AlfalfaGEDB | Msa0372520

M. sativa cultivar zhongmu-4 / Msa0372520

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
Msa0017510	Msa0372520	0.822223	2.657972e-53	-8.615850e-47
Msa0140780	Msa0372520	0.803476	3.423383e-49	-8.615850e-47
Msa0157290	Msa0372520	0.822172	2.730265e-53	-8.615850e-47
Msa0200260	Msa0372520	0.813906	2.018642e-51	-8.615850e-47
Msa0220740	Msa0372520	0.811793	5.860472e-51	-8.615850e-47
Msa0372520	Msa0431690	0.804961	1.679599e-49	-8.615850e-47
Msa0372520	Msa0440750	0.800803	1.214322e-48	-8.615850e-47
Msa0372520	Msa0484780	0.823093	1.667685e-53	-8.615850e-47
Msa0372520	Msa0512890	0.840538	8.188348e-58	-8.615850e-47
Msa0372520	Msa0512900	0.841482	4.627394e-58	-8.615850e-47
Msa0372520	Msa0657970	0.819984	8.715216e-53	-8.615850e-47
Msa0372520	Msa0760130	0.800951	1.132398e-48	-8.615850e-47
Msa0372520	Msa0793640	0.804891	1.737446e-49	-8.615850e-47
Msa0372520	Msa0880140	0.819418	1.173688e-52	-8.615850e-47
Msa0372520	Msa0909120	0.807303	5.397767e-50	-8.615850e-47
Msa0372520	Msa0909140	0.806393	8.407807e-50	-8.615850e-47
Msa0372520	Msa0954130	0.805078	1.587592e-49	-8.615850e-47
Msa0372520	Msa0954550	0.805668	1.194243e-49	-8.615850e-47
Msa0372520	Msa0969450	0.809820	1.566024e-50	-8.615850e-47
Msa0372520	Msa0969520	0.806507	7.956231e-50	-8.615850e-47
Msa0372520	Msa1014540	0.804215	2.403748e-49	-8.615850e-47
Msa0372520	Msa1045200	0.804067	2.581195e-49	-8.615850e-47
Msa0372520	Msa1075220	-0.802943	4.413435e-49	-8.615850e-47
Msa0372520	Msa1082500	0.830354	3.078362e-55	-8.615850e-47
Msa0372520	Msa1162550	-0.800083	1.702280e-48	-8.615850e-47
Msa0372520	Msa1233890	0.800318	1.524359e-48	-8.615850e-47
Msa0372520	Msa1306850	0.805418	1.347736e-49	-8.615850e-47
Msa0372520	Msa1324500	0.800651	1.304099e-48	-8.615850e-47
Msa0372520	Msa1372760	0.801827	7.491869e-49	-8.615850e-47
Msa0372520	Msa1397860	0.805690	1.181990e-49	-8.615850e-47
Msa0372520	Msa1438250	0.819591	1.071757e-52	-8.615850e-47
Msa0372520	Msa1439320	0.800222	1.594660e-48	-8.615850e-47
Msa0372520	Msa1452120	0.803182	3.938069e-49	-8.615850e-47
Msa0243100	Msa0372520	0.819502	1.123011e-52	-8.615850e-47
Msa0287650	Msa0372520	0.803863	2.845290e-49	-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 12 sgRNAs with CRISPR-Local

Find 14 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
CATGCCAACGACGGAAATTA+TGG	0.252778	3_1:-71100545	None:intergenic
ACTTCAATTCTGGAAACGTC+TGG	0.458723	3_1:-71100513	None:intergenic
TGACAATAAGAAGAATGTTT+CGG	0.460187	3_1:+71100429	Msa0372520:CDS
ATGGCCATAATTTCCGTCGT+TGG	0.472194	3_1:+71100541	Msa0372520:CDS
ACAATCTAAGGAATTATGGC+TGG	0.522622	3_1:+71100391	None:intergenic
TACTGATCCTCCTCCGACAG+TGG	0.555859	3_1:+71100471	Msa0372520:CDS
TAGGTGACCACTGTCGGAGG+AGG	0.579910	3_1:-71100478	None:intergenic
TTTGCATAGGTGACCACTGT+CGG	0.584337	3_1:-71100484	None:intergenic
GAGGATCAGTAGCAACAACA+AGG	0.606584	3_1:-71100459	None:intergenic
AGATGCGTTCATGCCAACGA+CGG	0.660184	3_1:-71100554	None:intergenic
GCATAGGTGACCACTGTCGG+AGG	0.668853	3_1:-71100481	None:intergenic
AGGATCAGTAGCAACAACAA+GGG	0.691715	3_1:-71100458	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!	TGACAATAAGAAGAATGTTT+CGG	+	chr3_1:71100429-71100448	Msa0372520:CDS	25.0%
!	TCCAGAATTGAAGTTTTTGA+TGG	+	chr3_1:71100522-71100541	Msa0372520:CDS	30.0%
	GCCATCAAAAACTTCAATTC+TGG	-	chr3_1:71100526-71100545	None:intergenic	35.0%
	AGGATCAGTAGCAACAACAA+GGG	-	chr3_1:71100461-71100480	None:intergenic	40.0%
!	ACTTCAATTCTGGAAACGTC+TGG	-	chr3_1:71100516-71100535	None:intergenic	40.0%
	GAGGATCAGTAGCAACAACA+AGG	-	chr3_1:71100462-71100481	None:intergenic	45.0%
	TTTGCATAGGTGACCACTGT+CGG	-	chr3_1:71100487-71100506	None:intergenic	45.0%
!!	CGTCTGGAACTGTTTTGCAT+AGG	-	chr3_1:71100500-71100519	None:intergenic	45.0%
	ATGGCCATAATTTCCGTCGT+TGG	+	chr3_1:71100541-71100560	Msa0372520:CDS	45.0%
	CATGCCAACGACGGAAATTA+TGG	-	chr3_1:71100548-71100567	None:intergenic	45.0%
	AGATGCGTTCATGCCAACGA+CGG	-	chr3_1:71100557-71100576	None:intergenic	50.0%
	TACTGATCCTCCTCCGACAG+TGG	+	chr3_1:71100471-71100490	Msa0372520:CDS	55.0%
	TAGGTGACCACTGTCGGAGG+AGG	-	chr3_1:71100481-71100500	None:intergenic	60.0%
	GCATAGGTGACCACTGTCGG+AGG	-	chr3_1:71100484-71100503	None:intergenic	60.0%

Chromosome	Type	Strat	End	Strand	Name
chr3_1	gene	71100406	71100588	71100406	ID=Msa0372520;Name=Msa0372520
chr3_1	mRNA	71100406	71100588	71100406	ID=Msa0372520-mRNA-1;Parent=Msa0372520;Name=Msa0372520-mRNA-1;_AED=0.52;_eAED=1.00;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|60
chr3_1	exon	71100406	71100588	71100406	ID=Msa0372520-mRNA-1:exon:15625;Parent=Msa0372520-mRNA-1
chr3_1	CDS	71100406	71100588	71100406	ID=Msa0372520-mRNA-1:cds;Parent=Msa0372520-mRNA-1

Gene Sequence	>Msa0372520 ATGGCTGGAGATGATTCTAACAATGACAATAAGAAGAATGTTTCGGACTCTACCCTTGTTGTTGCTACTGATCCTCCTCCGACAGTGGTCACCTATGCAAAACAGTTCCAGACGTTTCCAGAATTGAAGTTTTTGATGGCCATAATTTCCGTCGTTGGCATGAACGCATCTTCACACTGCTAG
Protein sequence	>Msa0372520 MAGDDSNNDNKKNVSDSTLVVATDPPPTVVTYAKQFQTFPELKFLMAIISVVGMNASSHC*