AlfalfaGEDB | Msa0336540

M. sativa cultivar zhongmu-4 / Msa0336540

KEGG: -
GO: GO:0006996 GO:0007031 GO:0008150 GO:0009987 GO:0016043 GO:0071840
PFAM: -

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
Msa0336540	XP_003597029.1	91.241	274	7	1	1	257	1	274	2.54e-177	499

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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
Msa0336540	sp\|Q9LSX7\|PEX22_ARATH	61.957	276	69	4	14	257	11	282	3.13e-102	301

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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
No data available in table

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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
Msa0000910	Msa0336540	0.832355	9.911471e-56	-8.615850e-47
Msa0015050	Msa0336540	0.805017	1.635164e-49	-8.615850e-47
Msa0017730	Msa0336540	0.818073	2.371219e-52	-8.615850e-47
Msa0029630	Msa0336540	0.816542	5.240025e-52	-8.615850e-47
Msa0030300	Msa0336540	0.808792	2.602510e-50	-8.615850e-47
Msa0091730	Msa0336540	0.801486	8.803761e-49	-8.615850e-47
Msa0093010	Msa0336540	0.800313	1.528131e-48	-8.615850e-47
Msa0122530	Msa0336540	0.826038	3.378491e-54	-8.615850e-47
Msa0125450	Msa0336540	0.813832	2.096213e-51	-8.615850e-47
Msa0125540	Msa0336540	0.807066	6.059564e-50	-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
Msa0336540	MtrunA17_Chr2g0322911	91.241	274	7	1	1	257	1	274	0.0	499

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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
Msa0336540	AT3G21865.1	61.957	276	69	4	14	257	11	282	3.18e-103	301

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Find 93 sgRNAs with CRISPR-Local

Find 309 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AACAAGTATTGGTTGAAGGA+TGG	0.564014	2_4:+55974502	None:intergenic
AACATGATAATATGTCATCG+TGG	0.720893	2_4:-55974538	Msa0336540:three_prime_UTR
AACCTCTGACGACAGCTCAT+AGG	0.502156	2_4:-55979867	Msa0336540:five_prime_UTR
AAGATAAAATAATAGGATAT+TGG	0.363620	2_4:-55979916	None:intergenic
AAGCACCAAAGCGTTTGATG+AGG	0.654478	2_4:+55979653	None:intergenic
AAGTAGTCCAGAGGAGCTTC+AGG	0.337504	2_4:-55977199	Msa0336540:intron
AGATCTCCTAATCCTACACA+AGG	0.662631	2_4:-55978583	Msa0336540:CDS
AGCGTTTGATGAGGTGAAAG+AGG	0.557278	2_4:+55979662	None:intergenic
AGCTAACTGGGTGACAATTT+CGG	0.307177	2_4:+55975120	None:intergenic
AGGCAACGGAAAAGGCAAGG+TGG	0.677448	2_4:-55978559	Msa0336540:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
GTAAAATTGGAAGAGAAACT+TGG	-	chr2_4:55974495-55974514	Msa0336540:three_prime_UTR	30.0%
AACAACATTAAAGAGAGAGT+TGG	-	chr2_4:55975333-55975352	Msa0336540:intron	30.0%
ACAACATTAAAGAGAGAGTT+GGG	-	chr2_4:55975334-55975353	Msa0336540:intron	30.0%
ATTAAGGAGAGTAGATTAGA+TGG	-	chr2_4:55975442-55975461	Msa0336540:intron	30.0%
AGATCTAGAGATTAATGAGT+TGG	-	chr2_4:55975528-55975547	Msa0336540:intron	30.0%
AAGTACAATATCATGAGCTT+TGG	+	chr2_4:55975712-55975731	None:intergenic	30.0%
TATTAGGATATTCGCACTAT+TGG	-	chr2_4:55975734-55975753	Msa0336540:intron	30.0%
ATTAGGATATTCGCACTATT+GGG	-	chr2_4:55975735-55975754	Msa0336540:intron	30.0%
CTTTACCTTCAGATGAATTA+CGG	-	chr2_4:55975915-55975934	Msa0336540:intron	30.0%
TTTACCTTCAGATGAATTAC+GGG	-	chr2_4:55975916-55975935	Msa0336540:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_4	gene	55974479	55979932	55974479	ID=Msa0336540;Name=Msa0336540
chr2_4	mRNA	55974479	55979932	55974479	ID=Msa0336540-mRNA-1;Parent=Msa0336540;Name=Msa0336540-mRNA-1;_AED=0.10;_eAED=0.10;_QI=204\|0.75\|0.77\|0.88\|0.75\|0.77\|9\|416\|258
chr2_4	exon	55974479	55974999	55974479	ID=Msa0336540-mRNA-1:exon:17035;Parent=Msa0336540-mRNA-1
chr2_4	exon	55975120	55975221	55975120	ID=Msa0336540-mRNA-1:exon:17034;Parent=Msa0336540-mRNA-1
chr2_4	exon	55976162	55976227	55976162	ID=Msa0336540-mRNA-1:exon:17033;Parent=Msa0336540-mRNA-1
chr2_4	exon	55977010	55977111	55977010	ID=Msa0336540-mRNA-1:exon:17032;Parent=Msa0336540-mRNA-1
chr2_4	exon	55977200	55977256	55977200	ID=Msa0336540-mRNA-1:exon:17031;Parent=Msa0336540-mRNA-1
chr2_4	exon	55978244	55978291	55978244	ID=Msa0336540-mRNA-1:exon:17030;Parent=Msa0336540-mRNA-1
chr2_4	exon	55978435	55978612	55978435	ID=Msa0336540-mRNA-1:exon:17029;Parent=Msa0336540-mRNA-1
chr2_4	exon	55979424	55979431	55979424	ID=Msa0336540-mRNA-1:exon:17028;Parent=Msa0336540-mRNA-1
chr2_4	exon	55979618	55979932	55979618	ID=Msa0336540-mRNA-1:exon:17027;Parent=Msa0336540-mRNA-1
chr2_4	five_prime_UTR	55979729	55979932	55979729	ID=Msa0336540-mRNA-1:five_prime_utr;Parent=Msa0336540-mRNA-1
chr2_4	CDS	55979618	55979728	55979618	ID=Msa0336540-mRNA-1:cds;Parent=Msa0336540-mRNA-1
chr2_4	CDS	55979424	55979431	55979424	ID=Msa0336540-mRNA-1:cds;Parent=Msa0336540-mRNA-1
chr2_4	CDS	55978435	55978612	55978435	ID=Msa0336540-mRNA-1:cds;Parent=Msa0336540-mRNA-1
chr2_4	CDS	55978244	55978291	55978244	ID=Msa0336540-mRNA-1:cds;Parent=Msa0336540-mRNA-1
chr2_4	CDS	55977200	55977256	55977200	ID=Msa0336540-mRNA-1:cds;Parent=Msa0336540-mRNA-1
chr2_4	CDS	55977010	55977111	55977010	ID=Msa0336540-mRNA-1:cds;Parent=Msa0336540-mRNA-1
chr2_4	CDS	55976162	55976227	55976162	ID=Msa0336540-mRNA-1:cds;Parent=Msa0336540-mRNA-1
chr2_4	CDS	55975120	55975221	55975120	ID=Msa0336540-mRNA-1:cds;Parent=Msa0336540-mRNA-1
chr2_4	CDS	55974895	55974999	55974895	ID=Msa0336540-mRNA-1:cds;Parent=Msa0336540-mRNA-1
chr2_4	three_prime_UTR	55974479	55974894	55974479	ID=Msa0336540-mRNA-1:three_prime_utr;Parent=Msa0336540-mRNA-1

Gene Sequence

>Msa0336540

ATGGCCGTGTCTGGTGGTGACAACGATGATGCCTCCAAACAAGACCTCTTTCACCTCATCAAACGCTTTGGTGCTTTTGTTACTTTCAAGATCGGTCATCTCTTCTCTCTCGAACCAGGGTTGTTGAGATCTCCTAATCCTACACAAGGGAGGCAACGGAAAAGGCAAGGTGGTGCATCTAGTAATCCTGGAGCTAGCACAAATTCAAATGCGTCGGTTGTTCCTTCTGATGCTTCTTTACCTTCAGATGAATTACGGGCACAAAATGTTGTAGATGAGTTCTTTCAGCCAGTCAAGCCAACCTTGGGGCAGATAGTGAGGCAGAAGTTGAGTGAAGGAAGAAAGGTAACCTGTCGTCTTCTTGGAGTGATCCTTGAGGAAAGTAGTCCAGAGGAGCTTCAGAACAAAGCAACTGTGAGATCCTCTGTGCTAGAAGTATTGTTGGAAATAACTAAATTCTGTGATTTATATCTCATGGACCGGGTTCTGGATGACGAAAGCGAGAAAAAAGTTCTTGTAGCGTTAGAAGAAGCAGGGGTATTCACTTCAGGTGGTTTGGTTAAGGACAAGGTTCTCTTCAGCAGCACTGAGAATGGACGCTCGTCATTTGTTCGTCAATTAGAACCAGATTGGCATATCGACACAAATCCCGAAATTGTCACCCAGTTAGCTAGGTTTATCAAGTATCAGCTCCACATAGCGCCTTATAAAACAGAACGAACTGCCGCTAATGTGTTCAGTGCTCCATCTTTGGAACTTTTCTTTGGATCCACATGA

Protein sequence

>Msa0336540

MAVSGGDNDDASKQDLFHLIKRFGAFVTFKIGHLFSLEPGLLRSPNPTQGRQRKRQGGASSNPGASTNSNASVVPSDASLPSDELRAQNVVDEFFQPVKPTLGQIVRQKLSEGRKVTCRLLGVILEESSPEELQNKATVRSSVLEVLLEITKFCDLYLMDRVLDDESEKKVLVALEEAGVFTSGGLVKDKVLFSSTENGRSSFVRQLEPDWHIDTNPEIVTQLARFIKYQLHIAPYKTERTAANVFSAPSLELFFGST*