AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0932000

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0932000 MtrunA17_Chr6g0448971 87.500 136 15 2 1 136 1 134 1.64e-84 243
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0932000 AT5G23440.1 48.649 148 49 6 13 138 40 182 7.04e-34 117
Msa0932000 AT5G08410.1 62.921 89 30 3 48 136 97 182 5.00e-31 109
Msa0932000 AT5G08410.2 62.921 89 30 3 48 136 117 202 6.04e-31 110

Find 25 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAAACAGAACGTGACTTTC+TGG 0.206313 6_3:+46385 Msa0932000:CDS
CTCTGCTAATCTTCCTTATA+AGG 0.228848 6_3:+46425 Msa0932000:CDS
GCAACAAATTCAACCTTATA+AGG 0.312698 6_3:-46438 None:intergenic
CCAAGATTGGAGCGCGTGTT+AGG 0.324986 6_3:+46289 Msa0932000:CDS
AAGTCACGTTCTGTTTGATT+TGG 0.360970 6_3:-46380 None:intergenic
CCTAACACGCGCTCCAATCT+TGG 0.382971 6_3:-46289 None:intergenic
GAGATCAACTTCAGGAACTT+TGG 0.391850 6_3:-46343 None:intergenic
TCGTCATTCTTATGCTTCTC+TGG 0.392590 6_3:-46218 None:intergenic
TGGAGCGCGTGTTAGGGTTA+AGG 0.393600 6_3:+46296 Msa0932000:CDS
AGATCAACTTCAGGAACTTT+GGG 0.402665 6_3:-46342 None:intergenic
GATTCATCAACAGCCAAGAT+TGG 0.446077 6_3:+46276 Msa0932000:CDS
CTTCAGGAACTTTGGGAACA+TGG 0.459074 6_3:-46335 None:intergenic
CTACCAGTGAGATCAACTTC+AGG 0.479502 6_3:-46351 None:intergenic
CAAGATTGGAGCGCGTGTTA+GGG 0.489458 6_3:+46290 Msa0932000:CDS
TTTGTTGCTGATGATATTCA+AGG 0.490454 6_3:+46453 Msa0932000:CDS
GGAACATGGTAGACTTTGAG+AGG 0.538879 6_3:-46321 None:intergenic
GTTCCTGAAGTTGATCTCAC+TGG 0.542999 6_3:+46348 Msa0932000:CDS
ACTCAGATAAGATGTGATGT+TGG 0.560643 6_3:+46240 Msa0932000:CDS
GTTGATCTCACTGGTAGAGA+AGG 0.573181 6_3:+46357 Msa0932000:CDS
AGATGAGCAACAAACTTGAG+AGG 0.590824 6_3:-46486 None:intergenic
CAATGTTGCAATTGAACAAG+TGG 0.623364 6_3:-46148 None:intergenic
GTATTCATAAACAACGGCAA+CGG 0.669143 6_3:-46177 None:intergenic
GATGATATTCAAGGTCCTCG+TGG 0.683280 6_3:+46462 Msa0932000:CDS
TTCGTCGTATTCATAAACAA+CGG 0.692168 6_3:-46183 None:intergenic
ACAAACTTGAGAGGACCACG+AGG 0.762532 6_3:-46477 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTCGTCGTATTCATAAACAA+CGG - chr6_3:46186-46205 None:intergenic 30.0%
GCAACAAATTCAACCTTATA+AGG - chr6_3:46441-46460 None:intergenic 30.0%
TTTGTTGCTGATGATATTCA+AGG + chr6_3:46453-46472 Msa0932000:CDS 30.0%
CAATGTTGCAATTGAACAAG+TGG - chr6_3:46151-46170 None:intergenic 35.0%
GTATTCATAAACAACGGCAA+CGG - chr6_3:46180-46199 None:intergenic 35.0%
ACTCAGATAAGATGTGATGT+TGG + chr6_3:46240-46259 Msa0932000:CDS 35.0%
AGATCAACTTCAGGAACTTT+GGG - chr6_3:46345-46364 None:intergenic 35.0%
AAGTCACGTTCTGTTTGATT+TGG - chr6_3:46383-46402 None:intergenic 35.0%
CTCTGCTAATCTTCCTTATA+AGG + chr6_3:46425-46444 Msa0932000:CDS 35.0%
TCGTCATTCTTATGCTTCTC+TGG - chr6_3:46221-46240 None:intergenic 40.0%
GATTCATCAACAGCCAAGAT+TGG + chr6_3:46276-46295 Msa0932000:CDS 40.0%
GAGATCAACTTCAGGAACTT+TGG - chr6_3:46346-46365 None:intergenic 40.0%
TCAAACAGAACGTGACTTTC+TGG + chr6_3:46385-46404 Msa0932000:CDS 40.0%
AGATGAGCAACAAACTTGAG+AGG - chr6_3:46489-46508 None:intergenic 40.0%
GGAACATGGTAGACTTTGAG+AGG - chr6_3:46324-46343 None:intergenic 45.0%
! CTTCAGGAACTTTGGGAACA+TGG - chr6_3:46338-46357 None:intergenic 45.0%
! GTTCCTGAAGTTGATCTCAC+TGG + chr6_3:46348-46367 Msa0932000:CDS 45.0%
CTACCAGTGAGATCAACTTC+AGG - chr6_3:46354-46373 None:intergenic 45.0%
GTTGATCTCACTGGTAGAGA+AGG + chr6_3:46357-46376 Msa0932000:CDS 45.0%
GATGATATTCAAGGTCCTCG+TGG + chr6_3:46462-46481 Msa0932000:CDS 45.0%
CAAGATTGGAGCGCGTGTTA+GGG + chr6_3:46290-46309 Msa0932000:CDS 50.0%
ACAAACTTGAGAGGACCACG+AGG - chr6_3:46480-46499 None:intergenic 50.0%
CCTAACACGCGCTCCAATCT+TGG - chr6_3:46292-46311 None:intergenic 55.0%
CCAAGATTGGAGCGCGTGTT+AGG + chr6_3:46289-46308 Msa0932000:CDS 55.0%
TGGAGCGCGTGTTAGGGTTA+AGG + chr6_3:46296-46315 Msa0932000:CDS 55.0%
Chromosome Type Strat End Strand Name
chr6_3 gene 46126 46542 46126 ID=Msa0932000;Name=Msa0932000
chr6_3 mRNA 46126 46542 46126 ID=Msa0932000-mRNA-1;Parent=Msa0932000;Name=Msa0932000-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|138
chr6_3 exon 46126 46542 46126 ID=Msa0932000-mRNA-1:exon:0;Parent=Msa0932000-mRNA-1
chr6_3 CDS 46126 46542 46126 ID=Msa0932000-mRNA-1:cds;Parent=Msa0932000-mRNA-1
Gene Sequence

>Msa0932000

ATGAACATGAACATGAGTAGCACCACTTGTTCAATTGCAACATTGCTGACTCCGTTGCCGTTGTTTATGAATACGACGAAGAAGAAGATGATCCAGAGAAGCATAAGAATGACGACTCAGATAAGATGTGATGTTGGAGAAGAAGAACAAGATTCATCAACAGCCAAGATTGGAGCGCGTGTTAGGGTTAAGGTTCCTCTCAAAGTCTACCATGTTCCCAAAGTTCCTGAAGTTGATCTCACTGGTAGAGAAGGCCAAATCAAACAGAACGTGACTTTCTGGAAAGATAATAAGCGAATCTCTGCTAATCTTCCTTATAAGGTTGAATTTGTTGCTGATGATATTCAAGGTCCTCGTGGTCCTCTCAAGTTTGTTGCTCATCTCAAAGATGATGAATTCGAATTTCTCTCTCAGTAA
Protein sequence

>Msa0932000

MNMNMSSTTCSIATLLTPLPLFMNTTKKKMIQRSIRMTTQIRCDVGEEEQDSSTAKIGARVRVKVPLKVYHVPKVPEVDLTGREGQIKQNVTFWKDNKRISANLPYKVEFVADDIQGPRGPLKFVAHLKDDEFEFLSQ*