barSeed - Barley Seed Development Database

Probe CUST_18598_PI390587928

Source Contig U35_6839

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_18598_PI390587928	Hv_44K_v2	CGTATGTAACCTACCTACTGTCACTACACTTAAACAAGCATTTTCTTAACTTGTTTGAGT	625	GeneList: green MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	1.172	1.305	1.225	1.313	0.585	0.537
Raw	74.572	135.062	107.201	184.370	27.933	28.493

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_36338.1	2296	2e-24	48 - 107	100	60 / 60	minus	ABC14587
MLOC	MLOC_36338.2	2182	2e-24	35 - 94	100	60 / 60	minus	ABC14587
JLOC1	JLOC1_23379.1	2308	8e-25	2190 - 2249	100	60 / 60	plus
Harvest21	ABC14586	722	3e-25	38 - 97	100	60 / 60	minus
Harvest21	ABC14587	641	1e-23	527 - 586	98	59 / 60	plus	ABC14587
Harvest35	U35_6839	740	3e-25	626 - 685	100	60 / 60	plus

Contig Sequence (740 bp)

>U35_6839 740 Hv_44K_v2
ATCAATATACATGGAGCGCATTGTTGTCAGCATTGTATAGGTCTGGTCGATGCTGGGACA
CCCTCGAGCTTTTCCAAGGAATTAAATCCAAGCATCCATCAGTCTTAAACACTCATCTCT
ACAACATAGCTTTGATGTCTTGTGAAAGACTTGGTCAATGGGAGCATGCTTTGCAATTGT
TGTGGATGATGGAAAAAAGCGAACTGCAAATTTCAGCAGTCTCTTACAATCACGTGATAC
GTGCTTGTGAGATCGCTTGTGAGCCAAAAGTCGCTCTGAAAGTGTACCACCGTATGACTC
ATGAAAGGTGCTCACCAGACACATTCACGCATTTATCTGTCATAAGAGCTTGTATTTGGG
GATCTCTTTGGGACGAAGTAGAGGATATACTGGAGGAGGTCGCTCCAGATTCTTCGGTCT
ACAACACGGTCATACACGGGCTTTGTTTGCGTGGCAAGATAAGATTAGCCAGGAAGGTGT
ACACAAAAATGCGGAGCATTGGGCTAACACCAGATGGCAAGACAAGGTCGTTCATGCTGC
AACACATCGCGTCAGCAGAGTAGCCCTCCTGACTTATGAGAAGCACTAGTTGTAGCTGTA
CAGATCTGAACGTGCAATGCAATCACGTATGTAACCTACCTACTGTCACTACACTTAAAC
AAGCATTTTCTTAACTTGTTTGAGTAAAGATACACGTTAAAGCTGAAATGGTTATGCTGG
GGTAAAAAAAAAAAAAAAAA

Homology of Contig U35_6839 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os03g11310.1	583	1e-111	protein\|PPR repeat domain containing protein, putative, expressed
Brachypodium v1_2	Bradi1g70330.1	575	3e-121
Arabidopsis v10	AT3G29290.1	540	2e-66	\| Symbols: emb2076 \| Pentatricopeptide repeat (PPR) superfamily protein \| chr3:11238421-11240125 FORWARD LENGTH=540