AlfalfaGEDB | Msa0429880

M. sativa cultivar zhongmu-4 / Msa0429880

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
Msa0429880	XP_024639750.2	84.783	46	7	0	1	46	830	875	2.32e-18	87.0

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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
Msa0429880	G7IJ15	80.435	46	9	0	1	46	265	310	3.32e-16	79.3

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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
Msa0102070	Msa0429880	0.806978	6.325455e-50	-8.615850e-47
Msa0123810	Msa0429880	0.803276	3.765148e-49	-8.615850e-47
Msa0142220	Msa0429880	0.801609	8.304461e-49	-8.615850e-47
Msa0153910	Msa0429880	0.820811	5.632434e-53	-8.615850e-47
Msa0227480	Msa0429880	0.811378	7.212421e-51	-8.615850e-47
Msa0231000	Msa0429880	0.808001	3.837301e-50	-8.615850e-47
Msa0270520	Msa0429880	0.800817	1.206400e-48	-8.615850e-47
Msa0360510	Msa0429880	0.815917	7.228534e-52	-8.615850e-47
Msa0384800	Msa0429880	0.805902	1.066888e-49	-8.615850e-47
Msa0429880	Msa0436780	0.804469	2.128427e-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	q. start	q. end	s. start	s. end	e-value	bit score
Msa0429880	MtrunA17_Chr6g0476801	58.140	43	18	1	43	42	84	8.71e-14	59.3
Msa0429880	MtrunA17_Chr5g0419661	58.140	43	18	1	43	42	84	1.22e-13	59.3
Msa0429880	MtrunA17_Chr7g0239401	58.140	43	18	1	43	45	87	1.28e-13	58.9
Msa0429880	MtrunA17_Chr3g0091111	58.140	43	18	1	43	42	84	1.35e-13	58.5
Msa0429880	MtrunA17_Chr2g0318091	58.140	43	18	1	43	67	109	2.56e-13	58.5
Msa0429880	MtrunA17_Chr3g0094391	59.524	42	17	1	42	82	123	5.73e-13	58.2
Msa0429880	MtrunA17_Chr5g0413121	60.526	38	15	6	43	67	104	2.77e-12	55.8

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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
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Find 30 sgRNAs with CRISPR-Local

Find 377 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAGCGACGATATATGAAAG+TGG	0.613767	3_2:+81462295	Msa0429880:exon
AACAACTAGAAGCATGTGTC+TGG	0.483341	3_2:+81455822	None:intergenic
AACCGTGGTCAAGGAGGATT+GGG	0.447201	3_2:+81462488	Msa0429880:CDS
AATCAATAACACTGATTTGA+CGG	0.458324	3_2:-81462259	None:intergenic
ACTTATCATTAGAGTAGGTG+CGG	0.617183	3_2:-81462464	None:intergenic
AGCCCAATCCTCCTTGACCA+CGG	0.661100	3_2:-81462490	None:intergenic
ATATATGAAAGTGGTCAACA+TGG	0.617015	3_2:+81462304	Msa0429880:exon
ATCAATAACACTGATTTGAC+GGG	0.447409	3_2:-81462258	None:intergenic
CAATAACACTGATTTGACGG+GGG	0.712803	3_2:-81462256	None:intergenic
CGAGGAAATTCTTCAGATTT+AGG	0.105712	3_2:+81457598	Msa0429880:five_prime_UTR

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TATCATTTGCATTAGTGGTA+AGG	+	chr3_2:81455884-81455903	Msa0429880:intron	30.0%
TCATGAGTTCTTCAAAATTG+GGG	+	chr3_2:81455959-81455978	Msa0429880:intron	30.0%
AAACCGTAAAAAACTGTGTT+TGG	+	chr3_2:81456196-81456215	Msa0429880:intron	30.0%
TGCATGGTTGAGTTAAAAAA+TGG	-	chr3_2:81456238-81456257	None:intergenic	30.0%
CCATTATTTGTAAAGATCAC+GGG	-	chr3_2:81456361-81456380	None:intergenic	30.0%
AGTATTCCAATATTCAGAAG+GGG	-	chr3_2:81456945-81456964	None:intergenic	30.0%
TGTAAAGACGATGTACATAA+TGG	+	chr3_2:81457376-81457395	Msa0429880:intron	30.0%
GAGGAAATTCTTCAGATTTA+GGG	+	chr3_2:81457599-81457618	Msa0429880:five_prime_UTR	30.0%
ATATTATTGCCACATTCAAG+AGG	-	chr3_2:81457812-81457831	None:intergenic	30.0%
GCCACTAATTCCATATAAAT+AGG	-	chr3_2:81457873-81457892	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_2	gene	81455829	81462536	81455829	ID=Msa0429880;Name=Msa0429880
chr3_2	mRNA	81455829	81462536	81455829	ID=Msa0429880-mRNA-1;Parent=Msa0429880;Name=Msa0429880-mRNA-1;_AED=0.02;_eAED=0.02;_QI=195\|1\|0.8\|1\|0.25\|0.2\|5\|0\|46
chr3_2	exon	81455829	81455900	81455829	ID=Msa0429880-mRNA-1:exon:22464;Parent=Msa0429880-mRNA-1
chr3_2	exon	81457596	81457629	81457596	ID=Msa0429880-mRNA-1:exon:22465;Parent=Msa0429880-mRNA-1
chr3_2	exon	81461737	81461771	81461737	ID=Msa0429880-mRNA-1:exon:22466;Parent=Msa0429880-mRNA-1
chr3_2	exon	81462254	81462352	81462254	ID=Msa0429880-mRNA-1:exon:22467;Parent=Msa0429880-mRNA-1
chr3_2	exon	81462444	81462536	81462444	ID=Msa0429880-mRNA-1:exon:22468;Parent=Msa0429880-mRNA-1
chr3_2	five_prime_UTR	81455829	81455900	81455829	ID=Msa0429880-mRNA-1:five_prime_utr;Parent=Msa0429880-mRNA-1
chr3_2	five_prime_UTR	81457596	81457629	81457596	ID=Msa0429880-mRNA-1:five_prime_utr;Parent=Msa0429880-mRNA-1
chr3_2	five_prime_UTR	81461737	81461771	81461737	ID=Msa0429880-mRNA-1:five_prime_utr;Parent=Msa0429880-mRNA-1
chr3_2	five_prime_UTR	81462254	81462307	81462254	ID=Msa0429880-mRNA-1:five_prime_utr;Parent=Msa0429880-mRNA-1
chr3_2	CDS	81462308	81462352	81462308	ID=Msa0429880-mRNA-1:cds;Parent=Msa0429880-mRNA-1
chr3_2	CDS	81462444	81462536	81462444	ID=Msa0429880-mRNA-1:cds;Parent=Msa0429880-mRNA-1

Gene Sequence	>Msa0429880 ATGAAAGTGGTCAACATGGAAAATGAAAATATGATCCCTTTAAATTACTTTCCTAATCACAAATGCCGCACCTACTCTAATGATAAGTTAACCGTGGTCAAGGAGGATTGGGCTACCTATATGGTGGATGATGTTTTC
Protein sequence	>Msa0429880 MKVVNMENENMIPLNYFPNHKCRTYSNDKLTVVKEDWATYMVDDVF