AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005914

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005914 MtrunA17_Chr1g0213311 97.015 402 11 1 1 401 1 402 0.0 808
MsaG005914 MtrunA17_Chr7g0214501 49.835 303 93 6 85 381 1 250 3.50e-77 241
MsaG005914 MtrunA17_Chr3g0079841 44.690 226 104 5 24 247 29 235 3.80e-52 175
MsaG005914 MtrunA17_Chr3g0143581 51.064 141 66 2 23 162 19 157 1.74e-43 149
MsaG005914 MtrunA17_Chr3g0143571 46.259 147 77 1 191 337 23 167 3.25e-34 125
MsaG005914 MtrunA17_Chr7g0214491 65.882 85 28 1 1 84 1 85 6.05e-34 122
MsaG005914 MtrunA17_Chr5g0435401 22.662 278 181 8 66 320 70 336 3.19e-11 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005914 AT1G04880.1 60.000 380 114 11 1 362 1 360 1.33e-134 393
MsaG005914 AT1G76110.1 44.643 336 162 8 2 334 12 326 9.28e-85 262
MsaG005914 AT3G13350.1 45.545 303 133 4 29 330 34 305 1.76e-82 255
MsaG005914 AT1G55650.1 36.562 320 154 7 12 330 11 282 1.75e-60 199

Find 95 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATCCACTTCTGTTTGGTTT+TGG 0.220656 1:+86570905 None:intergenic
ATTGCAGGATTCCTGTTATT+GGG 0.246287 1:-86573742 MsaT005914.1:intron
TATTGCAGGATTCCTGTTAT+TGG 0.282044 1:-86573743 MsaT005914.1:intron
TGTGGATTCATTGCCTGTTA+TGG 0.326537 1:-86570208 MsaT005914.1:CDS
GAAGCATTTGTAGCCGTTGA+TGG 0.327945 1:+86573239 None:intergenic
AATAATAGATTTGTTCATAA+TGG 0.330253 1:+86573180 None:intergenic
GTACCTCTCTTTGTCCTTCA+CGG 0.336959 1:+86570431 None:intergenic
GTATGTGAAAACTGCATCTT+TGG 0.346993 1:+86573003 None:intergenic
GTGGATTCATTGCCTGTTAT+GGG 0.359014 1:-86570207 MsaT005914.1:CDS
CGGCAGGATCTCAGGTTGTC+GGG 0.362545 1:-86571141 MsaT005914.1:CDS
AGATCATTAAAGATAGAAAA+TGG 0.378478 1:-86573289 MsaT005914.1:CDS
GCTCAAAGCTGTCTCTTTCA+TGG 0.381404 1:+86574054 None:intergenic
GCATTCAACATGTCAGTATC+TGG 0.384305 1:+86570321 None:intergenic
TGCATCTTTGGAGCAGGAGC+TGG 0.387029 1:+86573015 None:intergenic
CAGGTTGTCGGGGTCATTGA+TGG 0.395002 1:-86571130 MsaT005914.1:CDS
TATCTAGTTACTGTCACAAT+TGG 0.419081 1:-86571091 MsaT005914.1:CDS
TCAGCACCAACTCCCATAAC+AGG 0.424034 1:+86570195 None:intergenic
AAATTGTATCCACTTCTGTT+TGG 0.426908 1:+86570899 None:intergenic
CTCAGCAATGGGATCATCTT+CGG 0.429472 1:-86571161 MsaT005914.1:intron
TCATTGCCTGTTATGGGAGT+TGG 0.435413 1:-86570201 MsaT005914.1:CDS
ATCATCTTCGGCAGGATCTC+AGG 0.435568 1:-86571149 MsaT005914.1:CDS
ATTGATGGGAAATTTGATAG+TGG 0.443834 1:-86571115 MsaT005914.1:CDS
AGAGAGGTACATAACAGAAA+TGG 0.452384 1:-86570418 MsaT005914.1:CDS
TCGGCAGGATCTCAGGTTGT+CGG 0.453538 1:-86571142 MsaT005914.1:CDS
TGTTGTTAGCAGGAACACTA+TGG 0.456419 1:+86571005 None:intergenic
GCTGTCTCTTTCATGGGTAA+TGG 0.461532 1:+86574061 None:intergenic
CAAGCTCTTCATACTTAGCT+TGG 0.463066 1:-86573978 MsaT005914.1:CDS
GAACATACCGGAAGTTGTAT+TGG 0.464656 1:+86573139 None:intergenic
TGGTGGGATGCTGGCAGCAC+AGG 0.472613 1:+86571025 None:intergenic
AACTGGACCAATACAACTTC+CGG 0.475197 1:-86573146 MsaT005914.1:intron
AGTTACTGTCACAATTGGTT+CGG 0.475294 1:-86571086 MsaT005914.1:CDS
GGAAGGACCGAGAGATTAGT+AGG 0.477594 1:-86570832 MsaT005914.1:CDS
TTCACCTATGGCAACATATG+AGG 0.483062 1:-86574017 MsaT005914.1:CDS
AACATGTCAGTATCTGGTTC+AGG 0.486501 1:+86570327 None:intergenic
GCGGTCACGTTGTTGTTAGC+AGG 0.489436 1:+86570995 None:intergenic
CAAGCTAAGTATGAAGAGCT+TGG 0.497014 1:+86573979 None:intergenic
CTTTGGAGCAGGAGCTGGGA+TGG 0.499860 1:+86573020 None:intergenic
GGAACACTATGGTGGGATGC+TGG 0.501068 1:+86571016 None:intergenic
TTTAACTGTTGAAAGACAGC+TGG 0.504737 1:+86572964 None:intergenic
CCAGGGAGCCTACATGAACT+TGG 0.508162 1:+86573931 None:intergenic
TGATGACTATGAAGATGATA+AGG 0.508495 1:-86570250 MsaT005914.1:CDS
GTGTCCATCGTCGCCGACGC+AGG 0.509894 1:-86570964 MsaT005914.1:CDS
TTTGTTGAAGTGACTTCTCG+TGG 0.510774 1:-86573692 MsaT005914.1:CDS
GGAGAAGCTCCACACTCTCA+TGG 0.512213 1:-86573957 MsaT005914.1:CDS
AAGCTAAGTATGAAGAGCTT+GGG 0.516105 1:+86573980 None:intergenic
CGGTCCTTCCCTCGGTGAAG+AGG 0.519858 1:+86570845 None:intergenic
GCATCTTTGGAGCAGGAGCT+GGG 0.522935 1:+86573016 None:intergenic
CGAGAGATTAGTAGGACCAT+TGG 0.525975 1:-86570824 MsaT005914.1:CDS
TGGTGAATATCCTTCACCTA+TGG 0.528306 1:-86574029 MsaT005914.1:CDS
TTGCAGGATTCCTGTTATTG+GGG 0.528895 1:-86573741 MsaT005914.1:intron
TAATCTCTCGGTCCTTCCCT+CGG 0.534837 1:+86570837 None:intergenic
GAAAACTGCATCTTTGGAGC+AGG 0.538241 1:+86573009 None:intergenic
CTCAAAGCTGTCTCTTTCAT+GGG 0.539064 1:+86574055 None:intergenic
TCTTCCTGCGTCGGCGACGA+TGG 0.540297 1:+86570960 None:intergenic
TTGAAGTGACTTCTCGTGGA+GGG 0.541093 1:-86573688 MsaT005914.1:CDS
CCGTCTGAACTACTCTGCTC+CGG 0.545473 1:+86570276 None:intergenic
GATCATTCTTCAACTTCTCA+CGG 0.547465 1:+86570388 None:intergenic
CAATGGTCCTACTAATCTCT+CGG 0.547885 1:+86570825 None:intergenic
GTTAATTCTGCTCCGCCTGA+AGG 0.550930 1:-86572940 MsaT005914.1:intron
GTAGGACCATTGGTGAACTC+TGG 0.551646 1:-86570814 MsaT005914.1:CDS
CACCCAAAACCAAACAGAAG+TGG 0.557660 1:-86570908 MsaT005914.1:CDS
AGGTTGTCGGGGTCATTGAT+GGG 0.564891 1:-86571129 MsaT005914.1:CDS
TCATATGTTGCCATAGGTGA+AGG 0.568033 1:+86574019 None:intergenic
TCTCTGATTTCTTCCTGCGT+CGG 0.568830 1:+86570951 None:intergenic
GGCAGACTCTCTTCAAACTC+CGG 0.569431 1:-86570295 MsaT005914.1:CDS
GAGAAGCTCCACACTCTCAT+GGG 0.571795 1:-86573956 MsaT005914.1:CDS
TCTTTGCAGAACAGCATCCA+AGG 0.571889 1:-86570874 MsaT005914.1:CDS
GCAATGGGATCATCTTCGGC+AGG 0.580770 1:-86571157 MsaT005914.1:CDS
TCAGGAAATCGCTGTTGAAG+TGG 0.581487 1:+86570345 None:intergenic
AAAGAGACAGCTTTGAGCCA+TGG 0.588397 1:-86574049 MsaT005914.1:CDS
GGCTAAAACCTCTTCACCGA+GGG 0.597780 1:-86570853 MsaT005914.1:CDS
TGTTAGCAGGAACACTATGG+TGG 0.605828 1:+86571008 None:intergenic
AAGACAGCTGGTTGAACTTG+TGG 0.608568 1:+86572976 None:intergenic
CCGGAGCAGAGTAGTTCAGA+CGG 0.612929 1:-86570276 MsaT005914.1:CDS
CTATGAAGATGATAAGGCGA+AGG 0.615408 1:-86570244 MsaT005914.1:CDS
TTATCAAGATAAAGCCGTGA+AGG 0.616173 1:-86570445 MsaT005914.1:CDS
CTTGTTCCAGAGTTCACCAA+TGG 0.619707 1:+86570808 None:intergenic
ACCTCCTCATATGTTGCCAT+AGG 0.625420 1:+86574013 None:intergenic
AAAACCTCTTCACCGAGGGA+AGG 0.626858 1:-86570849 MsaT005914.1:CDS
ACCTATGGCAACATATGAGG+AGG 0.630539 1:-86574014 MsaT005914.1:CDS
AACAACGTGACCGCCTCTGT+CGG 0.631474 1:-86570986 MsaT005914.1:CDS
GTTGAAGTGACTTCTCGTGG+AGG 0.634997 1:-86573689 MsaT005914.1:CDS
GGCAGGATCTCAGGTTGTCG+GGG 0.638448 1:-86571140 MsaT005914.1:CDS
TGCAGGATTCCTGTTATTGG+GGG 0.639336 1:-86573740 MsaT005914.1:intron
AAGCCGTGAAGGACAAAGAG+AGG 0.641251 1:-86570434 MsaT005914.1:CDS
ATTGGTTCGGAGAAACTCAA+AGG 0.644223 1:-86571073 MsaT005914.1:CDS
GCGACGATGGACACCGACAG+AGG 0.659779 1:+86570973 None:intergenic
TACTGACATGTTGAATGCTG+AGG 0.661079 1:-86570316 MsaT005914.1:CDS
GAGAAGTCACTTCAACAAAG+AGG 0.662036 1:+86573696 None:intergenic
ACTTGGTGCCCATGAGAGTG+TGG 0.664789 1:+86573948 None:intergenic
ACGATGGACACCGACAGAGG+CGG 0.677611 1:+86570976 None:intergenic
GCAAAGCAAAGACCTTCAGG+CGG 0.704080 1:+86572928 None:intergenic
TAGGTGAAGGATATTCACCA+TGG 0.732815 1:+86574032 None:intergenic
AGGCTAAAACCTCTTCACCG+AGG 0.737163 1:-86570854 MsaT005914.1:CDS
GTTAGCAGGAACACTATGGT+GGG 0.739497 1:+86571009 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 86570188 86574113 86570188 ID=MsaG005914
Chr1 mRNA 86570188 86574113 86570188 ID=MsaT005914.1;Parent=MsaG005914
Chr1 exon 86570188 86570469 86570188 ID=MsaT005914.1.exon6;Parent=MsaT005914.1
Chr1 CDS 86570188 86570469 86570188 ID=cds.MsaT005914.1;Parent=MsaT005914.1
Chr1 exon 86570787 86571178 86570787 ID=MsaT005914.1.exon5;Parent=MsaT005914.1
Chr1 CDS 86570787 86571178 86570787 ID=cds.MsaT005914.1;Parent=MsaT005914.1
Chr1 exon 86572941 86573063 86572941 ID=MsaT005914.1.exon4;Parent=MsaT005914.1
Chr1 CDS 86572941 86573063 86572941 ID=cds.MsaT005914.1;Parent=MsaT005914.1
Chr1 exon 86573147 86573309 86573147 ID=MsaT005914.1.exon3;Parent=MsaT005914.1
Chr1 CDS 86573147 86573309 86573147 ID=cds.MsaT005914.1;Parent=MsaT005914.1
Chr1 exon 86573679 86573757 86573679 ID=MsaT005914.1.exon2;Parent=MsaT005914.1
Chr1 CDS 86573679 86573757 86573679 ID=cds.MsaT005914.1;Parent=MsaT005914.1
Chr1 exon 86573944 86574113 86573944 ID=MsaT005914.1.exon1;Parent=MsaT005914.1
Chr1 CDS 86573944 86574113 86573944 ID=cds.MsaT005914.1;Parent=MsaT005914.1
Gene Sequence

>MsaT005914.1

ATGGCATCAACATCTTGTTTTAGTAATAGTCCATTACCCATGAAAGAGACAGCTTTGAGCCATGGTGAATATCCTTCACCTATGGCAACATATGAGGAGGTTGTAGACAATCCCAAGCTCTTCATACTTAGCTTGGAGAAGCTCCACACTCTCATGGGCACCAAGTTCATGATTCCTGTTATTGGGGGAAGGGAATTGGATTTACATCGCCTCTTTGTTGAAGTGACTTCTCGTGGAGGGTTTGAAAAAATCATTAAAGATAGAAAATGGAAAGAAGTAACTTTAGTTTTCAATTTTCCATCAACGGCTACAAATGCTTCTTTTGTGCTGCGGAAGTACTATACTTCATTACTCTACCATTATGAACAAATCTATTATTTTAAAGCTCGCAACTGGACCAATACAACTTCCGATGTTTTGCAGAGTCAATCATCCATCCCAGCTCCTGCTCCAAAGATGCAGTTTTCACATACTTCACCACAAGTTCAACCAGCTGTCTTTCAACAGTTAAAAGTTAATTCTGCTCCGCCTGAAGCAATGGGATCATCTTCGGCAGGATCTCAGGTTGTCGGGGTCATTGATGGGAAATTTGATAGTGGTTATCTAGTTACTGTCACAATTGGTTCGGAGAAACTCAAAGGCGTACTTTATCAAGCTCCACAAAATCCTGTGCTGCCAGCATCCCACCATAGTGTTCCTGCTAACAACAACGTGACCGCCTCTGTCGGTGTCCATCGTCGCCGACGCAGGAAGAAATCAGAGATGAAAAAGAGAGATCCTGCTCACCCAAAACCAAACAGAAGTGGATACAATTTCTTCTTTGCAGAACAGCATCCAAGGCTAAAACCTCTTCACCGAGGGAAGGACCGAGAGATTAGTAGGACCATTGGTGAACTCTGGAACAAGTTACCTGAATCAGAAAAAGCAGTTTATCAAGATAAAGCCGTGAAGGACAAAGAGAGGTACATAACAGAAATGGAGTATTACCGTGAGAAGTTGAAGAATGATCAAGTCATCAGTGATGCTGTGCCACTTCAACAGCGATTTCCTGAACCAGATACTGACATGTTGAATGCTGAGGCAGACTCTCTTCAAACTCCGGAGCAGAGTAGTTCAGACGGAAGTGATGACTATGAAGATGATAAGGCGAAGGAGAAAGATTTTAGTGTGGATTCATTGCCTGTTATGGGAGTTGGTGCTGAATTATGA
Protein sequence

>MsaT005914.1

MASTSCFSNSPLPMKETALSHGEYPSPMATYEEVVDNPKLFILSLEKLHTLMGTKFMIPVIGGRELDLHRLFVEVTSRGGFEKIIKDRKWKEVTLVFNFPSTATNASFVLRKYYTSLLYHYEQIYYFKARNWTNTTSDVLQSQSSIPAPAPKMQFSHTSPQVQPAVFQQLKVNSAPPEAMGSSSAGSQVVGVIDGKFDSGYLVTVTIGSEKLKGVLYQAPQNPVLPASHHSVPANNNVTASVGVHRRRRRKKSEMKKRDPAHPKPNRSGYNFFFAEQHPRLKPLHRGKDREISRTIGELWNKLPESEKAVYQDKAVKDKERYITEMEYYREKLKNDQVISDAVPLQQRFPEPDTDMLNAEADSLQTPEQSSSDGSDDYEDDKAKEKDFSVDSLPVMGVGAEL*