AlfalfaGEDB | Msa0035340

M. sativa cultivar zhongmu-4 / Msa0035340

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
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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
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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
Msa0000050	Msa0035340	0.818496	1.901645e-52	-8.615850e-47
Msa0000560	Msa0035340	0.802854	4.605222e-49	-8.615850e-47
Msa0002580	Msa0035340	0.803011	4.273080e-49	-8.615850e-47
Msa0003080	Msa0035340	0.847346	1.225438e-59	-8.615850e-47
Msa0005890	Msa0035340	0.813710	2.229661e-51	-8.615850e-47
Msa0008040	Msa0035340	0.802437	5.612673e-49	-8.615850e-47
Msa0014770	Msa0035340	0.803323	3.682402e-49	-8.615850e-47
Msa0016040	Msa0035340	0.803331	3.667758e-49	-8.615850e-47
Msa0017670	Msa0035340	0.830790	2.407651e-55	-8.615850e-47
Msa0018160	Msa0035340	0.802384	5.756581e-49	-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
Msa0035340	MtrunA17_Chr1g0197601	92.697	178	13	0	1	178	1	178	3.81e-120	350
Msa0035340	MtrunA17_Chr6g0478171	52.459	61	29	0	25	85	60	120	2.03e-15	73.6

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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
Msa0035340	AT3G52170.2	52.381	126	54	2	2	121	1	126	2.67e-32	121
Msa0035340	AT3G52170.1	52.381	126	54	2	2	121	1	126	2.67e-32	121
Msa0035340	AT3G52170.3	54.400	125	55	1	2	126	1	123	4.71e-32	120
Msa0035340	AT3G52170.4	54.400	125	55	1	2	126	1	123	4.71e-32	120
Msa0035340	AT5G58210.1	54.717	53	20	1	30	82	48	96	4.67e-13	67.0
Msa0035340	AT5G58210.4	54.717	53	20	1	30	82	48	96	4.67e-13	67.0
Msa0035340	AT5G58210.2	54.717	53	20	1	30	82	48	96	4.67e-13	67.0
Msa0035340	AT5G58210.3	54.717	53	20	1	30	82	48	96	4.67e-13	67.0

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Find 126 sgRNAs with CRISPR-Local

Find 227 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAGCCATTGTCAATGCCTT+TGG	0.335893	1_1:-63514434	Msa0035340:three_prime_UTR
AACTTGCAATTGAACCCAAC+GGG	0.449823	1_1:+63516050	None:intergenic
AAGCCATTGTCAATGCCTTT+GGG	0.408921	1_1:-63514433	Msa0035340:three_prime_UTR
AAGCTTCTGTTGTTTCTGAT+GGG	0.493641	1_1:-63515731	Msa0035340:three_prime_UTR
AATAGAGCGAAAAGAGGATT+GGG	0.454588	1_1:+63514458	None:intergenic
AATCCGAGTCTTTCTCCCTT+CGG	0.470466	1_1:+63517160	None:intergenic
AATTCAAGAAAATAGAGTGC+TGG	0.476605	1_1:-63516128	Msa0035340:CDS
ACACTGTAAGGGAGATTGTA+CGG	0.505294	1_1:-63516156	Msa0035340:CDS
ACATTTCCATTGAGATCTGT+TGG	0.519105	1_1:-63515378	Msa0035340:three_prime_UTR
ACGCTACTCGACAATAGTGA+CGG	0.701418	1_1:+63517666	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
ATGATGCATTCTGTTGTAAA+AGG	-	chr1_1:63514627-63514646	Msa0035340:intron	30.0%
TTCTGATAGATAGAAGAAGA+TGG	-	chr1_1:63514915-63514934	Msa0035340:intron	30.0%
TCTGATAGATAGAAGAAGAT+GGG	-	chr1_1:63514916-63514935	Msa0035340:intron	30.0%
AAAACAGTGGGAAAAATACT+GGG	-	chr1_1:63515027-63515046	Msa0035340:intron	30.0%
AAATACTGGGAAATGATAAC+AGG	-	chr1_1:63515040-63515059	Msa0035340:intron	30.0%
TGAATTGAAAGAAGCAATAC+TGG	-	chr1_1:63515132-63515151	Msa0035340:three_prime_UTR	30.0%
TCACTCCTATATATCAACTT+AGG	+	chr1_1:63515169-63515188	None:intergenic	30.0%
TGTGAATACGTTAGCAAATA+CGG	+	chr1_1:63515259-63515278	None:intergenic	30.0%
AAATAATAACACAATGGGAG+GGG	+	chr1_1:63515342-63515361	None:intergenic	30.0%
CAAATAATAACACAATGGGA+GGG	+	chr1_1:63515343-63515362	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	63514181	63517692	63514181	ID=Msa0035340;Name=Msa0035340
chr1_1	mRNA	63514181	63517692	63514181	ID=Msa0035340-mRNA-1;Parent=Msa0035340;Name=Msa0035340-mRNA-1;_AED=0.03;_eAED=0.03;_QI=146\|1\|1\|1\|0.6\|0.5\|6\|1145\|197
chr1_1	exon	63514181	63514523	63514181	ID=Msa0035340-mRNA-1:exon:20224;Parent=Msa0035340-mRNA-1
chr1_1	exon	63514643	63514752	63514643	ID=Msa0035340-mRNA-1:exon:20223;Parent=Msa0035340-mRNA-1
chr1_1	exon	63515077	63515466	63515077	ID=Msa0035340-mRNA-1:exon:20222;Parent=Msa0035340-mRNA-1
chr1_1	exon	63515491	63516249	63515491	ID=Msa0035340-mRNA-1:exon:20221;Parent=Msa0035340-mRNA-1
chr1_1	exon	63517110	63517282	63517110	ID=Msa0035340-mRNA-1:exon:20220;Parent=Msa0035340-mRNA-1
chr1_1	exon	63517583	63517692	63517583	ID=Msa0035340-mRNA-1:exon:20219;Parent=Msa0035340-mRNA-1
chr1_1	five_prime_UTR	63517583	63517692	63517583	ID=Msa0035340-mRNA-1:five_prime_utr;Parent=Msa0035340-mRNA-1
chr1_1	five_prime_UTR	63517247	63517282	63517247	ID=Msa0035340-mRNA-1:five_prime_utr;Parent=Msa0035340-mRNA-1
chr1_1	CDS	63517110	63517246	63517110	ID=Msa0035340-mRNA-1:cds;Parent=Msa0035340-mRNA-1
chr1_1	CDS	63515793	63516249	63515793	ID=Msa0035340-mRNA-1:cds;Parent=Msa0035340-mRNA-1
chr1_1	three_prime_UTR	63515491	63515792	63515491	ID=Msa0035340-mRNA-1:three_prime_utr;Parent=Msa0035340-mRNA-1
chr1_1	three_prime_UTR	63515077	63515466	63515077	ID=Msa0035340-mRNA-1:three_prime_utr;Parent=Msa0035340-mRNA-1
chr1_1	three_prime_UTR	63514643	63514752	63514643	ID=Msa0035340-mRNA-1:three_prime_utr;Parent=Msa0035340-mRNA-1
chr1_1	three_prime_UTR	63514181	63514523	63514181	ID=Msa0035340-mRNA-1:three_prime_utr;Parent=Msa0035340-mRNA-1

Gene Sequence

>Msa0035340

ATGATGCATTCTGTTGTAAAAGGTGGTTGGAGGCCAACATTTGCTCTTGCCAAGCAAAATGATTCCGAAGGGAGAAAGACTCGGATTCGACGCTCTAAAGAGGAAAGAAAGGCAATGGTCCAATCCTTCATTCAAAAGTACCAAGAGTCAAACAGTGGAAACTTTCCATCAATTACTCTTACACATAAAGAAGTCGGTGGCTCTTTCTACACTGTAAGGGAGATTGTACGGGATATAATTCAAGAAAATAGAGTGCTGGGTCCTGCTAAATTCAACTTGCAGGAGTTCAACACCGATCAATTTTTAGAACAAAACCCGTTGGGTTCAATTGCAAGTTGCCCTGAACATTTTCTCAGTGCATCATCAAATGAAGGCCATCCTGAACTCAAGAAAGTTCCAGATACAAATGACCCACTGCTTTCTGTTTCTGATAAGCATTATACTGAAGCTGAGCATCAGGTGGTTGACGATGGGCATGTCATAGATGTTGGCCATTTAGATTTGACTAACAAGGAAGCCATTGAAGCACTGTTGTCGCTGATGAGAGTTATACTGAAACTGAGCATCAGGTGGTTGACAATGGGCATGTCGTAA

Protein sequence

>Msa0035340

MMHSVVKGGWRPTFALAKQNDSEGRKTRIRRSKEERKAMVQSFIQKYQESNSGNFPSITLTHKEVGGSFYTVREIVRDIIQENRVLGPAKFNLQEFNTDQFLEQNPLGSIASCPEHFLSASSNEGHPELKKVPDTNDPLLSVSDKHYTEAEHQVVDDGHVIDVGHLDLTNKEAIEALLSLMRVILKLSIRWLTMGMS*