AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016369

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016369 MtrunA17_Chr3g0127891 94.466 506 27 1 1 505 1 506 0.0 961
MsaG016369 MtrunA17_Chr2g0294671 25.641 312 181 11 186 490 215 482 3.31e-21 96.7
MsaG016369 MtrunA17_Chr4g0043941 26.523 279 186 9 225 490 46 318 3.31e-14 73.9
MsaG016369 MtrunA17_Chr4g0034981 21.805 399 256 11 82 468 210 564 1.56e-13 73.2
MsaG016369 MtrunA17_Chr4g0067671 22.300 287 198 9 218 490 75 350 3.08e-13 71.2
MsaG016369 MtrunA17_Chr2g0296121 24.324 296 193 9 212 490 153 434 5.12e-12 68.2
MsaG016369 MtrunA17_Chr1g0212691 23.490 298 182 7 234 490 158 450 6.64e-12 67.8
MsaG016369 MtrunA17_Chr6g0448821 22.256 328 210 13 188 492 53 358 9.20e-12 66.6
MsaG016369 MtrunA17_Chr5g0428941 23.278 421 268 16 80 490 107 482 2.08e-11 66.2
MsaG016369 MtrunA17_Chr8g0335121 29.412 136 89 2 363 493 407 540 3.65e-11 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016369 AT5G54180.1 48.214 504 233 5 1 491 1 489 9.60e-154 448
MsaG016369 AT4G14605.2 28.000 250 164 10 247 490 228 467 3.65e-16 81.6
MsaG016369 AT4G14605.1 28.000 250 164 10 247 490 228 467 3.65e-16 81.6
MsaG016369 AT2G36000.1 29.545 220 135 8 267 473 81 293 7.92e-15 76.3
MsaG016369 AT4G38160.4 26.538 260 173 8 225 470 46 301 1.11e-14 75.9
MsaG016369 AT4G38160.1 26.538 260 173 8 225 470 46 301 1.11e-14 75.9
MsaG016369 AT2G36000.2 29.545 220 135 8 267 473 81 293 1.38e-14 75.1
MsaG016369 AT4G38160.3 26.538 260 173 8 225 470 46 301 1.69e-14 75.5
MsaG016369 AT4G38160.2 26.538 260 173 8 225 470 46 301 1.88e-14 75.5
MsaG016369 AT2G03050.1 27.273 198 132 5 300 490 76 268 1.14e-12 68.9
MsaG016369 AT2G03050.2 27.273 198 132 5 300 490 77 269 1.24e-12 68.9
MsaG016369 AT5G07900.1 25.979 281 184 9 235 503 121 389 3.09e-12 68.9
MsaG016369 AT2G44020.1 22.772 404 213 13 180 490 58 455 4.76e-11 65.5

Find 98 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGAGCCTATTCTTGAACTA+TGG 0.173687 3:+97277908 MsaT016369.1:CDS
TAAGATTGTGTTGGTGTTTC+CGG 0.175674 3:+97277634 MsaT016369.1:CDS
ATGAAATAAAGAAGGGTTTA+AGG 0.183717 3:+97278113 MsaT016369.1:CDS
TCCTTGAGAAATTGTATTCT+AGG 0.235507 3:-97277692 None:intergenic
TGAAACGTTGTTATAGAAAA+AGG 0.303498 3:-97276666 None:intergenic
TCAGTAAGAACTCTAATTCT+AGG 0.304339 3:-97277473 None:intergenic
TAAAATATGAATTGAAATAA+AGG 0.313655 3:+97278215 MsaT016369.1:CDS
GTCTCTTTATTTGAAGAATT+CGG 0.325435 3:+97276963 MsaT016369.1:CDS
ACACTATAATTCAAGATAAT+AGG 0.335022 3:-97277545 None:intergenic
GTATTGGGAAAGTGCTGAAT+AGG 0.369869 3:+97277519 MsaT016369.1:CDS
TCGTGACATTCAAGAGTTAC+TGG 0.371309 3:+97278039 MsaT016369.1:CDS
AAGATGAGGGGAAAGGGTTG+AGG 0.381106 3:-97276724 None:intergenic
CCGAATGACACATTGACATT+GGG 0.383638 3:-97276855 None:intergenic
ATAGATTTCTTAAAACCCTT+TGG 0.390276 3:+97277386 MsaT016369.1:CDS
TCAAGATTGGGTATAAATAT+AGG 0.394877 3:+97277819 MsaT016369.1:CDS
GTTCGATTGCTTGTTGATAG+TGG 0.398687 3:+97277272 MsaT016369.1:CDS
ATGTGGATAATTTGATGGAT+AGG 0.399161 3:-97276691 None:intergenic
GGAAAGGGTTGAGGGTGAAC+GGG 0.401945 3:-97276715 None:intergenic
GTTGTTTGGTGGTGGTGATT+TGG 0.403770 3:-97276775 None:intergenic
ATGGAGATGAGGATAGTATT+GGG 0.408002 3:+97277504 MsaT016369.1:CDS
CGAACCTTGCGTATAAGCTT+GGG 0.418895 3:+97277789 MsaT016369.1:CDS
TTCAGTGACTAAGTGATTGA+TGG 0.422092 3:-97277105 None:intergenic
AGGGTTGAGTTTGAAGATGA+GGG 0.427156 3:-97276737 None:intergenic
GCGAACCTTGCGTATAAGCT+TGG 0.427203 3:+97277788 MsaT016369.1:CDS
CGGGAATGTGGATAATTTGA+TGG 0.434109 3:-97276696 None:intergenic
GATGGAGATGAGGATAGTAT+TGG 0.437973 3:+97277503 MsaT016369.1:CDS
TGAACTTAACTCTATTCCAT+TGG 0.447457 3:+97277028 MsaT016369.1:CDS
TAAATATTTGTTGATCATCA+AGG 0.451246 3:-97277613 None:intergenic
AAAACCCATAGTTCAAGAAT+AGG 0.452781 3:-97277913 None:intergenic
AGTTTGAAGATGAGGGGAAA+GGG 0.457788 3:-97276730 None:intergenic
GGGAAAGGGTTGAGGGTGAA+CGG 0.459402 3:-97276716 None:intergenic
AGATGAGGGGAAAGGGTTGA+GGG 0.459590 3:-97276723 None:intergenic
ACATGTACAATCTTATCAAC+AGG 0.460797 3:-97277299 None:intergenic
TGAAATAAAGAAGGGTTTAA+GGG 0.465888 3:+97278114 MsaT016369.1:CDS
TGTCGAAGGCGATTTGTCAT+AGG 0.466844 3:+97277339 MsaT016369.1:CDS
CCCAATGTCAATGTGTCATT+CGG 0.467017 3:+97276855 MsaT016369.1:CDS
CAGTTTCCTCTCTCTGCTAC+TGG 0.469436 3:-97277666 None:intergenic
GAAGATGGAGTACTTGATAG+AGG 0.472033 3:+97278009 MsaT016369.1:CDS
TGAGCCTATTCTTGAACTAT+GGG 0.472998 3:+97277909 MsaT016369.1:CDS
TTTATCTGGGTTTCCTCAGA+AGG 0.474030 3:+97277250 MsaT016369.1:CDS
TGGTGGTGATTTGGCGAGGA+AGG 0.485907 3:-97276766 None:intergenic
GATTTCTTAAAACCCTTTGG+TGG 0.492456 3:+97277389 MsaT016369.1:CDS
GCATAGGTATGAAATAAAGA+AGG 0.498746 3:+97278105 MsaT016369.1:CDS
ACAAATATTTAAGATTGTGT+TGG 0.499280 3:+97277625 MsaT016369.1:CDS
ACCGAATGACACATTGACAT+TGG 0.500846 3:-97276856 None:intergenic
GTTGAGGGTGAACGGGAATG+TGG 0.504353 3:-97276708 None:intergenic
AAATCACAATTGAGAATCAC+AGG 0.505679 3:-97277434 None:intergenic
TACAATTTCTCAAGGAATGT+GGG 0.508650 3:+97277699 MsaT016369.1:CDS
TGATTTGGCGAGGAAGGAAA+AGG 0.510218 3:-97276760 None:intergenic
CATAGGTATGAAATAAAGAA+GGG 0.511589 3:+97278106 MsaT016369.1:CDS
TGGGTATAAATATAGGACTA+AGG 0.519559 3:+97277826 MsaT016369.1:CDS
AATGGAATAGAGTTAAGTTC+AGG 0.520347 3:-97277026 None:intergenic
TGTGGATAATTTGATGGATA+GGG 0.522628 3:-97276690 None:intergenic
GTTCTTACTGAGTTAAGTGA+TGG 0.523874 3:+97277485 MsaT016369.1:CDS
GAGGGTTGAGTTTGAAGATG+AGG 0.524128 3:-97276738 None:intergenic
GAGTTTGAAGATGAGGGGAA+AGG 0.528061 3:-97276731 None:intergenic
AGCTTGTATCCAAGAAATGC+AGG 0.531555 3:-97278067 None:intergenic
GTTTCAAGTGAGAACTTCAC+TGG 0.532193 3:+97278169 MsaT016369.1:CDS
CTGCTACTGGTAAAGATAGC+CGG 0.532788 3:-97277653 None:intergenic
ACTACAGCGGCAACGGATGG+AGG 0.545742 3:-97276823 None:intergenic
GAAATAAAGAAGGGTTTAAG+GGG 0.547648 3:+97278115 MsaT016369.1:CDS
ATACAATTTCTCAAGGAATG+TGG 0.550137 3:+97277698 MsaT016369.1:CDS
ATCAAATGAATACCACCAAA+GGG 0.550277 3:-97277401 None:intergenic
GGGTTGAGTTTGAAGATGAG+GGG 0.553523 3:-97276736 None:intergenic
ATGGAATAGAGTTAAGTTCA+GGG 0.553719 3:-97277025 None:intergenic
GCTTATACGCAAGGTTCGCA+CGG 0.556457 3:-97277784 None:intergenic
CGATCACGCAATGAATCCAA+TGG 0.559201 3:-97277044 None:intergenic
TTTGGCGAGGAAGGAAAAGG+AGG 0.566174 3:-97276757 None:intergenic
TAACAAAGTAAATTTGTCGA+AGG 0.566339 3:+97277325 MsaT016369.1:CDS
TATTATCTTGAATTATAGTG+TGG 0.569717 3:+97277547 MsaT016369.1:CDS
AATCAAATGAATACCACCAA+AGG 0.571779 3:-97277402 None:intergenic
ACTACTACAGCGGCAACGGA+TGG 0.574305 3:-97276826 None:intergenic
TTGGCGAGGAAGGAAAAGGA+GGG 0.574628 3:-97276756 None:intergenic
TTATAGTGTGGAACATCTTG+AGG 0.578549 3:+97277559 MsaT016369.1:CDS
ACAAGCAATCGAACCTTCTG+AGG 0.581418 3:-97277263 None:intergenic
CTCCATCTTCTTCTCTAGAG+AGG 0.583295 3:-97277996 None:intergenic
TGATTATACTGCAGTATCTG+AGG 0.588367 3:-97277971 None:intergenic
TCCTAGAATACAATTTCTCA+AGG 0.589047 3:+97277691 MsaT016369.1:CDS
TTGAGAAATCGAAGCTGAAG+CGG 0.589081 3:+97277201 MsaT016369.1:CDS
TGGAGGGTCGAAAATGAAAA+CGG 0.589100 3:-97276806 None:intergenic
TGAGTTAAGTGATGGAGATG+AGG 0.592800 3:+97277493 MsaT016369.1:CDS
CTACAGCGGCAACGGATGGA+GGG 0.596461 3:-97276822 None:intergenic
AGGAACATATAAAGTTTCTG+AGG 0.600236 3:+97277579 MsaT016369.1:CDS
CTGTGAGAATATGCAGAAGA+TGG 0.604021 3:+97277886 MsaT016369.1:CDS
TGCCTCTCTAGAGAAGAAGA+TGG 0.604406 3:+97277994 MsaT016369.1:CDS
AAAACCCAAGCTTATACGCA+AGG 0.605961 3:-97277793 None:intergenic
AGTAACTACTACAGCGGCAA+CGG 0.606334 3:-97276830 None:intergenic
CGAATGACACATTGACATTG+GGG 0.607372 3:-97276854 None:intergenic
AAGGAATGTGGGTTAGACGC+TGG 0.631014 3:+97277710 MsaT016369.1:CDS
TTGATGACAGAATTAAGCAT+AGG 0.632416 3:+97278089 MsaT016369.1:CDS
TCTTTACCAGTAGCAGAGAG+AGG 0.644660 3:+97277660 MsaT016369.1:CDS
AAATAAAGAAGGGTTTAAGG+GGG 0.657424 3:+97278116 MsaT016369.1:CDS
TGGAATAGAGTTAAGTTCAG+GGG 0.673962 3:-97277024 None:intergenic
AATAAAGAAGGGTTTAAGGG+GGG 0.680018 3:+97278117 MsaT016369.1:CDS
TAGGACTAAGGAGTTAGCAG+TGG 0.681301 3:+97277838 MsaT016369.1:CDS
TTGGTGGTGGTGATTTGGCG+AGG 0.684582 3:-97276770 None:intergenic
AATCACAATTGAGAATCACA+GGG 0.722130 3:-97277433 None:intergenic
GAATGACACATTGACATTGG+GGG 0.758405 3:-97276853 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 97276639 97278234 97276639 ID=MsaG016369
Chr3 mRNA 97276639 97278234 97276639 ID=MsaT016369.1;Parent=MsaG016369
Chr3 exon 97276639 97276876 97276639 ID=MsaT016369.1.exon1;Parent=MsaT016369.1
Chr3 CDS 97276639 97276876 97276639 ID=cds.MsaT016369.1;Parent=MsaT016369.1
Chr3 exon 97276955 97278234 97276955 ID=MsaT016369.1.exon2;Parent=MsaT016369.1
Chr3 CDS 97276955 97278234 97276955 ID=cds.MsaT016369.1;Parent=MsaT016369.1
Gene Sequence

>MsaT016369.1

ATGGCGCTAGCAGCACTTGCTTCTTGTCCTTTTTCTATAACAACGTTTCATCCCTATCCATCAAATTATCCACATTCCCGTTCACCCTCAACCCTTTCCCCTCATCTTCAAACTCAACCCTCCTTTTCCTTCCTCGCCAAATCACCACCACCAAACAACCACTTTTTCCGTTTTCATTTTCGACCCTCCATCCGTTGCCGCTGTAGTAGTTACTCCCCCAATGTCAATGTGTCATTCGGTACACTTGTCTCTTTATTTGAAGAATTCGGTATTAGTTTCAAGCAAACAGAATTGCTTTTACTCAATGCCCCTGAACTTAACTCTATTCCATTGGATTCATTGCGTGATCGCGTTTTTTCATTATACTCTCTCGGGTTAGATCGTGTTTCCATCAATCACTTAGTCACTGAACGTTTAACTGTGCTGACTGCTAATGAAATTGATCCATTGTTGAGTTTTTTGAGAAATGAATTACAAGGACAACTTGAGAAATCGAAGCTGAAGCGGCTTTTATTAGCTAATGAACCGAAAAATTTATCTGGGTTTCCTCAGAAGGTTCGATTGCTTGTTGATAGTGGAATTCCTGTTGATAAGATTGTACATGTGCTTAACAAAGTAAATTTGTCGAAGGCGATTTGTCATAGGTCAATAGATGAAATTGAAAGAATTATAGATTTCTTAAAACCCTTTGGTGGTATTCATTTGATTGTGAAGCACCCTGTGATTCTCAATTGTGATTTGCATAATCAGCTTATTCCTAGAATTAGAGTTCTTACTGAGTTAAGTGATGGAGATGAGGATAGTATTGGGAAAGTGCTGAATAGGTTTCCTATTATCTTGAATTATAGTGTGGAACATCTTGAGGAACATATAAAGTTTCTGAGGTGTTTTGCAGACCTTGATGATCAACAAATATTTAAGATTGTGTTGGTGTTTCCGGCTATCTTTACCAGTAGCAGAGAGAGGAAACTGCGTCCTAGAATACAATTTCTCAAGGAATGTGGGTTAGACGCTGGCGAAATCTTCAAGTTCTTGACCAAAGCAGCGTTGTTTTTGAGCATTTCGTTCCGTGCGAACCTTGCGTATAAGCTTGGGTTTTTGATCAAGATTGGGTATAAATATAGGACTAAGGAGTTAGCAGTGGTGATTGCAGCTTCTACGAGAATAAGCTGTGAGAATATGCAGAAGATGGTGAGCCTATTCTTGAACTATGGGTTTTCATTAGAAGACATATTTGTTATGAGCAAGAAGCATCCTCAGATACTGCAGTATAATCATGCCTCTCTAGAGAAGAAGATGGAGTACTTGATAGAGGAGATGAATCGTGACATTCAAGAGTTACTGGATTTTCCTGCATTTCTTGGATACAAGCTTGATGACAGAATTAAGCATAGGTATGAAATAAAGAAGGGTTTAAGGGGGGAACAAATGTCTATCAATAAGCTTTTAACTGTTTCAAGTGAGAACTTCACTGGCAAACGAAAAAAAGCTTCTTCTGTAAAATATGAATTGAAATAA
Protein sequence

>MsaT016369.1

MALAALASCPFSITTFHPYPSNYPHSRSPSTLSPHLQTQPSFSFLAKSPPPNNHFFRFHFRPSIRCRCSSYSPNVNVSFGTLVSLFEEFGISFKQTELLLLNAPELNSIPLDSLRDRVFSLYSLGLDRVSINHLVTERLTVLTANEIDPLLSFLRNELQGQLEKSKLKRLLLANEPKNLSGFPQKVRLLVDSGIPVDKIVHVLNKVNLSKAICHRSIDEIERIIDFLKPFGGIHLIVKHPVILNCDLHNQLIPRIRVLTELSDGDEDSIGKVLNRFPIILNYSVEHLEEHIKFLRCFADLDDQQIFKIVLVFPAIFTSSRERKLRPRIQFLKECGLDAGEIFKFLTKAALFLSISFRANLAYKLGFLIKIGYKYRTKELAVVIAASTRISCENMQKMVSLFLNYGFSLEDIFVMSKKHPQILQYNHASLEKKMEYLIEEMNRDIQELLDFPAFLGYKLDDRIKHRYEIKKGLRGEQMSINKLLTVSSENFTGKRKKASSVKYELK*