barSeed - Barley Seed Development Database

Probe CUST_12628_PI390587928

Source Contig U35_5023

barSeed

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_12628_PI390587928	Hv_44K_v2	ATGGTCATACTTGCACTGTAACTTGTTATGCAGTAATGCTATTCGAGATCGAAGAAAAAA	1776	GeneList: blue MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	1.935	1.364	1.129	0.904	0.443	0.507
Raw	1748.950	1973.562	1402.627	1757.192	301.490	375.176

Probe Sequence's BLAST hits in Barley Unigene Datasets

Dataset	Hit	Hit Length	E-value	Position on Hit	% Identity	Match	Direction	Probes on Sequence
JLOC1	JLOC1_43562.1	3596	6e-21	2064 - 2116	100	53 / 53	plus
JLOC1	JLOC1_43561.1	2416	6e-21	1383 - 1435	100	53 / 53	minus
Harvest21	ABC11074	728	3e-25	12 - 71	100	60 / 60	minus	ABC11074
Harvest35	U35_5023	1847	3e-25	1777 - 1836	100	60 / 60	plus

Contig Sequence (1847 bp)

>U35_5023 1847 Hv_44K_v2
GCTCGCGCTGCACCCGCTCCTCTCCTGCGCCGCCACGGGGCTCCTCGCGCTCGCCTTCCT
CATCTCCGCCTCGCCCCACCCCGGCCCGCCGCCCGTGCCTAAGCTCGCCCTCGCGGCCTC
CCTCTTCGCTTCGGCCGGTGCGCTCTGCGTGGCCGCCGCCGCGTCTCTGGTCCCCGAGGA
CGCCGGATGGGCTGCCGTCGCTGGGCTGGGATTCCGCGGCGCTGTGTTGGGCGCGGTGTT
CGCCGCTCACTACTTTGGCCGTGGGAGGTGGTTGCTCCAGTTCCCCGTCGTACAGAGACC
TATGTTCTATGGATTAAAGATGGGGCTTCTACCATCTATTAAAAGGGCTCTAAAGATGTC
ACTTCAGGTCTTCTTGGTTTCAATTGTCCTGATTCTTATTCTTCCTCGGCAATTCAGAAT
GGGAGGATCCATTGGAAGTCAAATTATCACCCAAATCGCTATTTTTATAGTGACCACATG
TGTTTCCTTTTGTTGGGAAATAAGCCATCATTTTGTCCAGGTTGTGCATACAAGAAGATG
CAGTTTTACTCCACCTCAGAGCTCTGCTGCTGCGGAGACTAATCCTACTGATTGTATCCT
CGAGACTTTGGAACTAAGTAATCCACGGTCACTGTTGCAATATCTTGCATTCCAAGATTT
GTGTGCAGTATCTGAATGTAACATCGAACCTTGGCGTCGAGGTGCCTTCTTCGAGGAATC
TGGTGAAACTTACAAAAGAATTGTGACAGCCTGTTTGAAGCCACTTGAGGACTTCACTTC
AAAAATTGCTGAAGCACTTGAAGGGTTTACTAGCGAAAAGCCAGAACTATTGTTACAACA
GTCTAAGCTCTATGGTGCATTTAGTGATTCACAGATATGCTCATGGTGTGCTCGGACATT
GGCTACATTAACTGCACGCTCACGACAAGAGGACCGGTATGGAGTTGCTCAACTCACTGG
CTGCAATGCTGCTGTGATGTCTACTTTGCTGTCTGCGCTAGTTGCGGTTGAAGCATGTTT
AGGGAAGAAAACTAACCCACAACCTGCGCACTCACTGGGTCCAGCAAGCATTAGGTGGGG
TAACTTCTCCACTGCAAGAAAAGGCAATGCAACTGCCATTGCAAGCACACAAAGAGGTGG
TCTGCACACAAAAGCTTATTCAATGGCTGATGTTTTCCGGACTTCAATTTATCAGATAGT
CTCAGCCTTCTTGGATGACATGCGGGCAAATGCAAAAGCTTCGAGTTTGGAGAAGAATTG
GATCAGTGAAGGAAGGAAGCCTATCTATGGTTCACGTGATGTGTTGGTCCAGAAGTTGAG
CTTGTTTATTGAATACCGAGCTGTCTGAACTTTGTGCGAGGTCTCTCAAATCCGACAGTC
TGTTGGGGTGAATGATTTTTGTGATGGACCAGAATGCTTGTTTAAGTGAAGTTCGGAGCT
GCTGAGACTACTATCTCGTTGAGGTCCAGGAATATTTGTTTTGGCACTATGATGATCCAC
TGGAGAGAAATCATTTTCCATTCCCCGTCTTTGGGAGGACAAAAAGGGCCATGACCTGTT
ATTATTGTGACCTCTTGCAAAACAGTTTCACTGTTTTTAATTGCTGGAAGCACCACGCTA
GTGAATGGAAAATTAAGCGCTCAATTTTGTATGGTACTCAAAGAGGTGTTATTTCTTAAT
AGCCTCGAGTAGTGGTTCTGTATGTTGCCATGATGGTTGGAGGGAAAGCTGAAACGTTTG
TTTTGGGCTATCAGTCCACTTGATTGGCTTGACAGAATGGTCATACTTGCACTGTAACTT
GTTATGCAGTAATGCTATTCGAGATCGAAGAAAAAAAAAAAAAAAAA

Homology of Contig U35_5023 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os02g45920.1	504	0.0	protein\|expressed protein
Brachypodium v1_2	Bradi3g51910.1	504	0.0
Arabidopsis v10	AT1G73240.1	519	1e-90	CONTAINS InterPro DOMAIN/s: Nucleoporin protein Ndc1-Nup (InterPro:IPR019049); Has 36 Blast hits to 36 proteins in 17 species: Archae - 0; Bacteria - 0; Metazoa - 1; Fungi - 0; Plants - 35; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink). \| chr1:27542397-27544668 REVERSE LENGTH=519