barSeed - Barley Seed Development Database

Probe CUST_20306_PI390587928

Source Contig U35_23704

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_20306_PI390587928	Hv_44K_v2	TATCTGAATGACCAGATGCTGAAGCAGGCCATTGAGCTCCAACTCCCGAGTTATATTGAT	136	GeneList: ivory MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	1.229	0.947	2.250	1.912	0.605	0.333
Raw	22.724	26.719	57.429	76.690	8.361	4.198

Probe Sequence's BLAST hits in Barley Unigene Datasets

Dataset	Hit	Hit Length	E-value	Position on Hit	% Identity	Match	Direction	Probes on Sequence
MLOC	MLOC_61462.1	5972	2e-24	1418 - 1477	100	60 / 60	minus	ABC06412 ABC44011
JLOC1	JLOC1_40165.1	5933	8e-25	4489 - 4548	100	60 / 60	plus
Harvest21	ABC20585	768	3e-25	137 - 196	100	60 / 60	plus
Harvest35	U35_23704	768	3e-25	137 - 196	100	60 / 60	plus

Contig Sequence (768 bp)

>U35_23704 768 Hv_44K_v2
GAGATGTTCTTTCGAAGAAACAGTGGATATCTTGCTTGATGCTGCTGTATATGCGGAATC
TGATTACCTGAGAGGTGTCACCGAGAACATTATGCTTGGCCAGCTTGCTCCTATTGGTAC
AGGAGGGTGTGGGTTGTATCTGAATGACCAGATGCTGAAGCAGGCCATTGAGCTCCAACT
CCCGAGTTATATTGATGGTCTGGACTATGGTGTCACACCGGCGCGTTCACCCGTGTCCGG
GACGCCATACCATGATGGAGGAATGATGTCGCCATTACTGAGCCCGAATTTCCGGGCTTC
TCCACTTACAGATGCTCAGTTCTCGCCGTATGTTGGTGGCATGGCGTTCTCACCCATGCC
GTCAAACTACAGCCCGTCCTCTGGGGGTTACAGTCCATCTTCTCCGGTGTTCAGCCCAGG
GCCAGGACACAGTTACAGCCCCACTTCTCCGTCATACAGCCCCGCATCACCCAGCTACAG
CCCTGCATCACCGTCATATACGCCTGGCTCTCCTTCCTACAGTCCGACCAGTCCATCATA
CTCTCCGACCAGTCCATCATACTCACCCACATCTCCGAGCTACAGCCCTACATCTCCTAG
CTACAGTCCGACATCTCCGAGCTACAGCCCCACTTCGCCAAGCTATAGCCCAACCTCTCC
GGCATACTGCCCGACATCTCCTGCATACAGCCCGACCTCTCCAGCATACTGCCCGACATC
TCCTGCATACAGCCCGTCGTCGCCATCTTATAACCCAACGTCGCCATC

Homology of Contig U35_23704 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os08g05940.1	662	2e-63	protein\|retrotransposon protein, putative, unclassified, expressed
Brachypodium v1_2	Bradi3g16660.1	1863	4e-63
Arabidopsis v10	AT4G35800.1	1839	1e-56	\| Symbols: NRPB1, RPB1, RNA_POL_II_LSRNA_POL_II_LS, RNA_POL_II_LS \| RNA polymerase II large subunit \| chr4:16961115-16967892 REVERSE LENGTH=1839