AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009622

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009622 MtrunA17_Chr7g0275421 93.243 148 10 0 27 174 12 159 2.89e-103 293
MsaG009622 MtrunA17_Chr3g0090311 36.424 151 95 1 1 150 1 151 1.14e-28 104
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009622 AT1G03150.1 90.230 174 17 0 1 174 1 174 2.10e-120 337
MsaG009622 AT5G13780.1 37.179 156 97 1 1 155 1 156 1.45e-28 105

Find 39 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTAACCCATGATTCTATTTC+CGG 0.214365 2:-62535577 None:intergenic
CGAGTGCTACGTTATTATTC+TGG 0.239936 2:+62536286 MsaT009622.1:CDS
TGATTCTATTTCCGGGGCCT+TGG 0.278566 2:-62535569 None:intergenic
GTCAGGCCATCTTGCTAAAT+AGG 0.361124 2:-62535532 None:intergenic
TTCTGGGGAGGAAGATGGAT+TGG 0.364445 2:+62536303 MsaT009622.1:CDS
GATTCTATTTCCGGGGCCTT+GGG 0.373646 2:-62535568 None:intergenic
TTCCGGGGCCTTGGGCGACT+TGG 0.391957 2:-62535560 None:intergenic
TAGTCGTATTCTAGTTCATC+AGG 0.393670 2:-62536485 None:intergenic
TCTGGGGAGGAAGATGGATT+GGG 0.403286 2:+62536304 MsaT009622.1:CDS
TAACCCATGATTCTATTTCC+GGG 0.410832 2:-62535576 None:intergenic
AGTCTGTCGTCCCTCTTAAA+CGG 0.427719 2:+62536453 MsaT009622.1:CDS
TATTATTCTGGGGAGGAAGA+TGG 0.437314 2:+62536298 MsaT009622.1:CDS
TGCTAAATAGGTCATGTAGA+AGG 0.454880 2:-62535520 None:intergenic
GAGTGCTACGTTATTATTCT+GGG 0.484370 2:+62536287 MsaT009622.1:CDS
TTCCAAGTCGCCCAAGGCCC+CGG 0.485170 2:+62535558 MsaT009622.1:CDS
TGACATTTGTAAAACGAAGA+AGG 0.486544 2:-62535367 None:intergenic
TAGAGGGGCAAGGAGAATCT+TGG 0.499019 2:+62535690 MsaT009622.1:CDS
TGGGCGACTTGGAAATAGTC+AGG 0.503036 2:-62535549 None:intergenic
GGAGTGACACGCCGTTTAAG+AGG 0.508020 2:-62536464 None:intergenic
AGCCATCAAGATGTATGAAA+AGG 0.514376 2:+62535931 MsaT009622.1:CDS
AGGCCCCGGAAATAGAATCA+TGG 0.532245 2:+62535572 MsaT009622.1:CDS
AACGTGAGTACGTACAGTTT+CGG 0.540046 2:-62535405 None:intergenic
ACATGACCTATTTAGCAAGA+TGG 0.544945 2:+62535526 MsaT009622.1:CDS
GCAGTTATGGGTAAAGTAGA+GGG 0.544970 2:+62535674 MsaT009622.1:intron
GGCCCCGGAAATAGAATCAT+GGG 0.558909 2:+62535573 MsaT009622.1:CDS
GACTATTTCCAAGTCGCCCA+AGG 0.565815 2:+62535552 MsaT009622.1:CDS
AACTGCAGTAACCGTTGCTA+CGG 0.572799 2:+62535724 MsaT009622.1:CDS
ATGGGTAAAGTAGAGGGGCA+AGG 0.572891 2:+62535680 MsaT009622.1:CDS
TGCAGTTATGGGTAAAGTAG+AGG 0.579669 2:+62535673 MsaT009622.1:intron
CCGTTGCTACGGAGTATCGC+AGG 0.596977 2:+62535735 MsaT009622.1:CDS
AACCCATGATTCTATTTCCG+GGG 0.600016 2:-62535575 None:intergenic
GAGTGACACGCCGTTTAAGA+GGG 0.600246 2:-62536463 None:intergenic
AATAATAACGTAGCACTCGT+CGG 0.603392 2:-62536282 None:intergenic
GCTACGTTATTATTCTGGGG+AGG 0.624439 2:+62536291 MsaT009622.1:CDS
GGGCAAGGAGAATCTTGGCA+TGG 0.661266 2:+62535695 MsaT009622.1:CDS
AGTGCTACGTTATTATTCTG+GGG 0.663087 2:+62536288 MsaT009622.1:CDS
CAGTTATGGGTAAAGTAGAG+GGG 0.668038 2:+62535675 MsaT009622.1:intron
CCTGCGATACTCCGTAGCAA+CGG 0.679156 2:-62535735 None:intergenic
AAGAGATGACGACAATACGT+AGG 0.724152 2:+62535330 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 62535335 62536508 62535335 ID=MsaG009622
Chr2 mRNA 62535335 62536508 62535335 ID=MsaT009622.1;Parent=MsaG009622
Chr2 exon 62535335 62535412 62535335 ID=MsaT009622.1.exon1;Parent=MsaT009622.1
Chr2 CDS 62535335 62535412 62535335 ID=cds.MsaT009622.1;Parent=MsaT009622.1
Chr2 exon 62535510 62535600 62535510 ID=MsaT009622.1.exon2;Parent=MsaT009622.1
Chr2 CDS 62535510 62535600 62535510 ID=cds.MsaT009622.1;Parent=MsaT009622.1
Chr2 exon 62535678 62535810 62535678 ID=MsaT009622.1.exon3;Parent=MsaT009622.1
Chr2 CDS 62535678 62535810 62535678 ID=cds.MsaT009622.1;Parent=MsaT009622.1
Chr2 exon 62535883 62535952 62535883 ID=MsaT009622.1.exon4;Parent=MsaT009622.1
Chr2 CDS 62535883 62535952 62535883 ID=cds.MsaT009622.1;Parent=MsaT009622.1
Chr2 exon 62536265 62536325 62536265 ID=MsaT009622.1.exon5;Parent=MsaT009622.1
Chr2 CDS 62536265 62536325 62536265 ID=cds.MsaT009622.1;Parent=MsaT009622.1
Chr2 exon 62536417 62536508 62536417 ID=MsaT009622.1.exon6;Parent=MsaT009622.1
Chr2 CDS 62536417 62536508 62536417 ID=cds.MsaT009622.1;Parent=MsaT009622.1
Gene Sequence

>MsaT009622.1

ATGACGACAATACGTAGGTTTTGCTGCAAAGACCTTCTTCGTTTTACAAATGTCAATCTTGATCATCTTACCGAAACTTTTAACATGTCCTTCTACATGACCTATTTAGCAAGATGGCCTGACTATTTCCAAGTCGCCCAAGGCCCCGGAAATAGAATCATGGGTTACATTATGGGTAAAGTAGAGGGGCAAGGAGAATCTTGGCATGGTCATGTAACTGCAGTAACCGTTGCTACGGAGTATCGCAGGCAACAGTTAGCAAACAAACTAATGAATATTCTCGAAGACATCAGCGACAATATTGACAAAGCATACTTTGTTGATCTATTTGTGAGAGCATCAAATGCACCAGCCATCAAGATGTATGAAAAGCTTGGATATGTGATTTACCGACGAGTGCTACGTTATTATTCTGGGGAGGAAGATGGATTGGATATGAGGAAGGCGTTATCTCGTGATGTTAATAAGAAGTCTGTCGTCCCTCTTAAACGGCGTGTCACTCCTGATGAACTAGAATACGACTAA
Protein sequence

>MsaT009622.1

MTTIRRFCCKDLLRFTNVNLDHLTETFNMSFYMTYLARWPDYFQVAQGPGNRIMGYIMGKVEGQGESWHGHVTAVTVATEYRRQQLANKLMNILEDISDNIDKAYFVDLFVRASNAPAIKMYEKLGYVIYRRVLRYYSGEEDGLDMRKALSRDVNKKSVVPLKRRVTPDELEYD*