OakRootRNADB Database

Gene: MSTRG.3

You can find all information about gene in the cards below

Gene summary

Feature	Description
Gene name	MSTRG.3
Transcript count	3
Chromosome	Qrob_Chr01
Start	22746
End	28652
Strand	-

Transcripts table

Transcript name	Chromosome	Start	End	Strand
MSTRG.3.1	Qrob_Chr01	22746	28649	-
MSTRG.3.2	Qrob_Chr01	22874	28645	-
MSTRG.3.3	Qrob_Chr01	24664	28652	-

Gene's transcripts sequences

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>MSTRG.3.1
CGGTAATAACTCTTTCTATAACGTATTCCGAATTTCTGACAACACTACCCCTCTCTCTGTATCAACAATTGAATAAAAATGACAACAACGAAGAAGAAGAAGTTGATGTCATCGGCGCCATAGAGGGGCAAAGAGGAAGCCACTGAACAGTTCCAAGACGATAACGATTGATGATTCCCTCGTCGAGATATAGTTTCATATGAAACATTTCCCTTAATCTCAAGACCCTGGCCTTGCTATCAGAGTATCTAGAAGGGGTGGGGAAGAAGAAGAAACAACCTAAGAAAGGGAGGCAAAAGAAGCAAAATAGTCGGAAATGAGGAAACTCAATGTCTTCATCCAAAATAATGTAAAAGGAAGATTTACTTTCACAACAAAATATGTGTTCTCTTAAAACAAAGATCATTTTGTGTTTTTTTCGTGTTTCATTAAATATTGTTTACGAGGCAATCATATGAATTCTACAAGTTGTGATTGTGTCTAGTGGACGCCCTCTTATGTGAACTTAATATTTTCTTTTGTTTTTGTTCCCTCTTTAGGTCACGTGGACAATATAAATAGACTAAAATTATTAACCTATAGTTTATCATCTAATTAAACTCTATTGACGAACCGTCTCACATGTGCCTGTACCATGTGACTCGATGTAAGTATTACATATCATACAGCGTGTCTCCACCGCAGAATATTTTGTAGGATCTTTCTTTTCTTCTTTTCTTTTTGTAATTTGAGATGCACTATTTGCTGCCAATAGCTGTAAACTTACCCATCTATAATATATTATTATATATATAAAAGCA

>MSTRG.3.1_peptide
MIFVLREHIFCCESKSSFYIILDEDIEFPHFRLFCFFCLPFLGCFFFFPTPSRYSDSKARVLRLREMFHMKLYLDEGIINRYRLGTVQWLPLCPSMAPMTSTSSSSLLSFLFNC*

>MSTRG.3.2
AATAACTCTTTCTATAACGTATTCCGAATTTCTGACAACACTACCCCTCTCTCTGTATCAACAATTGAATAAAAATGACAACAACGAAGAAGAAGAAGTTGATGTCATCGGCGCCATAGAGGGGCAAAGAGGAAGCCACTGAACAGTTCCAAGACGATAACGATTGATGATTCCCTCGTCGAGAGTATCTAGAAGGGGTGGGGAAGAAGAAGAAACAACCTAAGAAAGGGAGGCAAAAGAAGCAAAATAGTCGGAAATGAGGAAACTCAATGTCTTCATCCAAAATAATGTAAAAGGAAGATTTACTTTCACAACAAAATATGTGTTCTCTTAAAACAAAGATCATTTTGTGTTTTTTTCGTGTTTCATTAAATATTGTTTACGAGGCAATCATATGAATTCTACAAGTTGTGATTGTGTCTAGTGGACGCCCTCTTATGTGAACTTAATATTTTCTTTTGTTTTTGTTCCCTCTTTAGGTCACGTGGACAATATAAATAGACTAAAATTATTAACCTATAGTTTATCATCTAATTAAACTCTATTGACGAACCGTCTCACATGTGCCTGTACCATGTGACTCGATGTAAGTATTACATATCATACAGCGTG

>MSTRG.3.2_peptide
unknown

>MSTRG.3.3
GTACGGTAATAACTCTTTCTATAACGTATTCCGAATTTCTGACAACACTACCCCTCTCTCTGTATCAACAATTGAATAAAAATGACAACAACGAAGAAGAAGAAGTTGATGTCATCGGCGCCATAGAGGGGCAAAGAGGAAGCCACTGAACAGTTCCAAGACGATAACGATTGATGATTCCCTCGTCGAGAATAAAGCAGCACATACTTCAAGATCCAATTTTGCAAGAGCTGGGACTTTGCTGAAGTCTGGGGTTTCAATAAGTTTTTGAGACTTGTTCAAATTGATGAATTGCAAACTCCCAAAAGACTGTCAAAAGCCAAAAAATAAAAGACAAAACAATTAACTTCTACAAAGTATTTTAGTTTAATGATACTTCAAAAAGAAGAAGTATAAGGGTTCCTAAATTACCTTTGTTCCTTCCCAAAGTCGTTCGTTGTAGTTGCAATTCATGCAAAGTTTAACAAGCTCAGTTGACTCAAAACTTGATGGCAAAGATTTTGAAGGGTACTTTCTCCAATCAAGAATCTTAAGTTGTTAGGAAGATGTTTGAGACTGTGCTTGAAGTGAACGCTATCAATTATGAGCAATTTTAGATTTGTCATCTTTGAGAAGGCTTCAAGATCCCAATCCACATCTTTTGTAGAGGGTAACTCTACGACCATGCCTTGAACTTTTTTTGTTCCCTAATAATCATGAACAAAAGGGATTAGTGGATTACAAAATGTATGATTACCATAACAACTCTAAGTTACACTATGTTGTTGAATTATATAATGAGGTACATGCTCAGGTTCTTTCAATAACCACTTACAGTGTTATTTGTCGGCACATTGTCAATATCTTCATACAACCACAATTTGCTACGCTTCCCAAGGGCTTTAGGGGACTCTTGACGAACTATATCCTGA

>MSTRG.3.3_peptide
unknown

Libraries description

Harvest date	Type of root	Root length	Root vitality	Type of cultivation	Biological replicates
1/2/3	K/KB	kr/sr/dl	NN/NT/TN/TT	kon/rh	1/2/3
1 – First harvest date – 7-weeks old plant (sown in early spring)	K – meristematic zone of the taproot	kr – short root (5 – 9 cm)	NN – normal condition roots	kon – growing in containers	1 – first biological replicate
2 – Second harvest date – 8-weeks old plant (sown in early spring)	KB – lateral root	sr – medium root (9,5 – 15 cm)	NT - dying root	rh – growing in rhizotron	2 – second biological replicate
3 – Third harvest date – 8-weeks old plant (sown in early summer)		dl – long root (15,5 – 35 cm)	TN – thick root		3 – third biological replicate
			TT – thick and dying root

Gene expression table

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Name	TPM
1K_dl_NN_kon1	1.23
1K_dl_NN_kon2	2.15
1K_dl_NN_kon3	2.09
1K_dl_NT_kon1	0.63
1K_dl_NT_kon2	1.02
1K_dl_NT_kon3	2.73
1K_kr_NN_kon1	1.17
1K_kr_NN_kon2	2.31
1K_kr_NN_kon3	1.68
1K_sr_NN_kon1	2.26
1K_sr_NN_kon2	2.55
1K_sr_NN_kon3	2.10
1KB_dl_NN_kon1	1.58
1KB_dl_NN_kon2	2.26
1KB_dl_NN_kon3	2.88
1KB_sr_NN_kon1	4.60
1KB_sr_NN_kon2	1.94
1KB_sr_NN_kon3	2.32
2K_dl_NN_kon1	1.97
2K_dl_NN_kon2	1.57
2K_dl_NN_kon3	1.88
2K_dl_NN_rh1	1.74
2K_dl_NN_rh2	1.19
2K_dl_NN_rh3	0.52
2K_dl_NT_kon1	2.65
2K_dl_NT_kon2	1.36
2K_dl_NT_kon3	1.80
2K_kr_NN_kon1	0.95
2K_kr_NN_kon2	3.19
2K_kr_NN_kon3	1.06
2K_sr_NN_kon1	2.37
2K_sr_NN_kon2	2.54
2K_sr_NN_kon3	3.72
2K_sr_NN_rh1	1.17
2K_sr_NN_rh2	1.43
2K_sr_NN_rh3	2.21
2K_sr_NT_rh1	0.48
2K_sr_NT_rh2	5.02
2K_sr_NT_rh3	0.00
2K_sr_TN_kon1	3.23
2K_sr_TN_kon2	2.68
2K_sr_TN_kon3	1.32
2KB_dl_NN_kon1	2.78
2KB_dl_NN_kon2	2.93
2KB_dl_NN_kon3	0.99
2KB_dl_NN_rh1	0.74
2KB_dl_NN_rh2	1.42
2KB_dl_NN_rh3	0.16
2KB_sr_NN_kon1	1.36
2KB_sr_NN_kon2	2.59
2KB_sr_NN_kon3	2.54
2KB_sr_NN_rh1	2.51
2KB_sr_NN_rh2	2.51
2KB_sr_NN_rh3	2.39
2KB_sr_TN_kon1	0.62
2KB_sr_TN_kon2	0.89
2KB_sr_TN_kon3	1.10
2KB_sr_TN_rh1	0.18
2KB_sr_TN_rh2	0.27
2KB_sr_TN_rh3	0.28
3K_dl_NN_kon1	1.47
3K_dl_NN_kon2	1.58
3K_dl_NN_kon3	1.78
3K_dl_NN_rh1	4.22
3K_dl_NN_rh2	2.83
3K_dl_NN_rh3	2.43
3K_dl_TN_kon1	3.51
3K_dl_TN_kon2	5.30
3K_dl_TN_kon3	7.34
3K_dl_TN_rh1	3.44
3K_dl_TN_rh2	3.44
3K_dl_TN_rh3	3.04
3KB_dl_NN_kon1	2.31
3KB_dl_NN_kon2	1.44
3KB_dl_NN_kon3	2.41

Libraries description

Type of root	Root length	Root vitality	Type of cultivation	Biological replicates
K/KB/SW	kr/sr/dl	NN/NT/TN/TT	kon/rh/krh	1/2/3
K – meristematic zone of the taproot	kr – short root (5 – 9 cm)	NN – normal condition roots	kon – growing in containers	1 – first biological replicate
KB – lateral root	sr – medium root (9,5 – 15 cm)	NT - dying root	rh – growing in rhizotron	2 – second biological replicate
SW – elongation zone of taproot	dl – long root (15,5 – 35 cm)	TN – thick root	krh - growing in a container and then transferred to a rhizotron	3 – third biological replicate
		TT – thick and dying root

Gene expression table

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Name	TPM
K_dl_NN_kon1	1.55
K_dl_NN_kon2	2.23
K_dl_NN_kon3	1.67
K_dl_NN_krh1	4.31
K_dl_NN_krh2	2.78
K_dl_NN_krh3	0.96
K_dl_NN_rh1	2.70
K_dl_NN_rh2	2.31
K_dl_NN_rh3	3.80
K_dl_NT_kon1	2.73
K_dl_NT_kon2	1.30
K_dl_NT_kon3	2.21
K_dl_NT_krh1	0.39
K_dl_NT_krh2	1.18
K_dl_NT_krh3	0.59
K_kr_NN_kon1	1.60
K_kr_NN_kon2	2.89
K_kr_NN_kon3	2.80
K_kr_NN_krh1	2.95
K_kr_NN_krh2	2.82
K_kr_NN_krh3	3.16
K_kr_NN_rh1	3.11
K_kr_NN_rh2	2.01
K_kr_NN_rh3	2.77
K_sr_NN_kon1	1.32
K_sr_NN_kon2	1.98
K_sr_NN_kon3	2.96
K_sr_NN_krh1	0.73
K_sr_NN_krh2	2.27
K_sr_NN_krh3	2.85
K_sr_NN_rh1	2.95
K_sr_NN_rh2	3.94
K_sr_NN_rh3	2.88
K_sr_TT_krh1	5.12
K_sr_TT_krh2	3.68
K_sr_TT_krh3	4.34
K_sr_TT_rh1	1.60
K_sr_TT_rh2	1.70
K_sr_TT_rh3	1.83
KB_dl_NN_kon1	1.58
KB_dl_NN_kon2	2.45
KB_dl_NN_kon3	1.11
KB_dl_NN_krh1	1.67
KB_dl_NN_krh2	2.18
KB_dl_NN_krh3	2.01
KB_dl_NN_rh1	1.57
KB_dl_NN_rh2	3.60
KB_dl_NN_rh3	1.59
KB_dl_NT_kon1	2.48
KB_dl_NT_kon2	1.38
KB_dl_NT_kon3	2.52
KB_sr_NN_kon1	1.31
KB_sr_NN_kon2	4.15
KB_sr_NN_kon3	2.60
KB_sr_NN_rh1	1.66
KB_sr_NN_rh2	1.92
KB_sr_NN_rh3	3.55
KB_sr_TT_krh1	4.97
KB_sr_TT_krh2	3.50
KB_sr_TT_krh3	4.59
SW_dl_NN_kon1	1.46
SW_dl_NN_kon2	2.22
SW_dl_NN_kon3	2.15
SW_dl_NN_krh1	3.54
SW_dl_NN_krh2	2.26
SW_dl_NN_krh3	3.39
SW_dl_NN_rh1	2.28
SW_dl_NN_rh2	3.24
SW_dl_NN_rh3	3.29
SW_dl_NT_kon1	3.79
SW_dl_NT_kon2	2.86
SW_dl_NT_kon3	2.71
SW_dl_NT_krh1	0.93
SW_dl_NT_krh2	1.17
SW_dl_NT_krh3	0.48
SW_sr_NN_kon1	1.33
SW_sr_NN_kon2	1.49
SW_sr_NN_kon3	3.13
SW_sr_NN_rh1	4.30
SW_sr_NN_rh2	5.16
SW_sr_NN_rh3	3.61
SW_sr_NT_rh1	2.28
SW_sr_NT_rh2	2.87
SW_sr_NT_rh3	1.97
SW_sr_TN_krh1	0.66
SW_sr_TN_krh2	3.10
SW_sr_TN_krh3	3.75
SW_sr_TT_krh1	4.08
SW_sr_TT_krh2	3.73
SW_sr_TT_krh3	3.08

Download

Description	Contents	Format
Transcripts	Sequences of all gene transcripts	fasta
Peptides	Sequences of all proteins encoded by gene	fasta
Expression Dataset 1	Two-collumn table with library name and TPM	TSV
Expression Dataset 2	Two-collumn table with library name and TPM	TSV