barSeed - Barley Seed Development Database

Probe CUST_18958_PI390587928

Source Contig U35_23196

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_18958_PI390587928	Hv_44K_v2	GTGCAAGCTTTTTCCTGCAGATGTCCAAATACAATCAATTTACCCCCTGCCTGATATAGC	564	GeneList: blue MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	1.483	1.332	1.102	0.828	0.353	0.443
Raw	301.711	394.465	306.956	355.077	54.199	73.678

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_33037.2	438	2e-24	227 - 286	100	60 / 60	plus	ABC20960
MLOC	MLOC_33037.1	445	2e-24	234 - 293	100	60 / 60	plus	ABC20960
MLOC	MLOC_28398.1	1116	2e-24	101 - 160	100	60 / 60	plus	ABC12186 ABC20960
JLOC1	JLOC1_21460.1	357	8e-25	294 - 353	100	60 / 60	plus
JLOC1	JLOC1_19058.1	1096	8e-25	144 - 203	100	60 / 60	plus
Harvest21	ABC20960	613	3e-25	554 - 613	100	60 / 60	plus	ABC20960
Harvest35	U35_23196	624	3e-25	565 - 624	100	60 / 60	plus

Contig Sequence (624 bp)

>U35_23196 624 Hv_44K_v2
TCGAGCACTGTTGGCCTACCGGGCTCGCTGGGCCGTCCCCGTCGGCTCGATCCCCACAGC
CCAACGACCACCAAGCCGGCCGGCCGCCGCGAGCGGGGAGGATTGGTTCGCCATGGCGTC
GAAGCAGATGGAGGAGATCCAGCGGAAGCTGGCGGTGCTGGCCTACCCGCGCGCCAGCGC
GCCCGCGCAGTCGCTCCTCTTCGCCGGCGTCGAGCGCTACCGCCTCCTCGAGTGGCTCTT
CTTCCGGCTGCTCGGCGACAGATCGCCCTTCACGCAGCAGAACTGGCAGGGGGACAGCCT
CGACCGCGACGAGGAGAACAGCAGGATCCAACACTTGGCGGAGATCGCGAATTTCCTCGG
TATCACGCCTTCAGTCGACACTGAGGCGATTCAGGGCAGGGGCAGCTACGACGAGCGGGT
GGAGCTCCTCCGTCTAATTGTTGACTTGGTGGAAGCTAGCTGCTATGCCGACAATCCAGA
GTGGAGTGTTGATGAGCAGTTGGCAAAGGATGTACAACTTGTAGATTCCATTGCTGAGAA
ACAGGCGCAAATTTTTTCAGAGGAGTGCAAGCTTTTTCCTGCAGATGTCCAAATACAATC
AATTTACCCCCTGCCTGATATAGC

Homology of Contig U35_23196 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os01g64920.1	332	6e-113	protein\|nuclear matrix protein 1, putative, expressed
Brachypodium v1_2	Bradi2g56240.1	329	6e-115
Arabidopsis v10	AT5G17620.1	329	6e-89	CONTAINS InterPro DOMAIN/s: Plant nuclear matrix 1 (InterPro:IPR010604); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink). \| chr5:5805934-5808455 REVERSE LENGTH=329