AlfalfaGEDB | Msa1428290

M. sativa cultivar zhongmu-4 / Msa1428290

KEGG: -
GO: GO:0003674 GO:0003700 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141
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
Msa1428290	XP_024636099.1	96.026	151	6	0	1	151	1	151	7.29e-101	296

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1428290	sp\|Q9SUM5\|BH146_ARATH	38.509	161	86	2	1	151	1	158	6.51e-27	101

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1428290	A0A396IGJ1	96.026	151	6	0	1	151	1	151	3.48e-101	296

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0072810	Msa1428290	0.800962	1.126753e-48	-8.615850e-47
Msa1354040	Msa1428290	0.805797	1.122046e-49	-8.615850e-47
Msa1355400	Msa1428290	0.808643	2.799561e-50	-8.615850e-47
Msa1365200	Msa1428290	0.872264	3.634032e-67	-8.615850e-47
Msa1379990	Msa1428290	0.831491	1.620252e-55	-8.615850e-47
Msa1420060	Msa1428290	0.828937	6.808879e-55	-8.615850e-47
Msa0619980	Msa1428290	0.822167	2.738298e-53	-8.615850e-47
Msa0640880	Msa1428290	0.810246	1.268126e-50	-8.615850e-47
Msa0663090	Msa1428290	0.810090	1.370176e-50	-8.615850e-47
Msa0678890	Msa1428290	0.803511	3.366643e-49	-8.615850e-47
Msa0681890	Msa1428290	0.801894	7.257636e-49	-8.615850e-47
Msa0799210	Msa1428290	0.802987	4.321440e-49	-8.615850e-47
Msa0810020	Msa1428290	0.821970	3.042012e-53	-8.615850e-47
Msa0134130	Msa1428290	0.806547	7.802227e-50	-8.615850e-47
Msa0135980	Msa1428290	0.800561	1.360569e-48	-8.615850e-47
Msa0203160	Msa1428290	0.811001	8.707831e-51	-8.615850e-47
Msa0219190	Msa1428290	0.805991	1.021498e-49	-8.615850e-47
Msa1272330	Msa1428290	0.806208	9.195431e-50	-8.615850e-47
Msa0370600	Msa1428290	0.814220	1.721588e-51	-8.615850e-47
Msa0413930	Msa1428290	0.806246	9.028827e-50	-8.615850e-47
Msa0418200	Msa1428290	0.818633	1.770673e-52	-8.615850e-47
Msa0436460	Msa1428290	0.823919	1.068772e-53	-8.615850e-47
Msa0436500	Msa1428290	0.806968	6.357914e-50	-8.615850e-47
Msa0990520	Msa1428290	0.803104	4.087264e-49	-8.615850e-47
Msa1007350	Msa1428290	0.811429	7.030965e-51	-8.615850e-47
Msa1018790	Msa1428290	0.832248	1.053606e-55	-8.615850e-47
Msa1033560	Msa1428290	0.826022	3.407863e-54	-8.615850e-47
Msa1041530	Msa1428290	0.818342	2.060778e-52	-8.615850e-47
Msa1061920	Msa1428290	0.800295	1.541081e-48	-8.615850e-47
Msa1081570	Msa1428290	0.802669	5.026406e-49	-8.615850e-47
Msa0257310	Msa1428290	0.800810	1.210410e-48	-8.615850e-47
Msa1107440	Msa1428290	0.812974	3.235818e-51	-8.615850e-47
Msa1127140	Msa1428290	0.814723	1.332408e-51	-8.615850e-47
Msa1150970	Msa1428290	0.843982	1.002321e-58	-8.615850e-47
Msa1160570	Msa1428290	0.811371	7.240548e-51	-8.615850e-47
Msa0538570	Msa1428290	0.813118	3.008610e-51	-8.615850e-47
Msa0594390	Msa1428290	0.819938	8.928724e-53	-8.615850e-47
Msa0600390	Msa1428290	0.816118	6.520546e-52	-8.615850e-47
Msa0850500	Msa1428290	0.816793	4.603226e-52	-8.615850e-47
Msa0872310	Msa1428290	0.806685	7.296305e-50	-8.615850e-47
Msa0905550	Msa1428290	0.842197	2.995024e-58	-8.615850e-47
Msa0930330	Msa1428290	0.813656	2.292326e-51	-8.615850e-47
Msa0931480	Msa1428290	0.810316	1.224687e-50	-8.615850e-47
Msa0937550	Msa1428290	0.840883	6.649606e-58	-8.615850e-47
Msa0958020	Msa1428290	0.800480	1.413199e-48	-8.615850e-47
Msa0974750	Msa1428290	0.834498	2.894367e-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
Msa1428290	MtrunA17_Chr4g0072121	96.026	151	6	0	1	151	1	151	6.70e-105	296
Msa1428290	MtrunA17_Chr2g0298051	51.977	177	56	7	3	150	2	178	3.15e-50	158

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1428290	AT2G18969.1	40.230	174	81	4	1	151	1	174	2.20e-33	116
Msa1428290	AT4G30180.1	38.509	161	86	2	1	151	1	158	6.61e-28	101

Find 15 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TCCTTTATCTTCATCAATGC+TGG	0.377349	tig0026328:-58146	Msa1428290:intergenic
TCCAGCATTGATGAAGATAA+AGG	0.403965	tig0026328:+58145	Msa1428290:CDS
AGAAGATGAAGAACTTGATA+AGG	0.412000	tig0026328:+58357	Msa1428290:CDS
TATAAGATGTTTACAAATGC+AGG	0.434952	tig0026328:+58439	Msa1428290:CDS
GGAAAATAATATTTCTTCAA+AGG	0.459877	tig0026328:+58166	Msa1428290:CDS
CCTTAAACTCAAGCTTCAAA+AGG	0.493255	tig0026328:+58265	Msa1428290:CDS
TAAGAATGTTAAGTATGAAG+TGG	0.531002	tig0026328:+58196	Msa1428290:CDS
GAATGAAGCTAGTGAAGATG+AGG	0.535484	tig0026328:+58334	Msa1428290:CDS
GTATGAAGTGGACATGGCAA+TGG	0.553114	tig0026328:+58208	Msa1428290:CDS
ACGTAGACGTGTTTATTCTG+TGG	0.593083	tig0026328:+58067	Msa1428290:CDS
ATCTTGATTAAACATGGAGG+AGG	0.595978	tig0026328:+58031	None:intergenic
TCACAAATCTCTTCTCCACC+AGG	0.612567	tig0026328:-58386	Msa1428290:intergenic
TGTTAAGTATGAAGTGGACA+TGG	0.621830	tig0026328:+58202	Msa1428290:CDS
AACTTGATAAGGTTGATACC+TGG	0.636291	tig0026328:+58368	Msa1428290:CDS
TTGATAAGGTTGATACCTGG+TGG	0.649046	tig0026328:+58371	Msa1428290:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	GGAAAATAATATTTCTTCAA+AGG	+	tig0026328:58166-58185	Msa1428290:CDS	20.0%
!!!	ATAGTTTGCACTATTTTGTT+TGG	-	tig0026328:58095-58114	Msa1428290:intergenic	25.0%
!	TAAGAATGTTAAGTATGAAG+TGG	+	tig0026328:58196-58215	Msa1428290:CDS	25.0%
!	TATAAGATGTTTACAAATGC+AGG	+	tig0026328:58439-58458	Msa1428290:CDS	25.0%
	AGAAGATGAAGAACTTGATA+AGG	+	tig0026328:58357-58376	Msa1428290:CDS	30.0%
!!	TCCAGCATTGATGAAGATAA+AGG	+	tig0026328:58145-58164	Msa1428290:CDS	35.0%
	TCCTTTATCTTCATCAATGC+TGG	-	tig0026328:58149-58168	Msa1428290:intergenic	35.0%
	TGTTAAGTATGAAGTGGACA+TGG	+	tig0026328:58202-58221	Msa1428290:CDS	35.0%
!!!	CCTTTTGAAGCTTGAGTTTA+AGG	-	tig0026328:58268-58287	Msa1428290:intergenic	35.0%
	CCTTAAACTCAAGCTTCAAA+AGG	+	tig0026328:58265-58284	Msa1428290:CDS	35.0%
!!	AACTTGATAAGGTTGATACC+TGG	+	tig0026328:58368-58387	Msa1428290:CDS	35.0%
	ACGTAGACGTGTTTATTCTG+TGG	+	tig0026328:58067-58086	Msa1428290:CDS	40.0%
	GAATGAAGCTAGTGAAGATG+AGG	+	tig0026328:58334-58353	Msa1428290:CDS	40.0%
!!	TTGATAAGGTTGATACCTGG+TGG	+	tig0026328:58371-58390	Msa1428290:CDS	40.0%
	GTATGAAGTGGACATGGCAA+TGG	+	tig0026328:58208-58227	Msa1428290:CDS	45.0%
!!!	GCAATGGTTTTGTCAGCACA+AGG	+	tig0026328:58224-58243	Msa1428290:CDS	45.0%
!	TGTCAGCACAAGGTTTTGCA+TGG	+	tig0026328:58234-58253	Msa1428290:CDS	45.0%
!	CAAGGTTTTGCATGGAGTGA+TGG	+	tig0026328:58242-58261	Msa1428290:CDS	45.0%
	TCACAAATCTCTTCTCCACC+AGG	-	tig0026328:58389-58408	Msa1428290:intergenic	45.0%

Chromosome	Type	Strat	End	Strand	Name
tig0026328	gene	58044	58499	58044	ID=Msa1428290;Name=Msa1428290
tig0026328	mRNA	58044	58499	58044	ID=Msa1428290-mRNA-1;Parent=Msa1428290;Name=Msa1428290-mRNA-1;_AED=0.03;_eAED=0.04;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|151
tig0026328	exon	58044	58499	58044	ID=Msa1428290-mRNA-1:exon:5864;Parent=Msa1428290-mRNA-1
tig0026328	CDS	58044	58499	58044	ID=Msa1428290-mRNA-1:cds;Parent=Msa1428290-mRNA-1

Gene Sequence

>Msa1428290

ATGGAGGAGGCACAACAAAATAAACGTAGACGTGTTTATTCTGTGGAACCAAACAAAATAGTGCAAACTATATTTGCTAGAAACTATTTAAGTTATTTAGTTCCAGCATTGATGAAGATAAAGGAAAATAATATTTCTTCAAAGGAAAATATTAAGAATGTTAAGTATGAAGTGGACATGGCAATGGTTTTGTCAGCACAAGGTTTTGCATGGAGTGATGGCCTTAAACTCAAGCTTCAAAAGGAATGTAATGTCAATGAAGTAGCTACAAACAGTAGAAGCATAATTGAGAATGAAGCTAGTGAAGATGAGGAGAAGATGAAGAACTTGATAAGGTTGATACCTGGTGGAGAAGAGATTTGTGATGAACAAGTTGTTAATGAATTAGAAAGTTATATAAGATGTTTACAAATGCAGGTGAATGTTCTTCAATGTTTAATAGCAGAGACATGTTGA

Protein sequence

>Msa1428290

MEEAQQNKRRRVYSVEPNKIVQTIFARNYLSYLVPALMKIKENNISSKENIKNVKYEVDMAMVLSAQGFAWSDGLKLKLQKECNVNEVATNSRSIIENEASEDEEKMKNLIRLIPGGEEICDEQVVNELESYIRCLQMQVNVLQCLIAETC*