AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005950

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005950 MtrunA17_Chr1g0213791 89.851 335 13 8 1 323 1 326 1.07e-166 468
MsaG005950 MtrunA17_Chr1g0174271 42.276 246 113 7 95 323 126 359 3.69e-38 139
MsaG005950 MtrunA17_Chr8g0351881 33.158 380 165 12 16 330 29 384 1.21e-35 133
MsaG005950 MtrunA17_Chr4g0032951 66.304 92 30 1 233 323 325 416 1.86e-33 128
MsaG005950 MtrunA17_Chr2g0329041 61.905 105 33 3 228 327 297 399 3.12e-33 127
MsaG005950 MtrunA17_Chr4g0014771 59.140 93 31 1 244 329 100 192 4.53e-31 115
MsaG005950 MtrunA17_Chr3g0087771 39.200 250 107 11 96 326 166 389 5.92e-31 120
MsaG005950 MtrunA17_Chr7g0258181 31.529 314 152 10 69 330 9 311 2.63e-24 100
MsaG005950 MtrunA17_Chr4g0074161 54.688 64 28 1 261 324 205 267 3.43e-14 72.8
MsaG005950 MtrunA17_Chr1g0190731 50.769 65 31 1 261 325 192 255 1.94e-12 67.4
MsaG005950 MtrunA17_Chr7g0234761 41.772 79 44 1 254 332 311 387 3.09e-12 67.4
MsaG005950 MtrunA17_Chr3g0131771 45.070 71 39 0 262 332 147 217 6.03e-12 65.9
MsaG005950 MtrunA17_Chr8g0339091 43.662 71 40 0 262 332 291 361 8.55e-12 65.9
MsaG005950 MtrunA17_Chr3g0144641 43.662 71 40 0 262 332 191 261 1.08e-11 65.5
MsaG005950 MtrunA17_Chr8g0365941 43.662 71 40 0 262 332 305 375 1.59e-11 65.1
MsaG005950 MtrunA17_Chr5g0421111 42.254 71 41 0 262 332 365 435 5.26e-11 63.5
MsaG005950 MtrunA17_Chr1g0152651 49.231 65 32 1 261 325 273 336 5.84e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005950 AT1G05805.1 42.697 356 118 13 27 326 22 347 1.55e-61 201
MsaG005950 AT2G43140.2 50.000 256 70 11 92 323 71 292 5.26e-56 184
MsaG005950 AT2G43140.1 55.330 197 55 7 134 323 25 195 1.20e-52 173
MsaG005950 AT1G51140.1 61.224 98 34 1 233 330 279 372 2.16e-33 127
MsaG005950 AT1G35460.1 66.667 78 26 0 246 323 165 242 2.46e-32 121
MsaG005950 AT2G42280.3 54.135 133 41 4 206 324 215 341 5.00e-32 123
MsaG005950 AT2G42280.1 78.571 70 15 0 255 324 272 341 9.76e-32 122
MsaG005950 AT4G09180.1 64.935 77 27 0 247 323 169 245 8.14e-29 112
MsaG005950 AT1G35460.2 57.500 80 26 2 233 304 144 223 1.73e-23 97.1
MsaG005950 AT2G24260.2 56.250 64 27 1 261 324 34 96 3.30e-14 71.6
MsaG005950 AT2G24260.1 55.385 65 28 1 261 325 137 200 6.23e-14 72.4
MsaG005950 AT5G58010.1 51.562 64 30 1 261 324 98 160 1.09e-13 70.9
MsaG005950 AT4G30980.1 54.688 64 28 1 261 324 129 191 1.18e-13 70.9
MsaG005950 AT4G30980.2 54.688 64 28 1 261 324 177 239 1.55e-13 71.2
MsaG005950 AT4G34530.1 46.377 69 37 0 262 330 172 240 2.17e-12 67.4
MsaG005950 AT1G25330.1 40.506 79 45 1 254 332 98 174 3.19e-12 65.5
MsaG005950 AT1G68920.3 41.772 79 45 1 254 332 295 372 4.71e-12 67.0
MsaG005950 AT1G68920.1 41.772 79 45 1 254 332 296 373 4.76e-12 67.0
MsaG005950 AT1G68920.4 41.772 79 45 1 254 332 296 373 4.76e-12 67.0
MsaG005950 AT1G68920.2 41.772 79 45 1 254 332 296 373 4.76e-12 67.0
MsaG005950 AT5G50915.1 42.308 78 43 1 254 331 130 205 7.32e-12 65.5
MsaG005950 AT5G50915.2 42.308 78 43 1 254 331 130 205 7.32e-12 65.5
MsaG005950 AT5G50915.3 42.308 78 43 1 254 331 130 205 8.05e-12 65.1
MsaG005950 AT5G50915.4 42.308 78 43 1 254 331 130 205 8.05e-12 65.1
MsaG005950 AT1G26260.5 40.244 82 46 1 254 332 190 271 1.37e-11 65.5
MsaG005950 AT1G26260.4 40.244 82 46 1 254 332 212 293 1.38e-11 65.5
MsaG005950 AT1G26260.1 40.244 82 46 1 254 332 212 293 1.38e-11 65.5
MsaG005950 AT1G26260.6 40.244 82 46 1 254 332 212 293 1.38e-11 65.5
MsaG005950 AT1G26260.2 40.244 82 46 1 254 332 212 293 1.38e-11 65.5
MsaG005950 AT2G18300.2 44.928 69 38 0 262 330 185 253 1.55e-11 65.1
MsaG005950 AT2G18300.1 44.928 69 38 0 262 330 185 253 1.65e-11 64.7
MsaG005950 AT1G26260.3 40.244 82 46 1 254 332 161 242 1.80e-11 64.7
MsaG005950 AT2G42300.1 38.272 81 49 1 253 332 175 255 2.50e-11 64.3
MsaG005950 AT3G07340.2 43.662 71 40 0 262 332 258 328 2.51e-11 64.7
MsaG005950 AT3G07340.1 43.662 71 40 0 262 332 258 328 2.65e-11 64.7
MsaG005950 AT5G48560.1 40.506 79 45 1 254 332 295 371 3.00e-11 64.7
MsaG005950 AT5G48560.2 40.506 79 45 1 254 332 295 371 3.19e-11 64.7
MsaG005950 AT2G42300.4 38.272 81 49 1 253 332 175 255 3.99e-11 63.2
MsaG005950 AT1G73830.2 45.205 73 38 1 262 332 147 219 4.94e-11 62.8
MsaG005950 AT1G73830.1 45.205 73 38 1 262 332 147 219 5.64e-11 62.8
MsaG005950 AT3G23690.1 39.241 79 46 1 254 332 185 261 6.30e-11 63.2
MsaG005950 AT4G36540.1 47.619 63 33 0 262 324 141 203 7.37e-11 62.8
MsaG005950 AT4G36540.2 47.619 63 33 0 262 324 141 203 8.36e-11 62.4

Find 87 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGTTGTTGTTATTATTAT+CGG 0.271568 1:+86987182 None:intergenic
TTATTCAGACATGCTGGATT+TGG 0.325679 1:-86983994 MsaT005950.1:CDS
GGAGGATCACGCCTTCTTCC+TGG 0.332014 1:-86987676 MsaT005950.1:CDS
CCCAGGTATTGGTACTAGTA+TGG 0.340957 1:+86987214 None:intergenic
TTTACAAGGGACGGAATCTT+GGG 0.341870 1:+86986871 None:intergenic
TCCTCGTAGCATTGCTGAAC+GGG 0.362115 1:-86986819 MsaT005950.1:intron
GGTCAAGCTGGTGGCTTTGA+TGG 0.364612 1:-86987562 MsaT005950.1:CDS
AAGATCTCTGCTGTTGTTGT+TGG 0.370571 1:+86987593 None:intergenic
TTGTTGTTGTTATTATTATC+GGG 0.382053 1:+86987183 None:intergenic
AATTATACCTTATCCATGTT+AGG 0.394411 1:+86986639 None:intergenic
GCATCAGCAGCAGCTGGAAA+TGG 0.408966 1:-86987243 MsaT005950.1:CDS
AAATAATGTTGTCCCGTTCC+AGG 0.410987 1:+86987658 None:intergenic
TTGAGAAGAAGAAAATACTA+TGG 0.436830 1:+86987152 None:intergenic
TAGTCTCCCACAAACTTCTC+TGG 0.449517 1:-86986921 MsaT005950.1:CDS
TTCAGACATGCTGGATTTGG+CGG 0.454145 1:-86983991 MsaT005950.1:CDS
TCACGCCTTCTTCCTGGAAC+GGG 0.457043 1:-86987670 MsaT005950.1:CDS
GTATCGTCCACCTTCCTCAT+CGG 0.462261 1:-86987821 MsaT005950.1:CDS
TGGCAAGTTGAAGAAGTTGC+AGG 0.465868 1:-86986670 MsaT005950.1:CDS
GAGAGAAGAACTAGAATAAG+TGG 0.469542 1:-86986690 MsaT005950.1:CDS
TATGATTGAGAGTGGCTAGA+TGG 0.473699 1:+86987494 None:intergenic
AGGTCTTCAAACTCAAGTTC+AGG 0.476074 1:-86983955 MsaT005950.1:CDS
GGGGCCTCCACCCCAGGTAT+TGG 0.479871 1:+86987203 None:intergenic
ACAGAGCTCCATCAGTCAAA+CGG 0.480020 1:-86987767 MsaT005950.1:CDS
TATCGTCCACCTTCCTCATC+GGG 0.481788 1:-86987820 MsaT005950.1:CDS
CAGAGCTCCATCAGTCAAAC+GGG 0.487084 1:-86987766 MsaT005950.1:CDS
CATAATAACAATAACAATAA+CGG 0.488709 1:-86987475 MsaT005950.1:intron
ATTATCGGGGCCTCCACCCC+AGG 0.489981 1:+86987197 None:intergenic
ACCACTGTGGATGCCATCAT+AGG 0.495661 1:-86987703 MsaT005950.1:CDS
ATGAGTGGCGCATCCACGCT+TGG 0.498051 1:+86986841 None:intergenic
AAGAAGGTCGGGATCATCAT+TGG 0.499212 1:+86987068 None:intergenic
AACAAGTTATTCAGACATGC+TGG 0.500068 1:-86984000 MsaT005950.1:CDS
CCCACAAACTTCTCTGGAGA+TGG 0.503550 1:-86986915 MsaT005950.1:CDS
AAGTCTGAATTGAGTTTCAC+TGG 0.510691 1:-86987315 MsaT005950.1:CDS
CCTTGTACCTAACATGGATA+AGG 0.512854 1:-86986646 MsaT005950.1:intron
CCTTATCCATGTTAGGTACA+AGG 0.519581 1:+86986646 None:intergenic
CAAACGGGTCTCACAAGGTA+TGG 0.525076 1:-86987751 MsaT005950.1:CDS
AGGCAATGTAGAAGAAGGTC+GGG 0.527337 1:+86987057 None:intergenic
TCCATACTAGTACCAATACC+TGG 0.528579 1:-86987215 MsaT005950.1:CDS
GTGGTGTTGAGGAGAGAGCT+AGG 0.530531 1:+86987721 None:intergenic
GATTATGCATCAGCAGCAGC+TGG 0.531366 1:-86987249 MsaT005950.1:CDS
GGCTAGATGGTTGAGAAAGC+CGG 0.532966 1:+86987507 None:intergenic
GAATTGAGTTTCACTGGTGG+AGG 0.537805 1:-86987309 MsaT005950.1:CDS
GTTGTCCCGTTCCAGGAAGA+AGG 0.539397 1:+86987665 None:intergenic
CCATCTCCAGAGAAGTTTGT+GGG 0.544047 1:+86986915 None:intergenic
TGTAAAATCCGTGCCAAGCG+TGG 0.544695 1:-86986854 MsaT005950.1:CDS
GGGGAATATTATGCATAAGC+TGG 0.546019 1:+86986891 None:intergenic
TGGCGCATCCACGCTTGGCA+CGG 0.548021 1:+86986846 None:intergenic
CCTCAATGCCCTCGAAACTC+AGG 0.548042 1:-86987037 MsaT005950.1:intron
ATCCTCGTAGCATTGCTGAA+CGG 0.552987 1:-86986820 MsaT005950.1:CDS
TGTGAGACCCGTTTGACTGA+TGG 0.553828 1:+86987759 None:intergenic
AGTACCAATACCTGGGGTGG+AGG 0.556362 1:-86987207 MsaT005950.1:CDS
TCCATCTCCAGAGAAGTTTG+TGG 0.557386 1:+86986914 None:intergenic
TGATCCTCCTACTCCTATGA+TGG 0.563521 1:+86987690 None:intergenic
TGTTGTTGTTATTATTATCG+GGG 0.564933 1:+86987184 None:intergenic
TCTTCTTACGAAGGTCAAGC+TGG 0.565420 1:-86987574 MsaT005950.1:CDS
ATCACGCCTTCTTCCTGGAA+CGG 0.566174 1:-86987671 MsaT005950.1:CDS
CATTGAGGCAATGTAGAAGA+AGG 0.573373 1:+86987052 None:intergenic
CCTGAGTTTCGAGGGCATTG+AGG 0.579102 1:+86987037 None:intergenic
AGATGGTTGAGAAAGCCGGC+TGG 0.579941 1:+86987511 None:intergenic
ATTGTTATTATGATTGAGAG+TGG 0.580253 1:+86987486 None:intergenic
GAGGCAATGTAGAAGAAGGT+CGG 0.583589 1:+86987056 None:intergenic
GTGGATGCCATCATAGGAGT+AGG 0.587569 1:-86987697 MsaT005950.1:CDS
CTGTTGTTGCTGAGACGAAG+AGG 0.588667 1:+86987786 None:intergenic
ATTCTACTCAGTAGAAGCTA+CGG 0.592873 1:+86983920 None:intergenic
TTGGCGGTTCAACATATCAA+AGG 0.593157 1:-86983975 MsaT005950.1:CDS
CCATACTAGTACCAATACCT+GGG 0.597961 1:-86987214 MsaT005950.1:CDS
AGATGGTACCTGAGTTTCGA+GGG 0.602433 1:+86987029 None:intergenic
CGTCAGAAAAGCTCTCCAGC+CGG 0.607974 1:-86987526 MsaT005950.1:CDS
AGCAATGCTACGAGGATGAG+TGG 0.612328 1:+86986826 None:intergenic
GATGCCATCATAGGAGTAGG+AGG 0.612834 1:-86987694 MsaT005950.1:CDS
GAAGAAGAACCCGATGAGGA+AGG 0.617996 1:+86987811 None:intergenic
GAAGAACCCGATGAGGAAGG+TGG 0.619178 1:+86987814 None:intergenic
TCAGTCAAACGGGTCTCACA+AGG 0.625307 1:-86987756 MsaT005950.1:CDS
ACTAGTACCAATACCTGGGG+TGG 0.626810 1:-86987210 MsaT005950.1:CDS
GAGATGGTACCTGAGTTTCG+AGG 0.631100 1:+86987028 None:intergenic
TGGCATCCACAGTGGTGTTG+AGG 0.637238 1:+86987710 None:intergenic
TTACAAGGGACGGAATCTTG+GGG 0.638798 1:+86986872 None:intergenic
TCTTACGAAGGTCAAGCTGG+TGG 0.649831 1:-86987571 MsaT005950.1:CDS
GCAGGACCTTGTACCTAACA+TGG 0.655399 1:-86986652 MsaT005950.1:CDS
TCTGAATTGAGTTTCACTGG+TGG 0.663147 1:-86987312 MsaT005950.1:CDS
GGAAGAAGAAGAACCCGATG+AGG 0.673921 1:+86987807 None:intergenic
TTGATTGAATAGCAGCTGGG+GGG 0.683776 1:-86987368 MsaT005950.1:intron
TCCTATGATGGCATCCACAG+TGG 0.685277 1:+86987702 None:intergenic
CAGCAGAGATCTTCTTACGA+AGG 0.692275 1:-86987583 MsaT005950.1:CDS
CTCTCTCCTCAACACCACTG+TGG 0.695914 1:-86987716 MsaT005950.1:CDS
ACCCGTTCAGCAATGCTACG+AGG 0.708822 1:+86986818 None:intergenic
CATACTAGTACCAATACCTG+GGG 0.722107 1:-86987213 MsaT005950.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 86983923 86987845 86983923 ID=MsaG005950
Chr1 mRNA 86983923 86987845 86983923 ID=MsaT005950.1;Parent=MsaG005950
Chr1 exon 86983923 86984024 86983923 ID=MsaT005950.1.exon5;Parent=MsaT005950.1
Chr1 CDS 86983923 86984024 86983923 ID=cds.MsaT005950.1;Parent=MsaT005950.1
Chr1 exon 86986647 86986712 86986647 ID=MsaT005950.1.exon4;Parent=MsaT005950.1
Chr1 CDS 86986647 86986712 86986647 ID=cds.MsaT005950.1;Parent=MsaT005950.1
Chr1 exon 86986820 86986945 86986820 ID=MsaT005950.1.exon3;Parent=MsaT005950.1
Chr1 CDS 86986820 86986945 86986820 ID=cds.MsaT005950.1;Parent=MsaT005950.1
Chr1 exon 86987038 86987375 86987038 ID=MsaT005950.1.exon2;Parent=MsaT005950.1
Chr1 CDS 86987038 86987375 86987038 ID=cds.MsaT005950.1;Parent=MsaT005950.1
Chr1 exon 86987476 86987845 86987476 ID=MsaT005950.1.exon1;Parent=MsaT005950.1
Chr1 CDS 86987476 86987845 86987476 ID=cds.MsaT005950.1;Parent=MsaT005950.1
Gene Sequence

>MsaT005950.1

ATGTATCGTCCACCTTCCTCATCGGGTTCTTCTTCTTCCTCTTCGTCTCAGCAACAACAGAGCTCCATCAGTCAAACGGGTCTCACAAGGTATGGTTCTGCACCTAGCTCTCTCCTCAACACCACTGTGGATGCCATCATAGGAGTAGGAGGATCACGCCTTCTTCCTGGAACGGGACAACATTATTTCTCTGATGACTCTACCCAGCAGCAGCAGCAGCAGCAGCAGCACCAACAACAACAGCAGAGATCTTCTTACGAAGGTCAAGCTGGTGGCTTTGATGGATCCGCTTTGCTCCGTCAGAAAAGCTCTCCAGCCGGCTTTCTCAACCATCTAGCCACTCTCAATCATAATAACAATAACAATAACGCTGGGGGGTTCACAATCACGAGGGGCAATTCAAGATTGAAGTCTGAATTGAGTTTCACTGGTGGAGGACAAGAATGTCTTTCTCGAATATCCGAAAATGTTGTTGATTATGCATCAGCAGCAGCTGGAAATGGATCATTCCATACTAGTACCAATACCTGGGGTGGAGGCCCCGATAATAATAACAACAACAACTCAAATTCCATAGTATTTTCTTCTTCTCAAACCCAAACTAATAATAATAATAATAATAGTAGTAGTAAGAAGCGTTCTAGTAGAACTGACACCAATGATGATCCCGACCTTCTTCTACATTGCCTCAATGCCCTCGAAACTCAGTATAGTCTCCCACAAACTTCTCTGGAGATGGACCAGCTTATGCATAATATTCCCCAAGATTCCGTCCCTTGTAAAATCCGTGCCAAGCGTGGATGCGCCACTCATCCTCGTAGCATTGCTGAACGGGAGAGAAGAACTAGAATAAGTGGCAAGTTGAAGAAGTTGCAGGACCTTGTACCTAACATGGATAAGCAAACAAGTTATTCAGACATGCTGGATTTGGCGGTTCAACATATCAAAGGTCTTCAAACTCAAGTTCAGGTGTGTAAAGCTACCGTAGCTTCTACTGAGTAG
Protein sequence

>MsaT005950.1

MYRPPSSSGSSSSSSSQQQQSSISQTGLTRYGSAPSSLLNTTVDAIIGVGGSRLLPGTGQHYFSDDSTQQQQQQQQHQQQQQRSSYEGQAGGFDGSALLRQKSSPAGFLNHLATLNHNNNNNNAGGFTITRGNSRLKSELSFTGGGQECLSRISENVVDYASAAAGNGSFHTSTNTWGGGPDNNNNNNSNSIVFSSSQTQTNNNNNNSSSKKRSSRTDTNDDPDLLLHCLNALETQYSLPQTSLEMDQLMHNIPQDSVPCKIRAKRGCATHPRSIAERERRTRISGKLKKLQDLVPNMDKQTSYSDMLDLAVQHIKGLQTQVQVCKATVASTE*