AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG032498

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG032498 MtrunA17_Chr8g0370121 65.863 249 60 5 1 232 1 241 1.46e-98 287
MsaG032498 MtrunA17_Chr8g0370131 57.265 234 89 7 1 233 1 224 2.13e-66 204
MsaG032498 MtrunA17_Chr6g0467271 81.739 115 21 0 1 115 1 115 1.61e-45 147
MsaG032498 MtrunA17_Chr5g0409841 39.241 79 45 1 102 180 87 162 4.87e-12 63.5
MsaG032498 MtrunA17_Chr5g0436501 39.744 78 42 2 107 184 125 197 1.51e-11 62.4
MsaG032498 MtrunA17_Chr4g0062741 36.250 80 42 2 105 179 136 211 2.18e-11 62.4
MsaG032498 MtrunA17_Chr3g0104071 48.980 49 25 0 105 153 145 193 2.38e-11 62.4
MsaG032498 MtrunA17_Chr5g0429521 51.064 47 23 0 107 153 132 178 2.65e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG032498 AT5G58900.1 51.020 49 24 0 105 153 139 187 1.13e-11 63.5
MsaG032498 AT2G38090.1 41.176 68 36 1 105 172 139 202 2.44e-11 62.8
MsaG032498 AT5G05790.2 40.909 66 38 1 89 154 114 178 3.12e-11 62.0
MsaG032498 AT5G05790.1 40.909 66 38 1 89 154 114 178 3.12e-11 62.0
MsaG032498 AT3G11280.2 39.683 63 34 1 107 169 127 185 3.88e-11 61.6
MsaG032498 AT3G11280.1 39.683 63 34 1 107 169 127 185 3.88e-11 61.6

Find 78 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCATAAAATGTTGGAACTTC+TGG 0.205098 6:-54134785 None:intergenic
GTAGAAACATGGTCAAAATT+AGG 0.206701 6:-54133685 None:intergenic
ACACATATGTGCATGGTTTA+AGG 0.242121 6:+54134699 MsaT032498.1:CDS
ACCACCATGCGTGGCAGGTT+GGG 0.256884 6:-54133821 None:intergenic
GTAAGATCGGTGGTCTTAAC+AGG 0.320352 6:-54133604 None:intergenic
CCGATACCAAACTACTTTGT+TGG 0.348196 6:+54133741 MsaT032498.1:CDS
GTTGATTTGGAACTTCGTTT+AGG 0.363323 6:+54134896 MsaT032498.1:CDS
TAGAAACATGGTCAAAATTA+GGG 0.380235 6:-54133684 None:intergenic
GTGATGGGGATGATTAAGTA+TGG 0.403039 6:+54134578 MsaT032498.1:CDS
TGTCTTAGCTTATTAGTGAT+GGG 0.419172 6:+54134563 MsaT032498.1:intron
ACTCTTCCTGTTGTTTATGT+TGG 0.423320 6:+54134863 MsaT032498.1:CDS
GCTATGCTACTAGCTTCTTC+AGG 0.423580 6:+54134666 MsaT032498.1:CDS
TGGTCATGGAGAAGTTGATT+TGG 0.426283 6:+54134883 MsaT032498.1:CDS
GTGGTACCAACAAAGTAGTT+TGG 0.427880 6:-54133747 None:intergenic
CCACCATGCGTGGCAGGTTG+GGG 0.429517 6:-54133820 None:intergenic
GTCGGAGAACCCTAGCAATT+AGG 0.429758 6:-54133846 None:intergenic
TACCACCATGCGTGGCAGGT+TGG 0.432276 6:-54133822 None:intergenic
TTAAGTATGGAAAAGGGAAA+TGG 0.433708 6:+54134591 MsaT032498.1:CDS
GGGATGATTAAGTATGGAAA+AGG 0.439099 6:+54134584 MsaT032498.1:CDS
ATGTGCATGGTTTAAGGAAA+AGG 0.449777 6:+54134705 MsaT032498.1:CDS
CGTGGCAGGTTGGGGCCAAC+TGG 0.450946 6:-54133812 None:intergenic
CCATGCGCATAGATCCATTT+GGG 0.457569 6:-54133897 None:intergenic
ACCATGCGCATAGATCCATT+TGG 0.463755 6:-54133898 None:intergenic
CCTGTTGTTTATGTTGGTCA+TGG 0.470311 6:+54134869 MsaT032498.1:CDS
AATGGCATGGTATCTGATCT+AGG 0.472330 6:-54133874 None:intergenic
AGGCTACCACCATGCGTGGC+AGG 0.474105 6:-54133826 None:intergenic
TTGTCTTAGCTTATTAGTGA+TGG 0.474565 6:+54134562 MsaT032498.1:intron
CCATGACCAACATAAACAAC+AGG 0.483887 6:-54134869 None:intergenic
TGGTCAAAATTAGGGATCAT+TGG 0.484624 6:-54133676 None:intergenic
TGGTTGTGTCCTTGAGGAGT+TGG 0.486117 6:-54133769 None:intergenic
AAACCATGCACATATGTGTC+TGG 0.497935 6:-54134695 None:intergenic
GTCTTAGCTTATTAGTGATG+GGG 0.500061 6:+54134564 MsaT032498.1:intron
ATGGTTTAAGGAAAAGGAAA+AGG 0.505645 6:+54134711 MsaT032498.1:CDS
AGTGCTAGCTTCATAGTTGT+TGG 0.507530 6:-54134834 None:intergenic
GTCAAGGAAGTTTGTAAGAT+CGG 0.507950 6:-54133617 None:intergenic
ATGGTGGTAGCCTAATTGCT+AGG 0.514195 6:+54133836 MsaT032498.1:CDS
GCATAGCTTTGAACTTGTTG+TGG 0.515534 6:-54134650 None:intergenic
GATGATGATATGTGTGGTGA+TGG 0.524416 6:-54133646 None:intergenic
GGCCAACTGGTAGTGATTCG+AGG 0.525016 6:-54133799 None:intergenic
CGCATAGATCCATTTGGGAA+TGG 0.529290 6:-54133892 None:intergenic
GATCTATGCGCATGGTGCCT+TGG 0.535866 6:+54133905 MsaT032498.1:CDS
TGGCCCCAACCTGCCACGCA+TGG 0.536871 6:+54133817 MsaT032498.1:CDS
GATACCATGCCATTCCCAAA+TGG 0.537467 6:+54133883 MsaT032498.1:CDS
GACTCATGGTTGTGTCCTTG+AGG 0.542011 6:-54133775 None:intergenic
TCGACATGGTGGTGGAGATA+AGG 0.542804 6:-54133712 None:intergenic
TTGTGTCCTTGAGGAGTTGG+TGG 0.552006 6:-54133766 None:intergenic
GCTTCACCTCCATAAAATGT+TGG 0.552815 6:-54134794 None:intergenic
TAGTGATTCGAGGGGACTCA+TGG 0.559445 6:-54133789 None:intergenic
GGATGATTAAGTATGGAAAA+GGG 0.561038 6:+54134585 MsaT032498.1:CDS
GCCAACTGGTAGTGATTCGA+GGG 0.562803 6:-54133798 None:intergenic
ATGATATGTGTGGTGATGGA+GGG 0.566805 6:-54133642 None:intergenic
CCAACAAAGTAGTTTGGTAT+CGG 0.568651 6:-54133741 None:intergenic
GGTGGTGTTCGACATGGTGG+TGG 0.569038 6:-54133720 None:intergenic
TTGGTACCACCAACTCCTCA+AGG 0.570569 6:+54133760 MsaT032498.1:CDS
TGTTAACAATGATCTTGCAA+AGG 0.578401 6:+54134745 MsaT032498.1:CDS
GGTATCGGTGGTGTTCGACA+TGG 0.578416 6:-54133726 None:intergenic
TGGTGGTAGCCTAATTGCTA+GGG 0.579794 6:+54133837 MsaT032498.1:CDS
CCCCAACCTGCCACGCATGG+TGG 0.582958 6:+54133820 MsaT032498.1:CDS
GTGGTGATGGAGGGGAGTCA+AGG 0.585853 6:-54133633 None:intergenic
ATGGTGGTGGAGATAAGGAT+TGG 0.589002 6:-54133707 None:intergenic
CCCAAATGGATCTATGCGCA+TGG 0.597160 6:+54133897 MsaT032498.1:CDS
CATGCACATATGTGTCTGGT+AGG 0.610902 6:-54134691 None:intergenic
TGATATGTGTGGTGATGGAG+GGG 0.610906 6:-54133641 None:intergenic
ATAAACAACAGGAAGAGTCA+TGG 0.611118 6:-54134858 None:intergenic
GATGATATGTGTGGTGATGG+AGG 0.613636 6:-54133643 None:intergenic
ATCGGTGGTGTTCGACATGG+TGG 0.615063 6:-54133723 None:intergenic
TCATGCTCTAATTGACTCCA+AGG 0.619497 6:-54133922 None:intergenic
ATGGTATCTGATCTAGGTAA+CGG 0.627252 6:-54133868 None:intergenic
ACAAAGTAGTTTGGTATCGG+TGG 0.636437 6:-54133738 None:intergenic
AGATCCATTTGGGAATGGCA+TGG 0.640674 6:-54133887 None:intergenic
CTACCAGACACATATGTGCA+TGG 0.648995 6:+54134692 MsaT032498.1:CDS
CCCCTCGAATCACTACCAGT+TGG 0.659827 6:+54133797 MsaT032498.1:CDS
AATTAGGCTACCACCATGCG+TGG 0.663656 6:-54133830 None:intergenic
TATCTGATCTAGGTAACGGT+CGG 0.664084 6:-54133864 None:intergenic
GATAAGGATTGGTAGAAACA+TGG 0.670885 6:-54133696 None:intergenic
AAGGAAGTTTGTAAGATCGG+TGG 0.672731 6:-54133614 None:intergenic
GCATTAGATGATGATATGTG+TGG 0.716551 6:-54133652 None:intergenic
CCAACTGGTAGTGATTCGAG+GGG 0.784198 6:-54133797 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 54133601 54134928 54133601 ID=MsaG032498
Chr6 mRNA 54133601 54134928 54133601 ID=MsaT032498.1;Parent=MsaG032498
Chr6 exon 54133601 54133944 54133601 ID=MsaT032498.1.exon1;Parent=MsaT032498.1
Chr6 CDS 54133601 54133944 54133601 ID=cds.MsaT032498.1;Parent=MsaT032498.1
Chr6 exon 54134571 54134928 54134571 ID=MsaT032498.1.exon2;Parent=MsaT032498.1
Chr6 CDS 54134571 54134928 54134571 ID=cds.MsaT032498.1;Parent=MsaT032498.1
Gene Sequence

>MsaT032498.1

ATGCCTGTTAAGACCACCGATCTTACAAACTTCCTTGACTCCCCTCCATCACCACACATATCATCATCTAATGCACCAATGATCCCTAATTTTGACCATGTTTCTACCAATCCTTATCTCCACCACCATGTCGAACACCACCGATACCAAACTACTTTGTTGGTACCACCAACTCCTCAAGGACACAACCATGAGTCCCCTCGAATCACTACCAGTTGGCCCCAACCTGCCACGCATGGTGGTAGCCTAATTGCTAGGGTTCTCCGACCGTTACCTAGATCAGATACCATGCCATTCCCAAATGGATCTATGCGCATGGTGCCTTGGAGTCAATTAGAGCATGACTTATTAGTGATGGGGATGATTAAGTATGGAAAAGGGAAATGGAGTGAAATTGCTAAGAACTTTGTGTGCAACAAGACTCCACAACAAGTTCAAAGCTATGCTACTAGCTTCTTCAGGTACCTACCAGACACATATGTGCATGGTTTAAGGAAAAGGAAAAGGAACAACATGATTGTTAACAATGATCTTGCAAAGGAAACTCTCACTCTTTTTCCAGAAGTTCCAACATTTTATGGAGGTGAAGCTAGCAGTAGCAAGAACACCAACAACTATGAAGCTAGCACTTCCATGACTCTTCCTGTTGTTTATGTTGGTCATGGAGAAGTTGATTTGGAACTTCGTTTAGGTTTAAATTAG
Protein sequence

>MsaT032498.1

MPVKTTDLTNFLDSPPSPHISSSNAPMIPNFDHVSTNPYLHHHVEHHRYQTTLLVPPTPQGHNHESPRITTSWPQPATHGGSLIARVLRPLPRSDTMPFPNGSMRMVPWSQLEHDLLVMGMIKYGKGKWSEIAKNFVCNKTPQQVQSYATSFFRYLPDTYVHGLRKRKRNNMIVNNDLAKETLTLFPEVPTFYGGEASSSKNTNNYEASTSMTLPVVYVGHGEVDLELRLGLN*