AlfalfaGEDB | Msa0397540

M. sativa cultivar zhongmu-4 / Msa0397540

KEGG: -
GO: -
PFAM: PF07890.15

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
Msa0397540	XP_039688223.1	95.614	342	13	1	1	340	1	342	0.0	663

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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
Msa0397540	A0A396IKZ4	95.614	342	13	1	1	340	1	342	0.0	663

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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
Msa0003640	Msa0397540	0.854249	1.395390e-61	-8.615850e-47
Msa0003890	Msa0397540	0.801458	8.919576e-49	-8.615850e-47
Msa0006040	Msa0397540	0.835104	2.037085e-56	-8.615850e-47
Msa0006070	Msa0397540	0.805202	1.495967e-49	-8.615850e-47
Msa0007440	Msa0397540	0.853524	2.257410e-61	-8.615850e-47
Msa0010490	Msa0397540	0.816542	5.241743e-52	-8.615850e-47
Msa0010500	Msa0397540	0.803836	2.882271e-49	-8.615850e-47
Msa0011170	Msa0397540	0.800044	1.733488e-48	-8.615850e-47
Msa0011960	Msa0397540	0.889004	3.568584e-73	-8.615850e-47
Msa0015610	Msa0397540	0.820648	6.139225e-53	-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
Msa0397540	MtrunA17_Chr3g0085271	95.614	342	13	1	1	340	1	342	0.0	663

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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
Msa0397540	AT5G48240.1	46.809	329	133	8	16	339	18	309	2.03e-79	245
Msa0397540	AT5G48240.3	41.935	372	135	8	16	339	18	356	1.08e-72	229
Msa0397540	AT5G48240.2	44.295	298	116	7	16	308	18	270	5.58e-61	197

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Find 115 sgRNAs with CRISPR-Local

Find 349 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACTTGATGGCTGATTGGC+TGG	0.426019	3_2:-17267457	Msa0397540:three_prime_UTR
AAAGCTCAAGTTGCTCAGAA+AGG	0.489370	3_2:-17269612	Msa0397540:CDS
AAAGTGATGAAGCCACCACA+CGG	0.690683	3_2:-17270712	Msa0397540:CDS
AAGATCTATCCGAAGATGAA+GGG	0.556404	3_2:-17270495	Msa0397540:CDS
AAGCTCAAGTTGCTCAGAAA+GGG	0.498953	3_2:-17269611	Msa0397540:CDS
AAGTTCGAGAATAAAGGATT+GGG	0.504352	3_2:-17267742	Msa0397540:CDS
AATATCTCGTTTGAGTTGTT+AGG	0.289962	3_2:+17272603	None:intergenic
AATCATATTCCTAATACAAT+TGG	0.407003	3_2:+17267353	None:intergenic
AATTGGTTGGTTTATACCAA+AGG	0.494286	3_2:+17267434	None:intergenic
ACGGCGGAAGTGACAGCGGC+TGG	0.419525	3_2:+17272571	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAGCTATAAGCTCAAATTTG+TGG	+	chr3_2:17267574-17267593	None:intergenic	30.0%
CTCATTTGACTAAAATAGAC+CGG	-	chr3_2:17267606-17267625	Msa0397540:CDS	30.0%
AAGGAATTGTTAACATCATG+AGG	+	chr3_2:17267975-17267994	None:intergenic	30.0%
GATGTTAACAATTCCTTTGT+CGG	-	chr3_2:17267978-17267997	Msa0397540:intron	30.0%
ATGTTAACAATTCCTTTGTC+GGG	-	chr3_2:17267979-17267998	Msa0397540:intron	30.0%
TATTTGGAAAACTTGGTATC+CGG	+	chr3_2:17268092-17268111	None:intergenic	30.0%
ATAAAAAAAAAGCTGCAGCT+AGG	-	chr3_2:17268109-17268128	Msa0397540:intron	30.0%
TATTGAAAACCTTAATGTGG+TGG	-	chr3_2:17268135-17268154	Msa0397540:intron	30.0%
ACAAGAGAATCAAATTGAAC+AGG	+	chr3_2:17268318-17268337	None:intergenic	30.0%
AACAATGTTCTTAGGAGTTA+GGG	+	chr3_2:17268372-17268391	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_2	gene	17267138	17272647	17267138	ID=Msa0397540;Name=Msa0397540
chr3_2	mRNA	17267138	17272647	17267138	ID=Msa0397540-mRNA-1;Parent=Msa0397540;Name=Msa0397540-mRNA-1;_AED=0.05;_eAED=0.05;_QI=159\|1\|1\|1\|0.87\|0.77\|9\|455\|340
chr3_2	exon	17267138	17267655	17267138	ID=Msa0397540-mRNA-1:exon:3863;Parent=Msa0397540-mRNA-1
chr3_2	exon	17267728	17267838	17267728	ID=Msa0397540-mRNA-1:exon:3862;Parent=Msa0397540-mRNA-1
chr3_2	exon	17268520	17268584	17268520	ID=Msa0397540-mRNA-1:exon:3861;Parent=Msa0397540-mRNA-1
chr3_2	exon	17269580	17269640	17269580	ID=Msa0397540-mRNA-1:exon:3860;Parent=Msa0397540-mRNA-1
chr3_2	exon	17269755	17269774	17269755	ID=Msa0397540-mRNA-1:exon:3859;Parent=Msa0397540-mRNA-1
chr3_2	exon	17269903	17269984	17269903	ID=Msa0397540-mRNA-1:exon:3858;Parent=Msa0397540-mRNA-1
chr3_2	exon	17270128	17270229	17270128	ID=Msa0397540-mRNA-1:exon:3857;Parent=Msa0397540-mRNA-1
chr3_2	exon	17270312	17270850	17270312	ID=Msa0397540-mRNA-1:exon:3856;Parent=Msa0397540-mRNA-1
chr3_2	exon	17272509	17272647	17272509	ID=Msa0397540-mRNA-1:exon:3855;Parent=Msa0397540-mRNA-1
chr3_2	five_prime_UTR	17272509	17272647	17272509	ID=Msa0397540-mRNA-1:five_prime_utr;Parent=Msa0397540-mRNA-1
chr3_2	five_prime_UTR	17270831	17270850	17270831	ID=Msa0397540-mRNA-1:five_prime_utr;Parent=Msa0397540-mRNA-1
chr3_2	CDS	17270312	17270830	17270312	ID=Msa0397540-mRNA-1:cds;Parent=Msa0397540-mRNA-1
chr3_2	CDS	17270128	17270229	17270128	ID=Msa0397540-mRNA-1:cds;Parent=Msa0397540-mRNA-1
chr3_2	CDS	17269903	17269984	17269903	ID=Msa0397540-mRNA-1:cds;Parent=Msa0397540-mRNA-1
chr3_2	CDS	17269755	17269774	17269755	ID=Msa0397540-mRNA-1:cds;Parent=Msa0397540-mRNA-1
chr3_2	CDS	17269580	17269640	17269580	ID=Msa0397540-mRNA-1:cds;Parent=Msa0397540-mRNA-1
chr3_2	CDS	17268520	17268584	17268520	ID=Msa0397540-mRNA-1:cds;Parent=Msa0397540-mRNA-1
chr3_2	CDS	17267728	17267838	17267728	ID=Msa0397540-mRNA-1:cds;Parent=Msa0397540-mRNA-1
chr3_2	CDS	17267593	17267655	17267593	ID=Msa0397540-mRNA-1:cds;Parent=Msa0397540-mRNA-1
chr3_2	three_prime_UTR	17267138	17267592	17267138	ID=Msa0397540-mRNA-1:three_prime_utr;Parent=Msa0397540-mRNA-1

Gene Sequence

>Msa0397540

ATGGCTGAAGAAACACAAGTGGTTGAGCATGGAAGTGAGCTGGGAAAGAGGAAGTTTGGTAGGAACCAAGGCCGTAAAAAGTCAAGTAAGAAACCAAAAGTGATGAAGCCACCACACGGACAGAAGAAAGTTAAAATCAACCAACAAATGAAGAAACTTTACAACAAGCGAGCACGCGAGTATAATTCTGATGATGATGAAGATGAGACAACTGCCCCTGCTACTGGGAGTACTAGACGTGTGGCATCTATGAAGACTAGAGGCGTCACATCTTTCACCAAAAATAAGCACGTGGAGGAAGACATAGAAAGTGAAGATCTATCCGAAGATGAAGGGGTAGCAGAAGGACAAAGAACACAGAAGAAGCATGTTACTGATAAGAAAGTTAATTTCTCTGAGGATGAAGATGATGAGGAGGATGAAATTCAGCCAGGAATTACGAAATTCAGTGAAGGTTGTAAAGCATTCAGGATGGCCTTCAAGAGCATTATAAAGAAGAGTGTTTCTGATGAGTTGTTGGGTCCAGTATTGTCAGATCACAAGAATCTTGTTATAGAAAAGCTTGCGGAAGAGGAGACAGAGCGCAAGATCAAGGGAGAGACAAAAAAGGAAAAGCTGATGCTAGCAGAAAAGGGACATGTCACACCTGCTAATTATTTGGACGCGCACGAAAAGTTTCTTATAAGTGTAGCGACAAAAGGAGTGGTCAAGCTGTTCAATGCTGTCAACAAAGCTCAAGTTGCTCAGAAAGGGCTGGACCCCTCAAAGAACAGGGATGCAAAGGTTATAAAGAAGCGCACCAAAGAAGCCTTCTTTTCAGCGTTAGGGAAGCCAGCTATTGGTGCAAAGGCCAATGCAAGCACAAACAAGGGAGAGGATGAACAACCTTCTTGGGCTCCATTACGCGATAATTATATGCTGACAAGTTCGAGAATAAAGGATTGGGACAAAAACGCACCAGGTAAAAATGAATCAGATGACATTGAAAAGATTTCCCAAGATAGCAGTTCCGATGAAGATTAA

Protein sequence

>Msa0397540

MAEETQVVEHGSELGKRKFGRNQGRKKSSKKPKVMKPPHGQKKVKINQQMKKLYNKRAREYNSDDDEDETTAPATGSTRRVASMKTRGVTSFTKNKHVEEDIESEDLSEDEGVAEGQRTQKKHVTDKKVNFSEDEDDEEDEIQPGITKFSEGCKAFRMAFKSIIKKSVSDELLGPVLSDHKNLVIEKLAEEETERKIKGETKKEKLMLAEKGHVTPANYLDAHEKFLISVATKGVVKLFNAVNKAQVAQKGLDPSKNRDAKVIKKRTKEAFFSALGKPAIGAKANASTNKGEDEQPSWAPLRDNYMLTSSRIKDWDKNAPGKNESDDIEKISQDSSSDED*