AlfalfaGEDB | Msa0475860

M. sativa cultivar zhongmu-4 / Msa0475860

KEGG: -
GO: -
PFAM: PF03195.17

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
Msa0475860	XP_003601210.2	100.000	186	0	0	1	186	1	186	4.18e-134	383

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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
Msa0475860	sp\|Q9FML4\|LOB_ARATH	61.929	197	44	5	1	179	1	184	2.51e-72	219

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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
Msa0475860	H2D439	100.000	186	0	0	1	186	1	186	1.99e-134	383

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TFs/TRs:

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Gene ID	Type	Classification
Msa0475860	TF	LOB

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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
No data available in table

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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
Msa0475860	MtrunA17_Chr3g0117121	100.000	186	0	0	1	186	1	186	3.84e-138	383
Msa0475860	MtrunA17_Chr4g0058651	75.000	176	34	4	7	177	8	178	2.84e-86	252
Msa0475860	MtrunA17_Chr7g0227511	60.526	190	56	3	1	189	1	172	1.33e-71	214
Msa0475860	MtrunA17_Chr6g0449641	64.151	159	30	2	1	159	1	132	8.99e-66	198
Msa0475860	MtrunA17_Chr6g0449651	78.261	115	25	0	1	115	58	172	8.41e-64	195
Msa0475860	MtrunA17_Chr8g0353981	75.221	113	25	1	1	113	1	110	3.32e-52	167
Msa0475860	MtrunA17_Chr5g0402611	55.556	153	58	1	4	156	2	144	1.68e-51	167
Msa0475860	MtrunA17_Chr5g0437571	71.154	104	30	0	8	111	4	107	2.55e-50	160
Msa0475860	MtrunA17_Chr2g0311601	56.934	137	59	0	9	145	12	148	3.51e-50	159
Msa0475860	MtrunA17_Chr3g0115431	54.140	157	68	2	4	157	3	158	7.10e-48	155

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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
Msa0475860	AT5G63090.4	61.929	197	44	5	1	179	1	184	2.55e-73	219
Msa0475860	AT5G63090.3	61.929	197	44	5	1	179	1	184	2.55e-73	219
Msa0475860	AT5G63090.2	61.929	197	44	5	1	179	1	184	2.55e-73	219
Msa0475860	AT5G63090.1	61.929	197	44	5	1	179	1	184	2.55e-73	219
Msa0475860	AT3G27650.1	79.279	111	23	0	4	114	33	143	3.80e-63	192
Msa0475860	AT1G65620.1	72.973	111	30	0	3	113	2	112	4.06e-51	163
Msa0475860	AT1G65620.4	72.973	111	30	0	3	113	2	112	4.06e-51	163
Msa0475860	AT1G65620.3	72.973	111	30	0	3	113	2	112	4.06e-51	163
Msa0475860	AT1G65620.5	72.973	111	30	0	3	113	2	112	4.06e-51	163
Msa0475860	AT1G65620.2	72.973	111	30	0	3	113	2	112	4.06e-51	163

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Find 60 sgRNAs with CRISPR-Local

Find 220 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAAGATAGAGAGATATAGA+GGG	0.528555	3_3:+79396463	None:intergenic
AACGAAGCCGGAACAACAAG+AGG	0.585009	3_3:+79394810	None:intergenic
AATGGAAATGTTGATGGAAA+TGG	0.392662	3_3:-79394750	Msa0475860:CDS
AATTAGGGTTTCCTCTTTAA+GGG	0.304187	3_3:-79396408	Msa0475860:intron
AATTCACTGCATCTTCTCTC+TGG	0.451599	3_3:+79395012	None:intergenic
ACAACAAGAGGAGGAAGAGG+TGG	0.575947	3_3:+79394822	None:intergenic
ACAAGTTCAGAGGCTTCAAA+AGG	0.506762	3_3:-79394913	Msa0475860:CDS
ACCTCTTCTGAGGATATAAG+TGG	0.541161	3_3:-79394684	Msa0475860:CDS
ACTGCATCTTCTCTCTGGTG+AGG	0.556115	3_3:+79395017	None:intergenic
AGACAGTTTAGTTCAAGATT+TGG	0.321989	3_3:-79394774	Msa0475860:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AATTAGGGTTTCCTCTTTAA+GGG	-	chr3_3:79394736-79394755	Msa0475860:CDS	30.0%
TCACGTAGATTTATTAGATG+AGG	+	chr3_3:79394771-79394790	None:intergenic	30.0%
GATCAGGAGAATTACTAAAA+GGG	+	chr3_3:79394869-79394888	None:intergenic	30.0%
TGATCAGGAGAATTACTAAA+AGG	+	chr3_3:79394870-79394889	None:intergenic	30.0%
ATATGTAGGTTTCTTTGATC+AGG	+	chr3_3:79394885-79394904	None:intergenic	30.0%
TTTACCTGTTTGTGATATGT+AGG	+	chr3_3:79394899-79394918	None:intergenic	30.0%
AATAAATCGAACCAAAGATC+TGG	+	chr3_3:79395106-79395125	None:intergenic	30.0%
TACATGAGACTTTACTTTGT+TGG	+	chr3_3:79395512-79395531	None:intergenic	30.0%
TTAATCCATGGAATAGCATA+AGG	+	chr3_3:79396436-79396455	None:intergenic	30.0%
AATTAGGGTTTCCTCTTTAA+GGG	-	chr3_3:79394736-79394755	Msa0475860:CDS	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_3	gene	79394650	79396516	79394650	ID=Msa0475860;Name=Msa0475860
chr3_3	mRNA	79394650	79396516	79394650	ID=Msa0475860-mRNA-1;Parent=Msa0475860;Name=Msa0475860-mRNA-1;_AED=0.01;_eAED=0.03;_QI=196\|0.5\|0.66\|1\|0\|0\|3\|0\|189
chr3_3	exon	79394650	79395227	79394650	ID=Msa0475860-mRNA-1:exon:21549;Parent=Msa0475860-mRNA-1
chr3_3	exon	79396253	79396329	79396253	ID=Msa0475860-mRNA-1:exon:21548;Parent=Msa0475860-mRNA-1
chr3_3	exon	79396409	79396516	79396409	ID=Msa0475860-mRNA-1:exon:21547;Parent=Msa0475860-mRNA-1
chr3_3	five_prime_UTR	79396409	79396516	79396409	ID=Msa0475860-mRNA-1:five_prime_utr;Parent=Msa0475860-mRNA-1
chr3_3	five_prime_UTR	79396253	79396329	79396253	ID=Msa0475860-mRNA-1:five_prime_utr;Parent=Msa0475860-mRNA-1
chr3_3	five_prime_UTR	79395217	79395227	79395217	ID=Msa0475860-mRNA-1:five_prime_utr;Parent=Msa0475860-mRNA-1
chr3_3	CDS	79394650	79395216	79394650	ID=Msa0475860-mRNA-1:cds;Parent=Msa0475860-mRNA-1

Gene Sequence

>Msa0475860

ATGGCATCATCAAGCTCATACAATTCACCATGTGCAGCCTGCAAATTCCTTCGCCGAAAATGCATGCCAGGCTGCATCTTTGCACCATACTTTCCACCAGAAGAACCTCAAAAATTTGCCAACGTTCACAAGATCTTTGGCGCAAGCAACGTCACGAAGATCCTCAACGAACTCCTCCCTCACCAGAGAGAAGATGCAGTGAATTCCCTTGCTTATGAAGCCGAGGCACGTGTGAGAGATCCTGTTTATGGTTGTGTTGGTGCCATCTCTTTCCTTCAGAGACAAGTTCAGAGGCTTCAAAAGGAACTTGATTCTGCTAATGCTGATCTTCTTCGCTTTGCTTATAATGAAATCTCTCCTAATTCTTCTCTTCCACCTCTTCCTCCTCTTGTTGTTCCGGCTTCGTTTCATCAATCTCAAAGACAGTTTAGTTCAAGATTTGGTAATGGAAATGTTGATGGAAATGGATTTTACTCTTCTTTTCCTTATGCTATTCCATGGATTAATGATACCTCTTCTGAGGATATAAGTGGAGGTGTAGGAGGAAGAGGAGGAGGTAATAATTTG

Protein sequence

>Msa0475860

MASSSSYNSPCAACKFLRRKCMPGCIFAPYFPPEEPQKFANVHKIFGASNVTKILNELLPHQREDAVNSLAYEAEARVRDPVYGCVGAISFLQRQVQRLQKELDSANADLLRFAYNEISPNSSLPPLPPLVVPASFHQSQRQFSSRFGNGNVDGNGFYSSFPYAIPWINDTSSEDISGGVGGRGGGNNL