barSeed - Barley Seed Development Database

Probe CUST_29464_PI390587928

Source Contig U35_21799

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_29464_PI390587928	Hv_44K_v2	TTGTCCGTTTATGTTGCCAACATGGCTGAATTTTGGGCATACTGATAATACCTCTCAATA	671	GeneList: yellow MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	2.353	2.008	1.149	0.766	0.348	0.363
Raw	7854.893	10584.850	5321.123	5555.637	886.294	1012.175

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	AK248292.1	2766	2e-24	2685 - 2744	100	60 / 60	plus	ABC16317
JLOC1	JLOC1_14208.1	812	8e-25	556 - 615	100	60 / 60	plus
Harvest21	ABC16317	717	3e-25	655 - 714	100	60 / 60	plus	ABC16317
Harvest35	U35_21799	734	3e-25	672 - 731	100	60 / 60	plus

Contig Sequence (734 bp)

>U35_21799 734 Hv_44K_v2
AACATCAATTGCAATAAGCATAAGATGGAGAGATTTTTACATCATGGGCGATTTTCTATT
GCCTCCGTCTATGCTCCAATTTCCTTTCCACCCGTTCCTCTGATTGTTTTGAAGAACATA
GATGGGCAACAACCTGTCATTGCTGCAGTAGGTACACTGAAAAGTGTGGATCCTGACCAG
ATTATTCTCAAAAAAATTGTATTGACTGGGTATCCCCAGAGAGTCTCGAAACTCAAAGCA
ATGGTGCGGTACATGTTCCACCACCCAGAAGACGTCAGATGGTTCAAGCCTGTTGAGCTG
TGGACGAAACATGGCAAACGCGGCCGGATCAAGGAGACTGTCGGCACCCATGGTTCGATG
AAATGCATATTCAACAGCAGCGTCCAGCAGCACGATACCGTGTGTATGAGCTTGTTCAAA
CGAGCTTTCCCCAAATGGCCAGAACATTTCTATCATCAAATATAAGAATACTCGCACGCT
TGGCATACGTCTATAAAGATTGCGAATGAGCTTCTGGCTCTAGGGGGATTGTATCCGTAG
CCCATAACAGAAGTGGAGCGGTGGTGGGTGCTTGTTGATGCAGCTCATATGGTCTGACGA
GAACGCAACTTGTTGTACCAAAGACGGAGGGAGATTCAGCTTTGCCTTGTGTTGTACTGT
CTTAACTGTTTTTGTCCGTTTATGTTGCCAACATGGCTGAATTTTGGGCATACTGATAAT
ACCTCTCAATATAG

Homology of Contig U35_21799 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os11g19250.1	786	6e-91	protein\|AARP2CN domain containing protein, expressed
Brachypodium v1_2	Bradi1g41930.1	786	9e-94
Arabidopsis v10	AT1G42440.1	793	3e-74	FUNCTIONS IN: molecular_function unknown; INVOLVED IN: ribosome biogenesis; LOCATED IN: nucleus; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: AARP2CN (InterPro:IPR012948), Protein of unknown function DUF663 (InterPro:IPR007034); BEST Arabidopsis thaliana protein match is: P-loop containing nucleoside triphosphate hydrolases superfamily protein (TAIR:AT1G06720.1); Has 2741 Blast hits to 2088 proteins in 291 species: Archae - 2; Bacteria - 131; Metazoa - 833; Fungi - 650; Plants - 171; Viruses - 49; Other Eukaryotes - 905 (source: NCBI BLink). \| chr1:15895528-15899939 REVERSE LENGTH=793