AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG031587

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031587 MtrunA17_Chr5g0441581 51.765 85 41 0 46 130 30 114 9.84e-20 88.6
MsaG031587 MtrunA17_Chr6g0451441 44.048 84 45 1 45 128 84 165 4.79e-16 77.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 63 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGTTGACGTTTCGGATTTC+GGG 0.237932 6:-30186388 MsaT031587.1:CDS
CGTGTTGACGTTTCGGATTT+CGG 0.240949 6:-30186389 MsaT031587.1:CDS
GATCGCAAACCCTTGTTTCA+TGG 0.299904 6:+30186262 None:intergenic
TGCGGCTCGTGTTGACGTTT+CGG 0.362249 6:-30186396 MsaT031587.1:CDS
GGATTAAGAATTGGTTGATC+AGG 0.405554 6:+30184394 None:intergenic
ACTTCAACAACCGAAACAAT+TGG 0.406435 6:+30184274 None:intergenic
AAAGGATGATCGATCAATAT+AGG 0.415391 6:+30186449 None:intergenic
ACATTACTTCCTATGTCTGA+TGG 0.423977 6:-30184142 MsaT031587.1:CDS
TTGGTGGTATGTTTGATTCA+TGG 0.433399 6:+30186165 None:intergenic
CATTACTTCCTATGTCTGAT+GGG 0.447968 6:-30184141 MsaT031587.1:CDS
CCATCAGCTAGCTCTCCGTC+AGG 0.451558 6:+30186419 None:intergenic
AAAACTAGAAACTCTAAGAA+AGG 0.460138 6:-30186239 MsaT031587.1:CDS
AAACTAGAAACTCTAAGAAA+GGG 0.460938 6:-30186238 MsaT031587.1:CDS
CAAATGGTCTAGCAAGAAGT+TGG 0.463702 6:-30184497 MsaT031587.1:CDS
GATAACGGTTGCTTTAAAGA+AGG 0.473052 6:-30186099 MsaT031587.1:CDS
GCCACATTGTGGTGTGGGAG+GGG 0.479684 6:-30184458 MsaT031587.1:CDS
GAGCAATCAAGTTTCTTCGT+TGG 0.480101 6:+30186128 None:intergenic
CACTTATGCTCGATGGCTGA+TGG 0.482201 6:-30186476 None:intergenic
GACAGCATTTGTTGTTTCAA+AGG 0.491833 6:+30186364 None:intergenic
CTTGTTTCATGGCATATTCA+CGG 0.492232 6:+30186273 None:intergenic
AAAACCACTAGTTGACTGTT+GGG 0.492621 6:+30184081 None:intergenic
TCCGTTAAAAGTACCACGTA+AGG 0.492742 6:-30184374 MsaT031587.1:CDS
CGTGAATATGCCATGAAACA+AGG 0.498225 6:-30186272 MsaT031587.1:CDS
TGTATGAAGAAATGATCAAA+TGG 0.501577 6:-30184513 MsaT031587.1:CDS
TTAAAAGACATACCGATAGT+AGG 0.501742 6:+30186323 None:intergenic
GTTGGATTCGTCTTCAAAGT+TGG 0.502236 6:+30186146 None:intergenic
TCTGATGGGTTTCAAGCGTC+CGG 0.512219 6:-30184127 MsaT031587.1:CDS
ATAACGGTTGCTTTAAAGAA+GGG 0.522275 6:-30186098 MsaT031587.1:intron
AAATGGTCTAGCAAGAAGTT+GGG 0.529100 6:-30184496 MsaT031587.1:CDS
GGATTCGTCTTCAAAGTTGG+TGG 0.530111 6:+30186149 None:intergenic
TAAAACCACTAGTTGACTGT+TGG 0.536849 6:+30184080 None:intergenic
CATCAGCTAGCTCTCCGTCA+GGG 0.541329 6:+30186420 None:intergenic
TGATTGCTCAGCTAAGATAA+CGG 0.550952 6:-30186114 MsaT031587.1:CDS
GATAAATTCACGCCTACTAT+CGG 0.551302 6:-30186335 MsaT031587.1:CDS
ATTCTAACTTGTGCAAGAGA+AGG 0.552020 6:-30186191 MsaT031587.1:CDS
CAGCCACATTGTGGTGTGGG+AGG 0.557227 6:-30184460 MsaT031587.1:CDS
TTACAGCCACATTGTGGTGT+GGG 0.557892 6:-30184463 MsaT031587.1:CDS
AACTCTAAGAAAGGGGCCGA+TGG 0.560180 6:-30186230 MsaT031587.1:CDS
AGCCACATTGTGGTGTGGGA+GGG 0.562336 6:-30184459 MsaT031587.1:CDS
ATCAGCTAGCTCTCCGTCAG+GGG 0.582853 6:+30186421 None:intergenic
TCAGACATAGGAAGTAATGT+AGG 0.589454 6:+30184145 None:intergenic
CATTTCTTCATACAAATCAG+AGG 0.596809 6:+30184522 None:intergenic
GCTTGAAACCCATCAGACAT+AGG 0.602294 6:+30184133 None:intergenic
GTGAATATGCCATGAAACAA+GGG 0.602322 6:-30186271 MsaT031587.1:CDS
GAAGTAGTTAAGCGTATCAC+CGG 0.605920 6:+30184108 None:intergenic
GACAACCGACGATTAGTTCG+AGG 0.611005 6:+30184346 None:intergenic
TGCATCAATGAGCAAAGATG+TGG 0.611914 6:-30184047 MsaT031587.1:CDS
TCATCCCAACAGTCAACTAG+TGG 0.623204 6:-30184085 MsaT031587.1:CDS
CCTGACGGAGAGCTAGCTGA+TGG 0.623440 6:-30186419 MsaT031587.1:CDS
CCGTTAAAAGTACCACGTAA+GGG 0.624486 6:-30184373 MsaT031587.1:CDS
GTTCGAGGACGTCCCTTACG+TGG 0.628497 6:+30184361 None:intergenic
TTTACAGCCACATTGTGGTG+TGG 0.632168 6:-30184464 MsaT031587.1:CDS
AACTAGAAACTCTAAGAAAG+GGG 0.633083 6:-30186237 MsaT031587.1:CDS
GGATCATAGCTTAAAGACGA+TGG 0.633198 6:-30184437 MsaT031587.1:CDS
ATGAGTTTACAGCCACATTG+TGG 0.634509 6:-30184469 MsaT031587.1:CDS
GGATGATCGATCAATATAGG+AGG 0.639611 6:+30186452 None:intergenic
TACAAATCAGAGGTTTGACT+AGG 0.642589 6:+30184532 None:intergenic
TCAGCTAGCTCTCCGTCAGG+GGG 0.662037 6:+30186422 None:intergenic
TTATGAAATTGCAGAATGTG+CGG 0.662542 6:-30184563 MsaT031587.1:intron
CGGAGAGCTAGCTGATGGTG+CGG 0.662675 6:-30186414 MsaT031587.1:CDS
GACGTCCTCGAACTAATCGT+CGG 0.680634 6:-30184351 MsaT031587.1:CDS
TCATAGCTTAAAGACGATGG+AGG 0.687056 6:-30184434 MsaT031587.1:CDS
TCCCCTCCCACACCACAATG+TGG 0.710147 6:+30184457 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 30184030 30186486 30184030 ID=MsaG031587
Chr6 mRNA 30184030 30186486 30184030 ID=MsaT031587.1;Parent=MsaG031587
Chr6 exon 30184030 30184167 30184030 ID=MsaT031587.1.exon3;Parent=MsaT031587.1
Chr6 CDS 30184030 30184167 30184030 ID=cds.MsaT031587.1;Parent=MsaT031587.1
Chr6 exon 30184276 30184571 30184276 ID=MsaT031587.1.exon2;Parent=MsaT031587.1
Chr6 CDS 30184276 30184571 30184276 ID=cds.MsaT031587.1;Parent=MsaT031587.1
Chr6 exon 30186099 30186486 30186099 ID=MsaT031587.1.exon1;Parent=MsaT031587.1
Chr6 CDS 30186099 30186486 30186099 ID=cds.MsaT031587.1;Parent=MsaT031587.1
Gene Sequence

>MsaT031587.1

ATGGCTGATGGTCCTCCTATATTGATCGATCATCCTTTATTACCCCCTGACGGAGAGCTAGCTGATGGTGCGGCTCGTGTTGACGTTTCGGATTTCGGGACCTTTGAAACAACAAATGCTGTCGCAACAGATAAATTCACGCCTACTATCGGTATGTCTTTTAAATCGGTTGCAGATTGTAAGTCTTTTTACCGTGAATATGCCATGAAACAAGGGTTTGCGATCAAAACTAGAAACTCTAAGAAAGGGGCCGATGGCATGTTAAAATATTTCATTCTAACTTGTGCAAGAGAAGGTCACCATGAATCAAACATACCACCAACTTTGAAGACGAATCCAACGAAGAAACTTGATTGCTCAGCTAAGATAACGGTTGCTTTAAAGAAGGAATGTGCGGCTGAGACACCTAGTCAAACCTCTGATTTGTATGAAGAAATGATCAAATGGTCTAGCAAGAAGTTGGGCAAAATGAGTTTACAGCCACATTGTGGTGTGGGAGGGGATCATAGCTTAAAGACGATGGAGGAGTCATTATCACAGCAACCTGATCAACCAATTCTTAATCCGTTAAAAGTACCACGTAAGGGACGTCCTCGAACTAATCGTCGGTTGTCCACCACTGAAAAGATTGTGAAAAAAAGAAGCAAAATGCAAAGAAAAAAACCAATTGTTTCGGTTGTTGAACCTACATTACTTCCTATGTCTGATGGGTTTCAAGCGTCCGGTGATACGCTTAACTACTTCTCATCCCAACAGTCAACTAGTGGTTTTATGTCATTACTTGCATCAATGAGCAAAGATGTGGACGCAGCTGAATTTTAA
Protein sequence

>MsaT031587.1

MADGPPILIDHPLLPPDGELADGAARVDVSDFGTFETTNAVATDKFTPTIGMSFKSVADCKSFYREYAMKQGFAIKTRNSKKGADGMLKYFILTCAREGHHESNIPPTLKTNPTKKLDCSAKITVALKKECAAETPSQTSDLYEEMIKWSSKKLGKMSLQPHCGVGGDHSLKTMEESLSQQPDQPILNPLKVPRKGRPRTNRRLSTTEKIVKKRSKMQRKKPIVSVVEPTLLPMSDGFQASGDTLNYFSSQQSTSGFMSLLASMSKDVDAAEF*