AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005946

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005946 MtrunA17_Chr1g0213721 96.850 254 8 0 18 271 5 258 0.0 499
MsaG005946 MtrunA17_Chr7g0258611 58.427 267 90 8 15 268 43 301 1.61e-97 288
MsaG005946 MtrunA17_Chr1g0175201 58.527 258 95 6 19 271 43 293 7.84e-97 286
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005946 AT3G12130.1 41.887 265 84 6 15 271 45 247 1.29e-54 177
MsaG005946 AT5G06770.6 45.192 208 99 5 74 271 15 217 2.12e-50 165
MsaG005946 AT5G06770.1 45.192 208 99 5 74 271 37 239 6.71e-50 164
MsaG005946 AT5G06770.3 46.354 192 88 5 90 271 26 212 2.88e-47 157
MsaG005946 AT5G06770.2 46.354 192 88 5 90 271 26 212 2.88e-47 157
MsaG005946 AT5G06770.4 46.354 192 88 5 90 271 26 212 2.88e-47 157
MsaG005946 AT3G12130.2 53.595 153 60 2 127 271 26 175 1.52e-46 154
MsaG005946 AT5G06770.5 53.623 138 63 1 134 271 31 167 3.50e-46 152

Find 93 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATGGAGCTGCTGCCGGTTT+TGG 0.155815 1:-86936837 MsaT005946.1:CDS
ACAGCTGAAGGTCGCAAATT+TGG 0.185089 1:-86936993 MsaT005946.1:CDS
ACCAAAGGATCCTGCACTTT+TGG 0.214083 1:-86936504 MsaT005946.1:CDS
CATTTCCTGCATTATGTTCC+TGG 0.223580 1:-86937161 MsaT005946.1:CDS
CAGCTGAAGGTCGCAAATTT+GGG 0.259181 1:-86936992 MsaT005946.1:CDS
TTGGTCTTGAAGTTGTTTGC+AGG 0.265962 1:+86936543 None:intergenic
CTTCAAGCTCAATATTTCTA+AGG 0.277040 1:+86936676 None:intergenic
TAAAATTTCTGTCACATTCC+AGG 0.309286 1:+86936438 None:intergenic
CAGGTGCTAAACTTTCCATT+AGG 0.322304 1:-86936719 MsaT005946.1:CDS
GGGAAGGATGGTGGAACATT+TGG 0.327695 1:+86937068 None:intergenic
TATTGAACTTGTTGCACAAC+CGG 0.331191 1:+86937015 None:intergenic
GCAGCTCCATGAGCTGGAGG+TGG 0.349271 1:+86936849 None:intergenic
AGTATTAATGCTACCCTTGC+TGG 0.350030 1:-86936792 MsaT005946.1:CDS
CCCAAAAGTGCAGGATCCTT+TGG 0.352380 1:+86936503 None:intergenic
ATTTCCTGCATTATGTTCCT+GGG 0.362562 1:-86937160 MsaT005946.1:CDS
GCTCCATGAGCTGGAGGTGG+GGG 0.369225 1:+86936852 None:intergenic
CTTAGAAATATTGAGCTTGA+AGG 0.380840 1:-86936675 MsaT005946.1:CDS
GTTACACCCCTGCACTCATC+TGG 0.391359 1:-86937343 MsaT005946.1:intron
AGCTCCATGAGCTGGAGGTG+GGG 0.391671 1:+86936851 None:intergenic
CCGAACTCACATTTAGAATA+AGG 0.392968 1:+86936610 None:intergenic
AGGTGCTAAACTTTCCATTA+GGG 0.399844 1:-86936718 MsaT005946.1:CDS
ACATTTGGATTTCTACCAAT+TGG 0.402070 1:+86937083 None:intergenic
ATGGTGAGTGGGAGCGTGGC+AGG 0.408893 1:-86936950 MsaT005946.1:CDS
AAGCAAATCTGTCACATAAC+AGG 0.410213 1:-86936738 MsaT005946.1:CDS
CATCTATTATGCAGCACCTC+TGG 0.411921 1:-86937206 MsaT005946.1:intron
ATCTGAGTCATGTTCCCTAA+TGG 0.413569 1:+86936704 None:intergenic
ACCCTTGCTGGAGCTATCAT+TGG 0.416288 1:-86936780 MsaT005946.1:CDS
CAGGAACATAATGCAGGAAA+TGG 0.419367 1:+86937162 None:intergenic
CTAAATGTGAGTTCGGTCTC+TGG 0.419817 1:-86936603 MsaT005946.1:CDS
CAGCTCCATGAGCTGGAGGT+GGG 0.423034 1:+86936850 None:intergenic
CACAACCGGGTCTTAGCAAC+TGG 0.431622 1:+86937029 None:intergenic
GCTGCTTTGCATTTGTCCCA+TGG 0.442232 1:+86936896 None:intergenic
ATGCAAAGCAGCAGTGTTGA+TGG 0.443234 1:-86936885 MsaT005946.1:CDS
CTACCAATTGGTGGAATAGC+AGG 0.443500 1:+86937095 None:intergenic
CCAGCTCATGGAGCTGCTGC+CGG 0.447956 1:-86936843 MsaT005946.1:CDS
CCGGCAGCAGCTCCATGAGC+TGG 0.455038 1:+86936843 None:intergenic
CCTTATTCTAAATGTGAGTT+CGG 0.456926 1:-86936610 MsaT005946.1:CDS
AGCACCTCTGGATGTCCATT+TGG 0.459036 1:-86937194 MsaT005946.1:CDS
AGCTCAATATTTCTAAGGTT+AGG 0.469832 1:+86936681 None:intergenic
AGTGGCCGACACTCCAAAAC+CGG 0.472552 1:+86936824 None:intergenic
AAATGGCATCCCTCGCCAAA+TGG 0.473103 1:+86937179 None:intergenic
AGTCCTGCTATTCCACCAAT+TGG 0.476108 1:-86937098 MsaT005946.1:CDS
AGTTCGGTCTCTGGACCTCC+AGG 0.487466 1:-86936594 MsaT005946.1:CDS
TGGTCTTGAAGTTGTTTGCA+GGG 0.488541 1:+86936544 None:intergenic
AAGGTCATGGACCATGGCAC+TGG 0.492421 1:+86936629 None:intergenic
GCGCGAGTATCTTCATATGC+AGG 0.492758 1:+86936918 None:intergenic
ACTGGTGGAGAAGAACCGTC+TGG 0.507265 1:+86937047 None:intergenic
GATGGAAACCAGATGAGTGC+AGG 0.514214 1:+86937335 None:intergenic
CTCCACCAGTTGCTAAGACC+CGG 0.514232 1:-86937034 MsaT005946.1:CDS
TTTGGATTTCTACCAATTGG+TGG 0.514454 1:+86937086 None:intergenic
ACAGATGAATTATGCAAGCC+TGG 0.520202 1:-86936456 MsaT005946.1:CDS
GCCACGCTCCCACTCACCAT+GGG 0.523824 1:+86936953 None:intergenic
GCACCTTTCCCCAAAAGTGC+AGG 0.529864 1:+86936494 None:intergenic
CTCTGGATGTCCATTTGGCG+AGG 0.529886 1:-86937189 MsaT005946.1:CDS
GAAAGGTGCCACTTCGCGCA+TGG 0.536523 1:-86936480 MsaT005946.1:CDS
TGCCACGCTCCCACTCACCA+TGG 0.538201 1:+86936952 None:intergenic
TTTCCTGCATTATGTTCCTG+GGG 0.549338 1:-86937159 MsaT005946.1:CDS
GTGGGAGCGTGGCAGGCCCA+CGG 0.551387 1:-86936943 MsaT005946.1:CDS
ATTGAACTTGTTGCACAACC+GGG 0.554392 1:+86937016 None:intergenic
TATGAAGATACTCGCGCCAT+GGG 0.559467 1:-86936912 MsaT005946.1:CDS
TGCAAAGCAGCAGTGTTGAT+GGG 0.562545 1:-86936884 MsaT005946.1:CDS
CATCTGTTCCATGCGCGAAG+TGG 0.569090 1:+86936472 None:intergenic
TGTTATGTGACAGATTTGCT+TGG 0.571150 1:+86936740 None:intergenic
CGCGAGTATCTTCATATGCA+GGG 0.573206 1:+86936919 None:intergenic
GAAGAACCGTCTGGGAAGGA+TGG 0.574755 1:+86937056 None:intergenic
TTCCAATGATAGCTCCAGCA+AGG 0.577613 1:+86936778 None:intergenic
ATATGAAGATACTCGCGCCA+TGG 0.580726 1:-86936913 MsaT005946.1:CDS
TCTTCATATGCAGGGACCGT+GGG 0.587144 1:+86936927 None:intergenic
GAACCGTCTGGGAAGGATGG+TGG 0.589119 1:+86937059 None:intergenic
GTCACTTTGCCCATGGTGAG+TGG 0.600587 1:-86936962 MsaT005946.1:CDS
GCCCATGGTGAGTGGGAGCG+TGG 0.601228 1:-86936954 MsaT005946.1:CDS
TTCCTGCATTATGTTCCTGG+GGG 0.602347 1:-86937158 MsaT005946.1:CDS
TAGAATAAGGTCATGGACCA+TGG 0.602580 1:+86936623 None:intergenic
TCCAATGATAGCTCCAGCAA+GGG 0.602647 1:+86936779 None:intergenic
TCTGGATGTCCATTTGGCGA+GGG 0.603444 1:-86937188 MsaT005946.1:CDS
TGGAGAAGAACCGTCTGGGA+AGG 0.604602 1:+86937052 None:intergenic
AACAAGTTCAATACAGCTGA+AGG 0.604829 1:-86937005 MsaT005946.1:CDS
GTCTCTCAGATGATCAATGT+CGG 0.614302 1:-86937125 MsaT005946.1:CDS
AACCGGGTCTTAGCAACTGG+TGG 0.615487 1:+86937032 None:intergenic
CTGTGTGAAAACTTTACCAA+AGG 0.618887 1:-86936519 MsaT005946.1:CDS
GGTCTTGAAGTTGTTTGCAG+GGG 0.621193 1:+86936545 None:intergenic
TCACTTTGCCCATGGTGAGT+GGG 0.626927 1:-86936961 MsaT005946.1:CDS
CTCGCCAAATGGACATCCAG+AGG 0.627517 1:+86937190 None:intergenic
TCACATTTAGAATAAGGTCA+TGG 0.629476 1:+86936616 None:intergenic
CTGGTGGAGAAGAACCGTCT+GGG 0.629582 1:+86937048 None:intergenic
GATCAAACAAGCCAGTGCCA+TGG 0.633360 1:-86936640 MsaT005946.1:CDS
ATCTTCATATGCAGGGACCG+TGG 0.634772 1:+86936926 None:intergenic
ATGGAAACCAGATGAGTGCA+GGG 0.640692 1:+86937336 None:intergenic
GTTCCACCATCCTTCCCAGA+CGG 0.641586 1:-86937062 MsaT005946.1:CDS
GACAAATGTCACTTTGCCCA+TGG 0.641690 1:-86936969 MsaT005946.1:CDS
GCAGCAGCTCCATGAGCTGG+AGG 0.660051 1:+86936846 None:intergenic
AGCTGAAGGTCGCAAATTTG+GGG 0.670006 1:-86936991 MsaT005946.1:CDS
TGGAAACCAGATGAGTGCAG+GGG 0.780882 1:+86937337 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 86936449 86937393 86936449 ID=MsaG005946
Chr1 mRNA 86936449 86937393 86936449 ID=MsaT005946.1;Parent=MsaG005946
Chr1 exon 86936449 86937214 86936449 ID=MsaT005946.1.exon2;Parent=MsaT005946.1
Chr1 CDS 86936449 86937214 86936449 ID=cds.MsaT005946.1;Parent=MsaT005946.1
Chr1 exon 86937344 86937393 86937344 ID=MsaT005946.1.exon1;Parent=MsaT005946.1
Chr1 CDS 86937344 86937393 86937344 ID=cds.MsaT005946.1;Parent=MsaT005946.1
Gene Sequence

>MsaT005946.1

ATGCGTCATGTGTTCGATAACTGTTTTTGTTACACCCCTGCACTCATCTGCACCTCTGGATGTCCATTTGGCGAGGGATGCCATTTCCTGCATTATGTTCCTGGGGGCTTTAAAGCTGTCTCTCAGATGATCAATGTCGGTAGCAGTCCTGCTATTCCACCAATTGGTAGAAATCCAAATGTTCCACCATCCTTCCCAGACGGTTCTTCTCCACCAGTTGCTAAGACCCGGTTGTGCAACAAGTTCAATACAGCTGAAGGTCGCAAATTTGGGGACAAATGTCACTTTGCCCATGGTGAGTGGGAGCGTGGCAGGCCCACGGTCCCTGCATATGAAGATACTCGCGCCATGGGACAAATGCAAAGCAGCAGTGTTGATGGGAGAATTGAGCCCCCACCTCCAGCTCATGGAGCTGCTGCCGGTTTTGGAGTGTCGGCCACTGCAAAAGTTAGTATTAATGCTACCCTTGCTGGAGCTATCATTGGAAAAAATGGTGTTAACTCCAAGCAAATCTGTCACATAACAGGTGCTAAACTTTCCATTAGGGAACATGACTCAGATCCTAACCTTAGAAATATTGAGCTTGAAGGCAGTTTTGATCAGATCAAACAAGCCAGTGCCATGGTCCATGACCTTATTCTAAATGTGAGTTCGGTCTCTGGACCTCCAGGAAAAAACATTACTTCACAGACTTCTGCCCCTGCAAACAACTTCAAGACCAAGCTGTGTGAAAACTTTACCAAAGGATCCTGCACTTTTGGGGAAAGGTGCCACTTCGCGCATGGAACAGATGAATTATGCAAGCCTGGAATGTGA
Protein sequence

>MsaT005946.1

MRHVFDNCFCYTPALICTSGCPFGEGCHFLHYVPGGFKAVSQMINVGSSPAIPPIGRNPNVPPSFPDGSSPPVAKTRLCNKFNTAEGRKFGDKCHFAHGEWERGRPTVPAYEDTRAMGQMQSSSVDGRIEPPPPAHGAAAGFGVSATAKVSINATLAGAIIGKNGVNSKQICHITGAKLSIREHDSDPNLRNIELEGSFDQIKQASAMVHDLILNVSSVSGPPGKNITSQTSAPANNFKTKLCENFTKGSCTFGERCHFAHGTDELCKPGM*