AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002616

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002616 MtrunA17_Chr8g0370121 65.863 249 60 5 1 232 1 241 2.16e-99 289
MsaG002616 MtrunA17_Chr8g0370131 55.745 235 91 8 1 233 1 224 3.50e-62 194
MsaG002616 MtrunA17_Chr6g0467271 79.130 115 24 0 1 115 1 115 5.76e-44 144
MsaG002616 MtrunA17_Chr5g0409841 40.506 79 44 1 102 180 87 162 1.06e-12 65.5
MsaG002616 MtrunA17_Chr5g0436501 36.364 99 53 3 86 184 109 197 3.30e-12 64.3
MsaG002616 MtrunA17_Chr4g0062741 37.037 81 42 2 104 179 135 211 3.83e-12 64.7
MsaG002616 MtrunA17_Chr3g0104071 48.000 50 26 0 104 153 144 193 1.39e-11 63.2
MsaG002616 MtrunA17_Chr5g0429521 48.000 50 26 0 104 153 129 178 1.66e-11 62.8
MsaG002616 MtrunA17_Chr7g0241761 43.103 58 33 0 96 153 129 186 6.96e-11 60.8
MsaG002616 MtrunA17_Chr8g0389241 36.486 74 42 1 100 173 98 166 8.32e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002616 AT5G05790.2 41.176 68 39 1 87 154 112 178 2.56e-12 65.1
MsaG002616 AT5G05790.1 41.176 68 39 1 87 154 112 178 2.56e-12 65.1
MsaG002616 AT5G58900.1 50.000 50 25 0 104 153 138 187 6.83e-12 63.9
MsaG002616 AT2G38090.1 40.580 69 37 1 104 172 138 202 1.46e-11 63.2
MsaG002616 AT1G49010.1 45.283 53 29 0 104 156 131 183 1.62e-11 63.2
MsaG002616 AT5G01200.1 46.575 73 33 3 98 168 136 204 1.81e-11 62.8
MsaG002616 AT3G11280.2 37.879 66 37 1 104 169 124 185 2.66e-11 62.0
MsaG002616 AT3G11280.1 37.879 66 37 1 104 169 124 185 2.66e-11 62.0
MsaG002616 AT5G08520.1 38.571 70 38 1 104 173 115 179 4.42e-11 62.0

Find 77 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCATAAAATGTTGGAACTTT+TGG 0.122390 1:+43918622 None:intergenic
ACACATATGTGCACGGTTTA+AGG 0.200432 1:-43918708 MsaT002616.1:CDS
GTAGAAACATGGTCAAAATT+AGG 0.206701 1:+43919659 None:intergenic
ACCACCATGCGTGGCAGGTT+TGG 0.244757 1:+43919523 None:intergenic
CCACCATGCGTGGCAGGTTT+GGG 0.309708 1:+43919524 None:intergenic
GTTGATTTGGAACTTCGTTT+AGG 0.363323 1:-43918511 MsaT002616.1:CDS
CCGATACCAAACAACTTTGT+TGG 0.375727 1:-43919603 MsaT002616.1:CDS
TAGAAACATGGTCAAAATTA+GGG 0.380235 1:+43919660 None:intergenic
GTGATGGGGATGATTAAGTA+TGG 0.403039 1:-43918829 MsaT002616.1:CDS
GTGGTACCAACAAAGTTGTT+TGG 0.415883 1:+43919597 None:intergenic
TGTCTTAGCTTATTAGTGAT+GGG 0.419172 1:-43918844 MsaT002616.1:intron
GTCGGTGAACCCTAGCAATT+AGG 0.421092 1:+43919498 None:intergenic
ACTCTTCCTGTTGTTTATGT+TGG 0.423320 1:-43918544 MsaT002616.1:CDS
GCTATGCTACTAGCTTCTTC+AGG 0.423580 1:-43918741 MsaT002616.1:CDS
TGGTCATGGAGAAGTTGATT+TGG 0.426283 1:-43918524 MsaT002616.1:CDS
TTAAGTATGGAAAAGGGAAA+TGG 0.433708 1:-43918816 MsaT002616.1:CDS
GGGATGATTAAGTATGGAAA+AGG 0.439099 1:-43918823 MsaT002616.1:CDS
CCATGCGCCTAGATCCATTT+GGG 0.454900 1:+43919447 None:intergenic
ATGTGCACGGTTTAAGGAAA+AGG 0.461241 1:-43918702 MsaT002616.1:CDS
CGTGGCAGGTTTGGGCCAAC+TGG 0.461633 1:+43919532 None:intergenic
ACCATGCGCCTAGATCCATT+TGG 0.463755 1:+43919446 None:intergenic
AGGGTTCACCGACCGTTACC+TGG 0.468098 1:-43919488 MsaT002616.1:CDS
CCTGTTGTTTATGTTGGTCA+TGG 0.470311 1:-43918538 MsaT002616.1:CDS
AGGCTACCACCATGCGTGGC+AGG 0.472517 1:+43919518 None:intergenic
TTGTCTTAGCTTATTAGTGA+TGG 0.474565 1:-43918845 MsaT002616.1:intron
AGTGCTTGCTTCATAGTTGT+TGG 0.477998 1:+43918573 None:intergenic
TAGTGATTCGAGGGGACTCA+TGG 0.480822 1:+43919555 None:intergenic
CCATGACCAACATAAACAAC+AGG 0.483887 1:+43918538 None:intergenic
TGCCATTCCCAAATGGATCT+AGG 0.484246 1:-43919454 MsaT002616.1:CDS
TGGTCAAAATTAGGGATCAT+TGG 0.484624 1:+43919668 None:intergenic
GTCTTAGCTTATTAGTGATG+GGG 0.500061 1:-43918843 MsaT002616.1:intron
CCAACAAAGTTGTTTGGTAT+CGG 0.501863 1:+43919603 None:intergenic
GATCTAGGCGCATGGTGCCT+TGG 0.505252 1:-43919439 MsaT002616.1:CDS
TGGGTGTGTCCTTGAGCAGT+TGG 0.505592 1:+43919575 None:intergenic
GTCAAGGAAGTTTGTAAGAT+CGG 0.507950 1:+43919727 None:intergenic
GGCCAACTGGTAGTGATTCG+AGG 0.512623 1:+43919545 None:intergenic
AAACCGTGCACATATGTGTC+TGG 0.513754 1:+43918712 None:intergenic
ATGGTGGTAGCCTAATTGCT+AGG 0.514195 1:-43919508 MsaT002616.1:CDS
GCATAGCTTTGAACTTGTTG+TGG 0.515534 1:+43918757 None:intergenic
GACACCATGCCATTCCCAAA+TGG 0.525818 1:-43919461 MsaT002616.1:CDS
AATGGCATGGTGTCTGATCC+AGG 0.529965 1:+43919470 None:intergenic
CGCCTAGATCCATTTGGGAA+TGG 0.533156 1:+43919452 None:intergenic
TCGACATGGTGGTGAAGATA+AGG 0.542804 1:+43919632 None:intergenic
GATGAATATATGTGTGGTGA+TGG 0.543266 1:+43919698 None:intergenic
TTGGTACCACCAACTGCTCA+AGG 0.544387 1:-43919584 MsaT002616.1:CDS
ACGGTTTAAGGAAAAGGAAA+AGG 0.545748 1:-43918696 MsaT002616.1:CDS
GCTTCTCCTCCATAAAATGT+TGG 0.545997 1:+43918613 None:intergenic
TGGCCCAAACCTGCCACGCA+TGG 0.553797 1:-43919527 MsaT002616.1:CDS
GAATATATGTGTGGTGATGG+AGG 0.559267 1:+43919701 None:intergenic
GGATGATTAAGTATGGAAAA+GGG 0.561038 1:-43918822 MsaT002616.1:CDS
AATATATGTGTGGTGATGGA+GGG 0.562659 1:+43919702 None:intergenic
GCCAACTGGTAGTGATTCGA+GGG 0.570710 1:+43919546 None:intergenic
TGTTAACAATGATCTTGCAA+AGG 0.578401 1:-43918662 MsaT002616.1:CDS
GGTATCGGTGGTGTTCGACA+TGG 0.578416 1:+43919618 None:intergenic
TGGTGGTAGCCTAATTGCTA+GGG 0.579794 1:-43919507 MsaT002616.1:CDS
GTGGTGATGGAGGGGAGTCA+AGG 0.585853 1:+43919711 None:intergenic
GTGTGTCCTTGAGCAGTTGG+TGG 0.587792 1:+43919578 None:intergenic
CCCAAACCTGCCACGCATGG+TGG 0.588913 1:-43919524 MsaT002616.1:CDS
AGTGATTCGAGGGGACTCAT+GGG 0.590746 1:+43919556 None:intergenic
CCCAAATGGATCTAGGCGCA+TGG 0.598806 1:-43919447 MsaT002616.1:CDS
ATGGTGGTGAAGATAAGGAT+TGG 0.601591 1:+43919637 None:intergenic
ATAAACAACAGGAAGAGTCA+TGG 0.611118 1:+43918549 None:intergenic
ACAAAGTTGTTTGGTATCGG+TGG 0.612945 1:+43919606 None:intergenic
ATGGTGTCTGATCCAGGTAA+CGG 0.615417 1:+43919476 None:intergenic
CGTGCACATATGTGTCTGGT+AGG 0.615868 1:+43918716 None:intergenic
TCATGCTCTAATTGACTCCA+AGG 0.619497 1:+43919422 None:intergenic
ATATATGTGTGGTGATGGAG+GGG 0.621690 1:+43919703 None:intergenic
AGATCCATTTGGGAATGGCA+TGG 0.633238 1:+43919457 None:intergenic
ATCGGTGGTGTTCGACATGG+TGG 0.653492 1:+43919621 None:intergenic
CCCCTCGAATCACTACCAGT+TGG 0.659827 1:-43919547 MsaT002616.1:CDS
GATAAGGATTGGTAGAAACA+TGG 0.661827 1:+43919648 None:intergenic
AATTAGGCTACCACCATGCG+TGG 0.663656 1:+43919514 None:intergenic
TGTCTGATCCAGGTAACGGT+CGG 0.668308 1:+43919480 None:intergenic
AAGGAAGTTTGTAAGATCGG+TGG 0.672731 1:+43919730 None:intergenic
CTACCAGACACATATGTGCA+CGG 0.676306 1:-43918715 MsaT002616.1:CDS
GCATTAGATGAATATATGTG+TGG 0.701436 1:+43919692 None:intergenic
CCAACTGGTAGTGATTCGAG+GGG 0.754696 1:+43919547 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 43918501 43919765 43918501 ID=MsaG002616
Chr1 mRNA 43918501 43919765 43918501 ID=MsaT002616.1;Parent=MsaG002616
Chr1 exon 43918501 43918858 43918501 ID=MsaT002616.1.exon2;Parent=MsaT002616.1
Chr1 CDS 43918501 43918858 43918501 ID=cds.MsaT002616.1;Parent=MsaT002616.1
Chr1 exon 43919422 43919765 43919422 ID=MsaT002616.1.exon1;Parent=MsaT002616.1
Chr1 CDS 43919422 43919765 43919422 ID=cds.MsaT002616.1;Parent=MsaT002616.1
Gene Sequence

>MsaT002616.1

ATGTCTGTTAAGACCACCGATCTTACAAACTTCCTTGACTCCCCTCCATCACCACACATATATTCATCTAATGCACCAATGATCCCTAATTTTGACCATGTTTCTACCAATCCTTATCTTCACCACCATGTCGAACACCACCGATACCAAACAACTTTGTTGGTACCACCAACTGCTCAAGGACACACCCATGAGTCCCCTCGAATCACTACCAGTTGGCCCAAACCTGCCACGCATGGTGGTAGCCTAATTGCTAGGGTTCACCGACCGTTACCTGGATCAGACACCATGCCATTCCCAAATGGATCTAGGCGCATGGTGCCTTGGAGTCAATTAGAGCATGACTTATTAGTGATGGGGATGATTAAGTATGGAAAAGGGAAATGGAGTGAAATTGCTAAGAACTTTGTGTGCAACAAGACTCCACAACAAGTTCAAAGCTATGCTACTAGCTTCTTCAGGTACCTACCAGACACATATGTGCACGGTTTAAGGAAAAGGAAAAGGAACAACATGATTGTTAACAATGATCTTGCAAAGGAAACTCTCACTCTTTTTCCAAAAGTTCCAACATTTTATGGAGGAGAAGCTAGCAGTAGCAAGAACACCAACAACTATGAAGCAAGCACTTCCATGACTCTTCCTGTTGTTTATGTTGGTCATGGAGAAGTTGATTTGGAACTTCGTTTAGGTTTAAATTAG
Protein sequence

>MsaT002616.1

MSVKTTDLTNFLDSPPSPHIYSSNAPMIPNFDHVSTNPYLHHHVEHHRYQTTLLVPPTAQGHTHESPRITTSWPKPATHGGSLIARVHRPLPGSDTMPFPNGSRRMVPWSQLEHDLLVMGMIKYGKGKWSEIAKNFVCNKTPQQVQSYATSFFRYLPDTYVHGLRKRKRNNMIVNNDLAKETLTLFPKVPTFYGGEASSSKNTNNYEASTSMTLPVVYVGHGEVDLELRLGLN*