AlfalfaGEDB | Msa0029060

M. sativa cultivar zhongmu-4 / Msa0029060

KEGG: -
GO: -
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
Msa0029060	XP_003590676.1	92.615	325	24	0	1	325	1	325	0.0	628

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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
Msa0029060	sp\|Q8S3D5\|LRL2_ARATH	36.923	130	80	1	190	317	136	265	1.62e-17	84.7

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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
Msa0029060	TF	bHLH

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Protein Kinases:

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Gene ID	Type	Classification
No data available in table

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0029060	Msa0124530	0.987602	7.444107e-171	-8.615850e-47

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PPI

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Gene1	Gene2	Type
No data available in table

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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
Msa0029060	MtrunA17_Chr1g0185741	91.749	303	25	0	1	303	1	303	0.0	583
Msa0029060	MtrunA17_Chr4g0074161	36.486	148	74	3	190	317	212	359	4.14e-18	84.3
Msa0029060	MtrunA17_Chr1g0190731	34.307	137	78	1	190	314	199	335	4.73e-16	77.8
Msa0029060	MtrunA17_Chr1g0184841	34.286	140	80	1	190	317	126	265	1.02e-11	64.7

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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
Msa0029060	AT5G64980.1	43.089	123	68	2	191	311	218	340	7.94e-22	94.7
Msa0029060	AT5G64980.2	43.089	123	68	2	191	311	218	340	7.94e-22	94.7
Msa0029060	AT4G30980.1	36.923	130	80	1	190	317	136	265	1.65e-18	84.7
Msa0029060	AT4G30980.2	36.923	130	80	1	190	317	184	313	2.58e-18	85.1
Msa0029060	AT2G24260.2	34.132	167	83	5	170	317	23	181	4.20e-18	82.8
Msa0029060	AT2G24260.1	34.731	167	82	5	170	317	126	284	1.85e-17	82.4
Msa0029060	AT5G58010.1	33.784	148	74	4	190	315	105	250	7.27e-15	74.3
Msa0029060	AT1G03040.2	30.457	197	117	4	133	311	79	273	4.70e-13	68.9
Msa0029060	AT1G03040.1	36.434	129	75	1	190	311	150	278	1.87e-12	67.4
Msa0029060	AT4G02590.3	34.559	136	75	1	190	311	89	224	1.71e-11	63.9

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Find 80 sgRNAs with CRISPR-Local

Find 158 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACAAGGGTTAAAACTTAA+AGG	0.276505	1_1:-54180296	None:intergenic
AAACGACAGATTACCACATC+GGG	0.526123	1_1:-54181875	None:intergenic
AAAGGCTTAAAAGGGTATCA+TGG	0.502625	1_1:-54180205	None:intergenic
AAATAGTTAGCTAGCTAGCT+TGG	0.466352	1_1:-54182856	None:intergenic
AACCAACACTTTGGAAGAAG+TGG	0.489754	1_1:+54180442	Msa0029060:CDS
AACTGAACCAAGCTATGCAA+TGG	0.660513	1_1:+54182828	Msa0029060:CDS
AAGTAGCCATGATGTTTCTG+AGG	0.620893	1_1:+54180405	Msa0029060:CDS
AAGTTAGAGAAAGAAAGGTA+TGG	0.549135	1_1:-54180166	None:intergenic
AATAGCCATTATCACACTCT+TGG	0.527667	1_1:+54180580	Msa0029060:CDS
ACAACTGAGTATAATATGAT+TGG	0.400574	1_1:+54180556	Msa0029060:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAGTTAGAGAAAGAAAGGTA+TGG	-	chr1_1:54180169-54180188	None:intergenic	30.0%
GAGTAATGAAAAAGTGGTAA+AGG	-	chr1_1:54180267-54180286	None:intergenic	30.0%
GAAGTTGAGTAATGAAAAAG+TGG	-	chr1_1:54180273-54180292	None:intergenic	30.0%
GTAGTGAAAACAAAAATGGA+AGG	+	chr1_1:54180325-54180344	Msa0029060:exon	30.0%
CAAATTCAAAACCAACACTT+TGG	+	chr1_1:54180433-54180452	Msa0029060:CDS	30.0%
AGGAAGGTAAAGTTAATGAA+TGG	+	chr1_1:54180688-54180707	Msa0029060:intron	30.0%
ATTAACTAACCTCAGTATAG+TGG	-	chr1_1:54180884-54180903	None:intergenic	30.0%
AATCTATCTTGAAGAGCTTA+TGG	+	chr1_1:54181169-54181188	Msa0029060:intron	30.0%
TATGGAAACGTGAAACTATT+TGG	-	chr1_1:54181384-54181403	None:intergenic	30.0%
TGCTTCACAATTTGATCATA+TGG	+	chr1_1:54181528-54181547	Msa0029060:CDS	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	54180097	54183111	54180097	ID=Msa0029060;Name=Msa0029060
chr1_1	mRNA	54180097	54183111	54180097	ID=Msa0029060-mRNA-1;Parent=Msa0029060;Name=Msa0029060-mRNA-1;_AED=0.01;_eAED=0.01;_QI=243\|1\|1\|1\|1\|1\|7\|243\|325
chr1_1	exon	54180097	54180693	54180097	ID=Msa0029060-mRNA-1:exon:16001;Parent=Msa0029060-mRNA-1
chr1_1	exon	54180807	54180893	54180807	ID=Msa0029060-mRNA-1:exon:16002;Parent=Msa0029060-mRNA-1
chr1_1	exon	54181484	54181642	54181484	ID=Msa0029060-mRNA-1:exon:16003;Parent=Msa0029060-mRNA-1
chr1_1	exon	54181818	54181883	54181818	ID=Msa0029060-mRNA-1:exon:16004;Parent=Msa0029060-mRNA-1
chr1_1	exon	54182035	54182100	54182035	ID=Msa0029060-mRNA-1:exon:16005;Parent=Msa0029060-mRNA-1
chr1_1	exon	54182251	54182310	54182251	ID=Msa0029060-mRNA-1:exon:16006;Parent=Msa0029060-mRNA-1
chr1_1	exon	54182683	54183111	54182683	ID=Msa0029060-mRNA-1:exon:16007;Parent=Msa0029060-mRNA-1
chr1_1	five_prime_UTR	54180097	54180339	54180097	ID=Msa0029060-mRNA-1:five_prime_utr;Parent=Msa0029060-mRNA-1
chr1_1	CDS	54180340	54180693	54180340	ID=Msa0029060-mRNA-1:cds;Parent=Msa0029060-mRNA-1
chr1_1	CDS	54180807	54180893	54180807	ID=Msa0029060-mRNA-1:cds;Parent=Msa0029060-mRNA-1
chr1_1	CDS	54181484	54181642	54181484	ID=Msa0029060-mRNA-1:cds;Parent=Msa0029060-mRNA-1
chr1_1	CDS	54181818	54181883	54181818	ID=Msa0029060-mRNA-1:cds;Parent=Msa0029060-mRNA-1
chr1_1	CDS	54182035	54182100	54182035	ID=Msa0029060-mRNA-1:cds;Parent=Msa0029060-mRNA-1
chr1_1	CDS	54182251	54182310	54182251	ID=Msa0029060-mRNA-1:cds;Parent=Msa0029060-mRNA-1
chr1_1	CDS	54182683	54182868	54182683	ID=Msa0029060-mRNA-1:cds;Parent=Msa0029060-mRNA-1
chr1_1	three_prime_UTR	54182869	54183111	54182869	ID=Msa0029060-mRNA-1:three_prime_utr;Parent=Msa0029060-mRNA-1

Gene Sequence

>Msa0029060

ATGGAAGGAGAAAGTAACAACAAAGAGAACAGTTCAGAGCAACTTTCATATGAAAATGAAGGAACAAGTAGCCATGATGTTTCTGAGGAACATCAAATTCAAAACCAACACTTTGGAAGAAGTGGGATAGAGTGGAATTTCTTACCAAAACTACCTCAAAATAACTATGTTGAATATCTCTCTGAATCCTCATGCTATCTTCCAAACACTACTACAACAACTGAGTATAATATGATTGGGAATAGCCATTATCACACTCTTGGTAGTAGCAGCAGCAGTTTCAATGATCCTGGAAAAGCTGATTTTGGTTTTAAGCTGATTGATTCTTCAAGTCATGATTTTGGTGTCAGGAAGCGTGTAGGGTTTTGGAGAAATGATGAAGGAGAGGAAGAAGCTCATATATTTGAAACTGGAAGTAGTCAAAATCTCCACTATACTGAGGGTCATGCAACATGGACACCCGATTCAGTTGGAGATAAGCAATATGCTTCACAATTTGATCATATGGGAGTAGTTGCTGCACCTTCTTTACTTCCAATTCCAAAATCAGGAGGCAGCTACACAAAACAGAAAACTGAGAAAACACGTTACAGTGACCGTCAACGCAGGCAACGTATCGCTGATAACCTCAAAGCTTTACATGAATTGCTGCCGACTCCCGATGTGGGTAGTCAAGCTTACATATTGGATGATATCATTGACTATGTTAAATACTTGCAGATTCAAGTGAAGGAACTAAGTGGAAGTAAATTGCAAGCTGATTCAAATGCTATACCACTAGTTTTCCATGAGGGTTATGGGCATTATATAAAGGAACAGATTTTGAATGAGCCTCTTGAAGAGATAATGGGGAAACTAATAGAAGTGAATTCAGCAGAAACATGTCAGCTACTTGAAAACAAAGGTCTTGTTCTGCTGCCTATTGCTTTGGTTGATGAACTGAACCAAGCTATGCAATGGTTGAACCAAGCTAGCTAG

Protein sequence

>Msa0029060

MEGESNNKENSSEQLSYENEGTSSHDVSEEHQIQNQHFGRSGIEWNFLPKLPQNNYVEYLSESSCYLPNTTTTTEYNMIGNSHYHTLGSSSSSFNDPGKADFGFKLIDSSSHDFGVRKRVGFWRNDEGEEEAHIFETGSSQNLHYTEGHATWTPDSVGDKQYASQFDHMGVVAAPSLLPIPKSGGSYTKQKTEKTRYSDRQRRQRIADNLKALHELLPTPDVGSQAYILDDIIDYVKYLQIQVKELSGSKLQADSNAIPLVFHEGYGHYIKEQILNEPLEEIMGKLIEVNSAETCQLLENKGLVLLPIALVDELNQAMQWLNQAS*