AlfalfaGEDB | Msa0503020

M. sativa cultivar zhongmu-4 / Msa0503020

KEGG: -
GO: -
PFAM: PF03101.18

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
Msa0503020	XP_039686078.1	68.841	138	32	1	13	139	70	207	2.99e-64	205

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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
Msa0503020	sp\|Q9SWG3\|FAR1_ARATH	34.266	143	78	3	16	142	91	233	6.69e-22	93.6

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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
Msa0503020	A0A2K3NBU0	69.565	138	31	1	16	142	77	214	6.44e-61	208

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TFs/TRs:

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Gene ID	Type	Classification
Msa0503020	TF	FAR1

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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
Msa0503020	MtrunA17_Chr1g0207551	33.571	140	80	2	16	142	74	213	5.24e-20	85.1
Msa0503020	MtrunA17_Chr2g0329031	34.532	139	73	4	16	142	54	186	1.86e-16	74.7
Msa0503020	MtrunA17_Chr2g0296781	31.579	133	78	3	23	142	42	174	3.89e-14	68.2
Msa0503020	MtrunA17_Chr3g0080351	30.556	144	71	4	16	142	116	247	8.30e-13	64.3
Msa0503020	MtrunA17_Chr5g0448761	31.034	116	66	3	38	140	129	243	3.40e-12	62.8
Msa0503020	MtrunA17_Chr2g0287651	27.027	111	68	2	43	140	147	257	6.77e-12	61.6

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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
Msa0503020	AT4G15090.1	34.266	143	78	3	16	142	91	233	6.80e-23	93.6
Msa0503020	AT4G15090.5	34.266	143	78	3	16	142	91	233	6.80e-23	93.6
Msa0503020	AT4G15090.3	34.266	143	78	3	16	142	91	233	6.80e-23	93.6
Msa0503020	AT4G15090.2	34.266	143	78	3	16	142	91	233	6.80e-23	93.6
Msa0503020	AT4G15090.4	34.266	143	78	3	16	142	91	233	6.80e-23	93.6
Msa0503020	AT1G76320.1	35.036	137	72	4	16	140	37	168	1.00e-16	75.9
Msa0503020	AT1G76320.4	35.036	137	72	4	16	140	37	168	1.00e-16	75.9
Msa0503020	AT1G76320.2	35.036	137	72	4	16	140	37	168	1.01e-16	75.9
Msa0503020	AT1G76320.3	35.036	137	72	4	16	140	37	168	1.06e-16	75.9
Msa0503020	AT3G22170.2	29.577	142	72	4	16	140	110	240	3.75e-14	68.6

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Find 29 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAATAAATTGCAATGGAAAA+TGG	0.239631	3_4:+45896316	Msa0503020:CDS
ACAAGGATGTGGGTTATGTG+CGG	0.747780	3_4:-45896259	None:intergenic
ACAATGGCCAAACAACATGG+AGG	0.716314	3_4:+45896489	Msa0503020:CDS
AGGATGTGGGTTATGTGCGG+TGG	0.667999	3_4:-45896256	None:intergenic
ATTGAAACTTTAGAACATGT+TGG	0.475539	3_4:+45896441	Msa0503020:CDS
CAATGGCCAAACAACATGGA+GGG	0.684081	3_4:+45896490	Msa0503020:CDS
CATGGAGGGTATGAAAACAT+TGG	0.636187	3_4:+45896504	Msa0503020:CDS
CGCATCAAAATAAATTGCAA+TGG	0.515633	3_4:+45896309	Msa0503020:CDS
CGTCGTTTGACATTAGAGTC+GGG	0.556413	3_4:+45896567	Msa0503020:CDS
CTACCTTCAAACAAGGATGT+GGG	0.609045	3_4:-45896269	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TCTCTTTATGCTAAATCTGT+TGG	+	chr3_4:45896176-45896195	Msa0503020:CDS	30.0%
CTCTTTATGCTAAATCTGTT+GGG	+	chr3_4:45896177-45896196	Msa0503020:CDS	30.0%
CGCATCAAAATAAATTGCAA+TGG	+	chr3_4:45896309-45896328	Msa0503020:CDS	30.0%
CATTAAAGATCACAATCATG+AGG	+	chr3_4:45896353-45896372	Msa0503020:intron	30.0%
GGAAAATAATGTGCATATGT+TGG	-	chr3_4:45896384-45896403	None:intergenic	30.0%
TATGCTAAATCTGTTGGGTT+TGG	+	chr3_4:45896182-45896201	Msa0503020:CDS	35.0%
TCTTATGCTTGCACAAGATA+TGG	+	chr3_4:45896219-45896238	Msa0503020:CDS	35.0%
TCACAATCTACCTTCAAACA+AGG	-	chr3_4:45896279-45896298	None:intergenic	35.0%
TTGTTTGAAGGTAGATTGTG+AGG	+	chr3_4:45896278-45896297	Msa0503020:CDS	35.0%
CTACCTTCAAACAAGGATGT+GGG	-	chr3_4:45896272-45896291	None:intergenic	40.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_4	gene	45896159	45896617	45896159	ID=Msa0503020;Name=Msa0503020
chr3_4	mRNA	45896159	45896617	45896159	ID=Msa0503020-mRNA-1;Parent=Msa0503020;Name=Msa0503020-mRNA-1;_AED=0.12;_eAED=0.23;_QI=0\|0\|0\|1\|0\|0\|2\|0\|142
chr3_4	exon	45896159	45896341	45896159	ID=Msa0503020-mRNA-1:exon:9829;Parent=Msa0503020-mRNA-1
chr3_4	exon	45896375	45896617	45896375	ID=Msa0503020-mRNA-1:exon:9830;Parent=Msa0503020-mRNA-1
chr3_4	CDS	45896159	45896341	45896159	ID=Msa0503020-mRNA-1:cds;Parent=Msa0503020-mRNA-1
chr3_4	CDS	45896375	45896617	45896375	ID=Msa0503020-mRNA-1:cds;Parent=Msa0503020-mRNA-1

Gene Sequence

>Msa0503020

ATGCATACTCATTCTACTCTCTTTATGCTAAATCTGTTGGGTTTGGAATTTATTGATGTGTCTTATGCTTGCACAAGATATGGAAAAAAGAGAGCATCCACCGCACATAACCCACATCCTTGTTTGAAGGTAGATTGTGAGGCCAGCTTACGCATCAAAATAAATTGCAATGGAAAATGGATTGTTTTTCCAACATATGCACATTATTTTCCTTGCCATAGAAGAATCAATAAGTCTCAAAAGAACTGTATTGAAACTTTAGAACATGTTGGGGTGAAAACAACCAAAATTTTCGCCACAATGGCCAAACAACATGGAGGGTATGAAAACATTGGCTACTTTGAGAAAGACATTAGAAATCATTTAGATAAAAGTCGTCGTTTGACATTAGAGTCGGGAGATGCAACATCAATGTTGGAGTGTTTT

Protein sequence

>Msa0503020

MHTHSTLFMLNLLGLEFIDVSYACTRYGKKRASTAHNPHPCLKVDCEASLRIKINCNGKWIVFPTYAHYFPCHRRINKSQKNCIETLEHVGVKTTKIFATMAKQHGGYENIGYFEKDIRNHLDKSRRLTLESGDATSMLECF