barSeed - Barley Seed Development Database

Probe CUST_10296_PI390587928

Source Contig U35_28477

barSeed

Links

Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_10296_PI390587928	Hv_44K_v2	TCAGCAGTTGTGGATGCTCAGAGAAATGCTCTTATTAACGGTATAAAAAATTGCCGTTTT	513	GeneList: turquoise MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	1.226	1.129	1.169	1.015	0.530	0.523
Raw	554.212	783.475	709.568	941.826	181.658	192.729

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_54900.1	3402	2e-24	114 - 173	100	60 / 60	minus	None
JLOC1	JLOC1_35365.1	2120	8e-25	1954 - 2013	100	60 / 60	plus
Harvest21	ABC27358	710	3e-25	514 - 573	100	60 / 60	plus
Harvest35	U35_28477	710	3e-25	514 - 573	100	60 / 60	plus

Contig Sequence (710 bp)

>U35_28477 710 Hv_44K_v2
GGTCCAGCTCAAGCTGTTGTTGCACAAGATACACAAACACAAATATCAGAAGTCATGATT
ATTATCCAGGTATGCTCAACAGGTGTTGATGAGGCACAGATGAAAGATGAGTTTGCCAAG
TTGACCAAGACATTGGTGCAGGGGGCTGCAACATGCTTACCTCCATTGCCTCTAACAACT
ATAGTAGTTCAAGATCACACGGGAATATCAAATGTAGCACCTGCTGACTGTCCACTGATC
CCACTATTGGTGCCAGAAGTGGACCAATCAGAAGAGGGGGCAGTGGATAAAACAAGAATC
CATGACCACATTAGCAATCTTCGGTTCTCTCTATCACCAACAGCATTTTTTCAGGTTAAT
ACTCTTGCTGCAGAACGATTGTACACCCTTGCTGGTGATTGGGCCAATCTCAATTCGGAC
ACATTACTTTTTGACGTATGCTGTGGGACTGGAACAATTGGCCTGACATTAGCACACCGT
GTTGGAATGGTTGTTGGCATTGAAATGAATGAATCAGCAGTTGTGGATGCTCAGAGAAAT
GCTCTTATTAACGGTATAAAAAATTGCCGTTTTGTCTGTGGGAAGGCTGAAGATGTGATG
GGGTCTCTTCTCACAGAGTATCTTGGTTCGCCACAGCAGCACATTGCAGCTTCTGAAAGT
AATTCAGAAGTTAATGCTGCAGGAAAAAAAGAGGATATAGTTGATGGTGC

Homology of Contig U35_28477 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os04g01480.1	851	7e-116	protein\|zinc finger C-x8-C-x5-C-x3-H type family protein, expressed
Brachypodium v1_2	Bradi5g02300.1	709	2e-124
Arabidopsis v10	AT2G28450.1	809	2e-82	zinc finger (CCCH-type) family protein \| chr2:12162180-12165761 REVERSE LENGTH=809