AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1455000


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1455000 MtrunA17_Chr6g0448971 89.706 136 10 3 1 136 3 134 1.69e-84 243
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1455000 AT5G23440.1 47.297 148 53 6 11 138 40 182 7.85e-34 117
Msa1455000 AT5G08410.2 53.390 118 34 5 37 136 88 202 1.20e-31 112
Msa1455000 AT5G08410.1 53.390 118 34 5 37 136 68 182 1.22e-31 111

Find 24 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAAACAGAACGTGACTTTC+TGG 0.206313 tig0035566:+12502 Msa1455000:CDS
CTCTGCTAATCTTCCTTATA+AGG 0.228848 tig0035566:+12542 Msa1455000:CDS
GCAACAAATTCAACCTTATA+AGG 0.312698 tig0035566:-12555 None:intergenic
CCAAGATTGGAGCGCGTGTT+AGG 0.324986 tig0035566:+12406 Msa1455000:CDS
AAGTCACGTTCTGTTTGATT+TGG 0.360970 tig0035566:-12497 None:intergenic
CCTAACACGCGCTCCAATCT+TGG 0.382971 tig0035566:-12406 None:intergenic
GAGATCAACTTCAGGAACTT+TGG 0.391850 tig0035566:-12460 None:intergenic
TCGTCATTCTTATGCTTCTC+TGG 0.392590 tig0035566:-12329 None:intergenic
TGGAGCGCGTGTTAGGGTTA+AGG 0.393600 tig0035566:+12413 Msa1455000:CDS
AGATCAACTTCAGGAACTTT+GGG 0.402665 tig0035566:-12459 None:intergenic
TCATCATCAACAGCCAAGAT+TGG 0.450662 tig0035566:+12393 Msa1455000:CDS
CTACCAGTGAGATCAACTTC+AGG 0.479502 tig0035566:-12468 None:intergenic
CAAGATTGGAGCGCGTGTTA+GGG 0.489458 tig0035566:+12407 Msa1455000:CDS
TTTGTTGCTGATGATATTCA+AGG 0.490454 tig0035566:+12570 Msa1455000:CDS
GGAACGTGATAGACTTTGAG+AGG 0.536757 tig0035566:-12438 None:intergenic
GTTCCTGAAGTTGATCTCAC+TGG 0.542999 tig0035566:+12465 Msa1455000:CDS
ACTCAGATAAGATGTGATGT+TGG 0.560643 tig0035566:+12351 Msa1455000:CDS
GTTGATCTCACTGGTAGAGA+AGG 0.573181 tig0035566:+12474 Msa1455000:CDS
AGATGAGCAACAAACTTGAG+AGG 0.590824 tig0035566:-12603 None:intergenic
CAATGTTGCAATTGAAGAAG+TGG 0.598656 tig0035566:-12259 None:intergenic
TTCTTCGTATTCATAAACAA+CGG 0.618230 tig0035566:-12294 None:intergenic
GTATTCATAAACAACGGCAA+CGG 0.669143 tig0035566:-12288 None:intergenic
GATGATATTCAAGGTCCTCG+TGG 0.683280 tig0035566:+12579 Msa1455000:CDS
ACAAACTTGAGAGGACCACG+AGG 0.762532 tig0035566:-12594 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTCTTCGTATTCATAAACAA+CGG - tig0035566:12297-12316 None:intergenic 25.0%
GCAACAAATTCAACCTTATA+AGG - tig0035566:12558-12577 None:intergenic 30.0%
TTTGTTGCTGATGATATTCA+AGG + tig0035566:12570-12589 Msa1455000:CDS 30.0%
CAATGTTGCAATTGAAGAAG+TGG - tig0035566:12262-12281 None:intergenic 35.0%
GTATTCATAAACAACGGCAA+CGG - tig0035566:12291-12310 None:intergenic 35.0%
ACTCAGATAAGATGTGATGT+TGG + tig0035566:12351-12370 Msa1455000:CDS 35.0%
AGATCAACTTCAGGAACTTT+GGG - tig0035566:12462-12481 None:intergenic 35.0%
AAGTCACGTTCTGTTTGATT+TGG - tig0035566:12500-12519 None:intergenic 35.0%
CTCTGCTAATCTTCCTTATA+AGG + tig0035566:12542-12561 Msa1455000:CDS 35.0%
TCGTCATTCTTATGCTTCTC+TGG - tig0035566:12332-12351 None:intergenic 40.0%
TCATCATCAACAGCCAAGAT+TGG + tig0035566:12393-12412 Msa1455000:CDS 40.0%
GAGATCAACTTCAGGAACTT+TGG - tig0035566:12463-12482 None:intergenic 40.0%
TCAAACAGAACGTGACTTTC+TGG + tig0035566:12502-12521 Msa1455000:CDS 40.0%
AGATGAGCAACAAACTTGAG+AGG - tig0035566:12606-12625 None:intergenic 40.0%
GGAACGTGATAGACTTTGAG+AGG - tig0035566:12441-12460 None:intergenic 45.0%
! GTTCCTGAAGTTGATCTCAC+TGG + tig0035566:12465-12484 Msa1455000:CDS 45.0%
CTACCAGTGAGATCAACTTC+AGG - tig0035566:12471-12490 None:intergenic 45.0%
GTTGATCTCACTGGTAGAGA+AGG + tig0035566:12474-12493 Msa1455000:CDS 45.0%
GATGATATTCAAGGTCCTCG+TGG + tig0035566:12579-12598 Msa1455000:CDS 45.0%
CAAGATTGGAGCGCGTGTTA+GGG + tig0035566:12407-12426 Msa1455000:CDS 50.0%
ACAAACTTGAGAGGACCACG+AGG - tig0035566:12597-12616 None:intergenic 50.0%
CCTAACACGCGCTCCAATCT+TGG - tig0035566:12409-12428 None:intergenic 55.0%
CCAAGATTGGAGCGCGTGTT+AGG + tig0035566:12406-12425 Msa1455000:CDS 55.0%
TGGAGCGCGTGTTAGGGTTA+AGG + tig0035566:12413-12432 Msa1455000:CDS 55.0%
Chromosome Type Strat End Strand Name
tig0035566 gene 12243 12659 12243 ID=Msa1455000;Name=Msa1455000
tig0035566 mRNA 12243 12659 12243 ID=Msa1455000-mRNA-1;Parent=Msa1455000;Name=Msa1455000-mRNA-1;_AED=0.01;_eAED=0.02;_QI=0|-1|0|1|-1|1|1|0|138
tig0035566 exon 12243 12659 12243 ID=Msa1455000-mRNA-1:exon:20076;Parent=Msa1455000-mRNA-1
tig0035566 CDS 12243 12659 12243 ID=Msa1455000-mRNA-1:cds;Parent=Msa1455000-mRNA-1
Gene Sequence

>Msa1455000

ATGAACATGACTAGCACCACTTCTTCAATTGCAACATTGCTGACTCCGTTGCCGTTGTTTATGAATACGAAGAAGAAGATGATGATCCAGAGAAGCATAAGAATGACGACTCAGATAAGATGTGATGTTGGAGAAGAAGAAGAAGATTCATCATCATCAACAGCCAAGATTGGAGCGCGTGTTAGGGTTAAGGTTCCTCTCAAAGTCTATCACGTTCCCAAAGTTCCTGAAGTTGATCTCACTGGTAGAGAAGGCCAAATCAAACAGAACGTGACTTTCTGGAAAGATAATAAGCGAATCTCTGCTAATCTTCCTTATAAGGTTGAATTTGTTGCTGATGATATTCAAGGTCCTCGTGGTCCTCTCAAGTTTGTTGCTCATCTCAAAGATGATGAATTCGAATTTCTCTCTCAGTAA

Protein sequence

>Msa1455000

MNMTSTTSSIATLLTPLPLFMNTKKKMMIQRSIRMTTQIRCDVGEEEEDSSSSTAKIGARVRVKVPLKVYHVPKVPEVDLTGREGQIKQNVTFWKDNKRISANLPYKVEFVADDIQGPRGPLKFVAHLKDDEFEFLSQ*