AlfalfaGEDB | Msa0003860

M. sativa cultivar zhongmu-4 / Msa0003860

KEGG: -
GO: -
PFAM: PF00132.27

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
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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
Msa0003860	sp\|Q9FWR5\|GCA1_ARATH	85.874	269	37	1	1	268	1	269	2.01e-175	487

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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
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TFs/TRs:

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Gene ID	Type	Classification
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Protein Kinases:

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0003860	Msa0146410	0.881041	3.337631e-70	-8.615850e-47
Msa0003860	Msa1043640	0.956409	3.160908e-114	-8.615850e-47
Msa0003860	Msa1364330	0.801924	7.157079e-49	-8.615850e-47
Msa0003860	Msa1374160	0.993914	3.670262e-203	-8.615850e-47
Msa0003860	Msa1382660	0.990053	7.654991e-181	-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
Msa0003860	MtrunA17_Chr1g0155361	98.162	272	5	0	1	272	1	272	0.0	554
Msa0003860	MtrunA17_Chr3g0141721	84.701	268	40	1	1	268	1	267	2.71e-171	474
Msa0003860	MtrunA17_Chr5g0404561	79.336	271	54	2	1	270	1	270	1.40e-159	444
Msa0003860	MtrunA17_Chr8g0386291	36.792	212	127	2	17	228	37	241	3.83e-44	150

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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
Msa0003860	AT1G19580.1	85.874	269	37	1	1	268	1	269	2.05e-176	487
Msa0003860	AT1G47260.1	81.061	264	50	0	1	264	1	264	9.89e-167	462
Msa0003860	AT5G66510.1	74.340	265	59	3	1	265	1	256	4.92e-147	412
Msa0003860	AT5G66510.2	71.377	276	59	4	1	265	1	267	2.67e-143	403
Msa0003860	AT1G19580.2	88.827	179	20	0	1	179	1	179	7.84e-119	339
Msa0003860	AT5G63510.1	38.503	187	114	1	42	228	55	240	5.24e-41	142
Msa0003860	AT3G48680.1	37.968	187	115	1	42	228	59	244	1.95e-40	140
Msa0003860	AT5G63510.2	35.047	214	111	4	42	228	55	267	3.54e-35	127
Msa0003860	AT1G47420.1	51.163	86	29	1	1	86	1	73	1.40e-17	80.5

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Find 122 sgRNAs with CRISPR-Local

Find 343 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACATGCCATGGTTGCTGC+TGG	0.555478	1_1:+6364754	Msa0003860:CDS
AAACCTTTGTTTGTTTAGGT+AGG	0.577011	1_1:-6367182	None:intergenic
AAAGTGACTAACGCTGTTCT+TGG	0.312952	1_1:-6362529	None:intergenic
AAATGCATCTTTATCAACAA+CGG	0.563384	1_1:-6364048	None:intergenic
AAATGGTGGTGGAAGGAAGA+AGG	0.531780	1_1:-6362319	None:intergenic
AACAACATCAGTGTTGGAAG+TGG	0.575912	1_1:+6364463	Msa0003860:CDS
AAGGGCACCAGCAGCAACCA+TGG	0.591319	1_1:-6364761	None:intergenic
AAGGTGTTGCCTACTATTAT+TGG	0.284723	1_1:+6364541	Msa0003860:CDS
AATGCATCTTTATCAACAAC+GGG	0.459975	1_1:-6364047	None:intergenic
AATGTGAACATCACCGATGA+CGG	0.591114	1_1:-6364087	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
ACATAGAGAAACGGTAATTA+CGG	-	chr1_1:6362580-6362599	None:intergenic	30.0%
GATCTTAAGACATAGAGAAA+CGG	-	chr1_1:6362589-6362608	None:intergenic	30.0%
TTGAGTTTCCATTCTCTTTA+TGG	+	chr1_1:6363001-6363020	Msa0003860:intron	30.0%
GAAAAAGTCATGCTTTCATA+TGG	+	chr1_1:6363411-6363430	Msa0003860:intron	30.0%
GAGTTGAATGTTTGAATGAA+AGG	+	chr1_1:6363528-6363547	Msa0003860:intron	30.0%
TCATACAGTTGAAACACTTA+AGG	-	chr1_1:6363586-6363605	None:intergenic	30.0%
AAAAACATCCTCAACAAAGA+AGG	-	chr1_1:6363682-6363701	None:intergenic	30.0%
ACTCTATATCATTTAACTGG+TGG	+	chr1_1:6363891-6363910	Msa0003860:intron	30.0%
TCATTTAACTGGTGGAAAAA+TGG	+	chr1_1:6363899-6363918	Msa0003860:intron	30.0%
TGGTGGAAAAATGGTTTAAT+GGG	+	chr1_1:6363908-6363927	Msa0003860:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	6362247	6367631	6362247	ID=Msa0003860;Name=Msa0003860
chr1_1	mRNA	6362247	6367631	6362247	ID=Msa0003860-mRNA-1;Parent=Msa0003860;Name=Msa0003860-mRNA-1;_AED=0.06;_eAED=0.06;_QI=178\|1\|1\|1\|1\|1\|5\|416\|272
chr1_1	exon	6362247	6362539	6362247	ID=Msa0003860-mRNA-1:exon:2069;Parent=Msa0003860-mRNA-1
chr1_1	exon	6364006	6364149	6364006	ID=Msa0003860-mRNA-1:exon:2070;Parent=Msa0003860-mRNA-1
chr1_1	exon	6364455	6364580	6364455	ID=Msa0003860-mRNA-1:exon:2071;Parent=Msa0003860-mRNA-1
chr1_1	exon	6364665	6364816	6364665	ID=Msa0003860-mRNA-1:exon:2072;Parent=Msa0003860-mRNA-1
chr1_1	exon	6366934	6367631	6366934	ID=Msa0003860-mRNA-1:exon:2073;Parent=Msa0003860-mRNA-1
chr1_1	five_prime_UTR	6362247	6362424	6362247	ID=Msa0003860-mRNA-1:five_prime_utr;Parent=Msa0003860-mRNA-1
chr1_1	CDS	6362425	6362539	6362425	ID=Msa0003860-mRNA-1:cds;Parent=Msa0003860-mRNA-1
chr1_1	CDS	6364006	6364149	6364006	ID=Msa0003860-mRNA-1:cds;Parent=Msa0003860-mRNA-1
chr1_1	CDS	6364455	6364580	6364455	ID=Msa0003860-mRNA-1:cds;Parent=Msa0003860-mRNA-1
chr1_1	CDS	6364665	6364816	6364665	ID=Msa0003860-mRNA-1:cds;Parent=Msa0003860-mRNA-1
chr1_1	CDS	6366934	6367215	6366934	ID=Msa0003860-mRNA-1:cds;Parent=Msa0003860-mRNA-1
chr1_1	three_prime_UTR	6367216	6367631	6367216	ID=Msa0003860-mRNA-1:three_prime_utr;Parent=Msa0003860-mRNA-1

Gene Sequence

>Msa0003860

ATGGGAACCCTAGGAAGAGCAATATACAGCGTTGGATTTTGGATTCGAGAAACTGGACAAGCCATTGATCGCCTCGGTTCTCGCCTTCAAGGAAACTACTACTTCCAAGAACAGCTGTCTAGGCATCGAACTTTGATGAACATATTTGATAAGGTTCCCGTTGTTGATAAAGATGCATTTATTGCCCCAAGTGCCTCCGTCATCGGTGATGTTCACATTGGCAGAGGATCATCCATTTGGTATGGATGTGTCATGAGAGGTGATGTGAACAACATCAGTGTTGGAAGTGGAACGAACATTCAGGATAACTCCTTGGTGCACGTTGCGAAGTCAAATTTAAGTGGGAAGGTGTTGCCTACTATTATTGGGGATAATGTTACTGTAGGTCACAGTGCGGTCTTACATGGTTGCACTGTTGAGGATGAGGCATTTGTTGGTATGGGTGCAACACTACTGGATGGTGTTGTTGTTGAGAAACATGCCATGGTTGCTGCTGGTGCCCTTGTGAGACAGAATTCACGGATTCCATCCGGAGAGGTTTGGGCAGGCAATCCGGCAAAGTTCTTGAGGAAGCTCACTGCTGAAGAGATATCATTTATCTCCCAGTCAGCCATCAATTACAGTAACCTTGCACAGGTCCATGCAGCTGAAAATGCCAAGCCTTTTGATGAAATTGAGTTTGAGAAGGTGCTCCGAAAGAAGTTTGCGCGTAAAGACGAGGAGTATGACTCAATGCTGGGCGTTGTTCGTGAGATCCCTCCAGAGCTCATTCTTCCAGATAATGTCCTACCTAAACAAACAAAGGTTTCCACACAATGA

Protein sequence

>Msa0003860

MGTLGRAIYSVGFWIRETGQAIDRLGSRLQGNYYFQEQLSRHRTLMNIFDKVPVVDKDAFIAPSASVIGDVHIGRGSSIWYGCVMRGDVNNISVGSGTNIQDNSLVHVAKSNLSGKVLPTIIGDNVTVGHSAVLHGCTVEDEAFVGMGATLLDGVVVEKHAMVAAGALVRQNSRIPSGEVWAGNPAKFLRKLTAEEISFISQSAINYSNLAQVHAAENAKPFDEIEFEKVLRKKFARKDEEYDSMLGVVREIPPELILPDNVLPKQTKVSTQ*