AlfalfaGEDB | Msa0393900

M. sativa cultivar zhongmu-4 / Msa0393900

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
Msa0393900	XP_024634050.2	94.191	241	13	1	1	241	1	240	3.85e-163	470

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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
Msa0393900	I3SC45	94.191	241	13	1	1	241	1	240	1.84e-163	470

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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
Msa0012820	Msa0393900	0.805270	1.447714e-49	-8.615850e-47
Msa0036230	Msa0393900	0.822674	2.087531e-53	-8.615850e-47
Msa0036580	Msa0393900	0.844407	7.705557e-59	-8.615850e-47
Msa0048950	Msa0393900	0.804579	2.018692e-49	-8.615850e-47
Msa0059880	Msa0393900	0.838225	3.262794e-57	-8.615850e-47
Msa0061600	Msa0393900	0.827423	1.577754e-54	-8.615850e-47
Msa0084160	Msa0393900	0.818081	2.361347e-52	-8.615850e-47
Msa0085710	Msa0393900	0.808503	2.999615e-50	-8.615850e-47
Msa0093530	Msa0393900	0.803796	2.938720e-49	-8.615850e-47
Msa0106130	Msa0393900	0.815326	9.790532e-52	-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
Msa0393900	MtrunA17_Chr3g0079441	94.191	241	13	1	1	241	1	240	3.54e-167	470
Msa0393900	MtrunA17_Chr3g0079431	88.382	241	25	1	1	241	1	238	1.06e-156	444
Msa0393900	MtrunA17_Chr3g0079451	86.636	217	28	1	26	241	6	222	4.81e-137	394
Msa0393900	MtrunA17_Chr3g0079461	75.709	247	53	4	1	241	1	246	1.26e-122	357
Msa0393900	MtrunA17_Chr8g0382641	60.241	249	86	4	6	241	6	254	8.82e-103	307
Msa0393900	MtrunA17_Chr5g0425361	55.020	249	100	5	1	241	6	250	1.42e-90	276
Msa0393900	MtrunA17_Chr5g0425401	54.812	239	99	4	8	241	14	248	1.79e-89	273
Msa0393900	MtrunA17_Chr3g0123661	48.163	245	110	7	9	241	9	248	2.24e-71	227

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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 107 sgRNAs with CRISPR-Local

Find 276 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATGGATTAGATGCAGTG+AGG	0.737558	3_2:-8169923	Msa0393900:CDS
AAGAAACATTTCAGATTATA+AGG	0.276821	3_2:-8170706	Msa0393900:CDS
AAGAGATGGATATACAGAAT+GGG	0.502002	3_2:-8169226	Msa0393900:three_prime_UTR
AAGATATGTCCAAGCACAAA+TGG	0.494100	3_2:-8167903	Msa0393900:three_prime_UTR
AAGCTGTGAATTTAGGAAAC+TGG	0.354101	3_2:-8172653	Msa0393900:CDS
AAGTGTATTTGAGACTACAA+TGG	0.620612	3_2:+8167744	None:intergenic
AATATACATCCATTTGTGCT+TGG	0.498617	3_2:+8167894	None:intergenic
AATTGTCAACAAAGATCTCT+TGG	0.496005	3_2:-8172589	Msa0393900:intron
ACAAATGTCAGAATAACCAT+TGG	0.569248	3_2:-8167838	Msa0393900:three_prime_UTR
ACAATTCCGTCAAAGCGAGA+AGG	0.606902	3_2:+8172606	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AATTGTCAACAAAGATCTCT+TGG	-	chr3_2:8167957-8167976	Msa0393900:three_prime_UTR	30.0%
AAACATGTTAAGAACTCAGT+TGG	-	chr3_2:8168379-8168398	Msa0393900:intron	30.0%
CATAATATATGCAAGACCTT+AGG	-	chr3_2:8168413-8168432	Msa0393900:intron	30.0%
GAGAATTTGTATGTTGAACA+GGG	+	chr3_2:8168507-8168526	None:intergenic	30.0%
GCTCGTAGTAAAAAATCAAT+TGG	+	chr3_2:8168539-8168558	None:intergenic	30.0%
CAATGATGAATAAACAAGGA+AGG	+	chr3_2:8168678-8168697	None:intergenic	30.0%
ACTTGGTCTATTTCCATATT+TGG	+	chr3_2:8168718-8168737	None:intergenic	30.0%
AAATATGGAAATAGACCAAG+TGG	-	chr3_2:8168717-8168736	Msa0393900:three_prime_UTR	30.0%
GTAATGCTTGATAAAATTGG+TGG	-	chr3_2:8168809-8168828	Msa0393900:intron	30.0%
AAGTGACACTCATTATGAAA+CGG	+	chr3_2:8168892-8168911	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_2	gene	8167704	8172864	8167704	ID=Msa0393900;Name=Msa0393900
chr3_2	mRNA	8167704	8172864	8167704	ID=Msa0393900-mRNA-1;Parent=Msa0393900;Name=Msa0393900-mRNA-1;_AED=0.32;_eAED=0.32;_QI=110\|1\|1\|1\|0.85\|0.87\|8\|845\|241
chr3_2	exon	8167704	8167977	8167704	ID=Msa0393900-mRNA-1:exon:2104;Parent=Msa0393900-mRNA-1
chr3_2	exon	8168425	8168765	8168425	ID=Msa0393900-mRNA-1:exon:2103;Parent=Msa0393900-mRNA-1
chr3_2	exon	8169174	8169323	8169174	ID=Msa0393900-mRNA-1:exon:2102;Parent=Msa0393900-mRNA-1
chr3_2	exon	8169825	8169994	8169825	ID=Msa0393900-mRNA-1:exon:2101;Parent=Msa0393900-mRNA-1
chr3_2	exon	8170083	8170235	8170083	ID=Msa0393900-mRNA-1:exon:2100;Parent=Msa0393900-mRNA-1
chr3_2	exon	8170649	8170846	8170649	ID=Msa0393900-mRNA-1:exon:2099;Parent=Msa0393900-mRNA-1
chr3_2	exon	8170958	8171077	8170958	ID=Msa0393900-mRNA-1:exon:2098;Parent=Msa0393900-mRNA-1
chr3_2	exon	8172590	8172864	8172590	ID=Msa0393900-mRNA-1:exon:2097;Parent=Msa0393900-mRNA-1
chr3_2	five_prime_UTR	8172755	8172864	8172755	ID=Msa0393900-mRNA-1:five_prime_utr;Parent=Msa0393900-mRNA-1
chr3_2	CDS	8172590	8172754	8172590	ID=Msa0393900-mRNA-1:cds;Parent=Msa0393900-mRNA-1
chr3_2	CDS	8170958	8171077	8170958	ID=Msa0393900-mRNA-1:cds;Parent=Msa0393900-mRNA-1
chr3_2	CDS	8170649	8170846	8170649	ID=Msa0393900-mRNA-1:cds;Parent=Msa0393900-mRNA-1
chr3_2	CDS	8170083	8170235	8170083	ID=Msa0393900-mRNA-1:cds;Parent=Msa0393900-mRNA-1
chr3_2	CDS	8169905	8169994	8169905	ID=Msa0393900-mRNA-1:cds;Parent=Msa0393900-mRNA-1
chr3_2	three_prime_UTR	8169825	8169904	8169825	ID=Msa0393900-mRNA-1:three_prime_utr;Parent=Msa0393900-mRNA-1
chr3_2	three_prime_UTR	8169174	8169323	8169174	ID=Msa0393900-mRNA-1:three_prime_utr;Parent=Msa0393900-mRNA-1
chr3_2	three_prime_UTR	8168425	8168765	8168425	ID=Msa0393900-mRNA-1:three_prime_utr;Parent=Msa0393900-mRNA-1
chr3_2	three_prime_UTR	8167704	8167977	8167704	ID=Msa0393900-mRNA-1:three_prime_utr;Parent=Msa0393900-mRNA-1

Gene Sequence

>Msa0393900

ATGGAATATCGAAACTATTATTTGAGCTTCTTATTGGCGTTATGTCTTTCATGTCCTCACGCTCTTTCGTTTGCTTACAAAGCTGTGAATTTAGGAAACTGGCTTGTTGCTGAAGGATGGATGGAACCTTCTCGCTTTGACGGAATTGTCAACAAAGATCTCTTGGATGGAACTCAAGTACAATTCATGTCAAGAAAGTTCCAGACATATCTTTGCGCTGAAAATGGGGGAGGAACTACTATTGTAGCCGACCGTAGTTCACCTTCTGGTTGGGAAACATTCAGGCTTTGGAGGGTCAGTGACTCATCCTTCAATTTTAGGGTGTTCAACAAAAAATTTGTGGGGTTAAATAATATAGGAGGAGGCAACACAATTGTATCCTTTTCAGATTCACCTAGCAACCAAGAAACATTTCAGATTATAAGGAACAATGATGATCCCCTCAAAATTCGAATCAAAGCATCAAATGGTCTATTTTTGCAGGTTCAATCGAAGACATCAGTGACTGCAGATTATGAGGGCACAAATTGGGATGACAATGATCCATCAGTTTTTCACATGACTATTGTAAACACATTACAAGGAGAATACCAACTTACTAATGGTTATGGCGATAGAGCTCCTCAAGTCATGAGGGACCATTGGAATTCATACATAACTGAAGATGATTTCAGATTCATGTCACAAAATGGATTAGATGCAGTGAGGATACCTGTTGGATGGTGA

Protein sequence

>Msa0393900

MEYRNYYLSFLLALCLSCPHALSFAYKAVNLGNWLVAEGWMEPSRFDGIVNKDLLDGTQVQFMSRKFQTYLCAENGGGTTIVADRSSPSGWETFRLWRVSDSSFNFRVFNKKFVGLNNIGGGNTIVSFSDSPSNQETFQIIRNNDDPLKIRIKASNGLFLQVQSKTSVTADYEGTNWDDNDPSVFHMTIVNTLQGEYQLTNGYGDRAPQVMRDHWNSYITEDDFRFMSQNGLDAVRIPVGW*