AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005165

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005165 MtrunA17_Chr1g0205131 97.007 401 6 4 1 399 1 397 0.0 797
MsaG005165 MtrunA17_Chr6g0456881 41.250 320 98 13 110 393 126 391 4.06e-47 167
MsaG005165 MtrunA17_Chr7g0220931 36.164 365 155 12 41 393 57 355 2.27e-38 142
MsaG005165 MtrunA17_Chr4g0062691 40.625 160 66 4 96 238 120 267 1.18e-20 93.2
MsaG005165 MtrunA17_Chr8g0376571 35.404 161 69 3 109 236 60 218 2.92e-17 83.6
MsaG005165 MtrunA17_Chr4g0040921 55.738 61 27 0 109 169 21 81 4.71e-17 81.6
MsaG005165 MtrunA17_Chr8g0360441 55.738 61 27 0 109 169 53 113 1.30e-16 81.3
MsaG005165 MtrunA17_Chr2g0316391 57.377 61 26 0 109 169 19 79 1.56e-16 79.7
MsaG005165 MtrunA17_Chr2g0325171 53.333 60 28 0 109 168 23 82 1.91e-16 80.1
MsaG005165 MtrunA17_Chr4g0061561 37.037 108 67 1 109 216 56 162 2.43e-13 70.5
MsaG005165 MtrunA17_Chr6g0454781 51.667 60 29 0 109 168 48 107 2.68e-13 70.5
MsaG005165 MtrunA17_Chr7g0219461 44.444 81 45 0 109 189 56 136 1.38e-12 68.6
MsaG005165 MtrunA17_Chr3g0086961 48.333 60 31 0 109 168 56 115 1.73e-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
MsaG005165 AT1G67260.2 42.690 171 67 5 110 253 87 253 9.91e-27 110
MsaG005165 AT1G67260.3 42.690 171 67 5 110 253 87 253 9.91e-27 110
MsaG005165 AT1G67260.1 42.690 171 67 5 110 253 87 253 1.25e-26 110
MsaG005165 AT1G68800.2 68.182 66 21 0 110 175 112 177 3.48e-21 94.7
MsaG005165 AT1G68800.1 68.182 66 21 0 110 175 112 177 3.68e-21 94.4
MsaG005165 AT3G18550.2 30.043 233 104 8 61 235 66 297 1.23e-18 87.8
MsaG005165 AT3G18550.3 31.034 232 101 8 61 234 66 296 1.73e-18 87.4
MsaG005165 AT3G18550.1 29.958 237 103 9 61 235 66 301 3.14e-18 86.7
MsaG005165 AT3G18550.4 29.958 237 103 9 61 235 66 301 3.14e-18 86.7
MsaG005165 AT4G18390.1 39.850 133 68 2 109 236 41 166 3.44e-18 85.9
MsaG005165 AT4G18390.2 39.850 133 68 2 109 236 41 166 3.44e-18 85.9
MsaG005165 AT1G30210.2 42.188 128 57 3 109 236 49 159 2.09e-17 83.2
MsaG005165 AT1G30210.1 42.188 128 57 3 109 236 49 159 2.09e-17 83.2
MsaG005165 AT1G53230.1 56.452 62 27 0 109 170 48 109 5.40e-17 82.8
MsaG005165 AT1G53230.2 56.452 62 27 0 109 170 48 109 5.40e-17 82.8
MsaG005165 AT3G15030.2 57.377 61 26 0 109 169 44 104 1.02e-16 82.0
MsaG005165 AT3G15030.4 57.377 61 26 0 109 169 44 104 1.02e-16 82.0
MsaG005165 AT3G15030.3 57.377 61 26 0 109 169 44 104 1.02e-16 82.0
MsaG005165 AT3G15030.1 57.377 61 26 0 109 169 44 104 1.02e-16 82.0
MsaG005165 AT2G31070.1 56.667 60 26 0 109 168 28 87 2.56e-16 80.5
MsaG005165 AT3G02150.1 51.667 60 29 0 109 168 73 132 2.05e-12 67.8
MsaG005165 AT3G02150.2 51.667 60 29 0 109 168 73 132 2.49e-12 68.2
MsaG005165 AT5G60970.1 46.667 60 32 0 109 168 62 121 2.29e-11 65.5

Find 75 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTCTGTCACAACATAATT+TGG 0.114937 1:+78436664 None:intergenic
GATGAAGAAGGGAAATTATT+AGG 0.155951 1:+78436928 None:intergenic
TCCCTTGTTCAACTCCAAAT+TGG 0.198049 1:-78435832 MsaT005165.1:CDS
CCTTAGGGATAGTAGGAATT+AGG 0.215420 1:+78435903 None:intergenic
AGAAAAGAAAGGGTACTATT+AGG 0.235751 1:+78436889 None:intergenic
TGGAGTTGAACAAGGGAATA+AGG 0.272402 1:+78435838 None:intergenic
TTGGAGCTAGTCTCCCAATT+TGG 0.297661 1:+78435818 None:intergenic
AAGAAGAGTAGTATTGTTAT+TGG 0.300314 1:+78436837 None:intergenic
TTGAAACTTGGTAATTCCTT+AGG 0.318513 1:+78435887 None:intergenic
TCATAATCATCATAACCTAT+TGG 0.320855 1:-78436032 MsaT005165.1:CDS
GGATAGTAGGAATTAGGTTT+TGG 0.326225 1:+78435909 None:intergenic
AAACAACCAGCAGCAGTTAT+AGG 0.340022 1:-78436640 MsaT005165.1:CDS
GAATGCAACAAGAAGAAATT+AGG 0.347577 1:-78436210 MsaT005165.1:CDS
AGGAATCCATTATGATTAGA+AGG 0.357973 1:-78435967 MsaT005165.1:CDS
GAAAAGAAAGGGTACTATTA+GGG 0.366150 1:+78436890 None:intergenic
CAAGATAATGGCTACAACTT+TGG 0.372622 1:-78436709 MsaT005165.1:CDS
AGAAGAGTAGTATTGTTATT+GGG 0.374456 1:+78436838 None:intergenic
ATGAAGAAGGGAAATTATTA+GGG 0.385216 1:+78436929 None:intergenic
CCCTTGTTCAACTCCAAATT+GGG 0.387307 1:-78435831 MsaT005165.1:CDS
CATGTTCCTTCTAATCATAA+TGG 0.388796 1:+78435961 None:intergenic
GCAATGTTTGAACAAGATAA+TGG 0.390494 1:-78436721 MsaT005165.1:CDS
TAGGTATTTCACTATCCAAT+AGG 0.395659 1:+78436017 None:intergenic
TTTCCTCCTATAACTGCTGC+TGG 0.420270 1:+78436634 None:intergenic
AAAAGAAGGGTTACTACTAT+AGG 0.421997 1:+78436054 None:intergenic
GGTAATTCCTTAGGGATAGT+AGG 0.423994 1:+78435896 None:intergenic
GTTGAATCTGCACCAGGTCC+AGG 0.426040 1:+78436184 None:intergenic
ATGTTGGATCAGCAGATATA+GGG 0.429811 1:-78433457 MsaT005165.1:CDS
AGCCACTCAAGTGTGTTACT+TGG 0.429932 1:+78436493 None:intergenic
CAATCTGCAAAATTAGCATC+AGG 0.430784 1:+78436754 None:intergenic
TTATAGGAGGAAAGAAAGAT+AGG 0.430839 1:-78436624 MsaT005165.1:CDS
TTAATATTGTGGTTGAAACT+TGG 0.430928 1:+78435875 None:intergenic
ATGGTAGTTGTTCTTCTAAA+GGG 0.432683 1:-78436339 MsaT005165.1:CDS
AATGTTGGATCAGCAGATAT+AGG 0.432836 1:-78433458 MsaT005165.1:CDS
CTAAAGGGAGAAAATTGAAA+TGG 0.439828 1:-78436324 MsaT005165.1:CDS
GATGGTAGTTGTTCTTCTAA+AGG 0.443495 1:-78436340 MsaT005165.1:CDS
AATCATTATTATTAATATTG+TGG 0.455465 1:+78435864 None:intergenic
TGAAACTTGGTAATTCCTTA+GGG 0.456765 1:+78435888 None:intergenic
GAAGAAGATGATGATGAAGA+AGG 0.460599 1:+78436916 None:intergenic
TTATGATGATTATGAAAAGA+AGG 0.467263 1:+78436040 None:intergenic
GTCACAACATAATTTGGAAT+CGG 0.469967 1:+78436670 None:intergenic
TCCGGCGGTGGTGGCGGAGA+TGG 0.472879 1:-78436358 MsaT005165.1:CDS
AAGAAGATGATGATGAAGAA+GGG 0.474146 1:+78436917 None:intergenic
AGTGGCTATTCCACAAAAGT+TGG 0.483262 1:+78435799 None:intergenic
TCAGTTTCAGTACTATCAAC+AGG 0.489731 1:+78436115 None:intergenic
TCTACAGAAGAAATGAATGT+TGG 0.493666 1:-78433473 MsaT005165.1:CDS
ACCATCTCCGCCACCACCGC+CGG 0.512985 1:+78436357 None:intergenic
ATTGTCAATGAGAAAAGAAA+GGG 0.521480 1:+78436879 None:intergenic
TATGATGATTATGAAAAGAA+GGG 0.526879 1:+78436041 None:intergenic
GATTGTCAATGAGAAAAGAA+AGG 0.527029 1:+78436878 None:intergenic
AGTGAAATACCTAGAGATCA+TGG 0.535750 1:-78436007 MsaT005165.1:CDS
TTAAATCCACCATGATCTCT+AGG 0.537094 1:+78435998 None:intergenic
GTATTTGTTGAATCTGCACC+AGG 0.542255 1:+78436178 None:intergenic
TGGTGGATTTAATGTGATTG+AGG 0.542326 1:-78435987 MsaT005165.1:CDS
CCTAATTCCTACTATCCCTA+AGG 0.544884 1:-78435903 MsaT005165.1:CDS
TCCCAATTTGGAGTTGAACA+AGG 0.545085 1:+78435830 None:intergenic
CAAGAGCAAGAGCTAGAGAA+AGG 0.553192 1:-78436261 MsaT005165.1:CDS
GCAAAATTAGCATCAGGGAA+TGG 0.555133 1:+78436760 None:intergenic
CAGTAAGATTCACACATCAC+AGG 0.558791 1:-78436599 MsaT005165.1:CDS
GAAATTAGGTACCCTGGACC+TGG 0.562470 1:-78436196 MsaT005165.1:CDS
TTGAATCTGCACCAGGTCCA+GGG 0.571969 1:+78436185 None:intergenic
CTACATGCTTCTTGAATCCG+TGG 0.574833 1:-78435766 MsaT005165.1:intron
CAAGAAGAAATTAGGTACCC+TGG 0.600461 1:-78436202 MsaT005165.1:CDS
AAACTGAGGCTTATGCAAGA+TGG 0.603501 1:-78436099 MsaT005165.1:CDS
TGTTGATAGTACTGAAACTG+AGG 0.605008 1:-78436113 MsaT005165.1:CDS
CCCAATTTGGAGTTGAACAA+GGG 0.612112 1:+78435831 None:intergenic
CACAGGGTTTGAGAGACAGA+AGG 0.612414 1:-78436582 MsaT005165.1:CDS
CAACCAGCAGCAGTTATAGG+AGG 0.626000 1:-78436637 MsaT005165.1:CDS
AATCTGCAAAATTAGCATCA+GGG 0.626917 1:+78436755 None:intergenic
TGTTACAAGATGTGTAGCAG+TGG 0.627912 1:-78436235 MsaT005165.1:CDS
ACAGGGTTTGAGAGACAGAA+GGG 0.629239 1:-78436581 MsaT005165.1:CDS
GCATGTAGATAGATTCATAG+TGG 0.634816 1:+78435781 None:intergenic
AGTAAGATTCACACATCACA+GGG 0.651645 1:-78436598 MsaT005165.1:CDS
TGATGTGTTGATGTAGTGAA+AGG 0.657369 1:+78436793 None:intergenic
AACCAAGTAACACACTTGAG+TGG 0.665918 1:-78436495 MsaT005165.1:CDS
GAAATACCTAGAGATCATGG+TGG 0.750657 1:-78436004 MsaT005165.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 78433445 78436962 78433445 ID=MsaG005165
Chr1 mRNA 78433445 78436962 78433445 ID=MsaT005165.1;Parent=MsaG005165
Chr1 exon 78433445 78433502 78433445 ID=MsaT005165.1.exon2;Parent=MsaT005165.1
Chr1 CDS 78433445 78433502 78433445 ID=cds.MsaT005165.1;Parent=MsaT005165.1
Chr1 exon 78435767 78436962 78435767 ID=MsaT005165.1.exon1;Parent=MsaT005165.1
Chr1 CDS 78435767 78436962 78435767 ID=cds.MsaT005165.1;Parent=MsaT005165.1
Gene Sequence

>MsaT005165.1

ATGTTCTCTTTCCCTAATAATTTCCCTTCTTCATCATCATCTTCTTCTTACCCTAATAGTACCCTTTCTTTTCTCATTGACAATCCTGAAAATAATGATTTTCCCAATAACAATACTACTCTTCTTGATGATTCACTACTTTCTATTCCTTTCACTACATCAACACATCATGATGTTGTTCCATTCCCTGATGCTAATTTTGCAGATTGTAACAACACTGCAATGTTTGAACAAGATAATGGCTACAACTTTGGTGTTAATAGTAGTTTTCCGATTCCAAATTATGTTGTGACAGAGCAGAAACAACCAGCAGCAGTTATAGGAGGAAAGAAAGATAGGCACAGTAAGATTCACACATCACAGGGTTTGAGAGACAGAAGGGTAAGATTGTCAAGTGAAATAGCAAGAAAGTTCTTTGATCTTCAAGATATGTTAGAGTTTGACAAACCAAGTAACACACTTGAGTGGCTTTTCACTAAATCTGACACTGCAATCAAAGAACTAGCTAGAACTAAAAACGCTGCTTGTTACAACAACAACGACAACAGCCCATTTTTTGATTCAAATAGCAACAAATCATTTTCCGGCGGTGGTGGCGGAGATGGTAGTTGTTCTTCTAAAGGGAGAAAATTGAAATGGACACAGAAAGAAGAAACAAAAAAAGAGTCAAGAGAAAGAGCAAGAGCAAGAGCTAGAGAAAGGACTTGTTACAAGATGTGTAGCAGTGGAAGAATGCAACAAGAAGAAATTAGGTACCCTGGACCTGGTGCAGATTCAACAAATACTCAACAAATGCTGCAACAATTGATGTCATCTTCAACATCACCTGTTGATAGTACTGAAACTGAGGCTTATGCAAGATGGCGTCAGCTTCTTCAACTTCAGACCTATAGTAGTAACCCTTCTTTTCATAATCATCATAACCTATTGGATAGTGAAATACCTAGAGATCATGGTGGATTTAATGTGATTGAGGAATCCATTATGATTAGAAGGAACATGATGTCTGCTACTTCTTCTCAATATCATCACCAAAACCTAATTCCTACTATCCCTAAGGAATTACCAAGTTTCAACCACAATATTAATAATAATGATTACTCCTTATTCCCTTGTTCAACTCCAAATTGGGAGACTAGCTCCAACTTTTGTGGAATAGCCACTATGAATCTATCTACATGCTTCTTGAATCCGTGGGTTTATTCTACAGAAGAAATGAATGTTGGATCAGCAGATATAGGGATGTTCTGCTAG
Protein sequence

>MsaT005165.1

MFSFPNNFPSSSSSSSYPNSTLSFLIDNPENNDFPNNNTTLLDDSLLSIPFTTSTHHDVVPFPDANFADCNNTAMFEQDNGYNFGVNSSFPIPNYVVTEQKQPAAVIGGKKDRHSKIHTSQGLRDRRVRLSSEIARKFFDLQDMLEFDKPSNTLEWLFTKSDTAIKELARTKNAACYNNNDNSPFFDSNSNKSFSGGGGGDGSCSSKGRKLKWTQKEETKKESRERARARARERTCYKMCSSGRMQQEEIRYPGPGADSTNTQQMLQQLMSSSTSPVDSTETEAYARWRQLLQLQTYSSNPSFHNHHNLLDSEIPRDHGGFNVIEESIMIRRNMMSATSSQYHHQNLIPTIPKELPSFNHNINNNDYSLFPCSTPNWETSSNFCGIATMNLSTCFLNPWVYSTEEMNVGSADIGMFC*