AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0850910

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0850910 MtrunA17_Chr5g0432071 74.510 153 30 2 24 168 32 183 1.22e-76 228
Msa0850910 MtrunA17_Chr5g0431931 65.909 88 21 2 24 103 68 154 2.90e-31 110
Msa0850910 MtrunA17_Chr3g0106491 49.462 93 38 2 68 155 176 264 2.72e-23 95.5
Msa0850910 MtrunA17_Chr3g0106491 54.386 57 25 1 89 144 365 421 1.25e-13 67.8
Msa0850910 MtrunA17_Chr5g0432161 65.517 58 20 0 89 146 244 301 8.45e-23 94.4
Msa0850910 MtrunA17_Chr5g0432161 56.140 57 24 1 89 144 421 477 5.68e-15 71.6
Msa0850910 MtrunA17_Chr7g0263531 48.780 82 42 0 90 171 190 271 9.85e-23 93.6
Msa0850910 MtrunA17_Chr7g0263531 50.000 56 27 1 90 144 362 417 6.58e-11 59.7
Msa0850910 MtrunA17_Chr5g0432011 70.690 58 17 0 24 81 32 89 1.53e-21 83.6
Msa0850910 MtrunA17_Chr7g0243891 56.338 71 31 0 82 152 209 279 4.85e-21 89.0
Msa0850910 MtrunA17_Chr7g0243891 52.632 57 26 1 89 144 374 430 7.16e-13 65.5
Msa0850910 MtrunA17_Chr3g0101131 60.938 64 25 0 89 152 243 306 2.43e-20 87.0
Msa0850910 MtrunA17_Chr3g0101131 50.877 57 27 1 89 144 415 471 1.05e-12 65.1
Msa0850910 MtrunA17_Chr5g0418191 36.301 146 87 3 8 153 75 214 5.54e-20 85.9
Msa0850910 MtrunA17_Chr5g0418191 52.632 57 26 1 89 144 320 376 4.13e-14 68.9
Msa0850910 MtrunA17_Chr7g0249311 59.375 64 26 0 89 152 179 242 1.18e-19 85.1
Msa0850910 MtrunA17_Chr7g0249311 45.833 72 37 2 89 158 392 463 1.36e-12 64.7
Msa0850910 MtrunA17_Chr5g0445311 56.522 69 30 0 89 157 200 268 1.36e-19 85.1
Msa0850910 MtrunA17_Chr5g0445311 50.877 57 27 1 89 144 364 420 1.03e-12 65.1
Msa0850910 MtrunA17_Chr4g0004911 52.703 74 33 2 89 161 184 256 7.49e-19 82.8
Msa0850910 MtrunA17_Chr4g0004911 50.877 57 27 1 89 144 336 392 7.57e-12 62.8
Msa0850910 MtrunA17_Chr7g0218081 63.793 58 21 0 89 146 228 285 1.16e-18 82.4
Msa0850910 MtrunA17_Chr7g0218081 50.877 57 27 1 89 144 410 466 6.43e-13 65.9
Msa0850910 MtrunA17_Chr3g0079691 60.345 58 23 0 89 146 280 337 5.00e-18 80.5
Msa0850910 MtrunA17_Chr3g0079691 52.632 57 26 1 89 144 495 551 6.93e-13 65.9
Msa0850910 MtrunA17_Chr7g0249301 55.556 63 28 0 90 152 63 125 1.62e-17 78.6
Msa0850910 MtrunA17_Chr7g0249301 50.877 57 27 1 89 144 292 348 5.34e-12 62.8
Msa0850910 MtrunA17_Chr1g0188941 52.632 57 26 1 89 144 51 107 8.56e-17 72.0
Msa0850910 MtrunA17_Chr5g0444671 87.805 41 5 0 24 64 125 165 1.99e-16 72.4
Msa0850910 MtrunA17_Chr4g0042831 46.835 79 37 2 77 150 129 207 6.94e-16 73.9
Msa0850910 MtrunA17_Chr4g0042831 50.877 57 27 1 89 144 278 334 6.43e-14 68.6
Msa0850910 MtrunA17_Chr6g0468181 44.444 63 35 0 109 171 22 84 4.22e-13 62.8
Msa0850910 MtrunA17_Chr8g0383351 50.877 57 27 1 89 144 160 216 4.82e-13 64.7
Msa0850910 MtrunA17_Chr5g0447701 45.902 61 32 1 89 148 252 312 5.18e-13 65.9
Msa0850910 MtrunA17_Chr5g0447701 45.000 60 33 0 90 149 93 152 5.98e-12 62.8
Msa0850910 MtrunA17_Chr3g0129361 50.877 57 27 1 89 144 144 200 5.66e-13 64.3
Msa0850910 MtrunA17_Chr3g0136961 36.957 92 49 4 90 172 139 230 6.28e-13 65.1
Msa0850910 MtrunA17_Chr2g0294231 43.056 72 39 2 86 155 199 270 1.98e-12 64.3
Msa0850910 MtrunA17_Chr7g0224801 40.506 79 44 2 89 164 93 171 2.17e-12 62.0
Msa0850910 MtrunA17_Chr8g0335811 50.877 57 27 1 89 144 154 210 4.63e-12 62.0
Msa0850910 MtrunA17_Chr4g0074001 46.429 56 29 1 90 144 360 415 5.43e-12 63.2
Msa0850910 MtrunA17_Chr8g0386241 47.368 57 29 1 89 144 103 159 6.18e-12 60.8
Msa0850910 MtrunA17_Chr1g0194481 44.776 67 35 2 86 150 154 220 1.09e-11 62.0
Msa0850910 MtrunA17_Chr5g0443131 46.970 66 32 3 86 148 153 218 2.14e-11 60.8
Msa0850910 MtrunA17_Chr5g0447711 40.580 69 40 1 89 156 230 298 3.06e-11 60.5
Msa0850910 MtrunA17_Chr2g0333851 42.105 57 31 2 90 144 170 226 3.94e-11 60.1
Msa0850910 MtrunA17_Chr4g0051181 48.276 58 28 2 89 144 243 300 3.98e-11 60.5
Msa0850910 MtrunA17_Chr4g0068541 47.541 61 30 2 86 144 204 264 4.96e-11 60.1
Msa0850910 MtrunA17_Chr4g0051881 35.714 84 52 2 89 171 178 260 7.69e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0850910 AT5G07100.1 58.571 70 27 2 89 157 117 185 1.86e-22 91.7
Msa0850910 AT5G07100.1 54.386 57 25 1 89 144 234 290 2.43e-14 69.7
Msa0850910 AT5G07100.2 58.571 70 27 2 89 157 24 92 1.89e-22 89.7
Msa0850910 AT5G07100.2 54.386 57 25 1 89 144 141 197 3.16e-14 68.2
Msa0850910 AT5G07100.4 58.571 70 27 2 89 157 24 92 1.89e-22 89.7
Msa0850910 AT5G07100.4 54.386 57 25 1 89 144 141 197 3.16e-14 68.2
Msa0850910 AT5G07100.5 58.571 70 27 2 89 157 24 92 1.89e-22 89.7
Msa0850910 AT5G07100.5 54.386 57 25 1 89 144 141 197 3.16e-14 68.2
Msa0850910 AT5G07100.3 58.571 70 27 2 89 157 24 92 1.89e-22 89.7
Msa0850910 AT5G07100.3 54.386 57 25 1 89 144 141 197 3.16e-14 68.2
Msa0850910 AT2G38470.1 62.069 58 22 0 89 146 184 241 1.02e-21 91.3
Msa0850910 AT2G38470.1 52.632 57 26 1 89 144 362 418 1.93e-12 64.7
Msa0850910 AT1G13960.1 55.882 68 28 1 77 144 219 284 1.18e-20 88.2
Msa0850910 AT1G13960.1 52.632 57 26 1 89 144 409 465 2.36e-14 70.1
Msa0850910 AT1G13960.2 55.882 68 28 1 77 144 66 131 2.73e-20 86.7
Msa0850910 AT1G13960.2 52.632 57 26 1 89 144 256 312 6.63e-14 68.6
Msa0850910 AT2G37260.3 52.941 68 32 0 90 157 86 153 7.47e-20 85.1
Msa0850910 AT4G26640.7 63.793 58 21 0 89 146 171 228 7.65e-20 85.9
Msa0850910 AT4G26640.7 51.613 62 29 1 89 149 341 402 5.71e-14 69.3
Msa0850910 AT2G37260.2 52.941 68 32 0 90 157 84 151 7.72e-20 85.1
Msa0850910 AT4G26640.1 57.812 64 27 0 89 152 139 202 8.15e-20 85.9
Msa0850910 AT4G26640.1 51.613 62 29 1 89 149 309 370 6.40e-14 68.9
Msa0850910 AT2G37260.1 52.941 68 32 0 90 157 166 233 8.31e-20 85.5
Msa0850910 AT4G26640.5 57.812 64 27 0 89 152 35 98 9.28e-20 85.1
Msa0850910 AT4G26640.5 51.613 62 29 1 89 149 205 266 9.61e-14 68.2
Msa0850910 AT4G26640.6 57.812 64 27 0 89 152 35 98 9.28e-20 85.1
Msa0850910 AT4G26640.6 51.613 62 29 1 89 149 205 266 9.61e-14 68.2
Msa0850910 AT4G26640.4 57.812 64 27 0 89 152 35 98 9.28e-20 85.1
Msa0850910 AT4G26640.4 51.613 62 29 1 89 149 205 266 9.61e-14 68.2
Msa0850910 AT4G26640.3 57.812 64 27 0 89 152 35 98 9.28e-20 85.1
Msa0850910 AT4G26640.3 51.613 62 29 1 89 149 205 266 9.61e-14 68.2
Msa0850910 AT2G03340.1 60.714 56 22 0 89 144 250 305 1.15e-19 85.5
Msa0850910 AT2G03340.1 52.632 57 26 1 89 144 415 471 2.10e-14 70.5
Msa0850910 AT5G56270.1 62.069 58 22 0 89 146 273 330 1.19e-19 85.5
Msa0850910 AT5G56270.1 54.386 57 25 1 89 144 487 543 4.18e-14 69.7
Msa0850910 AT4G26640.2 63.793 58 21 0 89 146 211 268 1.38e-19 85.5
Msa0850910 AT4G26640.2 52.632 57 26 1 89 144 381 437 3.33e-13 67.0
Msa0850910 AT3G01080.3 64.286 56 20 0 89 144 205 260 3.58e-19 83.2
Msa0850910 AT4G26440.1 62.069 58 22 0 89 146 178 235 4.26e-19 84.0
Msa0850910 AT4G26440.1 52.632 57 26 1 89 144 372 428 1.19e-11 62.4
Msa0850910 AT3G01080.2 64.286 56 20 0 89 144 205 260 1.38e-18 82.4
Msa0850910 AT3G01080.2 54.386 57 25 1 89 144 344 400 1.44e-15 73.6
Msa0850910 AT3G01080.1 64.286 56 20 0 89 144 167 222 1.84e-18 82.0
Msa0850910 AT3G01080.1 54.386 57 25 1 89 144 306 362 2.02e-15 73.2
Msa0850910 AT2G30250.1 55.000 60 27 0 87 146 164 223 6.70e-18 80.1
Msa0850910 AT2G30250.1 46.154 65 33 2 90 153 329 392 2.01e-12 64.7
Msa0850910 AT2G04880.2 53.448 58 27 0 89 146 111 168 3.17e-17 78.6
Msa0850910 AT2G04880.2 49.123 57 28 1 89 144 283 339 1.22e-11 62.4
Msa0850910 AT2G04880.1 53.448 58 27 0 89 146 111 168 3.41e-17 78.6
Msa0850910 AT2G04880.1 49.123 57 28 1 89 144 307 363 1.21e-11 62.4
Msa0850910 AT4G12020.3 47.059 68 34 1 77 144 458 523 7.20e-15 72.0
Msa0850910 AT4G12020.4 47.059 68 34 1 77 144 458 523 7.20e-15 72.0
Msa0850910 AT4G12020.10 47.059 68 34 1 77 144 458 523 7.27e-15 72.0
Msa0850910 AT4G12020.2 47.059 68 34 1 77 144 458 523 7.34e-15 72.0
Msa0850910 AT4G12020.5 47.059 68 34 1 77 144 391 456 7.76e-15 72.0
Msa0850910 AT4G12020.7 47.059 68 34 1 77 144 458 523 8.21e-15 71.6
Msa0850910 AT4G12020.6 47.059 68 34 1 77 144 458 523 8.28e-15 71.6
Msa0850910 AT4G12020.8 47.059 68 34 1 77 144 458 523 8.28e-15 71.6
Msa0850910 AT4G12020.1 47.059 68 34 1 77 144 458 523 8.70e-15 71.6
Msa0850910 AT4G12020.9 47.059 68 34 1 77 144 458 523 8.70e-15 71.6
Msa0850910 AT4G12020.11 47.059 68 34 1 77 144 458 523 1.01e-14 71.6
Msa0850910 AT5G13080.1 42.857 77 41 2 89 162 67 143 1.68e-14 67.4
Msa0850910 AT1G64000.1 36.585 82 43 2 72 144 89 170 5.28e-13 64.3
Msa0850910 AT1G55600.1 50.000 60 29 1 87 145 305 364 7.32e-13 65.9
Msa0850910 AT2G44745.1 50.877 57 27 1 89 144 145 201 4.50e-12 62.4
Msa0850910 AT5G41570.1 45.614 57 30 1 89 144 98 154 5.19e-12 61.6
Msa0850910 AT1G29860.1 41.558 77 42 3 86 160 132 207 9.73e-12 62.0
Msa0850910 AT4G39410.1 47.458 59 30 1 89 146 223 281 1.19e-11 62.0
Msa0850910 AT2G46130.1 47.368 57 29 1 89 144 30 86 1.54e-11 58.5
Msa0850910 AT2G21900.1 30.709 127 71 3 19 144 55 165 1.70e-11 60.5
Msa0850910 AT5G49520.1 48.333 60 30 1 87 145 219 278 2.45e-11 61.6
Msa0850910 AT2G47260.1 40.230 87 47 4 86 169 170 254 3.87e-11 60.8

Find 18 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCATGATGATGGGTATAAT+TGG 0.246954 5_4:+40731823 Msa0850910:CDS
ATTCTTGCTGAATGCTCATT+TGG 0.274199 5_4:+40731469 Msa0850910:CDS
TTCGTTCAAAATTTGATTCT+CGG 0.288568 5_4:+40731688 Msa0850910:CDS
AAAATTTGTCTTTAAGAAGA+TGG 0.366253 5_4:+40731796 Msa0850910:CDS
TTCTTGCTGAATGCTCATTT+GGG 0.387692 5_4:+40731470 Msa0850910:CDS
TACTTGCAAGATCAATCATT+TGG 0.394888 5_4:+40732054 Msa0850910:CDS
AAGAGAAAGTAGCAAAAGGA+AGG 0.448078 5_4:+40731856 Msa0850910:CDS
AAGGTTGAGATAACTATAGA+TGG 0.449611 5_4:+40731933 Msa0850910:CDS
TATGAAGAGAAAGTAGCAAA+AGG 0.459364 5_4:+40731852 Msa0850910:CDS
TCCAATTATACCCATCATCA+TGG 0.461024 5_4:-40731824 None:intergenic
AGATGGATAAACCATGATGA+TGG 0.470195 5_4:+40731813 Msa0850910:CDS
CGAAATTGAAACTCTGAGAA+TGG 0.484934 5_4:+40731713 Msa0850910:CDS
TGATGAAATGGAAACTCTCA+AGG 0.500065 5_4:+40731444 None:intergenic
AGCTAACGTCTTCAATGAAG+AGG 0.537329 5_4:+40732000 Msa0850910:CDS
AGAGAAAGTAGCAAAAGGAA+GGG 0.578563 5_4:+40731857 Msa0850910:CDS
GATGGATAAACCATGATGAT+GGG 0.585307 5_4:+40731814 Msa0850910:CDS
GAAGCTATTATAAATGTACA+TGG 0.617639 5_4:+40731889 Msa0850910:CDS
ATTATTGAGACACTATACAA+AGG 0.688284 5_4:+40731960 Msa0850910:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTATATATTGAGTTTTGAAT+CGG + chr5_4:40731563-40731582 Msa0850910:intron 20.0%
!!! TTCTTAAAGACAAATTTTGT+TGG - chr5_4:40731794-40731813 None:intergenic 20.0%
!!! AAAATTTGTCTTTAAGAAGA+TGG + chr5_4:40731796-40731815 Msa0850910:CDS 20.0%
!!! TTTTTCTTCACAAAACAATT+AGG - chr5_4:40731915-40731934 None:intergenic 20.0%
!!! TAATTGTTTTGTGAAGAAAA+AGG + chr5_4:40731914-40731933 Msa0850910:CDS 20.0%
! CGATTCAAAACTCAATATAT+AGG - chr5_4:40731565-40731584 None:intergenic 25.0%
! TTCGTTCAAAATTTGATTCT+CGG + chr5_4:40731688-40731707 Msa0850910:CDS 25.0%
! GAAGCTATTATAAATGTACA+TGG + chr5_4:40731889-40731908 Msa0850910:CDS 25.0%
! ATTATTGAGACACTATACAA+AGG + chr5_4:40731960-40731979 Msa0850910:CDS 25.0%
CAAAACTCAATATATAGGTC+TGG - chr5_4:40731560-40731579 None:intergenic 30.0%
ATTGAACAGTTAGAATTCCA+AGG - chr5_4:40731605-40731624 None:intergenic 30.0%
TATGAAGAGAAAGTAGCAAA+AGG + chr5_4:40731852-40731871 Msa0850910:CDS 30.0%
AAGGTTGAGATAACTATAGA+TGG + chr5_4:40731933-40731952 Msa0850910:CDS 30.0%
TACTTGCAAGATCAATCATT+TGG + chr5_4:40732054-40732073 Msa0850910:CDS 30.0%
ATTCTTGCTGAATGCTCATT+TGG + chr5_4:40731469-40731488 Msa0850910:CDS 35.0%
TTCTTGCTGAATGCTCATTT+GGG + chr5_4:40731470-40731489 Msa0850910:CDS 35.0%
GAATTCCAAGGAAGAAATTG+AGG - chr5_4:40731593-40731612 None:intergenic 35.0%
! CGAAATTGAAACTCTGAGAA+TGG + chr5_4:40731713-40731732 Msa0850910:CDS 35.0%
AGATGGATAAACCATGATGA+TGG + chr5_4:40731813-40731832 Msa0850910:CDS 35.0%
GATGGATAAACCATGATGAT+GGG + chr5_4:40731814-40731833 Msa0850910:CDS 35.0%
!! ACCATGATGATGGGTATAAT+TGG + chr5_4:40731823-40731842 Msa0850910:CDS 35.0%
TCCAATTATACCCATCATCA+TGG - chr5_4:40731827-40731846 None:intergenic 35.0%
AAGAGAAAGTAGCAAAAGGA+AGG + chr5_4:40731856-40731875 Msa0850910:CDS 35.0%
AGAGAAAGTAGCAAAAGGAA+GGG + chr5_4:40731857-40731876 Msa0850910:CDS 35.0%
GATCTCCTCAATTTCTTCCT+TGG + chr5_4:40731585-40731604 Msa0850910:intron 40.0%
AGCTAACGTCTTCAATGAAG+AGG + chr5_4:40732000-40732019 Msa0850910:CDS 40.0%
Chromosome Type Strat End Strand Name
chr5_4 gene 40731451 40732082 40731451 ID=Msa0850910;Name=Msa0850910
chr5_4 mRNA 40731451 40732082 40731451 ID=Msa0850910-mRNA-1;Parent=Msa0850910;Name=Msa0850910-mRNA-1;_AED=0.21;_eAED=0.22;_QI=0|0|0|0.5|1|1|2|0|172
chr5_4 exon 40731451 40731519 40731451 ID=Msa0850910-mRNA-1:exon:12850;Parent=Msa0850910-mRNA-1
chr5_4 exon 40731633 40732082 40731633 ID=Msa0850910-mRNA-1:exon:12851;Parent=Msa0850910-mRNA-1
chr5_4 CDS 40731451 40731519 40731451 ID=Msa0850910-mRNA-1:cds;Parent=Msa0850910-mRNA-1
chr5_4 CDS 40731633 40732082 40731633 ID=Msa0850910-mRNA-1:cds;Parent=Msa0850910-mRNA-1
Gene Sequence

>Msa0850910

ATGGAAACTCTCAAGGAGATTCTTGCTGAATGCTCATTTGGGAGTTCTTGTTTTGCTGCTCACATCTTTATCAATTTGCTGCTATCTATTGTTGCTGCAATATTTTGTTATTCTCTTATGATTCTTCGTTCAAAATTTGATTCTCGGAACGAAATTGAAACTCTGAGAATGGAAGCTGATGATATAGCTATAGAAGTTGATGCTGCAGATAGCAACAGAAATGAATTCCAACAAAATTTGTCTTTAAGAAGATGGATAAACCATGATGATGGGTATAATTGGAAAAAGTATGAAGAGAAAGTAGCAAAAGGAAGGGAAAATCAAAGAAGCTATTATAAATGTACATGGCCTAATTGTTTTGTGAAGAAAAAGGTTGAGATAACTATAGATGGAGAAATTATTGAGACACTATACAAAGGTACACATGATCATTGTAAGCTAACGTCTTCAATGAAGAGGATCTCATCATCTGAGTATCTTTATTCACTTTTACTTGCAAGATCAATCATTTGGAAGTGA
Protein sequence

>Msa0850910

METLKEILAECSFGSSCFAAHIFINLLLSIVAAIFCYSLMILRSKFDSRNEIETLRMEADDIAIEVDAADSNRNEFQQNLSLRRWINHDDGYNWKKYEEKVAKGRENQRSYYKCTWPNCFVKKKVEITIDGEIIETLYKGTHDHCKLTSSMKRISSSEYLYSLLLARSIIWK*