AlfalfaGEDB | Msa1204960

M. sativa cultivar zhongmu-4 / Msa1204960

KEGG: -
GO: GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009653 GO:0009965 GO:0010016 GO:0032501 GO:0032502 GO:0048366 GO:0048367 GO:0048731 GO:0048827 GO:0048856 GO:0060776 GO:0099402 GO:1905392
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
No data available in table

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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
Msa1204960	sp\|Q9SZE8\|LBD39_ARATH	58.233	249	79	8	1	233	1	240	2.21e-82	248

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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
Msa1204960	G7JDY0	97.854	233	5	0	1	233	1	233	8.24e-166	466

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TFs/TRs:

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Gene ID	Type	Classification
Msa1204960	TF	LOB

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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
Msa1204960	Msa1256580	0.889085	3.321590e-73	-8.615850e-47
Msa1204960	Msa1329330	0.802821	4.677688e-49	-8.615850e-47

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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
Msa1204960	MtrunA17_Chr4g0053911	97.854	233	5	0	1	233	1	233	1.59e-169	466
Msa1204960	MtrunA17_Chr5g0401401	70.588	238	58	5	1	233	1	231	1.40e-110	317
Msa1204960	MtrunA17_Chr7g0215281	61.417	127	46	1	1	124	3	129	5.77e-55	178
Msa1204960	MtrunA17_Chr6g0457431	55.319	141	51	1	1	141	3	131	7.98e-53	167
Msa1204960	MtrunA17_Chr1g0207471	63.566	129	43	1	1	129	1	125	2.79e-52	167
Msa1204960	MtrunA17_Chr6g0469271	60.550	109	41	1	1	107	3	111	1.56e-46	154
Msa1204960	MtrunA17_Chr6g0470651	51.667	120	54	3	1	118	3	120	9.31e-42	142
Msa1204960	MtrunA17_Chr6g0470631	50.833	120	55	3	1	118	3	120	1.29e-40	139
Msa1204960	MtrunA17_Chr1g0209841	50.000	120	46	3	1	118	3	110	1.89e-37	130

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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
Msa1204960	AT4G37540.1	58.233	249	79	8	1	233	1	240	2.25e-83	248
Msa1204960	AT3G49940.1	57.540	252	81	7	1	232	1	246	5.94e-82	245
Msa1204960	AT5G67420.2	54.545	253	92	7	1	233	1	250	4.77e-75	228
Msa1204960	AT5G67420.1	54.545	253	92	7	1	233	1	250	4.77e-75	228
Msa1204960	AT1G67100.1	66.667	111	37	0	1	111	3	113	7.70e-54	173
Msa1204960	AT3G02550.1	49.718	177	73	4	1	173	3	167	1.22e-51	168
Msa1204960	AT1G68510.1	63.462	104	38	0	1	104	3	106	2.57e-48	159

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Find 105 sgRNAs with CRISPR-Local

Find 242 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACTGGGATTGGAGATCGG+TGG	0.696279	8_1:-60920518	Msa1204960:CDS
AAATAATTACCTGGTCTCTG+TGG	0.626571	8_1:+60921104	None:intergenic
AAATCAAGATTAATCGCCGC+TGG	0.534004	8_1:+60920642	None:intergenic
AACCCTGTGAACGGTGCTGT+TGG	0.557626	8_1:-60920927	Msa1204960:CDS
AAGAGAGAATAGAATGAAAG+TGG	0.431602	8_1:+60921366	None:intergenic
AAGATTCGCGATCCGAATTT+CGG	0.249148	8_1:-60920741	Msa1204960:CDS
AAGCACACGGAGGAGATCGG+AGG	0.664572	8_1:-60920679	Msa1204960:CDS
AAGGAGAAGAAGAGGAGGTG+TGG	0.529924	8_1:+60921461	None:intergenic
AATAGAAATATGAGTTGCAA+TGG	0.497518	8_1:-60921284	Msa1204960:exon
AATGCGAATTGAAGTGATGT+TGG	0.500278	8_1:+60921415	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AGTAAACTATGGTTGAGTTA+AGG	+	chr8_1:60920239-60920258	None:intergenic	30.0%
TAAATAAATAAAGGGGAGGA+AGG	+	chr8_1:60920286-60920305	None:intergenic	30.0%
GGTATAAATAAATAAAGGGG+AGG	+	chr8_1:60920290-60920309	None:intergenic	30.0%
TGAAAGTGGTTTAGGAATAA+TGG	+	chr8_1:60920348-60920367	None:intergenic	30.0%
GAATAGAATGAAAGTGGTTT+AGG	+	chr8_1:60920356-60920375	None:intergenic	30.0%
AAGAGAGAATAGAATGAAAG+TGG	+	chr8_1:60920362-60920381	None:intergenic	30.0%
AGACCAGGTAATTATTTAAC+CGG	-	chr8_1:60920627-60920646	Msa1204960:CDS	30.0%
CAGAAAATCCTCATATGAAA+AGG	+	chr8_1:60921262-60921281	None:intergenic	30.0%
TTTGCTTACAATACTCATTG+TGG	-	chr8_1:60921327-60921346	Msa1204960:five_prime_UTR	30.0%
TTGTGGTGAAAAGAGTAAAA+CGG	-	chr8_1:60921344-60921363	Msa1204960:five_prime_UTR	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr8_1	gene	60920197	60921550	60920197	ID=Msa1204960;Name=Msa1204960
chr8_1	mRNA	60920197	60921550	60920197	ID=Msa1204960-mRNA-1;Parent=Msa1204960;Name=Msa1204960-mRNA-1;_AED=0.04;_eAED=0.04;_QI=253\|1\|1\|1\|1\|1\|2\|279\|233
chr8_1	exon	60920197	60920993	60920197	ID=Msa1204960-mRNA-1:exon:19795;Parent=Msa1204960-mRNA-1
chr8_1	exon	60921114	60921550	60921114	ID=Msa1204960-mRNA-1:exon:19794;Parent=Msa1204960-mRNA-1
chr8_1	five_prime_UTR	60921298	60921550	60921298	ID=Msa1204960-mRNA-1:five_prime_utr;Parent=Msa1204960-mRNA-1
chr8_1	CDS	60921114	60921297	60921114	ID=Msa1204960-mRNA-1:cds;Parent=Msa1204960-mRNA-1
chr8_1	CDS	60920476	60920993	60920476	ID=Msa1204960-mRNA-1:cds;Parent=Msa1204960-mRNA-1
chr8_1	three_prime_UTR	60920197	60920475	60920197	ID=Msa1204960-mRNA-1:three_prime_utr;Parent=Msa1204960-mRNA-1

Gene Sequence

>Msa1204960

ATGAGTTGCAATGGGTGCCGAGTTCTTCGAAAGGGTTGCAGCGAGTCTTGTATTTTACGACCTTGTTTGCAATGGATCGAAACTCCAGAAGCTCAAGGCCACGCTACTGTTTTCGTAGCCAAATTCTTTGGTCGAGCTGGTCTTATGTCCTTCATTTCCAACGTCCCCGAACCACAGAGACCAGCTCTGTTTCAGTCTCTACTGTTTGAAGCGTGTGGAAGAACGGTTAACCCTGTGAACGGTGCTGTTGGACTTCTTTGGACTGGAAACTGGCACGTGTGTCAAGCAGCGGTTGAGACAGTTCTTCGCGGTGGCACGCTTAGGCCTTTATCGGAGCTGACACTTCTGGACGCACCTCTCACTGCCACTGATGAAGCTTCTGAGGCGGAAGACGGTGGCGCTGATGCTATTTGGAAGATTCGCGATCCGAATTTCGGGCTGGCGAGCTCACGATCTAGTAATAAGGTGTGTTCTGGAAGCACACGGAGGAGATCGGAGGAGTTTGTGAAGGTTCCAGCGGCGATTAATCTTGATTTACGATTGACGCCAATTTTTCAACAGAAGGCAGTGGAGGAACGCCGGCCTGGTTCACCGTCGATGACGTCGGAGGAATCGGTGACGACGACGGCGTGTTTAGAAACTGGGATTGGAGATCGGTGGAGTCACGGTGGTGATCGGAAAGTTCTCAACCTTTTCATATGA

Protein sequence

>Msa1204960

MSCNGCRVLRKGCSESCILRPCLQWIETPEAQGHATVFVAKFFGRAGLMSFISNVPEPQRPALFQSLLFEACGRTVNPVNGAVGLLWTGNWHVCQAAVETVLRGGTLRPLSELTLLDAPLTATDEASEAEDGGADAIWKIRDPNFGLASSRSSNKVCSGSTRRRSEEFVKVPAAINLDLRLTPIFQQKAVEERRPGSPSMTSEESVTTTACLETGIGDRWSHGGDRKVLNLFI*