AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene48515

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene48515.t1 MTR_3g101810 96.703 273 6 3 1 272 1 271 0.0 528
MS.gene48515.t1 MTR_5g017210 62.112 161 56 3 91 250 56 212 4.99e-49 162
MS.gene48515.t1 MTR_8g093500 76.923 91 21 0 146 236 87 177 1.72e-46 157
MS.gene48515.t1 MTR_2g100490 63.441 93 33 1 145 236 261 353 1.68e-27 109
MS.gene48515.t1 MTR_8g015450 55.769 104 42 1 145 244 296 399 3.77e-27 109
MS.gene48515.t1 MTR_7g069590 68.519 54 17 0 179 232 32 85 1.79e-21 88.2
MS.gene48515.t1 MTR_5g079500 62.500 56 21 0 180 235 225 280 1.53e-18 84.0
MS.gene48515.t1 MTR_1g018090 62.963 54 20 0 182 235 283 336 8.50e-18 82.4
MS.gene48515.t1 MTR_1g106460 50.746 67 33 0 169 235 234 300 2.14e-17 80.9
MS.gene48515.t1 MTR_1g106470 46.914 81 43 0 182 262 205 285 2.31e-17 80.1
MS.gene48515.t1 MTR_5g005110 61.111 54 21 0 182 235 233 286 4.34e-17 80.1
MS.gene48515.t1 MTR_3g103030 53.968 63 29 0 173 235 229 291 4.94e-16 77.0
MS.gene48515.t1 MTR_4g131160 54.545 66 29 1 180 244 203 268 6.98e-15 74.3
MS.gene48515.t1 MTR_4g131160 54.545 66 29 1 180 244 206 271 7.68e-15 73.9
MS.gene48515.t1 MTR_1g080890 46.250 80 42 1 166 244 186 265 1.20e-14 73.2
MS.gene48515.t1 MTR_1g106480 58.000 50 21 0 186 235 82 131 1.20e-13 67.4
MS.gene48515.t1 MTR_2g067000 48.684 76 32 1 168 236 145 220 3.81e-13 68.6
MS.gene48515.t1 MTR_1g060700 57.407 54 23 0 183 236 357 410 3.27e-12 66.6
MS.gene48515.t1 MTR_4g033295 56.140 57 24 1 183 238 128 184 7.80e-12 63.2
MS.gene48515.t1 MTR_1g052470 41.573 89 47 2 151 238 280 364 1.25e-11 64.7
MS.gene48515.t1 MTR_2g089070 51.852 54 26 0 183 236 146 199 1.65e-11 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene48515.t1 AT3G50330 79.091 110 22 1 146 254 92 201 8.58e-47 156
MS.gene48515.t1 AT5G67060 87.234 94 12 0 146 239 83 176 3.43e-46 155
MS.gene48515.t1 AT5G67060 87.234 94 12 0 146 239 95 188 4.37e-46 155
MS.gene48515.t1 AT4G00120 69.663 89 27 0 148 236 87 175 2.11e-37 131
MS.gene48515.t1 AT3G21330 65.217 92 32 0 145 236 241 332 1.04e-36 134
MS.gene48515.t1 AT5G09750 75.556 90 22 0 146 235 92 181 2.16e-34 124
MS.gene48515.t1 AT5G01305 67.797 59 19 0 174 232 38 96 3.35e-21 88.2
MS.gene48515.t1 AT5G43175 50.725 69 34 0 167 235 126 194 1.31e-18 82.4
MS.gene48515.t1 AT4G33880 64.815 54 19 0 182 235 275 328 1.60e-18 84.3
MS.gene48515.t1 AT5G37800 53.333 75 28 1 168 235 189 263 3.23e-18 82.8
MS.gene48515.t1 AT1G27740 52.941 68 32 0 168 235 162 229 4.06e-18 82.0
MS.gene48515.t1 AT1G66470 63.636 55 20 0 181 235 203 257 6.05e-18 82.0
MS.gene48515.t1 AT2G14760 62.963 54 20 0 182 235 246 299 1.79e-17 81.3
MS.gene48515.t1 AT4G30980 53.247 77 35 1 169 244 126 202 3.07e-16 77.4
MS.gene48515.t1 AT2G24260 53.086 81 30 3 171 244 28 107 3.19e-16 76.6
MS.gene48515.t1 AT4G30980 53.247 77 35 1 169 244 174 250 6.21e-16 77.0
MS.gene48515.t1 AT2G24260 53.086 81 30 3 171 244 131 210 8.34e-16 76.6
MS.gene48515.t1 AT5G58010 51.316 76 36 1 170 244 96 171 6.37e-15 73.6
MS.gene48515.t1 AT2G14760 50.746 67 20 1 182 235 246 312 3.15e-14 72.0

Find 55 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTTGACGTTTCTTCTCTT+TGG 0.218574 3.1:+80852054 None:intergenic
ACAGTTGCTGGTTCAGGATT+AGG 0.247420 3.1:-80851829 MS.gene48515:CDS
GATTCTGGGTCTATGTAAAT+TGG 0.284997 3.1:+80852087 None:intergenic
CCGTTAGATGAAGAAAATTC+AGG 0.301231 3.1:+80852486 None:intergenic
GATCGTAATGTTGATCGTTA+TGG 0.304956 3.1:-80851775 MS.gene48515:CDS
TGTTGTTGTTGGAACATTAA+TGG 0.311513 3.1:+80852249 None:intergenic
AACAGGACAGTTGCTGGTTC+AGG 0.321831 3.1:-80851835 MS.gene48515:CDS
CAGTTGCTGGTTCAGGATTA+GGG 0.322129 3.1:-80851828 MS.gene48515:CDS
AGAGATTGTGTTTGTGTTTG+TGG 0.340639 3.1:+80852296 None:intergenic
TCACTGCAGGAACGTGCTTC+AGG 0.355705 3.1:-80851868 MS.gene48515:CDS
CCGTCAGATCAACAATTCTA+TGG 0.368765 3.1:-80852432 MS.gene48515:CDS
TAAGGCTTAGGCAATGAAAC+AGG 0.373028 3.1:+80851802 None:intergenic
CTTCAGGAGCCAACAGTAAC+AGG 0.378388 3.1:-80851852 MS.gene48515:CDS
CTCGAATTCGAAAACATTAA+CGG 0.383093 3.1:+80852219 None:intergenic
GAAGACCATGGTATTGGATT+AGG 0.391268 3.1:+80852354 None:intergenic
TGGTGTAGCAGAGTTGTTAT+TGG 0.394604 3.1:+80852269 None:intergenic
ATCGTAATGTTGATCGTTAT+GGG 0.398296 3.1:-80851774 MS.gene48515:CDS
ATGATGAAGATGACTTTAAC+TGG 0.403724 3.1:+80852556 None:intergenic
ACGGTGTTGTTTGTTGTTGT+TGG 0.421243 3.1:+80852238 None:intergenic
TTGACGTTTCTTCTCTTTGG+TGG 0.422338 3.1:+80852057 None:intergenic
AACGATCAACATTACGATCT+TGG 0.428866 3.1:+80851779 None:intergenic
AACAGTAACAGGACAGTTGC+TGG 0.445444 3.1:-80851841 MS.gene48515:CDS
GACCATGGTATTGGATTAGG+AGG 0.459342 3.1:+80852357 None:intergenic
GCAGATGAAGACCATGGTAT+TGG 0.485579 3.1:+80852348 None:intergenic
ATCGAGTTTCTCTTCTCTGA+TGG 0.493552 3.1:+80852153 None:intergenic
CGTTAGATGAAGAAAATTCA+GGG 0.499125 3.1:+80852487 None:intergenic
GCTGCGAATACGAACCATTA+CGG 0.507711 3.1:-80852186 MS.gene48515:CDS
AAACTCGATGGCGGCGATGA+GGG 0.510188 3.1:-80852139 MS.gene48515:CDS
AATAAGAATACTGCAAAGAA+TGG 0.517132 3.1:-80851974 MS.gene48515:CDS
ATGGCGACGCATTACCGTAA+TGG 0.518759 3.1:+80852172 None:intergenic
TGTGTTTGTGGTGGATTGTG+AGG 0.519086 3.1:+80852308 None:intergenic
GGTACCAGGTGGAACTAAGA+TGG 0.521420 3.1:-80851953 MS.gene48515:CDS
GTGTTTGTGGTGGATTGTGA+GGG 0.523310 3.1:+80852309 None:intergenic
TGACGGTGGAAATTGATTGA+TGG 0.535291 3.1:+80852449 None:intergenic
GATTGTGTTTGTGTTTGTGG+TGG 0.537734 3.1:+80852299 None:intergenic
TTACGATCTTGGTAAGGCTT+AGG 0.545623 3.1:+80851790 None:intergenic
GATGGATACTGCATCAATGT+TGG 0.564818 3.1:-80851935 MS.gene48515:CDS
TCAACATTACGATCTTGGTA+AGG 0.575828 3.1:+80851784 None:intergenic
GACACAACTTAAGTCACTGC+AGG 0.578655 3.1:-80851881 MS.gene48515:CDS
AGCAACTGTCCTGTTACTGT+TGG 0.580375 3.1:+80851843 None:intergenic
GAAACTCGATGGCGGCGATG+AGG 0.584557 3.1:-80852140 MS.gene48515:CDS
ATCAGAGAAGAGAAACTCGA+TGG 0.629045 3.1:-80852151 MS.gene48515:CDS
GTCATCTTCATCATCATCAG+AGG 0.630073 3.1:-80852547 MS.gene48515:CDS
TGTCTAGCTGCTATACTCTG+AGG 0.634069 3.1:+80852021 None:intergenic
TTATCTATTAAATCTGCAAG+AGG 0.636966 3.1:+80852381 None:intergenic
GTATCCATCTTAGTTCCACC+TGG 0.642640 3.1:+80851949 None:intergenic
CCATAGAATTGTTGATCTGA+CGG 0.644487 3.1:+80852432 None:intergenic
AAGGCTTAGGCAATGAAACA+GGG 0.655130 3.1:+80851803 None:intergenic
ACCATGGTATTGGATTAGGA+GGG 0.660517 3.1:+80852358 None:intergenic
ATACTGCAAAGAATGGTACC+AGG 0.680757 3.1:-80851967 MS.gene48515:CDS
AGAGAAGAGAAACTCGATGG+CGG 0.684019 3.1:-80852148 MS.gene48515:CDS
ACCCTCCTAATCCAATACCA+TGG 0.687624 3.1:-80852359 MS.gene48515:CDS
CTGCAAAGAATGGTACCAGG+TGG 0.704915 3.1:-80851964 MS.gene48515:CDS
TAGAATTGTTGATCTGACGG+TGG 0.709109 3.1:+80852435 None:intergenic
AATGATGCAGATGAAGACCA+TGG 0.757666 3.1:+80852342 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATAAGAATACTGCAAAGAA+TGG - chr3.1:80852364-80852383 MS.gene48515:CDS 25.0%
! TTATCTATTAAATCTGCAAG+AGG + chr3.1:80851960-80851979 None:intergenic 25.0%
ATCGTAATGTTGATCGTTAT+GGG - chr3.1:80852564-80852583 MS.gene48515:CDS 30.0%
ATGATGAAGATGACTTTAAC+TGG + chr3.1:80851785-80851804 None:intergenic 30.0%
CGTTAGATGAAGAAAATTCA+GGG + chr3.1:80851854-80851873 None:intergenic 30.0%
CTCGAATTCGAAAACATTAA+CGG + chr3.1:80852122-80852141 None:intergenic 30.0%
! CCTGAATTTTCTTCATCTAA+CGG - chr3.1:80851852-80851871 MS.gene48515:CDS 30.0%
! TGTTGTTGTTGGAACATTAA+TGG + chr3.1:80852092-80852111 None:intergenic 30.0%
AACGATCAACATTACGATCT+TGG + chr3.1:80852562-80852581 None:intergenic 35.0%
AGAGATTGTGTTTGTGTTTG+TGG + chr3.1:80852045-80852064 None:intergenic 35.0%
ATCTTGACGTTTCTTCTCTT+TGG + chr3.1:80852287-80852306 None:intergenic 35.0%
CCATAGAATTGTTGATCTGA+CGG + chr3.1:80851909-80851928 None:intergenic 35.0%
CCGTTAGATGAAGAAAATTC+AGG + chr3.1:80851855-80851874 None:intergenic 35.0%
GATCGTAATGTTGATCGTTA+TGG - chr3.1:80852563-80852582 MS.gene48515:CDS 35.0%
GATTCTGGGTCTATGTAAAT+TGG + chr3.1:80852254-80852273 None:intergenic 35.0%
TCAACATTACGATCTTGGTA+AGG + chr3.1:80852557-80852576 None:intergenic 35.0%
!!! TTGGTGGTTTTACTGATTCT+GGG + chr3.1:80852268-80852287 None:intergenic 35.0%
!!! TTTGGTGGTTTTACTGATTC+TGG + chr3.1:80852269-80852288 None:intergenic 35.0%
AAGGCTTAGGCAATGAAACA+GGG + chr3.1:80852538-80852557 None:intergenic 40.0%
AATGATGCAGATGAAGACCA+TGG + chr3.1:80851999-80852018 None:intergenic 40.0%
ATACTGCAAAGAATGGTACC+AGG - chr3.1:80852371-80852390 MS.gene48515:CDS 40.0%
ATCAGAGAAGAGAAACTCGA+TGG - chr3.1:80852187-80852206 MS.gene48515:CDS 40.0%
ATCGAGTTTCTCTTCTCTGA+TGG + chr3.1:80852188-80852207 None:intergenic 40.0%
CCGTCAGATCAACAATTCTA+TGG - chr3.1:80851906-80851925 MS.gene48515:CDS 40.0%
GATGGATACTGCATCAATGT+TGG - chr3.1:80852403-80852422 MS.gene48515:CDS 40.0%
GATTGTGTTTGTGTTTGTGG+TGG + chr3.1:80852042-80852061 None:intergenic 40.0%
GTCATCTTCATCATCATCAG+AGG - chr3.1:80851791-80851810 MS.gene48515:CDS 40.0%
TAAGGCTTAGGCAATGAAAC+AGG + chr3.1:80852539-80852558 None:intergenic 40.0%
TAGAATTGTTGATCTGACGG+TGG + chr3.1:80851906-80851925 None:intergenic 40.0%
TGACGGTGGAAATTGATTGA+TGG + chr3.1:80851892-80851911 None:intergenic 40.0%
TGGTGTAGCAGAGTTGTTAT+TGG + chr3.1:80852072-80852091 None:intergenic 40.0%
TTACGATCTTGGTAAGGCTT+AGG + chr3.1:80852551-80852570 None:intergenic 40.0%
TTGACGTTTCTTCTCTTTGG+TGG + chr3.1:80852284-80852303 None:intergenic 40.0%
! ACCATGGTATTGGATTAGGA+GGG + chr3.1:80851983-80852002 None:intergenic 40.0%
! GAAGACCATGGTATTGGATT+AGG + chr3.1:80851987-80852006 None:intergenic 40.0%
!! ACGGTGTTGTTTGTTGTTGT+TGG + chr3.1:80852103-80852122 None:intergenic 40.0%
AACAGTAACAGGACAGTTGC+TGG - chr3.1:80852497-80852516 MS.gene48515:CDS 45.0%
ACCCTCCTAATCCAATACCA+TGG - chr3.1:80851979-80851998 MS.gene48515:CDS 45.0%
AGAGAAGAGAAACTCGATGG+CGG - chr3.1:80852190-80852209 MS.gene48515:CDS 45.0%
AGCAACTGTCCTGTTACTGT+TGG + chr3.1:80852498-80852517 None:intergenic 45.0%
GACACAACTTAAGTCACTGC+AGG - chr3.1:80852457-80852476 MS.gene48515:CDS 45.0%
GCAGATGAAGACCATGGTAT+TGG + chr3.1:80851993-80852012 None:intergenic 45.0%
GCTGCGAATACGAACCATTA+CGG - chr3.1:80852152-80852171 MS.gene48515:CDS 45.0%
GTATCCATCTTAGTTCCACC+TGG + chr3.1:80852392-80852411 None:intergenic 45.0%
TGTCTAGCTGCTATACTCTG+AGG + chr3.1:80852320-80852339 None:intergenic 45.0%
! GACCATGGTATTGGATTAGG+AGG + chr3.1:80851984-80852003 None:intergenic 45.0%
!! ACAGTTGCTGGTTCAGGATT+AGG - chr3.1:80852509-80852528 MS.gene48515:CDS 45.0%
!! CAGTTGCTGGTTCAGGATTA+GGG - chr3.1:80852510-80852529 MS.gene48515:CDS 45.0%
!! GTGTTTGTGGTGGATTGTGA+GGG + chr3.1:80852032-80852051 None:intergenic 45.0%
!! TGTGTTTGTGGTGGATTGTG+AGG + chr3.1:80852033-80852052 None:intergenic 45.0%
ATGGCGACGCATTACCGTAA+TGG + chr3.1:80852169-80852188 None:intergenic 50.0%
CTGCAAAGAATGGTACCAGG+TGG - chr3.1:80852374-80852393 MS.gene48515:CDS 50.0%
CTTCAGGAGCCAACAGTAAC+AGG - chr3.1:80852486-80852505 MS.gene48515:CDS 50.0%
GGTACCAGGTGGAACTAAGA+TGG - chr3.1:80852385-80852404 MS.gene48515:CDS 50.0%
!! AACAGGACAGTTGCTGGTTC+AGG - chr3.1:80852503-80852522 MS.gene48515:CDS 50.0%
TCACTGCAGGAACGTGCTTC+AGG - chr3.1:80852470-80852489 MS.gene48515:CDS 55.0%
! AAACTCGATGGCGGCGATGA+GGG - chr3.1:80852199-80852218 MS.gene48515:CDS 55.0%
! GAAACTCGATGGCGGCGATG+AGG - chr3.1:80852198-80852217 MS.gene48515:CDS 60.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 80851771 80852589 80851771 ID=MS.gene48515
chr3.1 mRNA 80851771 80852589 80851771 ID=MS.gene48515.t1;Parent=MS.gene48515
chr3.1 exon 80851771 80852589 80851771 ID=MS.gene48515.t1.exon1;Parent=MS.gene48515.t1
chr3.1 CDS 80851771 80852589 80851771 ID=cds.MS.gene48515.t1;Parent=MS.gene48515.t1
Gene Sequence

>MS.gene48515

ATGGACTGTAACCAGTTAAAGTCATCTTCATCATCATCAGAGGATCAAATTGACATGATGTTAATGATGATGATGCAACTCCCTGAATTTTCTTCATCTAACGGTAATAACAACAACACCATCAATCAATTTCCACCGTCAGATCAACAATTCTATGGCACTTCAAATGCTTCTAACAATACACGTCCTCTTGCAGATTTAATAGATAACCCTCCTAATCCAATACCATGGTCTTCATCTGCATCATTCACTCACTTACCCTCACAATCCACCACAAACACAAACACAATCTCTTTCACCAATAACAACTCTGCTACACCATTAATGTTCCAACAACAACAAACAACACCGTTAATGTTTTCGAATTCGAGCAACGAGATTGCTGCGAATACGAACCATTACGGTAATGCGTCGCCATCAGAGAAGAGAAACTCGATGGCGGCGATGAGGGAGATGATATTCAGAATAGCAGCTATGCAACCAATTTACATAGACCCAGAATCAGTAAAACCACCAAAGAGAAGAAACGTCAAGATTTCAAAAGATCCTCAGAGTATAGCAGCTAGACACAGAAGAGAAAGAATAAGCGAGAAAATAAGAATACTGCAAAGAATGGTACCAGGTGGAACTAAGATGGATACTGCATCAATGTTGGATGAAGCTATTCATTATGTTAAATTTCTCAAGACACAACTTAAGTCACTGCAGGAACGTGCTTCAGGAGCCAACAGTAACAGGACAGTTGCTGGTTCAGGATTAGGGTTCCCTGTTTCATTGCCTAAGCCTTACCAAGATCGTAATGTTGATCGTTATGGGTGA
Protein sequence

>MS.gene48515.t1

MDCNQLKSSSSSSEDQIDMMLMMMMQLPEFSSSNGNNNNTINQFPPSDQQFYGTSNASNNTRPLADLIDNPPNPIPWSSSASFTHLPSQSTTNTNTISFTNNNSATPLMFQQQQTTPLMFSNSSNEIAANTNHYGNASPSEKRNSMAAMREMIFRIAAMQPIYIDPESVKPPKRRNVKISKDPQSIAARHRRERISEKIRILQRMVPGGTKMDTASMLDEAIHYVKFLKTQLKSLQERASGANSNRTVAGSGLGFPVSLPKPYQDRNVDRYG