AlfalfaGEDB | Msa0925280

M. sativa cultivar zhongmu-4 / Msa0925280

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	Msa0925280	0.817639	2.971683e-52	-8.615850e-47
Msa0031180	Msa0925280	0.818046	2.404820e-52	-8.615850e-47
Msa0078480	Msa0925280	0.820842	5.538431e-53	-8.615850e-47
Msa0082440	Msa0925280	0.804144	2.487601e-49	-8.615850e-47
Msa0092440	Msa0925280	0.823452	1.374333e-53	-8.615850e-47
Msa0651270	Msa0925280	0.814130	1.801815e-51	-8.615850e-47
Msa0663250	Msa0925280	0.841791	3.835057e-58	-8.615850e-47
Msa0682550	Msa0925280	0.801033	1.089497e-48	-8.615850e-47
Msa0687450	Msa0925280	0.804586	2.011663e-49	-8.615850e-47
Msa0749400	Msa0925280	0.809892	1.511658e-50	-8.615850e-47
Msa0756530	Msa0925280	0.803149	4.000058e-49	-8.615850e-47
Msa0757800	Msa0925280	0.809372	1.955198e-50	-8.615850e-47
Msa0780280	Msa0925280	0.814052	1.875035e-51	-8.615850e-47
Msa0800700	Msa0925280	0.826992	2.000242e-54	-8.615850e-47
Msa0805430	Msa0925280	0.800286	1.547817e-48	-8.615850e-47
Msa0821800	Msa0925280	0.820307	7.350016e-53	-8.615850e-47
Msa0828660	Msa0925280	0.810317	1.224349e-50	-8.615850e-47
Msa0832090	Msa0925280	0.803730	3.031896e-49	-8.615850e-47
Msa0126230	Msa0925280	0.805422	1.345297e-49	-8.615850e-47
Msa0128180	Msa0925280	0.804948	1.690702e-49	-8.615850e-47
Msa0139700	Msa0925280	0.802500	5.448221e-49	-8.615850e-47
Msa0143850	Msa0925280	0.813679	2.265603e-51	-8.615850e-47
Msa0165300	Msa0925280	0.813648	2.300826e-51	-8.615850e-47
Msa0174360	Msa0925280	0.823942	1.055483e-53	-8.615850e-47
Msa0218350	Msa0925280	0.809055	2.286405e-50	-8.615850e-47
Msa0417650	Msa0925280	0.816329	5.848641e-52	-8.615850e-47
Msa0417730	Msa0925280	0.811377	7.218167e-51	-8.615850e-47
Msa0428050	Msa0925280	0.816707	4.812941e-52	-8.615850e-47
Msa0468250	Msa0925280	0.801763	7.722769e-49	-8.615850e-47
Msa0269520	Msa0925280	0.829433	5.163174e-55	-8.615850e-47
Msa0284350	Msa0925280	0.804128	2.506261e-49	-8.615850e-47
Msa0308550	Msa0925280	0.802336	5.887252e-49	-8.615850e-47
Msa0317740	Msa0925280	0.801000	1.107008e-48	-8.615850e-47
Msa0318880	Msa0925280	0.800961	1.127005e-48	-8.615850e-47
Msa0320800	Msa0925280	0.800766	1.235411e-48	-8.615850e-47
Msa0358400	Msa0925280	0.806590	7.639349e-50	-8.615850e-47
Msa0484780	Msa0925280	0.803419	3.518384e-49	-8.615850e-47
Msa0510290	Msa0925280	0.819781	9.699579e-53	-8.615850e-47
Msa0512870	Msa0925280	0.824766	6.755761e-54	-8.615850e-47
Msa0576680	Msa0925280	0.813446	2.549874e-51	-8.615850e-47
Msa0579200	Msa0925280	0.808182	3.511808e-50	-8.615850e-47
Msa0861830	Msa0925280	0.820932	5.280423e-53	-8.615850e-47
Msa0868440	Msa0925280	0.802431	5.627508e-49	-8.615850e-47
Msa0925250	Msa0925280	0.822414	2.399734e-53	-8.615850e-47
Msa0925270	Msa0925280	0.805449	1.327948e-49	-8.615850e-47
Msa0925280	Msa0925290	0.808979	2.373806e-50	-8.615850e-47
Msa0925280	Msa0939000	0.801185	1.014584e-48	-8.615850e-47
Msa0925280	Msa0961300	0.814942	1.191432e-51	-8.615850e-47
Msa0925280	Msa0966080	0.951224	3.205632e-109	-8.615850e-47
Msa0925280	Msa0966090	0.819579	1.078456e-52	-8.615850e-47
Msa0925280	Msa0975940	0.811213	7.833060e-51	-8.615850e-47
Msa0925280	Msa1010070	0.825098	5.641860e-54	-8.615850e-47
Msa0925280	Msa1176270	0.812776	3.576241e-51	-8.615850e-47
Msa0925280	Msa1224830	0.802245	6.147676e-49	-8.615850e-47
Msa0925280	Msa1288450	0.804843	1.778556e-49	-8.615850e-47
Msa0925280	Msa1333730	0.805985	1.024522e-49	-8.615850e-47
Msa0925280	Msa1338250	0.802503	5.439282e-49	-8.615850e-47
Msa0925280	Msa1388450	0.806693	7.267168e-50	-8.615850e-47
Msa0925280	Msa1392700	0.809796	1.585105e-50	-8.615850e-47
Msa0925280	Msa1403480	0.815217	1.035017e-51	-8.615850e-47
Msa0925280	Msa1424680	0.801204	1.005579e-48	-8.615850e-47
Msa0925280	Msa1432770	0.848111	7.546793e-60	-8.615850e-47
Msa0925280	Msa1435400	0.801566	8.474257e-49	-8.615850e-47
Msa0925280	Msa1443060	0.841006	6.172444e-58	-8.615850e-47
Msa0925280	Msa1446780	0.804826	1.792719e-49	-8.615850e-47
Msa0925280	Msa1462930	0.809095	2.241107e-50	-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_2:-68224595	None:intergenic
AATGTCCTTATTGGTTGTTT+TGG	0.290172	6_2:-68224586	Msa0925280:CDS
TTCATCCAAAACAACCAATA+AGG	0.361690	6_2:+68224581	None:intergenic
CTCTGAATCTGAACAGTCTT+AGG	0.361731	6_2:+68224510	None:intergenic
CTTAGGCCACTTGTCGAATC+TGG	0.370934	6_2:+68224527	None:intergenic
TTCAGATTCAGAGGAAGAAG+AGG	0.501652	6_2:-68224500	Msa0925280:CDS
TTAACATGGTTTAATCATTG+AGG	0.522179	6_2:+68224180	None:intergenic
GGAAGCTATTCGAGAAGAAG+AGG	0.554823	6_2:-68224557	Msa0925280:CDS
CTAAGACTGTTCAGATTCAG+AGG	0.581573	6_2:-68224509	Msa0925280:CDS
ATTTGACCAGATTCGACAAG+TGG	0.608851	6_2:-68224533	Msa0925280:CDS
GAAGCTATTCGAGAAGAAGA+GGG	0.626506	6_2:-68224556	Msa0925280:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
	TTCATCCAAAACAACCAATA+AGG	+	chr6_2:68224201-68224220	None:intergenic	30.0%
!!!	TATTGGTTGTTTTGGATGAA+TGG	-	chr6_2:68224201-68224220	Msa0925280:CDS	30.0%
	AAACCATATAGACTGATACA+CGG	+	chr6_2:68224419-68224438	None:intergenic	30.0%
!	TATCAGTCTATATGGTTTGT+AGG	-	chr6_2:68224421-68224440	Msa0925280:intron	30.0%
	TTTCAACATTTAGCATGTAC+TGG	-	chr6_2:68224525-68224544	Msa0925280:CDS	30.0%
	ATATAGACTGATACACGGAT+AGG	+	chr6_2:68224414-68224433	None:intergenic	35.0%
	TATCCGTGTATCAGTCTATA+TGG	-	chr6_2:68224413-68224432	Msa0925280:intron	35.0%
	GAAGCTATTCGAGAAGAAGA+GGG	-	chr6_2:68224223-68224242	Msa0925280:intron	40.0%
	ATTTGACCAGATTCGACAAG+TGG	-	chr6_2:68224246-68224265	Msa0925280:intron	40.0%
	CTCTGAATCTGAACAGTCTT+AGG	+	chr6_2:68224272-68224291	None:intergenic	40.0%
	CTAAGACTGTTCAGATTCAG+AGG	-	chr6_2:68224270-68224289	Msa0925280:intron	40.0%
	TTCAGATTCAGAGGAAGAAG+AGG	-	chr6_2:68224279-68224298	Msa0925280:intron	40.0%
!!!	AGAAGAGGATTTTGAAGCAG+AGG	-	chr6_2:68224294-68224313	Msa0925280:intron	40.0%
!!!	GATTTTGAAGCAGAGGTTGA+AGG	-	chr6_2:68224301-68224320	Msa0925280:intron	40.0%
!	CCAAATTTCTAGACAGCTCA+AGG	+	chr6_2:68224352-68224371	None:intergenic	40.0%
	CCTTGAGCTGTCTAGAAATT+TGG	-	chr6_2:68224349-68224368	Msa0925280:intron	40.0%
	GCTGTCTAGAAATTTGGATG+TGG	-	chr6_2:68224355-68224374	Msa0925280:intron	40.0%
	GGAAGCTATTCGAGAAGAAG+AGG	-	chr6_2:68224222-68224241	Msa0925280:CDS	45.0%
	CTTAGGCCACTTGTCGAATC+TGG	+	chr6_2:68224255-68224274	None:intergenic	50.0%

Chromosome	Type	Strat	End	Strand	Name
chr6_2	gene	68224194	68224607	68224194	ID=Msa0925280;Name=Msa0925280
chr6_2	mRNA	68224194	68224607	68224194	ID=Msa0925280-mRNA-1;Parent=Msa0925280;Name=Msa0925280-mRNA-1;_AED=0.72;_eAED=0.72;_QI=0\|0\|0\|0.5\|1\|1\|2\|0\|58
chr6_2	exon	68224479	68224607	68224479	ID=Msa0925280-mRNA-1:exon:10879;Parent=Msa0925280-mRNA-1
chr6_2	exon	68224194	68224241	68224194	ID=Msa0925280-mRNA-1:exon:10878;Parent=Msa0925280-mRNA-1
chr6_2	CDS	68224479	68224607	68224479	ID=Msa0925280-mRNA-1:cds;Parent=Msa0925280-mRNA-1
chr6_2	CDS	68224194	68224241	68224194	ID=Msa0925280-mRNA-1:cds;Parent=Msa0925280-mRNA-1

Gene Sequence	>Msa0925280 ATGTCCTTATTGGTTGTTTTGGATGAATGGAAGCTATTCGAGAAGAAGAGGGATTTGACCAGATTCGACAAGTGGCCTAAGACTGTTCAGATTCAGAGGAAGAAGAGGATTTTGAAGCAGAGGTTGAAGCAGCTGTCAGTTGCATTATGTTACAACTTGCTGTCATCACCTCAATGA
Protein sequence	>Msa0925280 MSLLVVLDEWKLFEKKRDLTRFDKWPKTVQIQRKKRILKQRLKQLSVALCYNLLSSPQ*