AlfalfaGEDB | Msa0966080

M. sativa cultivar zhongmu-4 / Msa0966080

KEGG: -
GO: -
PFAM: -

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0027390	Msa0966080	0.819660	1.033413e-52	-8.615850e-47
Msa0092440	Msa0966080	0.821159	4.681491e-53	-8.615850e-47
Msa0651270	Msa0966080	0.806486	8.036258e-50	-8.615850e-47
Msa0663250	Msa0966080	0.842689	2.218106e-58	-8.615850e-47
Msa0687450	Msa0966080	0.807628	4.606988e-50	-8.615850e-47
Msa0757800	Msa0966080	0.802491	5.470558e-49	-8.615850e-47
Msa0800700	Msa0966080	0.821131	4.751320e-53	-8.615850e-47
Msa0828660	Msa0966080	0.808732	2.679617e-50	-8.615850e-47
Msa0165300	Msa0966080	0.819650	1.038940e-52	-8.615850e-47
Msa0174360	Msa0966080	0.803116	4.063692e-49	-8.615850e-47
Msa0218350	Msa0966080	0.804416	2.182696e-49	-8.615850e-47
Msa0417650	Msa0966080	0.816636	4.992658e-52	-8.615850e-47
Msa0417730	Msa0966080	0.812626	3.856375e-51	-8.615850e-47
Msa0428050	Msa0966080	0.811155	8.066140e-51	-8.615850e-47
Msa0269520	Msa0966080	0.826496	2.627145e-54	-8.615850e-47
Msa0510290	Msa0966080	0.827770	1.302250e-54	-8.615850e-47
Msa0512870	Msa0966080	0.828260	9.921825e-55	-8.615850e-47
Msa0861830	Msa0966080	0.804288	2.321031e-49	-8.615850e-47
Msa0925250	Msa0966080	0.823332	1.466400e-53	-8.615850e-47
Msa0925280	Msa0966080	0.951224	3.205632e-109	-8.615850e-47
Msa0925290	Msa0966080	0.801092	1.059801e-48	-8.615850e-47
Msa0961300	Msa0966080	0.817630	2.984885e-52	-8.615850e-47
Msa0966080	Msa0966090	0.819389	1.191772e-52	-8.615850e-47
Msa0966080	Msa1010070	0.814174	1.762447e-51	-8.615850e-47
Msa0966080	Msa1176270	0.806239	9.059541e-50	-8.615850e-47
Msa0966080	Msa1388450	0.802754	4.829264e-49	-8.615850e-47
Msa0966080	Msa1403480	0.802541	5.343611e-49	-8.615850e-47
Msa0966080	Msa1432770	0.853805	1.874906e-61	-8.615850e-47
Msa0966080	Msa1443060	0.833607	4.840521e-56	-8.615850e-47

PPI

Gene1	Gene2	Type

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

Find 11 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
ATCAAATCTAATGTCCTTAT+TGG	0.159858	6_3:-94025525	None:intergenic
AATGTCCTTATTGGTTGTTT+TGG	0.290172	6_3:-94025516	Msa0966080:CDS
TTCATCCAAAACAACCAATA+AGG	0.361690	6_3:+94025511	None:intergenic
CTCTGAATCTGAACAGTCTT+AGG	0.361731	6_3:+94025440	None:intergenic
CTTAGGCCACTTGTCGAATC+TGG	0.370934	6_3:+94025457	None:intergenic
TTCAGATTCAGAGGAAGAAG+AGG	0.501652	6_3:-94025430	Msa0966080:CDS
TTAACATGGTTTAATCATTG+AGG	0.522179	6_3:+94025110	None:intergenic
GGAAGCTATTCGAGAAGAAG+AGG	0.554823	6_3:-94025487	Msa0966080:CDS
CTAAGACTGTTCAGATTCAG+AGG	0.581573	6_3:-94025439	Msa0966080:CDS
ATTTGACCAGATTCGACAAG+TGG	0.608851	6_3:-94025463	Msa0966080:CDS
GAAGCTATTCGAGAAGAAGA+GGG	0.626506	6_3:-94025486	Msa0966080:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
	TTCATCCAAAACAACCAATA+AGG	+	chr6_3:94025131-94025150	None:intergenic	30.0%
!!!	TATTGGTTGTTTTGGATGAA+TGG	-	chr6_3:94025131-94025150	Msa0966080:CDS	30.0%
	AAACCATATAGACTGATACA+CGG	+	chr6_3:94025349-94025368	None:intergenic	30.0%
!	TATCAGTCTATATGGTTTGT+AGG	-	chr6_3:94025351-94025370	Msa0966080:intron	30.0%
	TTTCAACATTTAGCATGTAC+TGG	-	chr6_3:94025455-94025474	Msa0966080:CDS	30.0%
	ATATAGACTGATACACGGAT+AGG	+	chr6_3:94025344-94025363	None:intergenic	35.0%
	TATCCGTGTATCAGTCTATA+TGG	-	chr6_3:94025343-94025362	Msa0966080:intron	35.0%
	GAAGCTATTCGAGAAGAAGA+GGG	-	chr6_3:94025153-94025172	Msa0966080:intron	40.0%
	ATTTGACCAGATTCGACAAG+TGG	-	chr6_3:94025176-94025195	Msa0966080:intron	40.0%
	CTCTGAATCTGAACAGTCTT+AGG	+	chr6_3:94025202-94025221	None:intergenic	40.0%
	CTAAGACTGTTCAGATTCAG+AGG	-	chr6_3:94025200-94025219	Msa0966080:intron	40.0%
	TTCAGATTCAGAGGAAGAAG+AGG	-	chr6_3:94025209-94025228	Msa0966080:intron	40.0%
!!!	AGAAGAGGATTTTGAAGCAG+AGG	-	chr6_3:94025224-94025243	Msa0966080:intron	40.0%
!!!	GATTTTGAAGCAGAGGTTGA+AGG	-	chr6_3:94025231-94025250	Msa0966080:intron	40.0%
!	CCAAATTTCTAGACAGCTCA+AGG	+	chr6_3:94025282-94025301	None:intergenic	40.0%
	CCTTGAGCTGTCTAGAAATT+TGG	-	chr6_3:94025279-94025298	Msa0966080:intron	40.0%
	GCTGTCTAGAAATTTGGATG+TGG	-	chr6_3:94025285-94025304	Msa0966080:intron	40.0%
	GGAAGCTATTCGAGAAGAAG+AGG	-	chr6_3:94025152-94025171	Msa0966080:CDS	45.0%
	CTTAGGCCACTTGTCGAATC+TGG	+	chr6_3:94025185-94025204	None:intergenic	50.0%

Chromosome	Type	Strat	End	Strand	Name
chr6_3	gene	94025124	94025537	94025124	ID=Msa0966080;Name=Msa0966080
chr6_3	mRNA	94025124	94025537	94025124	ID=Msa0966080-mRNA-1;Parent=Msa0966080;Name=Msa0966080-mRNA-1;_AED=0.72;_eAED=0.72;_QI=0\|0\|0\|0.5\|1\|1\|2\|0\|58
chr6_3	exon	94025409	94025537	94025409	ID=Msa0966080-mRNA-1:exon:17338;Parent=Msa0966080-mRNA-1
chr6_3	exon	94025124	94025171	94025124	ID=Msa0966080-mRNA-1:exon:17337;Parent=Msa0966080-mRNA-1
chr6_3	CDS	94025409	94025537	94025409	ID=Msa0966080-mRNA-1:cds;Parent=Msa0966080-mRNA-1
chr6_3	CDS	94025124	94025171	94025124	ID=Msa0966080-mRNA-1:cds;Parent=Msa0966080-mRNA-1

Gene Sequence	>Msa0966080 ATGTCCTTATTGGTTGTTTTGGATGAATGGAAGCTATTCGAGAAGAAGAGGGATTTGACCAGATTCGACAAGTGGCCTAAGACTGTTCAGATTCAGAGGAAGAAGAGGATTTTGAAGCAGAGGTTGAAGCAGCTGTCAGTTGCATTATGTTACAACTTGCTGTCATCACCTCAATGA
Protein sequence	>Msa0966080 MSLLVVLDEWKLFEKKRDLTRFDKWPKTVQIQRKKRILKQRLKQLSVALCYNLLSSPQ*