AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010892

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010892 MtrunA17_Chr2g0330201 87.946 224 18 4 1 224 63 277 1.38e-126 360
MsaG010892 MtrunA17_Chr8g0342351 34.896 192 111 4 1 190 56 235 1.09e-17 79.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010892 AT1G72980.1 45.570 79 42 1 1 78 57 135 8.51e-16 73.6
MsaG010892 AT3G13850.1 43.662 71 40 0 1 71 80 150 1.41e-11 62.8

Find 34 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTGTAAAGGAACATAATT+AGG 0.133443 2:-79043565 None:intergenic
AATCAATGAAATGAATTCTT+TGG 0.228002 2:+79043732 MsaT010892.1:CDS
AAGAATTCATTTCATTGATT+AGG 0.332115 2:-79043729 None:intergenic
GACATTGGAGGGTAACAATA+AGG 0.392243 2:+79043636 MsaT010892.1:CDS
GCAACATGTTCATATTCAAT+TGG 0.430357 2:-79043477 None:intergenic
CTTGTAAAGGAACATAATTA+GGG 0.440777 2:-79043564 None:intergenic
TCAATCTGATATGCGTGCTA+TGG 0.454015 2:+79043183 MsaT010892.1:CDS
CAGCAGAATAAGTATTGATC+CGG 0.456820 2:+79043762 MsaT010892.1:CDS
ATCAATACTTATTCTGCTGT+TGG 0.467385 2:-79043758 None:intergenic
ACCGCTGTCGCCGTTGACAT+TGG 0.480229 2:+79043621 MsaT010892.1:CDS
AAGTATTGATCCGGGGCACC+AGG 0.481958 2:+79043771 MsaT010892.1:CDS
AATCGATAACAACCACCAAC+AGG 0.487385 2:-79043208 None:intergenic
CATAATAATAACGATGATGA+TGG 0.501827 2:+79043394 MsaT010892.1:CDS
AAACGTGTTGGTGATGATCA+AGG 0.510657 2:+79043682 MsaT010892.1:CDS
AATTAACAAACCTGGTGCCC+CGG 0.523440 2:-79043781 None:intergenic
GTATTAAAATCCTCTTGTAA+AGG 0.525655 2:-79043577 None:intergenic
AGCAGAATAAGTATTGATCC+GGG 0.538467 2:+79043763 MsaT010892.1:CDS
TGCAGCAGTTGCAGTTGTTG+AGG 0.538937 2:-79043508 None:intergenic
TCATCATTATAATGACATGC+AGG 0.554364 2:+79043363 MsaT010892.1:CDS
TAATTATGTTCCTTTACAAG+AGG 0.560978 2:+79043567 MsaT010892.1:CDS
CACCAACTAATTAACAAACC+TGG 0.563620 2:-79043789 None:intergenic
TGCAGTTGTTGAGGTTGTTG+AGG 0.566132 2:-79043499 None:intergenic
GCTGTCGCCGTTGACATTGG+AGG 0.577848 2:+79043624 MsaT010892.1:CDS
CTGTCGCCGTTGACATTGGA+GGG 0.585568 2:+79043625 MsaT010892.1:CDS
CGTGCTATGGATCCTGTTGG+TGG 0.590598 2:+79043196 MsaT010892.1:CDS
CAATATGTTGTTGATGATGT+CGG 0.594144 2:+79043535 MsaT010892.1:CDS
GTATGATCTCTAAGATGAGG+TGG 0.598062 2:-79043142 None:intergenic
TCCAATGTCAACGGCGACAG+CGG 0.601203 2:-79043622 None:intergenic
TTGTTACCCTCCAATGTCAA+CGG 0.604424 2:-79043631 None:intergenic
ATAGTATGATCTCTAAGATG+AGG 0.624071 2:-79043145 None:intergenic
ATGCGTGCTATGGATCCTGT+TGG 0.652692 2:+79043193 MsaT010892.1:CDS
GGTAACAATAAGGAGGAAGA+CGG 0.654532 2:+79043646 MsaT010892.1:CDS
ATTGGAGGGTAACAATAAGG+AGG 0.667036 2:+79043639 MsaT010892.1:CDS
GCAGAATAAGTATTGATCCG+GGG 0.700887 2:+79043764 MsaT010892.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 79043127 79043801 79043127 ID=MsaG010892
Chr2 mRNA 79043127 79043801 79043127 ID=MsaT010892.1;Parent=MsaG010892
Chr2 exon 79043127 79043801 79043127 ID=MsaT010892.1.exon1;Parent=MsaT010892.1
Chr2 CDS 79043127 79043801 79043127 ID=cds.MsaT010892.1;Parent=MsaT010892.1
Gene Sequence

>MsaT010892.1

ATGATCAAGAATGTTCCACCTCATCTTAGAGATCATACTATGAGTTCTATTATTTTTCAATCTGATATGCGTGCTATGGATCCTGTTGGTGGTTGTTATCGATTCATTCAACAGCTTCAATCTCAATATGAATTTTATCAAGCTGAGCTTCATCTTACACGTCAACAAATTGCTATTTGTAAAGCTTCACAATCACAACATCAACAACAACAACAACTTGCTGCTGCTGTTAATCATCATCATTATAATGACATGCAGGTCATTAATCATAATAATAACGATGATGATGGTCATAACGATGCTGCTTTGAATATTATTAATCATTTTAATCAGCATCATTTTGTTGATGACCAATTGAATATGAACATGTTGCCTCAACAACCTCAACAACTGCAACTGCTGCAGCAGCAATATGTTGTTGATGATGTCGGTATTAACCCTAATTATGTTCCTTTACAAGAGGATTTTAATACATGGGCGAACAATATTAATATACCGCTGTCGCCGTTGACATTGGAGGGTAACAATAAGGAGGAAGACGGTGAAGAAGATCAAAAACGTGTTGGTGATGATCAAGGAAGTGATCAGAAACCCGTTTTTGACCTAATCAATGAAATGAATTCTTTGGATACCAACAGCAGAATAAGTATTGATCCGGGGCACCAGGTTTGTTAA
Protein sequence

>MsaT010892.1

MIKNVPPHLRDHTMSSIIFQSDMRAMDPVGGCYRFIQQLQSQYEFYQAELHLTRQQIAICKASQSQHQQQQQLAAAVNHHHYNDMQVINHNNNDDDGHNDAALNIINHFNQHHFVDDQLNMNMLPQQPQQLQLLQQQYVVDDVGINPNYVPLQEDFNTWANNINIPLSPLTLEGNNKEEDGEEDQKRVGDDQGSDQKPVFDLINEMNSLDTNSRISIDPGHQVC*