AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001820


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001820 MtrunA17_Chr1g0168401 96.535 404 11 2 18 419 13 415 0.0 785
MsaG001820 MtrunA17_Chr1g0186171 64.371 421 112 13 18 419 13 414 1.53e-152 438
MsaG001820 MtrunA17_Chr2g0311591 62.500 64 24 0 304 367 151 214 3.85e-22 95.5
MsaG001820 MtrunA17_Chr8g0387241 46.847 111 53 2 309 413 211 321 5.49e-22 95.9
MsaG001820 MtrunA17_Chr5g0397361 51.064 94 38 2 296 381 142 235 1.54e-20 90.5
MsaG001820 MtrunA17_Chr4g0030421 57.812 64 27 0 308 371 20 83 9.55e-20 84.7
MsaG001820 MtrunA17_Chr2g0327621 44.330 97 51 1 271 367 106 199 2.77e-18 84.0
MsaG001820 MtrunA17_Chr1g0147111 38.525 122 57 4 248 368 173 277 6.67e-17 80.5
MsaG001820 MtrunA17_Chr3g0126721 65.306 49 17 0 319 367 226 274 2.99e-15 75.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001820 AT1G04500.4 47.045 440 158 14 1 419 1 386 1.89e-107 322
MsaG001820 AT1G04500.1 47.045 440 158 14 1 419 1 386 1.89e-107 322
MsaG001820 AT1G04500.3 46.809 423 153 13 18 419 6 377 1.24e-103 312
MsaG001820 AT2G33350.2 48.661 448 162 17 1 419 1 409 2.92e-103 312
MsaG001820 AT2G33350.1 48.552 449 162 18 1 419 1 410 1.86e-101 308
MsaG001820 AT2G33350.4 47.796 431 158 16 18 419 6 398 4.98e-97 296
MsaG001820 AT2G33350.5 47.796 431 158 16 18 419 26 418 2.15e-96 295
MsaG001820 AT1G04500.2 42.149 363 137 13 1 344 1 309 8.11e-65 213
MsaG001820 AT2G33350.3 43.850 374 137 17 1 344 1 331 2.10e-64 210
MsaG001820 AT1G63820.1 46.457 127 57 3 266 385 134 256 9.93e-27 108
MsaG001820 AT5G41380.1 67.742 62 20 0 309 370 201 262 2.68e-23 99.8
MsaG001820 AT3G12890.1 55.172 87 35 1 314 400 130 212 3.76e-23 98.2
MsaG001820 AT4G27900.1 40.777 103 35 2 271 368 178 259 2.34e-17 82.0
MsaG001820 AT4G27900.2 40.777 103 35 2 271 368 178 259 2.34e-17 82.0
MsaG001820 AT5G53420.2 65.957 47 16 0 321 367 137 183 1.71e-15 74.7
MsaG001820 AT5G53420.5 65.957 47 16 0 321 367 137 183 1.71e-15 74.7
MsaG001820 AT5G53420.4 65.957 47 16 0 321 367 137 183 1.71e-15 74.7
MsaG001820 AT5G53420.1 65.957 47 16 0 321 367 216 262 3.45e-15 75.9
MsaG001820 AT5G59990.1 42.373 118 49 2 298 413 138 238 1.54e-14 73.2

Find 68 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTTGAGATATGTTGTTTA+AGG 0.115598 1:-27274729 None:intergenic
GGAAAGGTTGTTATTATTAT+TGG 0.150644 1:-27274873 None:intergenic
ACACAACCTCATCATCTTTC+TGG 0.167128 1:+27275031 MsaT001820.1:CDS
TTTGCAAAGAATGATGATTT+TGG 0.213280 1:+27276370 MsaT001820.1:CDS
GCTGATAGTTCTAGCTTATT+TGG 0.217917 1:+27275238 MsaT001820.1:CDS
TTACTTCATCTTCATCTTCA+TGG 0.258336 1:-27276420 None:intergenic
TTGGATTATCAAGGTGAAAA+TGG 0.259352 1:+27275301 MsaT001820.1:CDS
TCCTCCAAGTGTGAAATTTC+TGG 0.285986 1:-27276098 None:intergenic
TTTGGTGGAGGGATTCTATT+AGG 0.306595 1:+27275256 MsaT001820.1:CDS
TGAAATGCAGACACAAGATT+TGG 0.326244 1:+27275282 MsaT001820.1:CDS
TTCTTGTGAATCAAAGATAA+TGG 0.355504 1:-27274894 None:intergenic
CATCATCTTTCTGGTTTGAA+AGG 0.369735 1:+27275040 MsaT001820.1:CDS
GATAGCCGACCGCGAGTTAG+AGG 0.377396 1:+27276343 MsaT001820.1:CDS
TTGTACAGATTCTGTTCAAC+AGG 0.388571 1:+27275333 MsaT001820.1:CDS
GAGGACTCTTCTTTGAAAGT+TGG 0.400610 1:+27276116 MsaT001820.1:CDS
TCTTGTTCTTATCTTAGTAA+TGG 0.420390 1:+27275175 MsaT001820.1:CDS
GGGAATCACAAACTAGTATC+TGG 0.421499 1:+27276047 MsaT001820.1:CDS
TGTTAAAGAAGAAGATGATA+TGG 0.428400 1:+27276664 MsaT001820.1:CDS
TTGTTAACATTGTTTGTGGT+AGG 0.435899 1:-27274833 None:intergenic
TGTTCTTGATGAGTTGTTAT+CGG 0.437627 1:-27274989 None:intergenic
TCTTCATGGTTGCTACTACC+TGG 0.441983 1:-27276406 None:intergenic
TCTTATCTTAGTAATGGCTT+AGG 0.445374 1:+27275181 MsaT001820.1:CDS
ATAGGATCAGTTTGATATTG+TGG 0.454553 1:-27275067 None:intergenic
GATAGTTCTAGCTTATTTGG+TGG 0.459834 1:+27275241 MsaT001820.1:CDS
TGGAAGTTGTTCTGCCACTT+TGG 0.463869 1:+27276073 MsaT001820.1:CDS
TCAAACTGATCCTATATCTT+CGG 0.472302 1:+27275075 MsaT001820.1:CDS
GGTGTGTATCATGGAAATCT+TGG 0.472409 1:+27275202 MsaT001820.1:CDS
ATCATCTTTCTGGTTTGAAA+GGG 0.478809 1:+27275041 MsaT001820.1:CDS
GGCACCAGAAATTTCACACT+TGG 0.479570 1:+27276094 MsaT001820.1:CDS
AGTTCTAGCTTATTTGGTGG+AGG 0.485926 1:+27275244 MsaT001820.1:CDS
ACCAGAAATTTCACACTTGG+AGG 0.486593 1:+27276097 MsaT001820.1:CDS
AGCGGTGCTGCCGAAGATAT+AGG 0.487136 1:-27275085 None:intergenic
ACACAAGATTTGGATTATCA+AGG 0.487381 1:+27275292 MsaT001820.1:CDS
ATCATACCTGAAAATCTTGA+GGG 0.501022 1:-27275363 None:intergenic
GATGGAATAGTTGCATTTGA+AGG 0.501927 1:-27276729 None:intergenic
GAACAAGAAGGAGAATAAGA+AGG 0.504833 1:-27275160 None:intergenic
GATGTTGTTAACATTGTTTG+TGG 0.505534 1:-27274837 None:intergenic
CACAAACTAGTATCTGGTGC+TGG 0.507442 1:+27276053 MsaT001820.1:CDS
GAAAACTTTCTGTTGAGCAA+AGG 0.518365 1:+27276138 MsaT001820.1:CDS
TGTTAACATTGTTTGTGGTA+GGG 0.519810 1:-27274832 None:intergenic
TCTAACTCGCGGTCGGCTAT+CGG 0.529354 1:-27276341 None:intergenic
GATTATCAAGGTGAAAATGG+TGG 0.531561 1:+27275304 MsaT001820.1:CDS
GATCATACCTGAAAATCTTG+AGG 0.542555 1:-27275364 None:intergenic
GTTCTAGCTTATTTGGTGGA+GGG 0.546863 1:+27275245 MsaT001820.1:CDS
AATGGCTTAGGTGTGTATCA+TGG 0.554708 1:+27275193 MsaT001820.1:CDS
TTTGGAGAGAATCATAGGCC+AGG 0.559627 1:+27276388 MsaT001820.1:CDS
AATTCAAATCAATGAGTGGA+TGG 0.563218 1:-27276747 None:intergenic
CAATCATCTTCAAATACAGA+AGG 0.568846 1:-27275124 None:intergenic
AAATTTCAGCAAGAAAATCA+AGG 0.584947 1:+27276202 MsaT001820.1:CDS
GATATCTTTGCACATATCAG+TGG 0.587582 1:+27276698 MsaT001820.1:CDS
GCCGACCGCGAGTTAGAGGA+AGG 0.600682 1:+27276347 MsaT001820.1:CDS
TTCAAACCAGAAAGATGATG+AGG 0.600906 1:-27275037 None:intergenic
AATTAATTCAAATCAATGAG+TGG 0.607127 1:-27276751 None:intergenic
TTACTAAGATAAGAACAAGA+AGG 0.626377 1:-27275172 None:intergenic
GATAGTTGATCATCATGTGA+TGG 0.626409 1:-27272565 None:intergenic
GTGAATCAAAGATAATGGAA+AGG 0.627025 1:-27274889 None:intergenic
TGAGTTGTTATCGGAAGAAG+CGG 0.627559 1:-27274980 None:intergenic
TGAAATTTCTGGTGCCAAAG+TGG 0.631400 1:-27276087 None:intergenic
GCAAACCTTCCTCTAACTCG+CGG 0.633175 1:-27276352 None:intergenic
AATCATCTTCAAATACAGAA+GGG 0.635264 1:-27275123 None:intergenic
GTGGATAACATCTTGCAACA+TGG 0.639926 1:-27272539 None:intergenic
AGTTGATCATCATGTGATGG+AGG 0.641758 1:-27272562 None:intergenic
GGGAGTGAAGCACTCATAAG+CGG 0.643710 1:-27275103 None:intergenic
ACCTTCCTCTAACTCGCGGT+CGG 0.662592 1:-27276348 None:intergenic
GTTGTTATCGGAAGAAGCGG+CGG 0.673069 1:-27274977 None:intergenic
GATCATCATGTGATGGAGGG+TGG 0.675915 1:-27272558 None:intergenic
GTTGATCATCATGTGATGGA+GGG 0.699079 1:-27272561 None:intergenic
GATATGTGCAAAGATATCTG+AGG 0.713563 1:-27276693 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 27272541 27276766 27272541 ID=MsaG001820
Chr1 mRNA 27272541 27276766 27272541 ID=MsaT001820.1;Parent=MsaG001820
Chr1 exon 27272541 27272591 27272541 ID=MsaT001820.1.exon1;Parent=MsaT001820.1
Chr1 CDS 27272541 27272591 27272541 ID=cds.MsaT001820.1;Parent=MsaT001820.1
Chr1 exon 27274587 27275378 27274587 ID=MsaT001820.1.exon2;Parent=MsaT001820.1
Chr1 CDS 27274587 27275378 27274587 ID=cds.MsaT001820.1;Parent=MsaT001820.1
Chr1 exon 27276035 27276223 27276035 ID=MsaT001820.1.exon3;Parent=MsaT001820.1
Chr1 CDS 27276035 27276223 27276035 ID=cds.MsaT001820.1;Parent=MsaT001820.1
Chr1 exon 27276319 27276438 27276319 ID=MsaT001820.1.exon4;Parent=MsaT001820.1
Chr1 CDS 27276319 27276438 27276319 ID=cds.MsaT001820.1;Parent=MsaT001820.1
Chr1 exon 27276659 27276766 27276659 ID=MsaT001820.1.exon5;Parent=MsaT001820.1
Chr1 CDS 27276659 27276766 27276659 ID=cds.MsaT001820.1;Parent=MsaT001820.1
Gene Sequence

>MsaT001820.1

ATGTTGCAAGATGTTATCCACCCTCCATCACATGATGATCAACTATCCATTGATGAAATTTCAAGTCCAATTAGTGCACAAATTTTTGAACTTTGTGACCCTAATTTTTTCCAAGACTCTCTACAACAAAATTCTGATGTTACTTCTAGCTCAAATTGTTGTCATGAAGAAAACAACAACAATTCTTCATATACCTTAAACAACATATCTCAAGCTTTAGATTTAGACAATAACATCAATAGCAGCAATAACAATAGCAATAGCAATAGTACTGCAACAACTACTAGCACAACAAGCCCTACCACAAACAATGTTAACAACATCAACACAACAAATACCAATAATAATAACAACCTTTCCATTATCTTTGATTCACAAGAAGATATTGACAATGACATTTCAGCTTCTATAGATTTCACATCATCACAATCTTTTCTCGTTCCGCCGCTTCTTCCGATAACAACTCATCAAGAACAACAATTTGATTTCTCTTTAACACAACCTCATCATCTTTCTGGTTTGAAAGGGCTACCACAATATCAAACTGATCCTATATCTTCGGCAGCACCGCTTATGAGTGCTTCACTCCCTTCTGTATTTGAAGATGATTGCATATCTTCGATTCCTTCTTATTCTCCTTCTTGTTCTTATCTTAGTAATGGCTTAGGTGTGTATCATGGAAATCTTGGTACTGCTTTATCTGCTGATAGTTCTAGCTTATTTGGTGGAGGGATTCTATTAGGTTCTGAAATGCAGACACAAGATTTGGATTATCAAGGTGAAAATGGTGGAATTTATTGTACAGATTCTGTTCAACAGGTTTTTAACCCTCAAGATTTTCAGGCACTTGGTACTGGGAATCACAAACTAGTATCTGGTGCTGGAAGTTGTTCTGCCACTTTGGCACCAGAAATTTCACACTTGGAGGACTCTTCTTTGAAAGTTGGAAAACTTTCTGTTGAGCAAAGGAAAGAGAAGATTCATAGATATATGAAGAAAAGAAATGAAAGAAATTTCAGCAAGAAAATCAAGTATGCTTGTCGAAAAACTTTAGCCGATAGCCGACCGCGAGTTAGAGGAAGGTTTGCAAAGAATGATGATTTTGGAGAGAATCATAGGCCAGGTAGTAGCAACCATGAAGATGAAGATGAAATAGCTGTTAAAGAAGAAGATGATATGGTTGATTCCTCAGATATCTTTGCACATATCAGTGGACTTAACTCCTTCAAATGCAACTATTCCATCCACTCATTGATTTGA

Protein sequence

>MsaT001820.1

MLQDVIHPPSHDDQLSIDEISSPISAQIFELCDPNFFQDSLQQNSDVTSSSNCCHEENNNNSSYTLNNISQALDLDNNINSSNNNSNSNSTATTTSTTSPTTNNVNNINTTNTNNNNNLSIIFDSQEDIDNDISASIDFTSSQSFLVPPLLPITTHQEQQFDFSLTQPHHLSGLKGLPQYQTDPISSAAPLMSASLPSVFEDDCISSIPSYSPSCSYLSNGLGVYHGNLGTALSADSSSLFGGGILLGSEMQTQDLDYQGENGGIYCTDSVQQVFNPQDFQALGTGNHKLVSGAGSCSATLAPEISHLEDSSLKVGKLSVEQRKEKIHRYMKKRNERNFSKKIKYACRKTLADSRPRVRGRFAKNDDFGENHRPGSSNHEDEDEIAVKEEDDMVDSSDIFAHISGLNSFKCNYSIHSLI*