AlfalfaGEDB | Msa0145250

M. sativa cultivar zhongmu-4 / Msa0145250

KEGG: -
GO: GO:0003674 GO:0005488 GO:0005509 GO:0043167 GO:0043169 GO:0046872
PFAM: PF13405.9

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0145250	AES59462.1	94.624	93	5	0	1	93	1	93	1.75e-58	184

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
Msa0145250	G7I3M7	94.624	93	5	0	1	93	1	93	8.36e-59	184

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0017510	Msa0145250	0.803442	3.479770e-49	-8.615850e-47
Msa0026440	Msa0145250	0.805892	1.071701e-49	-8.615850e-47
Msa0145250	Msa0157290	0.803986	2.682300e-49	-8.615850e-47
Msa0145250	Msa0157810	0.816699	4.833619e-52	-8.615850e-47
Msa0145250	Msa0165510	0.845624	3.615122e-59	-8.615850e-47
Msa0145250	Msa0214300	0.810880	9.251613e-51	-8.615850e-47
Msa0145250	Msa0326200	0.806625	7.512542e-50	-8.615850e-47
Msa0145250	Msa0353190	0.800351	1.501152e-48	-8.615850e-47
Msa0145250	Msa0353690	0.805677	1.189063e-49	-8.615850e-47
Msa0145250	Msa0399300	0.817834	2.684759e-52	-8.615850e-47
Msa0145250	Msa0456200	0.808917	2.446616e-50	-8.615850e-47
Msa0145250	Msa0483650	0.805808	1.116240e-49	-8.615850e-47
Msa0145250	Msa0484780	0.826296	2.931778e-54	-8.615850e-47
Msa0145250	Msa0503580	0.800905	1.157601e-48	-8.615850e-47
Msa0145250	Msa0512900	0.815339	9.723119e-52	-8.615850e-47
Msa0145250	Msa0627410	0.806740	7.103769e-50	-8.615850e-47
Msa0145250	Msa0639460	0.835817	1.345342e-56	-8.615850e-47
Msa0145250	Msa0657970	0.828317	9.614558e-55	-8.615850e-47
Msa0145250	Msa0682360	0.808755	2.649971e-50	-8.615850e-47
Msa0145250	Msa0762360	0.800336	1.511653e-48	-8.615850e-47
Msa0145250	Msa0777790	0.806929	6.478186e-50	-8.615850e-47
Msa0145250	Msa0777930	0.809365	1.961237e-50	-8.615850e-47
Msa0145250	Msa0815320	0.809931	1.482295e-50	-8.615850e-47
Msa0145250	Msa0865390	0.815918	7.225632e-52	-8.615850e-47
Msa0145250	Msa0880140	0.803893	2.805234e-49	-8.615850e-47
Msa0145250	Msa0909120	0.845887	3.067328e-59	-8.615850e-47
Msa0145250	Msa0909140	0.813805	2.125022e-51	-8.615850e-47
Msa0145250	Msa0912500	0.812162	4.869358e-51	-8.615850e-47
Msa0145250	Msa0935910	0.800705	1.271619e-48	-8.615850e-47
Msa0145250	Msa0965750	0.828938	6.804810e-55	-8.615850e-47
Msa0145250	Msa1034680	0.808509	2.991560e-50	-8.615850e-47
Msa0145250	Msa1043830	0.851249	1.003432e-60	-8.615850e-47
Msa0145250	Msa1082500	0.819952	8.864365e-53	-8.615850e-47
Msa0145250	Msa1228190	0.817074	3.981620e-52	-8.615850e-47
Msa0145250	Msa1242220	0.805965	1.034624e-49	-8.615850e-47
Msa0145250	Msa1271260	0.810097	1.365156e-50	-8.615850e-47
Msa0145250	Msa1283860	0.823802	1.138083e-53	-8.615850e-47
Msa0145250	Msa1322890	0.812983	3.222005e-51	-8.615850e-47
Msa0145250	Msa1324780	0.811715	6.095087e-51	-8.615850e-47
Msa0145250	Msa1438250	0.843580	1.283688e-58	-8.615850e-47
Msa0145250	Msa1453250	0.839915	1.190863e-57	-8.615850e-47
Msa0145250	Msa1460240	0.809772	1.604269e-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
Msa0145250	MtrunA17_Chr1g0153611	94.624	93	5	0	1	93	1	93	1.61e-62	184
Msa0145250	MtrunA17_Chr1g0153581	67.021	94	30	1	1	93	1	94	1.91e-39	126
Msa0145250	MtrunA17_Chr1g0153561	65.957	94	31	1	1	93	1	94	6.78e-39	124
Msa0145250	MtrunA17_Chr1g0153601	64.894	94	32	1	1	93	1	94	5.02e-38	122
Msa0145250	MtrunA17_Chr1g0153551	45.556	90	47	2	1	88	5	94	2.85e-20	77.8
Msa0145250	MtrunA17_Chr1g0153541	42.391	92	48	2	1	87	5	96	4.05e-17	70.1

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

Find 19 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
GAAATTGTCTTCTCTCTATC+AGG	0.235282	1_4:+4940051	None:intergenic
TATCTTCTTGTCAAAGGGTT+TGG	0.309945	1_4:-4939814	Msa0145250:CDS
GATTTACGTTCCTATGTTCC+TGG	0.332407	1_4:-4939922	Msa0145250:CDS
ACTAATTTGTCCATCATTGT+TGG	0.414841	1_4:+4939864	None:intergenic
TCTCTATCAGGGCGTAGTAT+AGG	0.452488	1_4:+4940063	None:intergenic
TTGATTATCTTCTTGTCAAA+GGG	0.453582	1_4:-4939819	Msa0145250:CDS
AAGGAAAATAATGAAAGTAT+TGG	0.454663	1_4:-4940007	Msa0145250:CDS
GTTGATTATCTTCTTGTCAA+AGG	0.460253	1_4:-4939820	Msa0145250:CDS
AATATTGATGCCAACAATGA+TGG	0.465249	1_4:-4939874	Msa0145250:CDS
CAACGCATGGCTCTCCATCC+AGG	0.488249	1_4:+4939904	None:intergenic
TACGTTCCTATGTTCCTGGA+TGG	0.524072	1_4:-4939918	Msa0145250:CDS
ATGGAGAGCCATGCGTTGTA+TGG	0.529428	1_4:-4939899	Msa0145250:CDS
AACAATGATGGACAAATTAG+TGG	0.554056	1_4:-4939862	Msa0145250:CDS
AAGATCAAATCAAAGCAGAA+AGG	0.570009	1_4:-4940026	Msa0145250:CDS
GGCTCTCCATCCAGGAACAT+AGG	0.575847	1_4:+4939912	None:intergenic
AATATTGACCATACAACGCA+TGG	0.602870	1_4:+4939891	None:intergenic
AAATTGTCTTCTCTCTATCA+GGG	0.603477	1_4:+4940052	None:intergenic
TGATGGACAAATTAGTGGTG+AGG	0.626914	1_4:-4939857	Msa0145250:CDS
AAAGCAGATAGCAATAAGGA+CGG	0.681326	1_4:-4939982	Msa0145250:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	AAGGAAAATAATGAAAGTAT+TGG	-	chr1_4:4939866-4939885	Msa0145250:CDS	20.0%
!	TTGATTATCTTCTTGTCAAA+GGG	-	chr1_4:4940054-4940073	Msa0145250:CDS	25.0%
	AAATTGTCTTCTCTCTATCA+GGG	+	chr1_4:4939824-4939843	None:intergenic	30.0%
	AAGATCAAATCAAAGCAGAA+AGG	-	chr1_4:4939847-4939866	Msa0145250:CDS	30.0%
	AATATTGATGCCAACAATGA+TGG	-	chr1_4:4939999-4940018	Msa0145250:CDS	30.0%
!	ACTAATTTGTCCATCATTGT+TGG	+	chr1_4:4940012-4940031	None:intergenic	30.0%
!!	AACAATGATGGACAAATTAG+TGG	-	chr1_4:4940011-4940030	Msa0145250:CDS	30.0%
	GTTGATTATCTTCTTGTCAA+AGG	-	chr1_4:4940053-4940072	Msa0145250:CDS	30.0%
	GAAATTGTCTTCTCTCTATC+AGG	+	chr1_4:4939825-4939844	None:intergenic	35.0%
	GGAAAAAGCAGATAGCAATA+AGG	-	chr1_4:4939887-4939906	Msa0145250:CDS	35.0%
	AAAGCAGATAGCAATAAGGA+CGG	-	chr1_4:4939891-4939910	Msa0145250:CDS	35.0%
	AATATTGACCATACAACGCA+TGG	+	chr1_4:4939985-4940004	None:intergenic	35.0%
	TATCTTCTTGTCAAAGGGTT+TGG	-	chr1_4:4940059-4940078	Msa0145250:CDS	35.0%
	GATTTACGTTCCTATGTTCC+TGG	-	chr1_4:4939951-4939970	Msa0145250:CDS	40.0%
!	TGATGGACAAATTAGTGGTG+AGG	-	chr1_4:4940016-4940035	Msa0145250:CDS	40.0%
	TCTCTATCAGGGCGTAGTAT+AGG	+	chr1_4:4939813-4939832	None:intergenic	45.0%
	TACGTTCCTATGTTCCTGGA+TGG	-	chr1_4:4939955-4939974	Msa0145250:CDS	45.0%
	ATGGAGAGCCATGCGTTGTA+TGG	-	chr1_4:4939974-4939993	Msa0145250:CDS	50.0%
	GGCTCTCCATCCAGGAACAT+AGG	+	chr1_4:4939964-4939983	None:intergenic	55.0%
	CAACGCATGGCTCTCCATCC+AGG	+	chr1_4:4939972-4939991	None:intergenic	60.0%

Chromosome	Type	Strat	End	Strand	Name
chr1_4	gene	4939807	4940088	4939807	ID=Msa0145250;Name=Msa0145250
chr1_4	mRNA	4939807	4940088	4939807	ID=Msa0145250-mRNA-1;Parent=Msa0145250;Name=Msa0145250-mRNA-1;_AED=0.19;_eAED=0.19;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|93
chr1_4	exon	4939807	4940088	4939807	ID=Msa0145250-mRNA-1:exon:2069;Parent=Msa0145250-mRNA-1
chr1_4	CDS	4939807	4940088	4939807	ID=Msa0145250-mRNA-1:cds;Parent=Msa0145250-mRNA-1

Gene Sequence	>Msa0145250 ATGCCTATACTACGCCCTGATAGAGAGAAGACAATTTCTCAAGATCAAATCAAAGCAGAAAGGAAAATAATGAAAGTATTGGAAAAAGCAGATAGCAATAAGGACGGTTGTTATACAAAGAGTGAGATCAAGAAAGCTCTCAAAGATTTACGTTCCTATGTTCCTGGATGGAGAGCCATGCGTTGTATGGTCAATATTGATGCCAACAATGATGGACAAATTAGTGGTGAGGAAATTGATACTTTAGTTGATTATCTTCTTGTCAAAGGGTTTGGAAAGTAA
Protein sequence	>Msa0145250 MPILRPDREKTISQDQIKAERKIMKVLEKADSNKDGCYTKSEIKKALKDLRSYVPGWRAMRCMVNIDANNDGQISGEEIDTLVDYLLVKGFGK*