFIHLPSQSITNTNTISFTNNNSTAPLRFQQQQTTPLMFSNSSNEIPPNANHYGTSSPSEKINSMAAMREMIFRIAAMQPIYIDPESVKPPKRRNVKISKDPQSVAARHRRERISEKIRILQRMVPGGTKMDTASMLDEAIHYVKFLKTQLKSLQERASGANSKRTVAGSGLGFPVSLPKPYQDRNVDRYG