AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039223

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039223 MtrunA17_Chr7g0255961 98.008 251 4 1 1 251 1 250 0.0 503
MsaG039223 MtrunA17_Chr1g0198801 49.215 191 90 3 59 243 141 330 8.54e-48 161
MsaG039223 MtrunA17_Chr3g0113721 40.104 192 97 4 68 243 31 220 3.68e-41 140
MsaG039223 MtrunA17_Chr2g0325521 46.369 179 89 3 71 243 54 231 3.06e-34 123
MsaG039223 MtrunA17_Chr4g0041051 42.021 188 92 5 68 243 60 242 2.50e-28 108
MsaG039223 MtrunA17_Chr5g0412371 34.615 208 115 5 32 233 7 199 8.29e-28 105
MsaG039223 MtrunA17_Chr5g0427361 39.080 174 78 3 59 206 19 190 1.04e-23 95.9
MsaG039223 MtrunA17_Chr4g0045901 37.805 164 97 4 70 230 69 230 7.60e-22 91.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039223 AT2G41130.1 62.100 219 77 5 18 233 10 225 3.20e-81 244
MsaG039223 AT3G56770.1 61.140 193 61 4 70 250 39 229 5.62e-73 223
MsaG039223 AT1G68810.1 45.729 199 96 3 57 243 151 349 1.95e-46 159
MsaG039223 AT3G25710.1 57.857 140 57 1 72 211 128 265 6.70e-44 151
MsaG039223 AT2G40200.1 41.579 190 94 4 71 245 58 245 9.02e-35 125
MsaG039223 AT4G38070.1 34.807 181 102 5 26 206 50 214 1.89e-22 93.2

Find 48 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACTGTTATTTCGTCGGTTT+CGG 0.235930 7:-86232909 None:intergenic
GTAATAGTTATTGTTGTTAT+TGG 0.237923 7:-86231644 None:intergenic
TTTCGATTAGGTCGGGAATT+AGG 0.256589 7:-86233009 None:intergenic
CAACAGATTCAGAATAATAT+TGG 0.265015 7:+86231511 MsaT039223.1:CDS
GAATTCACTCAGGTCTTTGT+TGG 0.378871 7:+86233159 MsaT039223.1:CDS
GAGACTTGAGGATTTCGATT+AGG 0.380801 7:-86233021 None:intergenic
AACAGATTCAGAATAATATT+GGG 0.426141 7:+86231512 MsaT039223.1:CDS
TGTTGCATCATAGTGCTACT+AGG 0.431842 7:-86231604 None:intergenic
GTCGAAAAGGCGTCGAGGGT+TGG 0.453710 7:+86233207 MsaT039223.1:CDS
GTTGAGTATTCAAAGAATGA+AGG 0.456323 7:-86231580 None:intergenic
GCTGAAATGGCCACACTTGG+TGG 0.460387 7:+86233064 MsaT039223.1:CDS
CACTCAGGTCTTTGTTGGAT+AGG 0.462227 7:+86233164 MsaT039223.1:CDS
AGGAAGCTGAGAAGAGAAGA+AGG 0.471315 7:+86231743 MsaT039223.1:CDS
GGCAATGACATCTCCGACGA+AGG 0.483297 7:+86232941 MsaT039223.1:CDS
GTTATTTCGTCGGTTTCGGA+TGG 0.483862 7:-86232905 None:intergenic
GTAATTTCAGAAACTTCAAA+GGG 0.483898 7:-86231670 None:intergenic
TTGAGGATTTCGATTAGGTC+GGG 0.493776 7:-86233016 None:intergenic
AGTAATTTCAGAAACTTCAA+AGG 0.496460 7:-86231671 None:intergenic
CTTGAGGATTTCGATTAGGT+CGG 0.504746 7:-86233017 None:intergenic
CCTTGGAGTTGCAAGGGAGA+AGG 0.512266 7:-86231801 None:intergenic
CTTGGAGTTGCAAGGGAGAA+GGG 0.521866 7:-86231800 None:intergenic
TTCGTCGGAGATGTCATTGC+CGG 0.522101 7:-86232939 None:intergenic
TTGAGTATTCAAAGAATGAA+GGG 0.546799 7:-86231579 None:intergenic
CCTTCTCCCTTGCAACTCCA+AGG 0.549041 7:+86231801 MsaT039223.1:CDS
ATAATAACCTTGGAGTTGCA+AGG 0.549750 7:-86231808 None:intergenic
AGAGCTGAAATGGCCACACT+TGG 0.551920 7:+86233061 MsaT039223.1:CDS
TCTTTGTTGGATAGGTCTAG+TGG 0.556474 7:+86233172 MsaT039223.1:CDS
AGATATGACTGTTATTTCGT+CGG 0.558305 7:-86232915 None:intergenic
GGTCTAGTGGTTGTAACGAT+AGG 0.565435 7:+86233185 MsaT039223.1:CDS
TAATAACCTTGGAGTTGCAA+GGG 0.573577 7:-86231807 None:intergenic
AAGGGAGAAGGGTACGAAGA+TGG 0.575464 7:-86231789 None:intergenic
ACGTGTTCTTCCACCAAGTG+TGG 0.575747 7:-86233074 None:intergenic
GAATATGAGTCTGCCTTCGT+CGG 0.576237 7:-86232954 None:intergenic
ATAGGTCGAAAAGGCGTCGA+GGG 0.576982 7:+86233203 MsaT039223.1:CDS
AGAGCTCTATCTTGCTGAGA+GGG 0.579252 7:-86231700 None:intergenic
GTTGTAACGATAGGTCGAAA+AGG 0.580273 7:+86233194 MsaT039223.1:CDS
TTTCAGAAACTTCAAAGGGG+TGG 0.587837 7:-86231666 None:intergenic
GAAATAACAGTCATATCTGC+CGG 0.595239 7:+86232920 MsaT039223.1:CDS
GATTCAGAATAATATTGGGA+TGG 0.603750 7:+86231516 MsaT039223.1:CDS
GGAAGCTGAGAAGAGAAGAA+GGG 0.604105 7:+86231744 MsaT039223.1:CDS
GATTAGGTCGGGAATTAGGT+CGG 0.607145 7:-86233005 None:intergenic
GAAGGGTACGAAGATGGTCA+AGG 0.633890 7:-86231783 None:intergenic
AGCTGCTTTGAAGAATCACA+AGG 0.645458 7:+86231723 MsaT039223.1:CDS
TAGAGCTCTATCTTGCTGAG+AGG 0.647696 7:-86231701 None:intergenic
GATAGGTCGAAAAGGCGTCG+AGG 0.658588 7:+86233202 MsaT039223.1:CDS
TGATTGATTTCAGACAGACA+AGG 0.674472 7:+86232802 MsaT039223.1:intron
TAATTTCAGAAACTTCAAAG+GGG 0.757536 7:-86231669 None:intergenic
ATGAAGGGTTGTTAGCAACG+AGG 0.773094 7:-86231564 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 86231502 86233249 86231502 ID=MsaG039223
Chr7 mRNA 86231502 86233249 86231502 ID=MsaT039223.1;Parent=MsaG039223
Chr7 exon 86231502 86231822 86231502 ID=MsaT039223.1.exon1;Parent=MsaT039223.1
Chr7 CDS 86231502 86231822 86231502 ID=cds.MsaT039223.1;Parent=MsaT039223.1
Chr7 exon 86232815 86233249 86232815 ID=MsaT039223.1.exon2;Parent=MsaT039223.1
Chr7 CDS 86232815 86233249 86232815 ID=cds.MsaT039223.1;Parent=MsaT039223.1
Gene Sequence

>MsaT039223.1

ATGCTTCAGCAACAGATTCAGAATAATATTGGGATGGAAAACAACTCTGAACTCTTTCAATTCCTCGTTGCTAACAACCCTTCATTCTTTGAATACTCAACACCTAGTAGCACTATGATGCAACAAAGTTTCTGCAGTTCTTCCAATAACAACAATAACTATTACCACCCCTTTGAAGTTTCTGAAATTACTGATACACCCTCTCAGCAAGATAGAGCTCTAGCTGCTTTGAAGAATCACAAGGAAGCTGAGAAGAGAAGAAGGGAAAGAATTAACTCTCACCTTGACCATCTTCGTACCCTTCTCCCTTGCAACTCCAAGACAGACAAGGCTTCACTTCTAGCAAAAGTAGTAGAACGTGTGAAAGAATTAAAGCAACAAACATCTCAAATCACACAACTCGAAACTGTTCCATCCGAAACCGACGAAATAACAGTCATATCTGCCGGCAATGACATCTCCGACGAAGGCAGACTCATATTCAAAGCTTCATTATGCTGCGAAGATCGCTCCGACCTAATTCCCGACCTAATCGAAATCCTCAAGTCTCTTCACCTAAAAACTCTCAGAGCTGAAATGGCCACACTTGGTGGAAGAACACGTAACGTTCTTGTTGTTGCTGCTGAGAAAGAACATAATAGCATTGAATCTATTCATTTTCTTCAGAATTCACTCAGGTCTTTGTTGGATAGGTCTAGTGGTTGTAACGATAGGTCGAAAAGGCGTCGAGGGTTGGATAGAAGAATGATGCCTTAA
Protein sequence

>MsaT039223.1

MLQQQIQNNIGMENNSELFQFLVANNPSFFEYSTPSSTMMQQSFCSSSNNNNNYYHPFEVSEITDTPSQQDRALAALKNHKEAEKRRRERINSHLDHLRTLLPCNSKTDKASLLAKVVERVKELKQQTSQITQLETVPSETDEITVISAGNDISDEGRLIFKASLCCEDRSDLIPDLIEILKSLHLKTLRAEMATLGGRTRNVLVVAAEKEHNSIESIHFLQNSLRSLLDRSSGCNDRSKRRRGLDRRMMP*