AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009082

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009082 MtrunA17_Chr2g0309101 93.692 428 26 1 1 428 1 427 0.0 794
MsaG009082 MtrunA17_Chr2g0320281 45.055 91 49 1 9 99 31 120 4.47e-21 95.5
MsaG009082 MtrunA17_Chr4g0030891 42.857 91 51 1 9 99 33 122 1.05e-20 93.6
MsaG009082 MtrunA17_Chr4g0028131 45.556 90 48 1 10 99 31 119 2.63e-20 93.2
MsaG009082 MtrunA17_Chr1g0212601 42.105 95 53 2 10 103 13 106 9.90e-18 82.4
MsaG009082 MtrunA17_Chr8g0382651 41.000 100 57 2 1 99 22 120 2.92e-17 83.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009082 AT1G05577.1 37.209 430 171 16 5 417 7 354 3.38e-64 211
MsaG009082 AT2G28150.1 46.739 92 48 1 8 99 31 121 1.30e-23 103
MsaG009082 AT5G10150.1 39.474 114 67 2 1 114 36 147 2.82e-21 95.9
MsaG009082 AT3G46110.2 43.878 98 54 1 2 99 11 107 5.51e-21 93.6
MsaG009082 AT3G46110.1 43.878 98 54 1 2 99 11 107 6.13e-21 94.0
MsaG009082 AT5G10150.2 39.823 113 66 2 1 113 36 146 7.48e-21 94.4
MsaG009082 AT5G59790.1 41.758 91 52 1 9 99 45 134 1.07e-20 94.0
MsaG009082 AT5G59790.2 41.758 91 52 1 9 99 45 134 1.25e-20 93.6

Find 68 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGCATATTAGTAGGCTCCTT+AGG 0.302792 2:+52716959 None:intergenic
CATGATCAAAATGAACATTA+TGG 0.310101 2:-52716860 MsaT009082.1:CDS
CAAATCCACACTACCCCTTT+TGG 0.310924 2:-52717750 MsaT009082.1:intron
ATATGTGTGGCAGGATTTAA+TGG 0.312486 2:-52717826 MsaT009082.1:CDS
GGAGGATCAGCTAGGTGCTT+TGG 0.317386 2:-52716899 MsaT009082.1:CDS
GAGGATCAGCTAGGTGCTTT+GGG 0.353768 2:-52716898 MsaT009082.1:CDS
GACGTATTCATTATCAGAAA+TGG 0.358743 2:+52717785 None:intergenic
TAGGACCAAGCAAAGGATTC+AGG 0.359159 2:+52718001 None:intergenic
CAAACTTCTTATAAACCATT+TGG 0.361784 2:-52716352 MsaT009082.1:CDS
AGAAATCAGTCAGGATTCAT+TGG 0.387998 2:-52717377 MsaT009082.1:CDS
GCATATTAGTAGGCTCCTTA+GGG 0.407205 2:+52716960 None:intergenic
ACGTATTCATTATCAGAAAT+GGG 0.408507 2:+52717786 None:intergenic
CTAGGTGCTTTGGGACTGCT+TGG 0.417878 2:-52716889 MsaT009082.1:CDS
TCAGTTACTTACGAGCAAAT+TGG 0.422889 2:+52716325 None:intergenic
CAAAAGGTGGAGAAGTTAGA+AGG 0.438816 2:-52718690 MsaT009082.1:CDS
TGTGGATTTGTGATCCTTTG+AGG 0.457496 2:+52717763 None:intergenic
ACTTCTTATAAACCATTTGG+TGG 0.460136 2:-52716349 MsaT009082.1:CDS
ATGATTCAACAACCTCTTGT+AGG 0.473719 2:+52717982 None:intergenic
AAAGATATTAAGAGATGGCT+TGG 0.473793 2:-52718046 MsaT009082.1:intron
GATTCTTCTTCTGATAAAGA+TGG 0.475364 2:+52717454 None:intergenic
GTTCTTCATCTTGCTCGAAA+CGG 0.488480 2:-52718604 MsaT009082.1:CDS
TGCTCAGAAAATTGCCCCTA+AGG 0.491836 2:-52716975 MsaT009082.1:CDS
CATGACCACCCATGTGACTA+AGG 0.493290 2:+52718650 None:intergenic
CATAATTTGATGAGTAAGAA+GGG 0.494107 2:-52717208 MsaT009082.1:CDS
TGATAAAGTACATACCAAAA+GGG 0.495189 2:+52717736 None:intergenic
GAGCAAATTGGTCCACCAAA+TGG 0.501260 2:+52716337 None:intergenic
AAAAGGGCTGAGATTTGTAA+AGG 0.506932 2:-52716932 MsaT009082.1:CDS
TCATAATTTGATGAGTAAGA+AGG 0.513194 2:-52717209 MsaT009082.1:CDS
CAAGAGTGGATATGTGTGGC+AGG 0.519703 2:-52717835 MsaT009082.1:CDS
AAATCAAGCATGGAAACAAA+AGG 0.522656 2:-52718706 None:intergenic
AGATGGCTTGGTGAAGTGAG+AGG 0.523481 2:-52718034 MsaT009082.1:CDS
ACCTACCTGAATCCTTTGCT+TGG 0.529099 2:-52718006 MsaT009082.1:CDS
TTTCAGCTCGGACAGGTCAT+CGG 0.536641 2:-52717353 MsaT009082.1:CDS
GAGATGAAATAATCAAGAGC+AGG 0.544676 2:-52716399 MsaT009082.1:CDS
AAAATGAACATTATGGAGCC+AGG 0.547597 2:-52716853 MsaT009082.1:intron
CTTGAAAAGATATTAAGAGA+TGG 0.548408 2:-52718051 MsaT009082.1:intron
ATCAAATTATGATACAAAGA+AGG 0.549252 2:+52717220 None:intergenic
AATTTACTTCCTTAGTCACA+TGG 0.559038 2:-52718659 MsaT009082.1:CDS
AAATCTTGTAAAGGAATGAA+AGG 0.559264 2:-52715554 MsaT009082.1:CDS
TGTAAAGGAATGAAAGGCAT+GGG 0.564737 2:-52715548 MsaT009082.1:CDS
AGTGTTATCAGAAATCAGTC+AGG 0.567696 2:-52717386 MsaT009082.1:CDS
AAACACATGAAATCTTGTAA+AGG 0.567959 2:-52715563 MsaT009082.1:CDS
TTGTAAAGGAATGAAAGGCA+TGG 0.572745 2:-52715549 MsaT009082.1:CDS
GATAATGAATACGTCCTCAA+AGG 0.574396 2:-52717777 MsaT009082.1:CDS
CGTATTCATTATCAGAAATG+GGG 0.578739 2:+52717787 None:intergenic
CCTTTGCTTGGTCCTACAAG+AGG 0.578853 2:-52717994 MsaT009082.1:intron
ATTTGTAAAGGAGACAAACT+AGG 0.580114 2:-52716920 MsaT009082.1:CDS
ACATACCAAAAGGGGTAGTG+TGG 0.583512 2:+52717745 None:intergenic
TGAAGCTGTACAAGTTGAAG+AGG 0.593606 2:-52717500 MsaT009082.1:CDS
GTTGATGATGCAGGCAATGT+GGG 0.595370 2:-52715613 MsaT009082.1:intron
GATAAAGTACATACCAAAAG+GGG 0.611244 2:+52717737 None:intergenic
ATTTACTTCCTTAGTCACAT+GGG 0.617781 2:-52718658 MsaT009082.1:CDS
TACTTCCTTAGTCACATGGG+TGG 0.620447 2:-52718655 MsaT009082.1:CDS
ACAAACTAGGAGGATCAGCT+AGG 0.620815 2:-52716907 MsaT009082.1:CDS
TTCAGCTACAACAATTGCTG+AGG 0.631029 2:-52715522 MsaT009082.1:CDS
TCAAGCATGGAAACAAAAGG+TGG 0.631710 2:-52718703 None:intergenic
TGAAGAACACGAATGAGATG+AGG 0.633710 2:+52718619 None:intergenic
AACTATAGGAGGTACAAGAG+TGG 0.640091 2:-52717849 MsaT009082.1:intron
GTATTCATTATCAGAAATGG+GGG 0.640428 2:+52717788 None:intergenic
TGAGACGATGTTGATGACGT+TGG 0.649599 2:+52717118 None:intergenic
CGAAACGGTGTTTATCTCAG+AGG 0.652327 2:-52718589 MsaT009082.1:intron
ACCAAGCAAAGGATTCAGGT+AGG 0.685603 2:+52718005 None:intergenic
GGTACAAGAGTGGATATGTG+TGG 0.687025 2:-52717839 MsaT009082.1:CDS
CATATTAGTAGGCTCCTTAG+GGG 0.687178 2:+52716961 None:intergenic
TGTAAAGGAGACAAACTAGG+AGG 0.689066 2:-52716917 MsaT009082.1:CDS
AGTTGATGATGCAGGCAATG+TGG 0.692418 2:-52715614 MsaT009082.1:intron
CCTCTTGTAGGACCAAGCAA+AGG 0.696251 2:+52717994 None:intergenic
TTGGATTGGATGTGGAACTG+TGG 0.719863 2:-52717032 MsaT009082.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 52715466 52718719 52715466 ID=MsaG009082
Chr2 mRNA 52715466 52718719 52715466 ID=MsaT009082.1;Parent=MsaG009082
Chr2 exon 52715466 52715622 52715466 ID=MsaT009082.1.exon6;Parent=MsaT009082.1
Chr2 CDS 52715466 52715622 52715466 ID=cds.MsaT009082.1;Parent=MsaT009082.1
Chr2 exon 52716337 52716435 52716337 ID=MsaT009082.1.exon5;Parent=MsaT009082.1
Chr2 CDS 52716337 52716435 52716337 ID=cds.MsaT009082.1;Parent=MsaT009082.1
Chr2 exon 52716854 52717571 52716854 ID=MsaT009082.1.exon4;Parent=MsaT009082.1
Chr2 CDS 52716854 52717571 52716854 ID=cds.MsaT009082.1;Parent=MsaT009082.1
Chr2 exon 52717751 52717863 52717751 ID=MsaT009082.1.exon3;Parent=MsaT009082.1
Chr2 CDS 52717751 52717863 52717751 ID=cds.MsaT009082.1;Parent=MsaT009082.1
Chr2 exon 52717995 52718064 52717995 ID=MsaT009082.1.exon2;Parent=MsaT009082.1
Chr2 CDS 52717995 52718064 52717995 ID=cds.MsaT009082.1;Parent=MsaT009082.1
Chr2 exon 52718590 52718719 52718590 ID=MsaT009082.1.exon1;Parent=MsaT009082.1
Chr2 CDS 52718590 52718719 52718590 ID=cds.MsaT009082.1;Parent=MsaT009082.1
Gene Sequence

>MsaT009082.1

ATGGAAACAAAAGGTGGAGAAGTTAGAAGGCTTCACATAATTTACTTCCTTAGTCACATGGGTGGTCATGCAGAACATCCTCATCTCATTCGTGTTCTTCATCTTGCTCGAAACGGTGTTTATCTCAGAGATATTAAGAGATGGCTTGGTGAAGTGAGAGGAAGAGACCTACCTGAATCCTTTGCTTGGTCCTACAAGAGGAGGTACAAGAGTGGATATGTGTGGCAGGATTTAATGGATGACGACCTCATAACCCCCATTTCTGATAATGAATACGTCCTCAAAGGATCACAAATCCACACTACCCCTTTTGAAACTCATGCAATTAATTCAACAATCAATGAAAAGAAAACTGATACTGATGAAGCTGTACAAGTTGAAGAGGACAAACAAAAGCAGCAAAAGAAACCATCTTTATCAGAAGAAGAATCTGAAATTCAGAAAGAAACTGATTCAAAAAAGAATGATCTAAATCAAGTGTTATCAGAAATCAGTCAGGATTCATTGGTTTTCAGCTCGGACAGGTCATCGGTGACTGACGATGATTCTTCTTTTAAAGTTGAAGAAGAGAAGCTTTTAGGGAATGGAAAAGAAGGTTGCTTGAATGACAAGAATCATGAGAAGCTTGAGAGTTTCTCATTTCCTTCTTTGTATCATAATTTGATGAGTAAGAAGGGTAAAAAAGATGGTCACAATAACAAAACTGATACTACTACTACACCTCCTGATTCAACTTTTTCTACTCCAACGTCATCAACATCGTCTCAATCTCAATCCTCATTCACTAAGATTAAAAGCAATTCTATTAGAGTGACTAGTGTGTTCAAAAATTGGATTGGATGTGGAACTGTGGCAACAAATGATGCTGCTTTTGTCTCTATGAACCCTGCTCAGAAAATTGCCCCTAAGGAGCCTACTAATATGCCAGAAAAAAGGGCTGAGATTTGTAAAGGAGACAAACTAGGAGGATCAGCTAGGTGCTTTGGGACTGCTTGGAATTATCATGATCAAAATGAACATTATGGAGCCAGAAAAAGCTGTGATGGAGATGAAATAATCAAGAGCAGGAAAAAGCTAAGCGAATTATTGAGTCAAACTTCTTATAAACCATTTGGTGGACCAATTTGCTCGCAATGTGGGAAGTCATTCAAGCCTGAGAAAATGCACAAACACATGAAATCTTGTAAAGGAATGAAAGGCATGGGAACTTCAGCTACAACAATTGCTGAGGAAACACAGCTTCATAGATCAACTTCATCATCTAAAGATTACCTTTTGAAAAATTAA
Protein sequence

>MsaT009082.1

METKGGEVRRLHIIYFLSHMGGHAEHPHLIRVLHLARNGVYLRDIKRWLGEVRGRDLPESFAWSYKRRYKSGYVWQDLMDDDLITPISDNEYVLKGSQIHTTPFETHAINSTINEKKTDTDEAVQVEEDKQKQQKKPSLSEEESEIQKETDSKKNDLNQVLSEISQDSLVFSSDRSSVTDDDSSFKVEEEKLLGNGKEGCLNDKNHEKLESFSFPSLYHNLMSKKGKKDGHNNKTDTTTTPPDSTFSTPTSSTSSQSQSSFTKIKSNSIRVTSVFKNWIGCGTVATNDAAFVSMNPAQKIAPKEPTNMPEKRAEICKGDKLGGSARCFGTAWNYHDQNEHYGARKSCDGDEIIKSRKKLSELLSQTSYKPFGGPICSQCGKSFKPEKMHKHMKSCKGMKGMGTSATTIAEETQLHRSTSSSKDYLLKN*