AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039454

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039454 MtrunA17_Chr7g0258611 96.040 303 10 2 1 303 1 301 0.0 589
MsaG039454 MtrunA17_Chr1g0175201 72.222 306 66 9 1 303 1 290 8.33e-140 396
MsaG039454 MtrunA17_Chr1g0213721 59.924 262 90 7 46 303 5 255 5.50e-100 294
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039454 AT3G12130.1 51.948 308 79 6 1 303 1 244 2.14e-90 270
MsaG039454 AT5G06770.6 51.923 208 84 8 103 303 16 214 3.44e-56 181
MsaG039454 AT5G06770.6 73.770 61 16 0 25 85 5 65 1.12e-25 102
MsaG039454 AT5G06770.1 51.923 208 84 8 103 303 38 236 6.76e-56 181
MsaG039454 AT5G06770.1 70.115 87 24 1 1 85 1 87 3.66e-36 130
MsaG039454 AT3G12130.2 57.647 170 57 3 149 303 3 172 8.05e-53 171
MsaG039454 AT5G06770.3 51.244 201 82 8 110 303 18 209 2.04e-52 171
MsaG039454 AT5G06770.3 62.791 43 16 0 43 85 18 60 2.52e-12 65.5
MsaG039454 AT5G06770.2 51.244 201 82 8 110 303 18 209 2.04e-52 171
MsaG039454 AT5G06770.2 62.791 43 16 0 43 85 18 60 2.52e-12 65.5
MsaG039454 AT5G06770.4 51.244 201 82 8 110 303 18 209 2.04e-52 171
MsaG039454 AT5G06770.4 62.791 43 16 0 43 85 18 60 2.52e-12 65.5
MsaG039454 AT5G06770.5 59.333 150 53 5 155 303 22 164 5.41e-49 161

Find 95 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGTGGGGCTGGAACATTTC+TGG 0.073478 7:-89261556 None:intergenic
AGTTCAATGTTTCTCAGATT+TGG 0.216072 7:-89261960 None:intergenic
GCAAAAGGATCTTGCACTTT+TGG 0.239220 7:+89262155 MsaT039454.1:CDS
GGGAGCCATCATGGCGCCCC+TGG 0.239889 7:+89262086 MsaT039454.1:CDS
ACTGCTGAAGGCTGCAAATT+TGG 0.247553 7:+89261645 MsaT039454.1:CDS
GGGAACATTTGAACAAATTA+AGG 0.249250 7:+89261986 MsaT039454.1:CDS
CACTTCTTGCACCATGTTCC+TGG 0.251613 7:+89261477 MsaT039454.1:CDS
GGGGCGCCTTGGTTTGAATT+AGG 0.279247 7:-89262062 None:intergenic
GTTCAATGTTTCTCAGATTT+GGG 0.294737 7:-89261959 None:intergenic
CGTGGGGCTGGAACATTTCT+GGG 0.304605 7:-89261555 None:intergenic
AGCACTTCTGGCTGCCCATT+TGG 0.307249 7:+89261444 MsaT039454.1:intron
ATGATCTCGAATTGAAAGTT+TGG 0.321235 7:-89261931 None:intergenic
TAGGTGGTGCAGACATTTGC+AGG 0.328616 7:-89262043 None:intergenic
CTGCCAAAACGGCCAGCATT+GGG 0.346406 7:-89261768 None:intergenic
GGAGCCATCATGGCGCCCCT+GGG 0.353900 7:+89262087 MsaT039454.1:CDS
CCTCCTGTTCCAGCTAGCTT+TGG 0.360587 7:+89261807 MsaT039454.1:CDS
CAGGTGTTAGATTCATCATC+TGG 0.374375 7:-89261518 None:intergenic
ATTGTTGTTGAATCCATGTT+CGG 0.378655 7:-89258415 None:intergenic
GGGCGCCATGATGGCTCCCA+GGG 0.388208 7:-89262082 None:intergenic
GTCATTTCGCCCACGGAGAA+TGG 0.389283 7:+89261676 MsaT039454.1:CDS
GGGGCGCCATGATGGCTCCC+AGG 0.397524 7:-89262083 None:intergenic
AGTGTTGAAGCCTCCTTGGC+TGG 0.405561 7:+89261852 MsaT039454.1:CDS
GGCTGGAGCTATCATTGGTA+AGG 0.406355 7:+89261869 MsaT039454.1:CDS
GCTTCCTACACCAGTTGATA+AGG 0.410010 7:-89259199 None:intergenic
TGGGCGCATGTGCATTTCGT+GGG 0.412329 7:-89261572 None:intergenic
TTGTTGTTGAATCCATGTTC+GGG 0.412697 7:-89258414 None:intergenic
AAACAGATCTGTCGTCAAAC+TGG 0.418288 7:+89261906 MsaT039454.1:CDS
AATTCAAACCAAGGCGCCCC+TGG 0.420452 7:+89262065 MsaT039454.1:CDS
GGAGGCTTCAACACTGATCT+TGG 0.422971 7:-89261844 None:intergenic
ACTGCCAAAACGGCCAGCAT+TGG 0.424303 7:-89261769 None:intergenic
AGCAGATGGCGCAGAACCAT+TGG 0.426240 7:-89261592 None:intergenic
AAGTGGCAGCTCTCACCAAA+TGG 0.432857 7:-89261459 None:intergenic
GATGGCTCCCAGGGGCGCCT+TGG 0.436453 7:-89262073 None:intergenic
GCTGGAACATTTCTGGGTGC+AGG 0.442312 7:-89261549 None:intergenic
GCAGATGGCGCAGAACCATT+GGG 0.447775 7:-89261591 None:intergenic
CTGGGTGCAGGAGGTGCTGC+AGG 0.454430 7:-89261537 None:intergenic
GCACCAAAGCTAGCTGGAAC+AGG 0.460612 7:-89261810 None:intergenic
GATCAGTGTTGAAGCCTCCT+TGG 0.462907 7:+89261848 MsaT039454.1:CDS
TCCTCTCTTGCGCATATCCA+TGG 0.463127 7:-89258388 None:intergenic
TCATTTCGCCCACGGAGAAT+GGG 0.473005 7:+89261677 MsaT039454.1:CDS
GGCGCCCCTGGGAGCCATCA+TGG 0.476164 7:+89262077 MsaT039454.1:CDS
GAGCCATCATGGCGCCCCTG+GGG 0.478693 7:+89262088 MsaT039454.1:CDS
GCATGTGCATTTCGTGGGGC+TGG 0.479969 7:-89261567 None:intergenic
TTGGGCGCATGTGCATTTCG+TGG 0.481654 7:-89261573 None:intergenic
GAAATGGAGTCCTTATCAAC+TGG 0.481779 7:+89259189 MsaT039454.1:intron
CCATCCGATGACTGCCAAAA+CGG 0.482989 7:-89261779 None:intergenic
TCCTTGGCTGGAGCTATCAT+TGG 0.488960 7:+89261864 MsaT039454.1:CDS
GCCCACGGAGAATGGGAACT+TGG 0.492658 7:+89261684 MsaT039454.1:CDS
TCATCAAATGATGGAGCTAC+AGG 0.495349 7:-89261711 None:intergenic
CTGAGAAACATTGAACTTGA+GGG 0.498316 7:+89261966 MsaT039454.1:CDS
GCATTTGCACCAAAGCTAGC+TGG 0.505722 7:-89261816 None:intergenic
AAGCTAGCTGGAACAGGAGG+AGG 0.517450 7:-89261804 None:intergenic
GCCAAAACGGCCAGCATTGG+GGG 0.527237 7:-89261766 None:intergenic
TCTGAGAAACATTGAACTTG+AGG 0.528852 7:+89261965 MsaT039454.1:CDS
AGTGGCAGCTCTCACCAAAT+GGG 0.532140 7:-89261458 None:intergenic
CATTATAACCGCCAGGAACA+TGG 0.547838 7:-89261488 None:intergenic
GCGCCTTGGTTTGAATTAGG+TGG 0.551052 7:-89262059 None:intergenic
TGCCAAAACGGCCAGCATTG+GGG 0.551878 7:-89261767 None:intergenic
TCACAATGGTCACCGTCACA+TGG 0.555494 7:+89261740 MsaT039454.1:CDS
TTCAACACTGATCTTGGCAG+TGG 0.556993 7:-89261838 None:intergenic
AGCCATCATGGCGCCCCTGG+GGG 0.557104 7:+89262089 MsaT039454.1:CDS
GGAACATTTCTGGGTGCAGG+AGG 0.557375 7:-89261546 None:intergenic
ACCAAGTTCCCATTCTCCGT+GGG 0.571356 7:-89261685 None:intergenic
GACAAATGTCATTTCGCCCA+CGG 0.574168 7:+89261669 MsaT039454.1:CDS
GGAGCTATCATTGGTAAGGG+TGG 0.574888 7:+89261873 MsaT039454.1:CDS
GAGTCCTTATCAACTGGTGT+AGG 0.575007 7:+89259195 MsaT039454.1:CDS
ATTCAAACCAAGGCGCCCCT+GGG 0.575007 7:+89262066 MsaT039454.1:CDS
CGAAATGCACATGCGCCCAA+TGG 0.577209 7:+89261576 MsaT039454.1:CDS
TATTAAACTTGCTGCATATG+CGG 0.578734 7:-89261623 None:intergenic
GCTGGAGCTATCATTGGTAA+GGG 0.579604 7:+89261870 MsaT039454.1:CDS
TACCAAGTTCCCATTCTCCG+TGG 0.580757 7:-89261686 None:intergenic
CAGGAACATGGTGCAAGAAG+TGG 0.580928 7:-89261476 None:intergenic
GGATGCAAGCAACATGGTGA+AGG 0.586493 7:+89262007 MsaT039454.1:CDS
TGACGGTGATCATCAAATGA+TGG 0.598806 7:-89261720 None:intergenic
ACCAATGATAGCTCCAGCCA+AGG 0.601213 7:-89261865 None:intergenic
AGCAAGTTTAATACTGCTGA+AGG 0.610803 7:+89261633 MsaT039454.1:CDS
CACAATGGTCACCGTCACAT+GGG 0.612054 7:+89261741 MsaT039454.1:CDS
GAACATGGATTCAACAACAA+TGG 0.613103 7:+89258417 MsaT039454.1:CDS
GAAACAGCATTATAACCGCC+AGG 0.616377 7:-89261495 None:intergenic
TCCATGGATATGCGCAAGAG+AGG 0.620448 7:+89258387 None:intergenic
CCAAAGCTAGCTGGAACAGG+AGG 0.620733 7:-89261807 None:intergenic
AGGTGTTAGATTCATCATCT+GGG 0.623445 7:-89261517 None:intergenic
GGCGCCATGATGGCTCCCAG+GGG 0.626200 7:-89262081 None:intergenic
TTTGATGATCACCGTCACAA+TGG 0.633364 7:+89261726 MsaT039454.1:CDS
CCAAAACGGCCAGCATTGGG+GGG 0.633415 7:-89261765 None:intergenic
AAGAGAGGAAGACCCGAACA+TGG 0.639026 7:+89258402 MsaT039454.1:CDS
AATTAAGGATGCAAGCAACA+TGG 0.639069 7:+89262001 MsaT039454.1:CDS
GGGCGCATGTGCATTTCGTG+GGG 0.653124 7:-89261571 None:intergenic
AGGTGGTGCAGACATTTGCA+GGG 0.654364 7:-89262042 None:intergenic
GCACCACCTAATTCAAACCA+AGG 0.655471 7:+89262056 MsaT039454.1:CDS
TTCTTGCACCATGTTCCTGG+CGG 0.668994 7:+89261480 MsaT039454.1:CDS
CATGGATTCAACAACAATGG+CGG 0.674602 7:+89258420 MsaT039454.1:CDS
AATGATAGCTCCAGCCAAGG+AGG 0.680423 7:-89261862 None:intergenic
GGATTCAAGAAATCCAGACA+TGG 0.691625 7:+89258441 MsaT039454.1:CDS
TGTGACGGTGACCATTGTGA+CGG 0.721866 7:-89261737 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 89258390 89262223 89258390 ID=MsaG039454
Chr7 mRNA 89258390 89262223 89258390 ID=MsaT039454.1;Parent=MsaG039454
Chr7 exon 89258390 89258462 89258390 ID=MsaT039454.1.exon1;Parent=MsaT039454.1
Chr7 CDS 89258390 89258462 89258390 ID=cds.MsaT039454.1;Parent=MsaT039454.1
Chr7 exon 89259190 89259250 89259190 ID=MsaT039454.1.exon2;Parent=MsaT039454.1
Chr7 CDS 89259190 89259250 89259190 ID=cds.MsaT039454.1;Parent=MsaT039454.1
Chr7 exon 89261446 89262223 89261446 ID=MsaT039454.1.exon3;Parent=MsaT039454.1
Chr7 CDS 89261446 89262223 89261446 ID=cds.MsaT039454.1;Parent=MsaT039454.1
Gene Sequence

>MsaT039454.1

ATGGATATGCGCAAGAGAGGAAGACCCGAACATGGATTCAACAACAATGGCGGATTCAAGAAATCCAGACATGAAATGGAGTCCTTATCAACTGGTGTAGGAAGCAAATCGAAGCCATGTACCAAGTTTTTCAGCACTTCTGGCTGCCCATTTGGTGAGAGCTGCCACTTCTTGCACCATGTTCCTGGCGGTTATAATGCTGTTTCCCAGATGATGAATCTAACACCTGCAGCACCTCCTGCACCCAGAAATGTTCCAGCCCCACGAAATGCACATGCGCCCAATGGTTCTGCGCCATCTGCTGTTAAAAGCCGCATATGCAGCAAGTTTAATACTGCTGAAGGCTGCAAATTTGGTGACAAATGTCATTTCGCCCACGGAGAATGGGAACTTGGTAAGCCTGTAGCTCCATCATTTGATGATCACCGTCACAATGGTCACCGTCACATGGGACCCCCCAATGCTGGCCGTTTTGGCAGTCATCGGATGGAGCCTCCTCCTGTTCCAGCTAGCTTTGGTGCAAATGCCACTGCCAAGATCAGTGTTGAAGCCTCCTTGGCTGGAGCTATCATTGGTAAGGGTGGTGTGAACTCAAAACAGATCTGTCGTCAAACTGGTGCCAAACTTTCAATTCGAGATCATGAAGACCCAAATCTGAGAAACATTGAACTTGAGGGAACATTTGAACAAATTAAGGATGCAAGCAACATGGTGAAGGATTTACTGTTGACCCTGCAAATGTCTGCACCACCTAATTCAAACCAAGGCGCCCCTGGGAGCCATCATGGCGCCCCTGGGGGCCATCATGGAAACAACTTGAAAACAAAACTGTGTGAGAATTTTGCAAAAGGATCTTGCACTTTTGGAGAAAGATGTCATTTTGCACATGGAGCTGCTGAATTGCGTAAATGA
Protein sequence

>MsaT039454.1

MDMRKRGRPEHGFNNNGGFKKSRHEMESLSTGVGSKSKPCTKFFSTSGCPFGESCHFLHHVPGGYNAVSQMMNLTPAAPPAPRNVPAPRNAHAPNGSAPSAVKSRICSKFNTAEGCKFGDKCHFAHGEWELGKPVAPSFDDHRHNGHRHMGPPNAGRFGSHRMEPPPVPASFGANATAKISVEASLAGAIIGKGGVNSKQICRQTGAKLSIRDHEDPNLRNIELEGTFEQIKDASNMVKDLLLTLQMSAPPNSNQGAPGSHHGAPGGHHGNNLKTKLCENFAKGSCTFGERCHFAHGAAELRK*