barSeed - Barley Seed Development Database

Probe CUST_3562_PI390587928

Source Contig U35_42418

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_3562_PI390587928	Hv_44K_v2	TGTGATCTTGGAGGAGTTCTTCATGGCGGAAAACATAAGGAAGGCCATCCAGATTGATGA	94	GeneList: darkorange MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	0.898	0.971	2.592	2.287	0.949	0.465
Raw	14.334	21.110	56.002	75.894	11.517	5.994

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	7e-23	1329 - 1388	98	59 / 60	plus	None
MLOC	MLOC_19804.1	1509	7e-23	652 - 711	98	59 / 60	plus	None
JLOC1	JLOC1_13722.1	1227	4e-23	676 - 735	98	59 / 60	plus
Harvest21	ABC38076	464	3e-25	95 - 154	100	60 / 60	plus
Harvest35	U35_42418	464	3e-25	95 - 154	100	60 / 60	plus

Contig Sequence (464 bp)

>U35_42418 464 Hv_44K_v2
GGAGGGATGTCAAGCCTGAACTCGGTCCGCAAGCCATGAAAGCCTTCCGTAATGGTAGCT
TTAATAAAATGGAGAAGGATTTGACTGGGTATTATGTGATCTTGGAGGAGTTCTTCATGG
CGGAAAACATAAGGAAGGCCATCCAGATTGATGAGCCAGTGCCTGATGGTCTCACCACCT
CAATGGTCGACGATGTGCTCTTTCTACTGCAGAGCTGCTGCCGCCGGGCAGCATTCACTG
CAAGCATCAACTCGCTACTTGCTGTGCTTGGTGGGGCAACGAGCCTACTAAGCAATGAGT
TTCAGGAGGCACTACAGTGGAGAATGAGGGAGCCAAACTTGCGTGCAAAGCTCTTTCTAG
GTGGTGTTGGAGTTCATAAGACTGGTGAGGCGATTGCGACTGCGCTGAACAACATGGATG
TGAGCTCATACTATGTCCTGAAGCTCCGCCATGAGGCTGAGGAG

Homology of Contig U35_42418 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os02g25840.1	562	1e-87	protein\|conserved oligomeric Golgi complex component 4, related, putative, expressed
Brachypodium v1_2	Bradi3g11120.1	758	6e-88
Arabidopsis v10	AT4G01400.1	1110	4e-59	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