AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG035149


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035149 MtrunA17_Chr7g0215281 97.010 301 9 0 1 301 1 301 0.0 597
MsaG035149 MtrunA17_Chr6g0457431 80.625 160 26 2 1 160 1 155 1.95e-91 268
MsaG035149 MtrunA17_Chr6g0469271 44.395 223 114 4 1 213 1 223 6.46e-58 186
MsaG035149 MtrunA17_Chr4g0053911 61.417 127 46 1 3 129 1 124 1.40e-54 177
MsaG035149 MtrunA17_Chr6g0470651 51.149 174 68 6 1 164 1 167 9.77e-53 172
MsaG035149 MtrunA17_Chr5g0401401 64.545 110 39 0 3 112 1 110 3.88e-52 171
MsaG035149 MtrunA17_Chr6g0470631 50.575 174 69 6 1 164 1 167 1.63e-51 169
MsaG035149 MtrunA17_Chr1g0209841 42.029 207 98 5 1 196 1 196 4.44e-45 152
MsaG035149 MtrunA17_Chr1g0207471 60.577 104 41 0 3 106 1 104 6.19e-45 151
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035149 AT3G02550.1 60.351 285 69 4 1 281 1 245 1.14e-113 329
MsaG035149 AT1G67100.1 82.270 141 22 2 1 138 1 141 1.11e-82 249
MsaG035149 AT1G68510.1 62.941 170 53 2 1 160 1 170 3.50e-74 228
MsaG035149 AT3G49940.1 70.000 110 33 0 3 112 1 110 2.80e-55 180
MsaG035149 AT5G67420.2 65.455 110 38 0 3 112 1 110 3.93e-54 177
MsaG035149 AT5G67420.1 65.455 110 38 0 3 112 1 110 3.93e-54 177
MsaG035149 AT4G37540.1 66.667 111 37 0 3 113 1 111 3.38e-53 174

Find 97 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGCATTAGCTTGTGATTC+AGG 0.204656 7:+8072646 None:intergenic
AAACCGACTGAACCGTAAAT+TGG 0.257065 7:+8072226 None:intergenic
GGCTCATGGAATGTGGAGTT+GGG 0.290152 7:-8071599 MsaT035149.1:CDS
ACCAGCACGACCGTAGAATT+TGG 0.324902 7:+8072612 None:intergenic
TGGAGAGGAAAAGGTTGGTT+TGG 0.330903 7:-8071711 MsaT035149.1:CDS
GCAGCTGCTTCCGAAGTTAT+TGG 0.331265 7:+8072133 None:intergenic
TTGACATAGCTGCCAGCTTC+CGG 0.350615 7:+8072195 None:intergenic
GTTGGTTTGGAGCTGACTCT+TGG 0.364251 7:-8071698 MsaT035149.1:CDS
GTCTGAGGCGGTTGCGGTGG+TGG 0.368975 7:-8071837 MsaT035149.1:CDS
CGAATAGTGAATCCAATTTA+CGG 0.370383 7:-8072238 MsaT035149.1:CDS
CTCTCACTGGTTCGGTCAAC+CGG 0.379598 7:+8071734 None:intergenic
CTCTTCTTGTATCTTCGGCT+TGG 0.382411 7:+8071982 None:intergenic
GCCTACCGGTTCGGTTGAAC+CGG 0.395865 7:-8071912 MsaT035149.1:CDS
CCTCTCCACTCTCACTGGTT+CGG 0.397640 7:+8071726 None:intergenic
GGAGTTGGGGCTTCAATATC+CGG 0.399627 7:-8071585 MsaT035149.1:CDS
GAAAAGAAGGGTTGTATTGA+AGG 0.400262 7:-8071633 MsaT035149.1:CDS
CGAGACATGACGGATGTCAT+AGG 0.402077 7:+8072084 None:intergenic
TGGCTCATGGAATGTGGAGT+TGG 0.402516 7:-8071600 MsaT035149.1:CDS
TTGGTTTGGAGCTGACTCTT+GGG 0.409856 7:-8071697 MsaT035149.1:CDS
GATCTTATTTAGAGATGAAC+CGG 0.409879 7:-8071777 MsaT035149.1:CDS
CAGTGAGAGTGGAGAGGAAA+AGG 0.413870 7:-8071720 MsaT035149.1:CDS
GCTGACTCTTGGGCTTGAAC+CGG 0.417029 7:-8071687 MsaT035149.1:CDS
CGGTTCATCACCTCCTCAAC+CGG 0.421068 7:+8071893 None:intergenic
CCACCAGTCTGAGGCGGTTG+CGG 0.421397 7:-8071843 MsaT035149.1:CDS
GTTTATTATGGTCCGGAAGC+TGG 0.428216 7:-8072207 MsaT035149.1:CDS
GAGGCGGTTGCGGTGGTGGA+TGG 0.434659 7:-8071833 MsaT035149.1:CDS
ACCGGTAGGCTCAGTTGAAC+CGG 0.436384 7:+8071925 None:intergenic
GAGAACAAGGGGTTTGAATC+CGG 0.439110 7:-8071944 MsaT035149.1:CDS
TTCAACTGAGCCTACCGGTT+CGG 0.441943 7:-8071921 MsaT035149.1:CDS
ACGGTTCAGTCGGTTTATTA+TGG 0.442488 7:-8072219 MsaT035149.1:CDS
CGAACCTGGACGAAGATGTT+CGG 0.443982 7:+8072564 None:intergenic
TGGCATTAGCTTGTGATTCA+GGG 0.445704 7:+8072647 None:intergenic
GAACCTGGACGAAGATGTTC+GGG 0.446611 7:+8072565 None:intergenic
GTATTGAAGGATTGTGGTGT+TGG 0.451012 7:-8071620 MsaT035149.1:CDS
GAGAGTGGAGAGGAAAAGGT+TGG 0.454972 7:-8071716 MsaT035149.1:CDS
CTTCGGAAGCAGCTGCTAAC+GGG 0.456571 7:-8072126 MsaT035149.1:CDS
GCCAAATTCTACGGTCGTGC+TGG 0.457716 7:-8072613 MsaT035149.1:CDS
GAAGCAGCTGCTAACGGGAG+GGG 0.464479 7:-8072121 MsaT035149.1:CDS
ACATGATAAACACGTGAAAC+CGG 0.466817 7:+8071668 None:intergenic
GTGTTTCTCGCCAAATTCTA+CGG 0.467341 7:-8072622 MsaT035149.1:CDS
CTCAACCGGTTCAACCGAAC+CGG 0.484741 7:+8071907 None:intergenic
CGGTTCGGTTGAACCGGTTG+AGG 0.488130 7:-8071906 MsaT035149.1:CDS
ATTTAGAGATGAACCGGAGT+TGG 0.489333 7:-8071771 MsaT035149.1:CDS
AAAGAGTAGTAATGAGAACA+AGG 0.493430 7:-8071957 MsaT035149.1:CDS
TGGTTCCTGTGAAGAAAAGA+AGG 0.496741 7:-8071646 MsaT035149.1:CDS
AAGCCAAACCCGGTCTAAGC+CGG 0.498806 7:+8071566 None:intergenic
TCCGAAGTTATTGGTGTGAT+CGG 0.501864 7:+8072142 None:intergenic
ATGTCATAGGCTTTGAGTGG+TGG 0.508004 7:+8072097 None:intergenic
GAGATGAACCGGAGTTGGAC+CGG 0.508299 7:-8071766 MsaT035149.1:CDS
CCACCGCAACCGCCTCAGAC+TGG 0.514674 7:+8071840 None:intergenic
AGGATTGTGGTGTTGGCTCA+TGG 0.516288 7:-8071613 MsaT035149.1:CDS
GTTCGGGACCGGCGTTAACA+AGG 0.520425 7:+8072581 None:intergenic
GGAAAACTCGGCCGCGTCTA+CGG 0.520701 7:-8072056 MsaT035149.1:CDS
CCAGTCTGAGGCGGTTGCGG+TGG 0.522968 7:-8071840 MsaT035149.1:CDS
CGGTTGAGGAGGTGATGAAC+CGG 0.528263 7:-8071892 MsaT035149.1:CDS
CATCCGTCATGTCTCGAAAG+AGG 0.536392 7:-8072077 MsaT035149.1:CDS
ACTTCGGAAGCAGCTGCTAA+CGG 0.537457 7:-8072127 MsaT035149.1:CDS
TGTCATAGGCTTTGAGTGGT+GGG 0.543552 7:+8072098 None:intergenic
GGTTGTAGAGTACTAAGAAA+AGG 0.544678 7:-8072718 MsaT035149.1:CDS
GCTCATGGAATGTGGAGTTG+GGG 0.544869 7:-8071598 MsaT035149.1:CDS
TTCGGTTGAACCGGTTGAGG+AGG 0.552024 7:-8071903 MsaT035149.1:CDS
GGTCCCGAACATCTTCGTCC+AGG 0.558956 7:-8072568 MsaT035149.1:intron
CGGAAGCAGCTGCTAACGGG+AGG 0.561761 7:-8072123 MsaT035149.1:CDS
TCCGGTTCAACTGAGCCTAC+CGG 0.563007 7:-8071926 MsaT035149.1:CDS
TCAGTCGGTTTATTATGGTC+CGG 0.563725 7:-8072214 MsaT035149.1:CDS
TGGACGAAGATGTTCGGGAC+CGG 0.564250 7:+8072570 None:intergenic
GTTGACCGAACCAGTGAGAG+TGG 0.575650 7:-8071731 MsaT035149.1:CDS
GGAAGCAGCTGCTAACGGGA+GGG 0.580906 7:-8072122 MsaT035149.1:CDS
AATCCAATTTACGGTTCAGT+CGG 0.582091 7:-8072229 MsaT035149.1:CDS
TGGTGTTGGCTCATGGAATG+TGG 0.583661 7:-8071606 MsaT035149.1:CDS
GGTTTCACGTGTTTATCATG+TGG 0.585512 7:-8071666 MsaT035149.1:CDS
AAGAGTAGTAATGAGAACAA+GGG 0.594572 7:-8071956 MsaT035149.1:CDS
AGAGTAGTAATGAGAACAAG+GGG 0.595203 7:-8071955 MsaT035149.1:CDS
CTCAACAGCGAGTTAAGACT+CGG 0.596868 7:-8072027 MsaT035149.1:CDS
TTTCCTCTTTCGAGACATGA+CGG 0.597148 7:+8072074 None:intergenic
CTGGCAGCTATGTCAAGCCG+CGG 0.599587 7:-8072188 MsaT035149.1:CDS
GCAGCTATGTCAAGCCGCGG+TGG 0.604170 7:-8072185 MsaT035149.1:CDS
AGGGTTGTATTGAAGGATTG+TGG 0.614044 7:-8071626 MsaT035149.1:CDS
AAAATGCGGATGAGTTGTAA+CGG 0.616520 7:-8072739 MsaT035149.1:CDS
GCCGATCACACCAATAACTT+CGG 0.617983 7:-8072143 MsaT035149.1:CDS
GTCGATTAGCCACCAGTCTG+AGG 0.618436 7:-8071852 MsaT035149.1:CDS
GTAGAATTTGGCGAGAAACA+CGG 0.619114 7:+8072624 None:intergenic
TTAAGACTCGGTCGCGTAAG+CGG 0.620497 7:-8072015 MsaT035149.1:CDS
GTTGGACCGGAAAATGAAGC+CGG 0.627386 7:-8071753 MsaT035149.1:CDS
CCGCAACCGCCTCAGACTGG+TGG 0.630942 7:+8071843 None:intergenic
GCATAAGACCTTGTTTACAG+TGG 0.631728 7:-8072678 MsaT035149.1:CDS
ACGACTCATGACTAGCTGAC+CGG 0.638954 7:+8071873 None:intergenic
TGTCTCGAAAGAGGAAAACT+CGG 0.644691 7:-8072068 MsaT035149.1:CDS
CTCATGAACCTTGTTAACGC+CGG 0.654635 7:-8072589 MsaT035149.1:CDS
TTGAGTTAACTCCGTAGACG+CGG 0.656912 7:+8072045 None:intergenic
TCGTTGTTGTACGAAGCATG+TGG 0.660850 7:-8072262 MsaT035149.1:CDS
CCGAACCAGTGAGAGTGGAG+AGG 0.672740 7:-8071726 MsaT035149.1:CDS
ACCGGTTCAACCGAACCGGT+AGG 0.689298 7:+8071911 None:intergenic
GATTAGCCACCAGTCTGAGG+CGG 0.698548 7:-8071849 MsaT035149.1:CDS
CGGATGTCATAGGCTTTGAG+TGG 0.702654 7:+8072094 None:intergenic
GGTTCCTGTGAAGAAAAGAA+GGG 0.756021 7:-8071645 MsaT035149.1:CDS
GAATTTGGCGAGAAACACGG+TGG 0.783343 7:+8072627 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 8071580 8072758 8071580 ID=MsaG035149
Chr7 mRNA 8071580 8072758 8071580 ID=MsaT035149.1;Parent=MsaG035149
Chr7 exon 8071580 8072295 8071580 ID=MsaT035149.1.exon2;Parent=MsaT035149.1
Chr7 CDS 8071580 8072295 8071580 ID=cds.MsaT035149.1;Parent=MsaT035149.1
Chr7 exon 8072569 8072758 8072569 ID=MsaT035149.1.exon1;Parent=MsaT035149.1
Chr7 CDS 8072569 8072758 8072569 ID=cds.MsaT035149.1;Parent=MsaT035149.1
Gene Sequence

>MsaT035149.1

ATGCGGATGAGTTGTAACGGTTGTAGAGTACTAAGAAAAGGTTGCAGTGAAAACTGTAGCATAAGACCTTGTTTACAGTGGATCAAAAGCCCTGAATCACAAGCTAATGCCACCGTGTTTCTCGCCAAATTCTACGGTCGTGCTGGTCTCATGAACCTTGTTAACGCCGGTCCCGAACATCTTCGTCCAGCAATTTTTCGTTCGTTGTTGTACGAAGCATGTGGTCGAATAGTGAATCCAATTTACGGTTCAGTCGGTTTATTATGGTCCGGAAGCTGGCAGCTATGTCAAGCCGCGGTGGAAGCCGTTTTAAAAGGCGCGCCGATCACACCAATAACTTCGGAAGCAGCTGCTAACGGGAGGGGCCCACCACTCAAAGCCTATGACATCCGTCATGTCTCGAAAGAGGAAAACTCGGCCGCGTCTACGGAGTTAACTCAACAGCGAGTTAAGACTCGGTCGCGTAAGCGGTCGAGTTTAGCCAAGCCGAAGATACAAGAAGAGAAAAAGAGTAGTAATGAGAACAAGGGGTTTGAATCCGGTTCAACTGAGCCTACCGGTTCGGTTGAACCGGTTGAGGAGGTGATGAACCGGTCAGCTAGTCATGAGTCGTCGATTAGCCACCAGTCTGAGGCGGTTGCGGTGGTGGATGGAGAGAGTAAAGATAGTGAGAGTGAAACTTCGATGATCTTATTTAGAGATGAACCGGAGTTGGACCGGAAAATGAAGCCGGTTGACCGAACCAGTGAGAGTGGAGAGGAAAAGGTTGGTTTGGAGCTGACTCTTGGGCTTGAACCGGTTTCACGTGTTTATCATGTGGTTCCTGTGAAGAAAAGAAGGGTTGTATTGAAGGATTGTGGTGTTGGCTCATGGAATGTGGAGTTGGGGCTTCAATATCCGGCTTAG

Protein sequence

>MsaT035149.1

MRMSCNGCRVLRKGCSENCSIRPCLQWIKSPESQANATVFLAKFYGRAGLMNLVNAGPEHLRPAIFRSLLYEACGRIVNPIYGSVGLLWSGSWQLCQAAVEAVLKGAPITPITSEAAANGRGPPLKAYDIRHVSKEENSAASTELTQQRVKTRSRKRSSLAKPKIQEEKKSSNENKGFESGSTEPTGSVEPVEEVMNRSASHESSISHQSEAVAVVDGESKDSESETSMILFRDEPELDRKMKPVDRTSESGEEKVGLELTLGLEPVSRVYHVVPVKKRRVVLKDCGVGSWNVELGLQYPA*