barSeed - Barley Seed Development Database

Probe CUST_24792_PI390587928

Source Contig U35_49569

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_24792_PI390587928	Hv_44K_v2	TCAACCATCCTGAACTTTGAGCGTGTATCTGAGATACTGGATTTCTGGGGTGACAATGCT	379	GeneList: lightcyan MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	1.013	1.213	1.618	1.498	0.584	0.536
Raw	688.009	1304.055	1501.400	2169.952	299.584	297.007

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	AK356539	2471	2e-24	2182 - 2241	100	60 / 60	plus	None
MLOC	MLOC_38920.1	2270	2e-24	1834 - 1893	100	60 / 60	plus	None
JLOC1	JLOC1_25345.1	1098	8e-25	607 - 666	100	60 / 60	plus
Harvest21	ABC51363	530	3e-25	380 - 439	100	60 / 60	plus
Harvest35	U35_49569	530	3e-25	380 - 439	100	60 / 60	plus

Contig Sequence (530 bp)

>U35_49569 530 Hv_44K_v2
TGGGCTGGAGCATTTGGTGGCATCTATCGCGCCCCGCATTCGTCCTGTACTTGACACGGT
TACCACTGTAAGCTACGAGCTGGATGATGCCGAATACGGGGAAAACGAGGTGAATGACCC
ATGGGTGCAGAAGCTTCTCCTTGCAGTCGACACGAACGTCACATGGCTCCAGCCAATGAT
GACATCGAACAACTATGATTCTTTTGTGCACCTGGTCATCGACTTCATTGTCAAGAGGCT
CGAGGTTATTATGATGCAGAAGAGGTTCAGTCAGCTCGGTGGCTTGCAGCTTGACAAGGA
GGTTCGCTCCCTGATCAACCATTTCTCGGAGATGTCACAAAGACCAGTCCGAGACAAGTT
CTCGAGGCTTTCCCAGATGTCAACCATCCTGAACTTTGAGCGTGTATCTGAGATACTGGA
TTTCTGGGGTGACAATGCTGNGCATCTGACGTGGCTGTTGACACCTGCGGAGGTGAGGAG
GGTCTTAGGGCTCAGGATCGACTTCAGGCCCGAAGCAATTTCTGCTTTGA

Homology of Contig U35_49569 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	None
Brachypodium v1_2	Bradi3g11120.1	758	6e-112
Arabidopsis v10	AT4G01400.1	1110	2e-88	FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: COG4 transport (InterPro:IPR013167), Pentatricopeptide repeat (InterPro:IPR002885); BEST Arabidopsis thaliana protein match is: Pentatricopeptide repeat (PPR) superfamily protein (TAIR:AT5G46100.1); Has 26268 Blast hits to 8959 proteins in 289 species: Archae - 0; Bacteria - 3; Metazoa - 247; Fungi - 222; Plants - 25350; Viruses - 0; Other Eukaryotes - 446 (source: NCBI BLink). \| chr4:573098-577243 REVERSE LENGTH=1110