AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080049076.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080049076.01.T01 MTR_8g056790 82.051 78 0 1 1 78 1 64 1.57e-38 122
MsG0080049076.01.T01 MTR_0002s0420 93.590 78 5 0 1 78 721 798 2.25e-29 108
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080049076.01.T01 ATCG00280 96.154 78 3 0 1 78 396 473 5.53e-46 152

Find 17 sgRNAs with CRISPR-Local

Find 17 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCTATTCGTAGGTCATTTA+TGG 0.182401 contig65end:+757 MsG0080049076.01.T01:CDS
GAAGTAGCTAACCAACTTCT+AGG 0.356364 contig65end:-714 None:intergenic
GCTGCCGCAGGATTTGAAAA+AGG 0.377269 contig65end:+801 MsG0080049076.01.T01:CDS
GATTTCATGTCTCAATTAAG+AGG 0.388927 contig65end:-861 None:intergenic
AGAGGAGTCATGAAAAGAAC+AGG 0.460358 contig65end:-843 None:intergenic
AGAGCTCGTGCAGCTGCCGC+AGG 0.471367 contig65end:+789 MsG0080049076.01.T01:CDS
GTTAGGTTCTTTAAATTCCG+TGG 0.475092 contig65end:+650 MsG0080049076.01.T01:CDS
ATTATGTCTCTCCTAGAAGT+TGG 0.506626 contig65end:+703 MsG0080049076.01.T01:CDS
TATATGACTCATGCTCCGTT+AGG 0.513350 contig65end:+633 None:intergenic
GCCATAAATGACCTACGAAT+AGG 0.544993 contig65end:-758 None:intergenic
CTAGGATTCTTCCTATTCGT+AGG 0.554463 contig65end:+747 MsG0080049076.01.T01:CDS
CTCTGTAGCTACGCCACCCA+CGG 0.562735 contig65end:-667 None:intergenic
GGTTCTTTAAATTCCGTGGG+TGG 0.568573 contig65end:+654 MsG0080049076.01.T01:CDS
TTAGGTTCTTTAAATTCCGT+GGG 0.572348 contig65end:+651 MsG0080049076.01.T01:CDS
CGTAGGTCATTTATGGCACG+CGG 0.588149 contig65end:+764 MsG0080049076.01.T01:CDS
ACGGAATTTAAAGAACCTAA+CGG 0.675233 contig65end:-648 None:intergenic
GTAGGTCATTTATGGCACGC+GGG 0.712089 contig65end:+765 MsG0080049076.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACGGAATTTAAAGAACCTAA+CGG - contig65end:651-670 None:intergenic 30.0%
TTAGGTTCTTTAAATTCCGT+GGG + contig65end:651-670 MsG0080049076.01.T01:CDS 30.0%
!!! AATTCCTTTTTCAAATCCTG+CGG - contig65end:808-827 None:intergenic 30.0%
ATTATGTCTCTCCTAGAAGT+TGG + contig65end:703-722 MsG0080049076.01.T01:CDS 35.0%
GTTAGGTTCTTTAAATTCCG+TGG + contig65end:650-669 MsG0080049076.01.T01:CDS 35.0%
TCCTATTCGTAGGTCATTTA+TGG + contig65end:757-776 MsG0080049076.01.T01:CDS 35.0%
! GCTACTTCTCATTTTGTTCT+AGG + contig65end:729-748 MsG0080049076.01.T01:CDS 35.0%
AGAGGAGTCATGAAAAGAAC+AGG - contig65end:846-865 None:intergenic 40.0%
CTAGGATTCTTCCTATTCGT+AGG + contig65end:747-766 MsG0080049076.01.T01:CDS 40.0%
GAAGTAGCTAACCAACTTCT+AGG - contig65end:717-736 None:intergenic 40.0%
GCCATAAATGACCTACGAAT+AGG - contig65end:761-780 None:intergenic 40.0%
GGTTCTTTAAATTCCGTGGG+TGG + contig65end:654-673 MsG0080049076.01.T01:CDS 45.0%
CGTAGGTCATTTATGGCACG+CGG + contig65end:764-783 MsG0080049076.01.T01:CDS 50.0%
GCTGCCGCAGGATTTGAAAA+AGG + contig65end:801-820 MsG0080049076.01.T01:CDS 50.0%
GTAGGTCATTTATGGCACGC+GGG + contig65end:765-784 MsG0080049076.01.T01:CDS 50.0%
CTCTGTAGCTACGCCACCCA+CGG - contig65end:670-689 None:intergenic 60.0%
AGAGCTCGTGCAGCTGCCGC+AGG + contig65end:789-808 MsG0080049076.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
contig65end gene 636 872 636 ID=MsG0080049076.01;Name=MsG0080049076.01
contig65end mRNA 636 872 636 ID=MsG0080049076.01.T01;Parent=MsG0080049076.01;Name=MsG0080049076.01.T01;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|0|1|0|78
contig65end exon 636 872 636 ID=MsG0080049076.01.T01:exon:5230;Parent=MsG0080049076.01.T01
contig65end CDS 636 872 636 ID=MsG0080049076.01.T01:cds;Parent=MsG0080049076.01.T01
Gene Sequence

>MsG0080049076.01.T01

ATGACTCATGCTCCGTTAGGTTCTTTAAATTCCGTGGGTGGCGTAGCTACAGAGATTAATGCAGTCAATTATGTCTCTCCTAGAAGTTGGTTAGCTACTTCTCATTTTGTTCTAGGATTCTTCCTATTCGTAGGTCATTTATGGCACGCGGGAAGAGCTCGTGCAGCTGCCGCAGGATTTGAAAAAGGAATTGATCGAGATTCTGAGCCTGTTCTTTTCATGACTCCTCTTAATTGA

Protein sequence

>MsG0080049076.01.T01

MTHAPLGSLNSVGGVATEINAVNYVSPRSWLATSHFVLGFFLFVGHLWHAGRARAAAAGFEKGIDRDSEPVLFMTPLN*