AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG019842

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019842 MtrunA17_Chr4g0024181 91.228 57 5 0 96 152 18 74 9.48e-33 110
MsaG019842 MtrunA17_Chr2g0322831 68.000 50 16 0 102 151 30 79 2.98e-18 74.3
MsaG019842 MtrunA17_Chr2g0288361 62.500 48 18 0 104 151 27 74 1.50e-16 69.7
MsaG019842 MtrunA17_Chr5g0396771 60.417 48 19 0 104 151 37 84 1.96e-15 67.4
MsaG019842 MtrunA17_Chr4g0044421 50.943 53 25 1 95 147 60 111 3.09e-12 61.2
MsaG019842 MtrunA17_Chr7g0229101 57.143 42 18 0 106 147 30 71 5.94e-12 60.8
MsaG019842 MtrunA17_Chr4g0037141 50.943 53 25 1 95 147 60 111 8.21e-12 61.2
MsaG019842 MtrunA17_Chr5g0435101 49.057 53 26 1 95 147 59 110 8.40e-12 60.5
MsaG019842 MtrunA17_Chr4g0055981 61.905 42 16 0 106 147 113 154 1.68e-11 60.1
MsaG019842 MtrunA17_Chr4g0070641 50.000 52 25 1 95 146 60 110 1.98e-11 58.9
MsaG019842 MtrunA17_Chr7g0275911 49.091 55 27 1 95 149 60 113 2.57e-11 59.7
MsaG019842 MtrunA17_Chr8g0360111 58.537 41 17 0 106 146 83 123 3.21e-11 59.7
MsaG019842 MtrunA17_Chr4g0070611 50.000 52 25 1 95 146 60 110 3.75e-11 59.7
MsaG019842 MtrunA17_Chr7g0240821 54.545 44 20 0 106 149 59 102 3.89e-11 58.9
MsaG019842 MtrunA17_Chr3g0121241 55.556 45 20 0 105 149 99 143 5.32e-11 59.3
MsaG019842 MtrunA17_Chr7g0220341 49.057 53 26 1 95 147 75 126 9.33e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019842 AT1G01380.1 65.306 49 14 1 104 149 32 80 1.87e-15 67.4
MsaG019842 AT2G46410.1 73.171 41 11 0 104 144 36 76 4.82e-15 66.6
MsaG019842 AT4G01060.3 63.415 41 15 0 104 144 31 71 5.21e-13 60.8
MsaG019842 AT4G01060.2 63.415 41 15 0 104 144 30 70 7.02e-13 60.5
MsaG019842 AT4G01060.1 63.415 41 15 0 104 144 33 73 7.56e-13 60.5
MsaG019842 AT5G53200.1 44.737 76 32 2 79 149 6 76 9.07e-13 61.2
MsaG019842 AT1G22640.3 50.943 53 25 1 95 147 3 54 7.42e-12 60.8
MsaG019842 AT4G38620.1 50.943 53 25 1 95 147 60 111 1.19e-11 61.2
MsaG019842 AT5G35550.2 62.500 40 14 1 107 146 77 115 1.36e-11 60.8
MsaG019842 AT1G22640.1 50.943 53 25 1 95 147 60 111 1.90e-11 60.5
MsaG019842 AT5G35550.1 62.500 40 14 1 107 146 74 112 2.25e-11 60.5
MsaG019842 AT2G30420.1 56.522 46 20 0 104 149 38 83 4.97e-11 57.0
MsaG019842 AT4G09460.1 45.283 53 28 1 95 147 60 111 5.35e-11 58.9
MsaG019842 AT5G14750.4 52.273 44 21 0 106 149 13 56 8.32e-11 57.0
MsaG019842 AT5G14750.2 52.273 44 21 0 106 149 13 56 8.32e-11 57.0

Find 26 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAGGAAATGCTTATTAAAA+TGG 0.190572 4:+38460965 MsaT019842.1:CDS
ATTTCTTCTGCTGTTCTTCC+TGG 0.203565 4:-38461400 None:intergenic
AAATGGTTTATAATCTTGTT+GGG 0.339232 4:+38460982 MsaT019842.1:CDS
TTGATTGCTGGAAGAATTCC+AGG 0.377394 4:+38461382 MsaT019842.1:CDS
AAAATGGTTTATAATCTTGT+TGG 0.380870 4:+38460981 MsaT019842.1:CDS
TTCTTCTAAAACTTTGTTGT+CGG 0.396291 4:-38455877 None:intergenic
CATAGGTGGTCATTGATTGC+TGG 0.399125 4:+38461370 MsaT019842.1:intron
CTTGCTAATGCTACAAGAAC+AGG 0.412231 4:+38455759 MsaT019842.1:CDS
TCAACCTTTGAACCTTGGTC+TGG 0.418134 4:-38460930 None:intergenic
AAAATTCAACCTTTGAACCT+TGG 0.444402 4:-38460935 None:intergenic
TGAGGTTTGCATGAAGAACT+TGG 0.467589 4:+38455707 None:intergenic
GAATGAAACTTGCAAGATGA+TGG 0.477942 4:+38455812 MsaT019842.1:CDS
GAAGAACTTGGAAGTGCAGA+TGG 0.493810 4:+38455719 MsaT019842.1:CDS
TTTATAATCTTGTTGGGGAG+AGG 0.507013 4:+38460988 MsaT019842.1:CDS
TCTTGTAGCATTAGCAAGGT+TGG 0.515054 4:-38455754 None:intergenic
TCAGGGATGTCTTACAAACT+AGG 0.533872 4:+38455931 MsaT019842.1:CDS
CTGTTCTTGTAGCATTAGCA+AGG 0.555675 4:-38455758 None:intergenic
AATGGTTTATAATCTTGTTG+GGG 0.563787 4:+38460983 MsaT019842.1:CDS
GCAACCAGACCAAGGTTCAA+AGG 0.564494 4:+38460926 MsaT019842.1:CDS
ATTCCTACGATTATCTAGAG+TGG 0.591761 4:-38455793 None:intergenic
AGAATTCGAGCTATTAGTGA+AGG 0.607609 4:+38455896 MsaT019842.1:CDS
GCACCACTCTAGATAATCGT+AGG 0.619750 4:+38455790 MsaT019842.1:CDS
ACTTTGTTGTCGGTAATCAG+AGG 0.628650 4:-38455867 None:intergenic
AAGAACTTGGAAGTGCAGAT+GGG 0.633166 4:+38455720 MsaT019842.1:CDS
AACTTGCAAGATGATGGAAG+TGG 0.645940 4:+38455818 MsaT019842.1:CDS
ACAGATCAGCAACCAGACCA+AGG 0.650716 4:+38460918 MsaT019842.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 38455717 38461462 38455717 ID=MsaG019842
Chr4 mRNA 38455717 38461462 38455717 ID=MsaT019842.1;Parent=MsaG019842
Chr4 exon 38455717 38455956 38455717 ID=MsaT019842.1.exon1;Parent=MsaT019842.1
Chr4 CDS 38455717 38455956 38455717 ID=cds.MsaT019842.1;Parent=MsaT019842.1
Chr4 exon 38457723 38457765 38457723 ID=MsaT019842.1.exon2;Parent=MsaT019842.1
Chr4 CDS 38457723 38457765 38457723 ID=cds.MsaT019842.1;Parent=MsaT019842.1
Chr4 exon 38460922 38461009 38460922 ID=MsaT019842.1.exon3;Parent=MsaT019842.1
Chr4 CDS 38460922 38461009 38460922 ID=cds.MsaT019842.1;Parent=MsaT019842.1
Chr4 exon 38461375 38461462 38461375 ID=MsaT019842.1.exon4;Parent=MsaT019842.1
Chr4 CDS 38461375 38461462 38461375 ID=cds.MsaT019842.1;Parent=MsaT019842.1
Gene Sequence

>MsaT019842.1

ATGAAGAACTTGGAAGTGCAGATGGGACAATTGTCTACCAACCTTGCTAATGCTACAAGAACAGGATTTTCTGGCACCACTCTAGATAATCGTAGGAATGAAACTTGCAAGATGATGGAAGTGGAAAAGAATGAAGAGAAAGAGAATGATCCTCTGATTACCGACAACAAAGTTTTAGAAGAATTCGAGCTATTAGTGAAGGAATTAAAAACTCTCAGGGATGTCTTACAAACTAGGAAACAAAGACGAAAGTTCAGTCAAGTGAGTGAGATTCTAGATGCATATCAGCAACCAGACCAAGGTTCAAAGGTTGAATTTTCTGAAGAAGAGGAAATGCTTATTAAAATGGTTTATAATCTTGTTGGGGAGAGGTGGTCATTGATTGCTGGAAGAATTCCAGGAAGAACAGCAGAAGAAATAGAAAAATATTGGAATTCAAGACGCTCGACTAGCGAATGA
Protein sequence

>MsaT019842.1

MKNLEVQMGQLSTNLANATRTGFSGTTLDNRRNETCKMMEVEKNEEKENDPLITDNKVLEEFELLVKELKTLRDVLQTRKQRRKFSQVSEILDAYQQPDQGSKVEFSEEEEMLIKMVYNLVGERWSLIAGRIPGRTAEEIEKYWNSRRSTSE*