barSeed - Barley Seed Development Database

Probe CUST_40856_PI390587928

Source Contig U35_19222

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_40856_PI390587928	Hv_44K_v2	TTCACCAAGGTGGATGACAATAGGTATTCGATGAAGATCTTCTTTGAGATCAGGAAGCAG	382	GeneList: brown4 MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	1.354	0.943	1.288	0.973	0.747	0.738
Raw	740.523	725.613	964.270	976.690	312.090	333.439

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_67697.2	3780	2e-24	3509 - 3568	100	60 / 60	minus	ABC04533 ABC32542
MLOC	MLOC_67697.1	4134	2e-24	3519 - 3578	100	60 / 60	minus	ABC04533 ABC32542
JLOC1	JLOC1_44721.1	4112	8e-25	519 - 578	100	60 / 60	plus
Harvest21	ABC24386	585	3e-25	377 - 436	100	60 / 60	plus
Harvest35	U35_19222	579	3e-25	383 - 442	100	60 / 60	plus

Contig Sequence (579 bp)

>U35_19222 579 Hv_44K_v2
TCGAGCTCTGTTGGCCTCTGCATCCGTCCTCCCTCCACATCTCTCCGTCTCTCTCTCTCC
CCCCATCCATCTCTCTCCTCACGAGAGGGGCGGCGACGACGACGGCGGAACCCTAGAATT
CGCCCGCTCCCTCCGAGACCGCGCGAGCGAGCGCCGCGCGCCGGCGGCGGGGCAGATCGA
GCTCCTGGGTGGCGGCGCGGGCGCCATGTCGTCCCTCAGCCGCGAGCTCGTCTTCCTCAT
CCTCCAGTTCCTCGACGAGGAGAAGTTCAAGGAAACCGTGCACAAGCTTGAACAAGAGTC
AGGGTTCTACTTCAACATCAAGTACTTTGAGGAGAAGGTCCATGCTGGGGAGTGGGATGA
GGTGGAAAGGTATCTCTCAGGTTTCACCAAGGTGGATGACAATAGGTATTCGATGAAGAT
CTTCTTTGAGATCAGGAAGCAGAAGTATTTGGAAGCGCTTGATAGGCATGATAGAGCAAA
GGCGGTTGATATTCTTGTCAAGGATCTTAAAGTCTTCTCGACATTCAATGAGGAGTTATA
TAAAGAGATAACACAGCTTCTCACTCTTGAGAATTTCAG

Homology of Contig U35_19222 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os01g15020.2	1119	2e-71	protein\|lissencephaly type-1-like homology motif, putative, expressed
Brachypodium v1_2	Bradi2g09080.1	1133	2e-72
Arabidopsis v10	AT1G80490.2	1120	4e-68	\| Symbols: TPR1 \| TOPLESS-related 1 \| chr1:30261094-30266446 REVERSE LENGTH=1120