AlfalfaGEDB | Msa0107170

M. sativa cultivar zhongmu-4 / Msa0107170

KEGG: -
GO: -
PFAM: PF02362.24

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
Msa0107170	XP_024630388.1	88.554	332	35	1	1	329	1	332	0.0	572

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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
Msa0107170	sp\|Q8L3W1\|VRN1_ARATH	24.405	336	184	9	7	275	4	336	5.82e-18	87.4

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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
Msa0107170	A0A072VFJ7	79.765	341	57	3	1	329	1	341	0.0	530

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TFs/TRs:

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Gene ID	Type	Classification
Msa0107170	TF	B3

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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
Msa0107170	MtrunA17_Chr1g0163181	70.370	378	61	5	1	329	1	376	0.0	511
Msa0107170	MtrunA17_Chr1g0163201	78.882	322	56	3	20	329	18	339	2.60e-174	491
Msa0107170	MtrunA17_Chr1g0163251	52.959	338	119	6	1	322	1	314	6.23e-114	337
Msa0107170	MtrunA17_Chr1g0163191	84.906	159	21	1	1	156	1	159	1.26e-83	251
Msa0107170	MtrunA17_Chr1g0163151	71.687	166	47	0	162	327	1	166	4.70e-79	242
Msa0107170	MtrunA17_Chr1g0163261	42.953	298	152	3	1	285	1	293	6.79e-77	239
Msa0107170	MtrunA17_Chr1g0163231	45.455	286	140	8	1	276	1	280	1.56e-76	238
Msa0107170	MtrunA17_Chr1g0171611	45.704	291	120	8	1	276	1	268	1.94e-73	230
Msa0107170	MtrunA17_Chr1g0163111	64.444	180	47	4	162	329	1	175	6.75e-68	214
Msa0107170	MtrunA17_Chr1g0163241	63.636	154	43	3	1	153	7	148	2.92e-60	192

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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
Msa0107170	AT3G18990.1	24.405	336	184	9	7	275	4	336	5.91e-19	87.4
Msa0107170	AT3G18990.2	24.189	339	187	9	7	278	4	339	6.18e-19	87.8

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Find 75 sgRNAs with CRISPR-Local

Find 364 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAGAAAGATCTTGTTTGGG+TGG	0.538945	1_3:-17171787	Msa0107170:CDS
AAAGCTCAAAGGACAATAAA+TGG	0.303877	1_3:-17172463	Msa0107170:CDS
AAATGCCAAAGAAAGCTCAA+AGG	0.663329	1_3:-17172474	Msa0107170:CDS
AAGAGATATCCATATTTGAA+AGG	0.520085	1_3:+17172682	None:intergenic
AAGTGATGAAGAGAGTGATA+AGG	0.461668	1_3:-17172500	Msa0107170:CDS
AATATCAAAGCAGTTGATGA+AGG	0.544297	1_3:-17172583	Msa0107170:CDS
AATATTATTCTATGAAAATC+TGG	0.366274	1_3:+17172973	None:intergenic
AATGGCAAGAGAAAATTCTC+AGG	0.536390	1_3:-17172445	Msa0107170:intron
ACAGCTTCAGAATGTGCCAT+TGG	0.501490	1_3:+17166672	None:intergenic
ACATAACACATTCAAGGTTT+TGG	0.285361	1_3:-17171325	Msa0107170:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TATGCAGAGAAATATTGGAA+AGG	-	chr1_3:17166710-17166729	Msa0107170:CDS	30.0%
TTTGCAAAGCCTTTCAAATA+TGG	-	chr1_3:17166836-17166855	Msa0107170:intron	30.0%
AAAGCTCAAAGGACAATAAA+TGG	-	chr1_3:17167064-17167083	Msa0107170:intron	30.0%
GAAAAAATCACAACAAACCA+TGG	+	chr1_3:17167178-17167197	None:intergenic	30.0%
TCTGAAAGCTTGTAAATCTA+AGG	-	chr1_3:17167198-17167217	Msa0107170:intron	30.0%
TTAATGGAACTGCAACAATA+AGG	-	chr1_3:17167669-17167688	Msa0107170:intron	30.0%
TAATGGAACTGCAACAATAA+GGG	-	chr1_3:17167670-17167689	Msa0107170:intron	30.0%
CTAAAAAAGAAACTGAATCC+TGG	+	chr1_3:17168019-17168038	None:intergenic	30.0%
GATGAAACATAACACATTCA+AGG	-	chr1_3:17168196-17168215	Msa0107170:intron	30.0%
TTATGTAATTAATCCTACCG+GGG	+	chr1_3:17168240-17168259	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_3	gene	17166536	17173013	17166536	ID=Msa0107170;Name=Msa0107170
chr1_3	mRNA	17166536	17173013	17166536	ID=Msa0107170-mRNA-1;Parent=Msa0107170;Name=Msa0107170-mRNA-1;_AED=0.21;_eAED=0.21;_QI=0\|0.57\|0.37\|1\|1\|1\|8\|0\|375
chr1_3	exon	17172957	17173013	17172957	ID=Msa0107170-mRNA-1:exon:6484;Parent=Msa0107170-mRNA-1
chr1_3	exon	17172446	17172854	17172446	ID=Msa0107170-mRNA-1:exon:6483;Parent=Msa0107170-mRNA-1
chr1_3	exon	17171995	17172113	17171995	ID=Msa0107170-mRNA-1:exon:6482;Parent=Msa0107170-mRNA-1
chr1_3	exon	17171647	17171920	17171647	ID=Msa0107170-mRNA-1:exon:6481;Parent=Msa0107170-mRNA-1
chr1_3	exon	17171308	17171366	17171308	ID=Msa0107170-mRNA-1:exon:6480;Parent=Msa0107170-mRNA-1
chr1_3	exon	17171131	17171215	17171131	ID=Msa0107170-mRNA-1:exon:6479;Parent=Msa0107170-mRNA-1
chr1_3	exon	17166625	17166735	17166625	ID=Msa0107170-mRNA-1:exon:6478;Parent=Msa0107170-mRNA-1
chr1_3	exon	17166536	17166549	17166536	ID=Msa0107170-mRNA-1:exon:6477;Parent=Msa0107170-mRNA-1
chr1_3	CDS	17172957	17173013	17172957	ID=Msa0107170-mRNA-1:cds;Parent=Msa0107170-mRNA-1
chr1_3	CDS	17172446	17172854	17172446	ID=Msa0107170-mRNA-1:cds;Parent=Msa0107170-mRNA-1
chr1_3	CDS	17171995	17172113	17171995	ID=Msa0107170-mRNA-1:cds;Parent=Msa0107170-mRNA-1
chr1_3	CDS	17171647	17171920	17171647	ID=Msa0107170-mRNA-1:cds;Parent=Msa0107170-mRNA-1
chr1_3	CDS	17171308	17171366	17171308	ID=Msa0107170-mRNA-1:cds;Parent=Msa0107170-mRNA-1
chr1_3	CDS	17171131	17171215	17171131	ID=Msa0107170-mRNA-1:cds;Parent=Msa0107170-mRNA-1
chr1_3	CDS	17166625	17166735	17166625	ID=Msa0107170-mRNA-1:cds;Parent=Msa0107170-mRNA-1
chr1_3	CDS	17166536	17166549	17166536	ID=Msa0107170-mRNA-1:cds;Parent=Msa0107170-mRNA-1

Gene Sequence

>Msa0107170

ATGTCATTTCAACATGTTCCAGATTTTCATAGAATAATATTGCAAGATAAGAAACTTAGGGTTCCTAAGAAATATGCAGAGAAATATTGGAAAGGAATGTCAAACCCTATATTCCTTAAATTTCCAAACGGTGTTGAACAAAAAATATTTTGGGTGGAGAGTAATGGTGATATTTGGTTTCAAAAGAATTGGGAAAGTTTTGCAAAGCCTTTCAAATATGGATATCTCTTAACTTTCAAATTCATTGGTGGATCATATTTTAAGGTTAAGATATTTGGTGCCAATACTTTAGAAATAAATTATGCAAATATCAAAGCAGTTGATGAAGGTGCTGAAGCCACTGAAGAAGGTAAAGAAAGTGATGAGGAAGCCACTGAAGAAGGTGAAGAAAGTGATGAAGAGAGTGATAAGGTTGAAATGCCAAAGAAAGCTCAAAGGACAATAAATGGCAAGAGAAAATTCTCAGGTTGTAACAAAGTGGCCATGGTGAAGAAGGCTAGAAAATACCAAACATCTGAAGCTGTTAATGAGAATCCCTCTTTTGAAGTTATAATGACACAATCTTACACCAATGGCTATTTCTTGTGGTTACCATGTGAGTTTTCAAGAGAACACTTGAAAGATTTTAATGGAACTGCAACAATAAGGGTTGGTAATGAAAGGAGTGTGGAGGTTAGTTTGAGGTATTATGGTTATAAAGAAAGATCTTGTTTGGGTGGTGGTTGGAAAATATTCAGGGAAAAATATAATTTGCAAGTTGACGATGTTTGTAAATTTGAGATGATTCGACGGAGACCTTTTTCATTCATTGTCACAATTACTCGTGCCGGAAACGAAGCAATCCCAAAGAAACTACTAGAAGGTCCTGATGTGATGAAACATAACACATTCAAGGTTTTGGTGAAGAACACAGCCCCGAGTGTACCAAAGGAATTTATGAAAAGAGGATGTCATGAAAAATATTGTGGAGTTAAAAATGGGGAGAAAGTCATGGTTCGTAAAGGTAGTAACAAAGTGGCTATGGTGAAGAAGGCTAGAAAATACCCAATGGCACATTCTGAAGCTGTTAATGAGAATCCCTCTTTTGAAGTTATAATGAAATGGCTATTTCTTGTGGTTACCAAGTGA

Protein sequence

>Msa0107170

MSFQHVPDFHRIILQDKKLRVPKKYAEKYWKGMSNPIFLKFPNGVEQKIFWVESNGDIWFQKNWESFAKPFKYGYLLTFKFIGGSYFKVKIFGANTLEINYANIKAVDEGAEATEEGKESDEEATEEGEESDEESDKVEMPKKAQRTINGKRKFSGCNKVAMVKKARKYQTSEAVNENPSFEVIMTQSYTNGYFLWLPCEFSREHLKDFNGTATIRVGNERSVEVSLRYYGYKERSCLGGGWKIFREKYNLQVDDVCKFEMIRRRPFSFIVTITRAGNEAIPKKLLEGPDVMKHNTFKVLVKNTAPSVPKEFMKRGCHEKYCGVKNGEKVMVRKGSNKVAMVKKARKYPMAHSEAVNENPSFEVIMKWLFLVVTK*