barSeed - Barley Seed Development Database

Probe CUST_4506_PI390587928

Source Contig U35_26948

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_4506_PI390587928	Hv_44K_v2	CTCCGTAAGTAGTGATCTAAACATTCTTATATTTCCTAGTACTCCCTCCGTTCCTATATA	566	GeneList: blue MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	1.549	1.522	1.155	0.867	0.497	0.506
Raw	879.440	1300.725	903.065	1034.168	209.700	238.497

Probe Sequence's BLAST hits in Barley Unigene Datasets

Dataset	Hit	Hit Length	E-value	Position on Hit	% Identity	Match	Direction	Probes on Sequence
JLOC1	JLOC1_31904.1	992	8e-25	670 - 729	100	60 / 60	plus
Harvest35	U35_26948	654	3e-25	567 - 626	100	60 / 60	plus

Contig Sequence (654 bp)

>U35_26948 654 Hv_44K_v2
AGTGGACCACGAGTACTACTGACCAGGCAACCTACTGAAGGGCGAAGTCGTGATGGAGGT
CTGCGTCTTGGTGAGATGGAGCGTGATTGTTTAATTGCATACGGTGCTAGCATGCTAATC
TTTGAACGTCTCCTACTATCCAGTGATCCATATCAAGTCCAGGTTTGCAGGAAATGCGGT
CTGTTAGGCTACTACAATTACAAACTGAAGACTTCCTTCTGCTCGATGTGCAAAAATGGA
GAAAACATGGCCAAGATGAGGATGCCGTACGCTTGCAAGCTTTTATTTCAGGAACTGCAG
TCGATGAACGTCGTCCCACGCTTGACGCTGACAGAAGGATAAATGCAGAACTCGAATATT
AGGAGCGTCGGAGGAGAATCAATCTCTATTTCTCCTGGCGGAACAATCCTGTAGCAGCAA
CGCAGTCGCCTCCGTCATGCTGTAACCTGTGGACATCGGCCCGGGGTGATTGTTATAAGG
ATAAGTGTGTGTTTATGGTTTTATATAGATCGATCTCAGGCTCTCGTCGTAGTTCCTGCA
TGCATAGAAGAGATAGTAGGTACTTCCTCCGTAAGTAGTGATCTAAACATTCTTATATTT
CCTAGTACTCCCTCCGTTCCTATATATAAGTCCTTTTAAAAAAAAAAAAAAAAA

Homology of Contig U35_26948 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os03g28960.1	800	2e-67	protein\|DNA-directed RNA polymerase subunit, putative, expressed
Brachypodium v1_2	Bradi3g05847.1	1159	2e-69
Arabidopsis v10	AT5G45140.1	1161	2e-57	\| Symbols: NRPC2 \| nuclear RNA polymerase C2 \| chr5:18247416-18257713 REVERSE LENGTH=1161