AlfalfaGEDB | Msa0407870

M. sativa cultivar zhongmu-4 / Msa0407870

KEGG: -
GO: -
PFAM: PF12796.10

Nr:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0407870	XP_024634584.1	73.377	154	41	0	14	167	1	154	4.96e-75	233

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Swissprot:

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

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0407870	G7IXJ0	73.377	154	41	0	14	167	1	154	4.55e-75	233

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TFs/TRs:

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Gene ID	Type	Classification
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Protein Kinases:

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Gene ID	Type	Classification
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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0142200	Msa0407870	0.825368	4.870537e-54	-8.615850e-47
Msa0227470	Msa0407870	0.822478	2.318218e-53	-8.615850e-47
Msa0298240	Msa0407870	0.800778	1.228566e-48	-8.615850e-47
Msa0407780	Msa0407870	0.880871	3.840508e-70	-8.615850e-47
Msa0407870	Msa0407890	0.881950	1.566522e-70	-8.615850e-47
Msa0407870	Msa0452870	0.836840	7.390188e-57	-8.615850e-47
Msa0407870	Msa0452920	0.824460	7.975326e-54	-8.615850e-47

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PPI

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Gene1	Gene2	Type
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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0407870	MtrunA17_Chr3g0098291	66.452	155	50	2	14	166	1	155	2.44e-65	200
Msa0407870	MtrunA17_Chr3g0098521	70.161	124	37	0	44	167	1	124	6.93e-58	178
Msa0407870	MtrunA17_Chr3g0098491	72.881	118	32	0	44	161	1	118	1.57e-57	177
Msa0407870	MtrunA17_Chr3g0102001	42.424	132	74	2	38	167	21	152	3.65e-27	107
Msa0407870	MtrunA17_Chr5g0439021	39.683	126	68	2	41	161	25	147	1.34e-23	92.0
Msa0407870	MtrunA17_Chr3g0098541	48.039	102	52	1	67	167	5	106	1.79e-23	94.7
Msa0407870	MtrunA17_Chr5g0439071	44.248	113	59	2	41	150	25	136	2.96e-21	89.7
Msa0407870	MtrunA17_Chr5g0439061	39.583	144	75	4	41	174	25	166	1.81e-19	84.7

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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
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Find 39 sgRNAs with CRISPR-Local

Find 126 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAATTGATGTAGGTAAAGAA+AGG	0.583759	3_2:-47017891	None:intergenic
AAGAGGAACAGCATTACATG+TGG	0.700334	3_2:+47017617	Msa0407870:CDS
AATAAGGATCAATGAGAGAT+GGG	0.462738	3_2:-47017217	None:intergenic
AATCTTGCTATGAATAACGA+GGG	0.709353	3_2:+47017929	Msa0407870:exon
ACCGAACATTTCTCTATGAA+TGG	0.471652	3_2:-47017972	None:intergenic
AGAATTAGGATCCATTTCGG+TGG	0.599853	3_2:-47017306	None:intergenic
AGTATGTGTAAATGTATCGT+TGG	0.546925	3_2:+47017777	Msa0407870:CDS
AGTTTGTAATGGAAGACAAA+TGG	0.447631	3_2:+47017535	Msa0407870:CDS
ATAGCAAGATTGAGATCATT+TGG	0.331887	3_2:-47017917	None:intergenic
ATGAATGGCAACGTGAAGAA+TGG	0.524484	3_2:-47017957	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AATAAGGATCAATGAGAGAT+GGG	-	chr3_2:47017220-47017239	None:intergenic	30.0%
TAAGTTTCAAACTTCCGAAA+TGG	+	chr3_2:47017256-47017275	Msa0407870:exon	30.0%
CATAGAATTAGGATCCATTT+CGG	-	chr3_2:47017312-47017331	None:intergenic	30.0%
TGAAGAGCCTGATAAATATA+AGG	-	chr3_2:47017399-47017418	None:intergenic	30.0%
AGTATGTGTAAATGTATCGT+TGG	+	chr3_2:47017777-47017796	Msa0407870:CDS	30.0%
TGATTAGAGTCCCAATAAAA+AGG	+	chr3_2:47017823-47017842	Msa0407870:CDS	30.0%
GATTAGAGTCCCAATAAAAA+GGG	+	chr3_2:47017824-47017843	Msa0407870:CDS	30.0%
CATTTGGGAAAAATTGATGT+AGG	-	chr3_2:47017904-47017923	None:intergenic	30.0%
TAGCAAGATTGAGATCATTT+GGG	-	chr3_2:47017919-47017938	None:intergenic	30.0%
ATAGCAAGATTGAGATCATT+TGG	-	chr3_2:47017920-47017939	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_2	gene	47017211	47018244	47017211	ID=Msa0407870;Name=Msa0407870
chr3_2	mRNA	47017211	47018244	47017211	ID=Msa0407870-mRNA-1;Parent=Msa0407870;Name=Msa0407870-mRNA-1;_AED=0.09;_eAED=0.09;_QI=64\|1\|1\|1\|0.5\|0.33\|3\|180\|175
chr3_2	exon	47017211	47017380	47017211	ID=Msa0407870-mRNA-1:exon:9043;Parent=Msa0407870-mRNA-1
chr3_2	exon	47017520	47017992	47017520	ID=Msa0407870-mRNA-1:exon:9044;Parent=Msa0407870-mRNA-1
chr3_2	exon	47018116	47018244	47018116	ID=Msa0407870-mRNA-1:exon:9045;Parent=Msa0407870-mRNA-1
chr3_2	five_prime_UTR	47017211	47017274	47017211	ID=Msa0407870-mRNA-1:five_prime_utr;Parent=Msa0407870-mRNA-1
chr3_2	CDS	47017275	47017380	47017275	ID=Msa0407870-mRNA-1:cds;Parent=Msa0407870-mRNA-1
chr3_2	CDS	47017520	47017941	47017520	ID=Msa0407870-mRNA-1:cds;Parent=Msa0407870-mRNA-1
chr3_2	three_prime_UTR	47017942	47017992	47017942	ID=Msa0407870-mRNA-1:three_prime_utr;Parent=Msa0407870-mRNA-1
chr3_2	three_prime_UTR	47018116	47018244	47018116	ID=Msa0407870-mRNA-1:three_prime_utr;Parent=Msa0407870-mRNA-1

Gene Sequence

>Msa0407870

ATGGATCCTAACTCTAAGATTAAGTTTCAACCCACCGAAATGGATCCTAATTCTATGATTCAGCCTGAAGATGAAGATGAAAATGTACCTTATGACTTTCAAGATGCTGCCGTGTTCCGCGAGTTTGTAATGGAAGACAAATGGGATGAAGTGATAGAAAAATACGAAGAACATGTATTTTTTCACAAGATAAAAATAAAGGGAAGAGGAACAGCATTACATGTGGCAGTGAGTAATGCCGACGAAGAGAGAGTAAAACTTCTTGTAGACGCAATAGTAAAGCATAATGATCCAAGTGGTTTTGAAATAACGACTGAAAGAGATGATACTCCTCTTCACCTTGCAGCATATAGAGGATTCAAAAGTATGTGTAAATGTATCGTTGGAAAAAATGGTGAAAGGAAGCATTTGATTAGAGTCCCAATAAAAAGGGAGAAACACCCCTTTTTTGTGCTGTGCTTGCACGCCATAAAAGGACCTTTCTTTACCTACATCAATTTTTCCCAAATGATCTCAATCTTGCTATGA

Protein sequence

>Msa0407870

MDPNSKIKFQPTEMDPNSMIQPEDEDENVPYDFQDAAVFREFVMEDKWDEVIEKYEEHVFFHKIKIKGRGTALHVAVSNADEERVKLLVDAIVKHNDPSGFEITTERDDTPLHLAAYRGFKSMCKCIVGKNGERKHLIRVPIKREKHPFFVLCLHAIKGPFFTYINFSQMISILL*