AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0850920

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0850920 MtrunA17_Chr5g0432071 75.163 153 29 2 24 168 32 183 7.34e-78 231
Msa0850920 MtrunA17_Chr5g0431931 65.517 87 23 2 24 103 68 154 1.94e-31 110
Msa0850920 MtrunA17_Chr3g0106491 49.451 91 41 2 68 155 176 264 1.34e-23 96.3
Msa0850920 MtrunA17_Chr3g0106491 54.386 57 25 1 89 144 365 421 1.70e-13 67.4
Msa0850920 MtrunA17_Chr5g0432161 46.875 96 49 1 51 146 208 301 1.37e-23 96.3
Msa0850920 MtrunA17_Chr5g0432161 56.140 57 24 1 89 144 421 477 5.68e-15 71.6
Msa0850920 MtrunA17_Chr7g0263531 48.780 82 42 0 90 171 190 271 1.19e-22 93.2
Msa0850920 MtrunA17_Chr7g0263531 50.000 56 27 1 90 144 362 417 8.44e-11 59.7
Msa0850920 MtrunA17_Chr7g0243891 56.338 71 31 0 82 152 209 279 1.25e-21 90.9
Msa0850920 MtrunA17_Chr7g0243891 52.632 57 26 1 89 144 374 430 5.32e-13 65.9
Msa0850920 MtrunA17_Chr5g0432011 70.690 58 17 0 24 81 32 89 1.40e-21 84.0
Msa0850920 MtrunA17_Chr3g0101131 60.938 64 25 0 89 152 243 306 2.43e-20 87.0
Msa0850920 MtrunA17_Chr3g0101131 50.877 57 27 1 89 144 415 471 1.05e-12 65.1
Msa0850920 MtrunA17_Chr7g0249311 59.375 64 26 0 89 152 179 242 1.18e-19 85.1
Msa0850920 MtrunA17_Chr7g0249311 45.833 72 37 2 89 158 392 463 1.36e-12 64.7
Msa0850920 MtrunA17_Chr5g0445311 56.522 69 30 0 89 157 200 268 1.36e-19 85.1
Msa0850920 MtrunA17_Chr5g0445311 50.877 57 27 1 89 144 364 420 1.03e-12 65.1
Msa0850920 MtrunA17_Chr4g0004911 47.778 90 44 3 74 161 168 256 1.54e-19 84.7
Msa0850920 MtrunA17_Chr4g0004911 50.877 57 27 1 89 144 336 392 1.04e-11 62.4
Msa0850920 MtrunA17_Chr5g0418191 35.616 146 88 3 8 153 75 214 2.07e-19 84.3
Msa0850920 MtrunA17_Chr5g0418191 52.632 57 26 1 89 144 320 376 5.68e-14 68.6
Msa0850920 MtrunA17_Chr7g0218081 63.793 58 21 0 89 146 228 285 1.16e-18 82.4
Msa0850920 MtrunA17_Chr7g0218081 50.877 57 27 1 89 144 410 466 6.43e-13 65.9
Msa0850920 MtrunA17_Chr3g0079691 43.269 104 45 2 55 146 236 337 4.95e-18 80.5
Msa0850920 MtrunA17_Chr3g0079691 52.632 57 26 1 89 144 495 551 6.93e-13 65.9
Msa0850920 MtrunA17_Chr7g0249301 55.556 63 28 0 90 152 63 125 2.09e-17 78.2
Msa0850920 MtrunA17_Chr7g0249301 50.877 57 27 1 89 144 292 348 6.17e-12 62.8
Msa0850920 MtrunA17_Chr1g0188941 52.632 57 26 1 89 144 51 107 1.40e-16 71.6
Msa0850920 MtrunA17_Chr5g0444671 87.805 41 5 0 24 64 125 165 2.22e-16 72.4
Msa0850920 MtrunA17_Chr4g0042831 53.968 63 28 1 89 150 145 207 1.43e-15 73.2
Msa0850920 MtrunA17_Chr4g0042831 50.877 57 27 1 89 144 278 334 8.94e-14 68.2
Msa0850920 MtrunA17_Chr6g0468181 44.444 63 35 0 109 171 22 84 4.89e-13 62.4
Msa0850920 MtrunA17_Chr5g0447701 45.902 61 32 1 89 148 252 312 6.22e-13 65.5
Msa0850920 MtrunA17_Chr5g0447701 45.000 60 33 0 90 149 93 152 7.05e-12 62.8
Msa0850920 MtrunA17_Chr3g0136961 36.957 92 49 4 90 172 139 230 6.41e-13 65.1
Msa0850920 MtrunA17_Chr8g0383351 49.153 59 29 1 89 146 160 218 7.09e-13 64.3
Msa0850920 MtrunA17_Chr3g0129361 49.153 59 29 1 89 146 144 202 7.62e-13 63.9
Msa0850920 MtrunA17_Chr2g0294231 41.333 75 42 2 83 155 196 270 1.74e-12 64.3
Msa0850920 MtrunA17_Chr7g0224801 40.506 79 44 2 89 164 93 171 2.53e-12 61.6
Msa0850920 MtrunA17_Chr8g0335811 50.877 57 27 1 89 144 154 210 7.31e-12 61.6
Msa0850920 MtrunA17_Chr4g0074001 46.429 56 29 1 90 144 360 415 7.59e-12 62.8
Msa0850920 MtrunA17_Chr8g0386241 47.368 57 29 1 89 144 103 159 7.91e-12 60.8
Msa0850920 MtrunA17_Chr1g0194481 42.857 70 38 2 83 150 151 220 9.65e-12 62.0
Msa0850920 MtrunA17_Chr5g0443131 44.928 69 35 3 83 148 150 218 2.10e-11 60.8
Msa0850920 MtrunA17_Chr5g0447711 40.580 69 40 1 89 156 230 298 4.14e-11 60.1
Msa0850920 MtrunA17_Chr2g0333851 42.105 57 31 2 90 144 170 226 4.69e-11 60.1
Msa0850920 MtrunA17_Chr4g0068541 45.312 64 33 2 83 144 201 264 5.62e-11 60.1
Msa0850920 MtrunA17_Chr4g0051181 48.276 58 28 2 89 144 243 300 7.77e-11 59.7
Msa0850920 MtrunA17_Chr4g0051881 35.714 84 52 2 89 171 178 260 8.56e-11 59.3
Msa0850920 MtrunA17_Chr8g0383251 40.449 89 48 3 72 155 88 176 9.54e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0850920 AT5G07100.2 58.571 70 27 2 89 157 24 92 2.41e-22 89.7
Msa0850920 AT5G07100.2 54.386 57 25 1 89 144 141 197 4.40e-14 67.8
Msa0850920 AT5G07100.4 58.571 70 27 2 89 157 24 92 2.41e-22 89.7
Msa0850920 AT5G07100.4 54.386 57 25 1 89 144 141 197 4.40e-14 67.8
Msa0850920 AT5G07100.5 58.571 70 27 2 89 157 24 92 2.41e-22 89.7
Msa0850920 AT5G07100.5 54.386 57 25 1 89 144 141 197 4.40e-14 67.8
Msa0850920 AT5G07100.3 58.571 70 27 2 89 157 24 92 2.41e-22 89.7
Msa0850920 AT5G07100.3 54.386 57 25 1 89 144 141 197 4.40e-14 67.8
Msa0850920 AT5G07100.1 58.571 70 27 2 89 157 117 185 2.73e-22 91.3
Msa0850920 AT5G07100.1 54.386 57 25 1 89 144 234 290 3.41e-14 69.3
Msa0850920 AT2G38470.1 57.812 64 27 0 83 146 178 241 1.20e-21 91.3
Msa0850920 AT2G38470.1 52.632 57 26 1 89 144 362 418 2.67e-12 64.3
Msa0850920 AT1G13960.1 55.882 68 28 1 77 144 219 284 2.14e-20 87.8
Msa0850920 AT1G13960.1 52.632 57 26 1 89 144 409 465 3.36e-14 69.7
Msa0850920 AT1G13960.2 55.882 68 28 1 77 144 66 131 5.00e-20 85.9
Msa0850920 AT1G13960.2 52.632 57 26 1 89 144 256 312 8.55e-14 68.6
Msa0850920 AT4G26640.7 63.793 58 21 0 89 146 171 228 8.27e-20 85.9
Msa0850920 AT4G26640.7 51.613 62 29 1 89 149 341 402 6.28e-14 68.9
Msa0850920 AT4G26640.1 63.793 58 21 0 89 146 139 196 1.06e-19 85.5
Msa0850920 AT4G26640.1 51.613 62 29 1 89 149 309 370 7.68e-14 68.9
Msa0850920 AT5G56270.1 62.069 58 22 0 89 146 273 330 1.19e-19 85.5
Msa0850920 AT5G56270.1 54.386 57 25 1 89 144 487 543 4.18e-14 69.7
Msa0850920 AT2G37260.1 52.941 68 32 0 90 157 166 233 1.20e-19 85.1
Msa0850920 AT2G37260.3 52.941 68 32 0 90 157 86 153 1.25e-19 84.7
Msa0850920 AT2G37260.2 52.941 68 32 0 90 157 84 151 1.27e-19 84.7
Msa0850920 AT4G26640.5 57.812 64 27 0 89 152 35 98 1.32e-19 84.7
Msa0850920 AT4G26640.5 51.613 62 29 1 89 149 205 266 1.23e-13 68.2
Msa0850920 AT4G26640.6 57.812 64 27 0 89 152 35 98 1.32e-19 84.7
Msa0850920 AT4G26640.6 51.613 62 29 1 89 149 205 266 1.23e-13 68.2
Msa0850920 AT4G26640.4 57.812 64 27 0 89 152 35 98 1.32e-19 84.7
Msa0850920 AT4G26640.4 51.613 62 29 1 89 149 205 266 1.23e-13 68.2
Msa0850920 AT4G26640.3 57.812 64 27 0 89 152 35 98 1.32e-19 84.7
Msa0850920 AT4G26640.3 51.613 62 29 1 89 149 205 266 1.23e-13 68.2
Msa0850920 AT4G26640.2 63.793 58 21 0 89 146 211 268 1.38e-19 85.5
Msa0850920 AT4G26640.2 52.632 57 26 1 89 144 381 437 3.33e-13 67.0
Msa0850920 AT2G03340.1 60.714 56 22 0 89 144 250 305 1.64e-19 85.1
Msa0850920 AT2G03340.1 52.632 57 26 1 89 144 415 471 2.83e-14 70.1
Msa0850920 AT4G26440.1 62.069 58 22 0 89 146 178 235 4.10e-19 84.0
Msa0850920 AT4G26440.1 52.632 57 26 1 89 144 372 428 1.15e-11 62.4
Msa0850920 AT3G01080.3 64.286 56 20 0 89 144 205 260 4.91e-19 82.8
Msa0850920 AT3G01080.2 64.286 56 20 0 89 144 205 260 2.00e-18 82.0
Msa0850920 AT3G01080.2 54.386 57 25 1 89 144 344 400 1.78e-15 73.6
Msa0850920 AT3G01080.1 64.286 56 20 0 89 144 167 222 2.72e-18 81.3
Msa0850920 AT3G01080.1 54.386 57 25 1 89 144 306 362 2.45e-15 73.2
Msa0850920 AT2G30250.1 55.000 60 27 0 87 146 164 223 8.09e-18 79.7
Msa0850920 AT2G30250.1 46.154 65 33 2 90 153 329 392 2.85e-12 64.3
Msa0850920 AT2G04880.1 53.448 58 27 0 89 146 111 168 4.13e-17 78.2
Msa0850920 AT2G04880.1 49.123 57 28 1 89 144 307 363 1.37e-11 62.4
Msa0850920 AT2G04880.2 53.448 58 27 0 89 146 111 168 4.24e-17 78.2
Msa0850920 AT2G04880.2 49.123 57 28 1 89 144 283 339 1.50e-11 62.0
Msa0850920 AT4G12020.10 47.059 68 34 1 77 144 458 523 3.12e-15 73.2
Msa0850920 AT4G12020.4 47.059 68 34 1 77 144 458 523 3.12e-15 73.2
Msa0850920 AT4G12020.3 47.059 68 34 1 77 144 458 523 3.31e-15 72.8
Msa0850920 AT4G12020.2 47.059 68 34 1 77 144 458 523 3.31e-15 72.8
Msa0850920 AT4G12020.6 47.059 68 34 1 77 144 458 523 4.48e-15 72.4
Msa0850920 AT4G12020.8 47.059 68 34 1 77 144 458 523 4.48e-15 72.4
Msa0850920 AT4G12020.7 47.059 68 34 1 77 144 458 523 4.57e-15 72.4
Msa0850920 AT4G12020.1 47.059 68 34 1 77 144 458 523 4.75e-15 72.4
Msa0850920 AT4G12020.9 47.059 68 34 1 77 144 458 523 4.75e-15 72.4
Msa0850920 AT4G12020.5 47.059 68 34 1 77 144 391 456 4.85e-15 72.4
Msa0850920 AT4G12020.11 47.059 68 34 1 77 144 458 523 5.93e-15 72.0
Msa0850920 AT5G13080.1 42.857 77 41 2 89 162 67 143 1.89e-14 67.4
Msa0850920 AT1G55600.1 50.000 60 29 1 87 145 305 364 1.08e-12 65.5
Msa0850920 AT1G64000.1 36.585 82 43 2 72 144 89 170 1.27e-12 63.5
Msa0850920 AT2G44745.1 50.877 57 27 1 89 144 145 201 6.55e-12 62.0
Msa0850920 AT5G41570.1 45.614 57 30 1 89 144 98 154 6.64e-12 61.2
Msa0850920 AT2G21900.1 31.148 122 72 3 26 144 53 165 9.12e-12 61.2
Msa0850920 AT1G29860.1 40.000 80 45 3 83 160 129 207 9.17e-12 62.0
Msa0850920 AT4G39410.1 47.458 59 30 1 89 146 223 281 1.63e-11 61.6
Msa0850920 AT2G46130.1 47.368 57 29 1 89 144 30 86 1.75e-11 58.5
Msa0850920 AT5G49520.1 48.333 60 30 1 87 145 219 278 2.69e-11 61.2
Msa0850920 AT2G47260.1 38.889 90 50 4 83 169 167 254 4.48e-11 60.5

Find 19 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTCTTGCTGAATGCTCATT+TGG 0.238532 5_4:+40749039 Msa0850920:CDS
ACCATGATGATGGGTATAAT+TGG 0.246954 5_4:+40749393 Msa0850920:CDS
TTCGTTCAAAATTTGATTCT+CGG 0.288568 5_4:+40749258 Msa0850920:CDS
TCATTTGGGTGTTCTTGTTT+TGG 0.321534 5_4:+40749054 Msa0850920:CDS
TTCTTGCTGAATGCTCATTT+GGG 0.345267 5_4:+40749040 Msa0850920:CDS
TACTTGCAAGATCAATCATT+TGG 0.394888 5_4:+40749624 Msa0850920:CDS
AAAATTTGTCTTTAAGAAGA+AGG 0.406219 5_4:+40749366 Msa0850920:CDS
AAGAGAAAGTAGCAAAAGGA+AGG 0.448078 5_4:+40749426 Msa0850920:CDS
AAGGTTGAGATAACTATAGA+TGG 0.449611 5_4:+40749503 Msa0850920:CDS
AGAAGGATAAACCATGATGA+TGG 0.457113 5_4:+40749383 Msa0850920:CDS
TATGAAGAGAAAGTAGCAAA+AGG 0.459364 5_4:+40749422 Msa0850920:CDS
TCCAATTATACCCATCATCA+TGG 0.461024 5_4:-40749394 None:intergenic
CGAAATTGAAACTCTGAGAA+TGG 0.484934 5_4:+40749283 Msa0850920:CDS
TGATGAAATGGAAACTCTCA+AGG 0.500065 5_4:+40749014 None:intergenic
AGCTAACGTCTTCAATGAAG+AGG 0.537329 5_4:+40749570 Msa0850920:CDS
GAAGGATAAACCATGATGAT+GGG 0.572923 5_4:+40749384 Msa0850920:CDS
AGAGAAAGTAGCAAAAGGAA+GGG 0.578563 5_4:+40749427 Msa0850920:CDS
GAAGCTATTATAAATGTACA+TGG 0.617639 5_4:+40749459 Msa0850920:CDS
ATTATTGAGACACTATACAA+AGG 0.688284 5_4:+40749530 Msa0850920:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTATATATTGAGTTTTGAAT+CGG + chr5_4:40749133-40749152 Msa0850920:intron 20.0%
!!! TTCTTAAAGACAAATTTTGT+TGG - chr5_4:40749364-40749383 None:intergenic 20.0%
!!! AAAATTTGTCTTTAAGAAGA+AGG + chr5_4:40749366-40749385 Msa0850920:CDS 20.0%
!!! TTTTTCTTCACAAAACAATT+AGG - chr5_4:40749485-40749504 None:intergenic 20.0%
!!! TAATTGTTTTGTGAAGAAAA+AGG + chr5_4:40749484-40749503 Msa0850920:CDS 20.0%
! CGATTCAAAACTCAATATAT+AGG - chr5_4:40749135-40749154 None:intergenic 25.0%
! TTCGTTCAAAATTTGATTCT+CGG + chr5_4:40749258-40749277 Msa0850920:CDS 25.0%
! GAAGCTATTATAAATGTACA+TGG + chr5_4:40749459-40749478 Msa0850920:CDS 25.0%
! ATTATTGAGACACTATACAA+AGG + chr5_4:40749530-40749549 Msa0850920:CDS 25.0%
CAAAACTCAATATATAGGTC+TGG - chr5_4:40749130-40749149 None:intergenic 30.0%
ATTGAACAGTTAGAATTCCA+AGG - chr5_4:40749175-40749194 None:intergenic 30.0%
TATGAAGAGAAAGTAGCAAA+AGG + chr5_4:40749422-40749441 Msa0850920:CDS 30.0%
AAGGTTGAGATAACTATAGA+TGG + chr5_4:40749503-40749522 Msa0850920:CDS 30.0%
TACTTGCAAGATCAATCATT+TGG + chr5_4:40749624-40749643 Msa0850920:CDS 30.0%
ATTCTTGCTGAATGCTCATT+TGG + chr5_4:40749039-40749058 Msa0850920:CDS 35.0%
TTCTTGCTGAATGCTCATTT+GGG + chr5_4:40749040-40749059 Msa0850920:CDS 35.0%
!! TCATTTGGGTGTTCTTGTTT+TGG + chr5_4:40749054-40749073 Msa0850920:CDS 35.0%
GAATTCCAAGGAAGAAATTG+AGG - chr5_4:40749163-40749182 None:intergenic 35.0%
! CGAAATTGAAACTCTGAGAA+TGG + chr5_4:40749283-40749302 Msa0850920:CDS 35.0%
AGAAGGATAAACCATGATGA+TGG + chr5_4:40749383-40749402 Msa0850920:CDS 35.0%
GAAGGATAAACCATGATGAT+GGG + chr5_4:40749384-40749403 Msa0850920:CDS 35.0%
!! ACCATGATGATGGGTATAAT+TGG + chr5_4:40749393-40749412 Msa0850920:CDS 35.0%
TCCAATTATACCCATCATCA+TGG - chr5_4:40749397-40749416 None:intergenic 35.0%
AAGAGAAAGTAGCAAAAGGA+AGG + chr5_4:40749426-40749445 Msa0850920:CDS 35.0%
AGAGAAAGTAGCAAAAGGAA+GGG + chr5_4:40749427-40749446 Msa0850920:CDS 35.0%
GATCTCCTCAATTTCTTCCT+TGG + chr5_4:40749155-40749174 Msa0850920:intron 40.0%
AGCTAACGTCTTCAATGAAG+AGG + chr5_4:40749570-40749589 Msa0850920:CDS 40.0%
Chromosome Type Strat End Strand Name
chr5_4 gene 40749021 40749652 40749021 ID=Msa0850920;Name=Msa0850920
chr5_4 mRNA 40749021 40749652 40749021 ID=Msa0850920-mRNA-1;Parent=Msa0850920;Name=Msa0850920-mRNA-1;_AED=0.24;_eAED=0.24;_QI=0|0|0|0.5|1|1|2|0|172
chr5_4 exon 40749021 40749089 40749021 ID=Msa0850920-mRNA-1:exon:12852;Parent=Msa0850920-mRNA-1
chr5_4 exon 40749203 40749652 40749203 ID=Msa0850920-mRNA-1:exon:12853;Parent=Msa0850920-mRNA-1
chr5_4 CDS 40749021 40749089 40749021 ID=Msa0850920-mRNA-1:cds;Parent=Msa0850920-mRNA-1
chr5_4 CDS 40749203 40749652 40749203 ID=Msa0850920-mRNA-1:cds;Parent=Msa0850920-mRNA-1
Gene Sequence

>Msa0850920

ATGGAAACTCTCAAGGAGATTCTTGCTGAATGCTCATTTGGGTGTTCTTGTTTTGGTGCTCACATCTTTATCAATTTGCTGCTATCTATTGTTGCTGCAATATTTTGTTATTCTCTTATGATTCTTCGTTCAAAATTTGATTCTCGGAACGAAATTGAAACTCTGAGAATGGAAGCTGATGATATAGCTATAGAAGTTGATGCTGCAGATAGCAACAGAAATGAATTCCAACAAAATTTGTCTTTAAGAAGAAGGATAAACCATGATGATGGGTATAATTGGAAAAAGTATGAAGAGAAAGTAGCAAAAGGAAGGGAAAATCAAAGAAGCTATTATAAATGTACATGGCCTAATTGTTTTGTGAAGAAAAAGGTTGAGATAACTATAGATGGAGAAATTATTGAGACACTATACAAAGGTACACATGATCATTGTAAGCTAACGTCTTCAATGAAGAGGATCTCATCATCTGAGTATCTTTATTCACTTTTACTTGCAAGATCAATCATTTGGAAGTGA
Protein sequence

>Msa0850920

METLKEILAECSFGCSCFGAHIFINLLLSIVAAIFCYSLMILRSKFDSRNEIETLRMEADDIAIEVDAADSNRNEFQQNLSLRRRINHDDGYNWKKYEEKVAKGRENQRSYYKCTWPNCFVKKKVEITIDGEIIETLYKGTHDHCKLTSSMKRISSSEYLYSLLLARSIIWK*