AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009745

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009745 MtrunA17_Chr2g0316511 99.438 178 1 0 1 178 31 208 1.28e-134 375
MsaG009745 MtrunA17_Chr3g0145031 70.950 179 50 2 1 178 33 210 1.30e-95 276
MsaG009745 MtrunA17_Chr3g0145041 63.057 157 55 1 1 157 15 168 1.58e-73 219
MsaG009745 MtrunA17_Chr2g0324381 65.217 161 53 2 1 159 38 197 9.17e-69 207
MsaG009745 MtrunA17_Chr5g0447451 48.819 127 55 5 41 157 15 141 7.83e-34 117
MsaG009745 MtrunA17_Chr2g0324361 56.989 93 37 2 1 93 18 107 2.98e-30 107
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009745 AT4G22140.2 88.202 178 21 0 1 178 39 216 9.84e-121 340
MsaG009745 AT4G22140.1 88.202 178 21 0 1 178 39 216 1.38e-120 340
MsaG009745 AT4G22140.3 88.202 178 21 0 1 178 39 216 1.38e-120 340
MsaG009745 AT4G04260.1 74.860 179 43 2 1 178 1 178 2.71e-92 267
MsaG009745 AT4G04260.2 74.860 179 43 2 1 178 14 191 2.87e-92 268
MsaG009745 AT4G39100.1 73.418 158 41 1 1 157 31 188 2.83e-87 256
MsaG009745 AT4G39100.2 74.436 133 33 1 1 132 31 163 1.85e-72 216
MsaG009745 AT4G04260.3 85.321 109 16 0 1 109 32 140 9.90e-65 196

Find 46 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATCGAAGAAGCAAAGAAAT+TGG 0.293372 2:-64056881 MsaT009745.1:CDS
ATTAGGTCATCCGGGTTATA+AGG 0.334913 2:+64057636 None:intergenic
CTTCCACCAATAGATTCTTC+AGG 0.349796 2:+64057999 None:intergenic
CACTGCACCATTAGGTCATC+CGG 0.369370 2:+64057627 None:intergenic
CTATCAGATCCTGGTGATAC+AGG 0.385003 2:+64056796 None:intergenic
AACATTCAGAACAAACAAAA+TGG 0.403224 2:+64056857 None:intergenic
AGAAGATCGAGCAAGATAAT+AGG 0.403757 2:-64058058 MsaT009745.1:CDS
GTTCTGAGGATTACTATTGT+AGG 0.415271 2:-64057851 MsaT009745.1:CDS
ACCCTTCACACTGCACCATT+AGG 0.433071 2:+64057619 None:intergenic
GGTGGAAGAAGACAGTTTCA+TGG 0.437599 2:-64057984 MsaT009745.1:CDS
CAAAGTGCTCACACTATTGA+AGG 0.439100 2:-64057924 MsaT009745.1:CDS
TTATAACCCGGATGACCTAA+TGG 0.443180 2:-64057634 MsaT009745.1:CDS
CTCACCTTGCTATCAGATCC+TGG 0.485170 2:+64056787 None:intergenic
CTTCTCCACACGTGCCACAT+AGG 0.490109 2:+64058076 None:intergenic
GAGCACTTTGAACATCAAAA+TGG 0.494985 2:+64057937 None:intergenic
TATAGACCTGAAGAATCTAT+TGG 0.496809 2:-64058005 MsaT009745.1:CDS
TAGGTACCATCCTGCTTGTG+TGG 0.503860 2:-64056911 MsaT009745.1:CDS
ACTCACACAGCAACACGGTC+AGG 0.504648 2:+64057795 None:intergenic
TTTGAGTATAAAGCTGCTAC+TGG 0.508499 2:-64057828 MsaT009745.1:CDS
AAGACAGTTTCATGGAGCTA+AGG 0.520921 2:-64057976 MsaT009745.1:CDS
TTCTCCACACGTGCCACATA+GGG 0.531360 2:+64058077 None:intergenic
TATACTAAGCTTGAGAATGT+AGG 0.549874 2:-64057873 MsaT009745.1:CDS
GACCTAATGGTGCAGTGTGA+AGG 0.564361 2:-64057621 MsaT009745.1:CDS
AAGATAATAGGAACAATGTG+AGG 0.571957 2:-64058046 MsaT009745.1:CDS
GCTTGAGAATGTAGGTTCTG+AGG 0.572249 2:-64057865 MsaT009745.1:CDS
ATAGTCATGCCCACACAAGC+AGG 0.572617 2:+64056901 None:intergenic
CACGAGTAAGCCACCCTATG+TGG 0.577004 2:-64058090 MsaT009745.1:CDS
AGTGTGAAGGGTGCAAGGAT+TGG 0.587494 2:-64057608 MsaT009745.1:intron
GCCACCCTATGTGGCACGTG+TGG 0.588251 2:-64058081 MsaT009745.1:CDS
ATGCGAGATGCCTTATAACC+CGG 0.597197 2:-64057646 MsaT009745.1:CDS
TCCACACGTGCCACATAGGG+TGG 0.599622 2:+64058080 None:intergenic
AGACCTGAAGAATCTATTGG+TGG 0.602382 2:-64058002 MsaT009745.1:CDS
ACCTAATGGTGCAGTGTGAA+GGG 0.605001 2:-64057620 MsaT009745.1:CDS
ACTGCACCATTAGGTCATCC+GGG 0.612849 2:+64057628 None:intergenic
CGATGATTTGAAGAAACCAC+AGG 0.614767 2:-64056827 MsaT009745.1:CDS
AGGTACCATCCTGCTTGTGT+GGG 0.617835 2:-64056910 MsaT009745.1:CDS
GCGGCGTTTCCTGTATCACC+AGG 0.621923 2:-64056805 MsaT009745.1:CDS
ATCACCAGGATCTGATAGCA+AGG 0.624737 2:-64056791 MsaT009745.1:intron
ATGTGAGGGTTCGTGTGAGA+TGG 0.629136 2:-64058031 MsaT009745.1:CDS
GATACAGGAAACGCCGCCTG+TGG 0.630270 2:+64056811 None:intergenic
GGTGGCTTACTCGTGTCAGA+AGG 0.633090 2:+64058098 None:intergenic
AAAGTGCTCACACTATTGAA+GGG 0.633847 2:-64057923 MsaT009745.1:CDS
GGTGCAGTGTGAAGGGTGCA+AGG 0.638726 2:-64057613 MsaT009745.1:CDS
AGATAATAGGAACAATGTGA+GGG 0.647787 2:-64058045 MsaT009745.1:CDS
TCATGCCCACACAAGCAGGA+TGG 0.663384 2:+64056905 None:intergenic
TGATTTGAAGAAACCACAGG+CGG 0.754665 2:-64056824 MsaT009745.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 64056435 64058126 64056435 ID=MsaG009745
Chr2 mRNA 64056435 64058126 64056435 ID=MsaT009745.1;Parent=MsaG009745
Chr2 exon 64056435 64056458 64056435 ID=MsaT009745.1.exon4;Parent=MsaT009745.1
Chr2 CDS 64056435 64056458 64056435 ID=cds.MsaT009745.1;Parent=MsaT009745.1
Chr2 exon 64056792 64056930 64056792 ID=MsaT009745.1.exon3;Parent=MsaT009745.1
Chr2 CDS 64056792 64056930 64056792 ID=cds.MsaT009745.1;Parent=MsaT009745.1
Chr2 exon 64057609 64057677 64057609 ID=MsaT009745.1.exon2;Parent=MsaT009745.1
Chr2 CDS 64057609 64057677 64057609 ID=cds.MsaT009745.1;Parent=MsaT009745.1
Chr2 exon 64057801 64058126 64057801 ID=MsaT009745.1.exon1;Parent=MsaT009745.1
Chr2 CDS 64057801 64058126 64057801 ID=cds.MsaT009745.1;Parent=MsaT009745.1
Gene Sequence

>MsaT009745.1

ATGCGTCCTTCTGACACGAGTAAGCCACCCTATGTGGCACGTGTGGAGAAGATCGAGCAAGATAATAGGAACAATGTGAGGGTTCGTGTGAGATGGTATTATAGACCTGAAGAATCTATTGGTGGAAGAAGACAGTTTCATGGAGCTAAGGAGCTGTTTTTATCTGACCATTTTGATGTTCAAAGTGCTCACACTATTGAAGGGAAATGCATTGTTCACTCTTTCAAGAACTATACTAAGCTTGAGAATGTAGGTTCTGAGGATTACTATTGTAGGTTTGAGTATAAAGCTGCTACTGGTGCTTTCACTCCTGACCGTGTTGCTGTATACTGCAAATGCGAGATGCCTTATAACCCGGATGACCTAATGGTGCAGTGTGAAGGGTGCAAGGATTGGTACCATCCTGCTTGTGTGGGCATGACTATCGAAGAAGCAAAGAAATTGGACCATTTTGTTTGTTCTGAATGTTCATCTGACGATGATTTGAAGAAACCACAGGCGGCGTTTCCTGTATCACCAGGATCTGATAGCAAGGGAATTATACATTTTATTGCTTAG
Protein sequence

>MsaT009745.1

MRPSDTSKPPYVARVEKIEQDNRNNVRVRVRWYYRPEESIGGRRQFHGAKELFLSDHFDVQSAHTIEGKCIVHSFKNYTKLENVGSEDYYCRFEYKAATGAFTPDRVAVYCKCEMPYNPDDLMVQCEGCKDWYHPACVGMTIEEAKKLDHFVCSECSSDDDLKKPQAAFPVSPGSDSKGIIHFIA*