barSeed - Barley Seed Development Database

Probe CUST_8003_PI390587928

Source Contig U35_24620

barSeed

Links

Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_8003_PI390587928	Hv_44K_v2	AAAGTTCGATGCATCCAGGGGGTTCAGAATTTCCACTTACGTATACTGGTGGATTCGTCA	524	GeneList: greenyellow MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	4.490	2.864	0.966	0.598	0.942	0.839
Raw	33.141	31.421	9.244	7.293	3.318	3.163

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	AK361731	2072	2e-24	1108 - 1167	100	60 / 60	plus	ABC44737
MLOC	MLOC_23747.2	1213	2e-24	233 - 292	100	60 / 60	plus	ABC44737
MLOC	MLOC_23747.1	852	2e-24	340 - 399	100	60 / 60	plus	None
JLOC1	JLOC1_16387.1	1485	8e-25	325 - 384	100	60 / 60	plus
Harvest21	ABC18895	739	3e-25	525 - 584	100	60 / 60	plus
Harvest35	U35_24620	740	3e-25	525 - 584	100	60 / 60	plus

Contig Sequence (740 bp)

>U35_24620 740 Hv_44K_v2
GTCCCCCGGGCTGCAGCGGCCGAGGACGATGACGACAAGAGCAGGAGCAGCTCCGTCGTC
GTGGCGCGCTCCGGCGTCTCGGCGAGGCAGCGGCGGATGAGCGGCCGGAGGCGCGGGAGG
TCCAAGAAAGGCAGCGGCGCCGTGCACCTGAGCATCAGCCCCGAGCTGCTGCAGAGCAGA
AACCGCATATACCTCCGCGGCACCGTCAGCAAGGAGCTCCTCACGCACAAGCAGGTTGTC
CACCTCTCCAAGAAGATCAAGGACGGGATATGGCTGCAGCAGCAAAGATCAAAGCTGACA
GAAATACTGGGGAATGAGCCGTCCTACAAGCAGATGGCCCAATCACTTCGGATATCGACA
CCGGAGCTGCGGTCAAGAATGCGCGAGTCGTTCCTCGCGAGGGAGGTGCTAACGATGAGC
AACATCCGTTTGGTCATATCCATCGCCCAGAAGTATGACAAGTTGGGGGTTGAGCTGTCC
GACCTGATTCAGGGTGGTCTCATAGGGCTACTCCGCGGGATTGAAAAGTTCGATGCATCC
AGGGGGTTCAGAATTTCCACTTACGTATACTGGTGGATTCGTCAGGGTGTTTCAAGGGCA
CTCGCGGACAACTCGAAAACATTCAGGCTCCCTACTTACATGCATGAGAGGCTGATTGCG
ATTCGTGCTGCAAAGTACGCATTGGAGGACCAAGGGGTTTCTCCGACACACAAAACATCG
CAGAGTTGCTCAATATATCG

Homology of Contig U35_24620 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os08g06630.3	391	2e-101	protein\|RNA polymerase sigma factor, putative, expressed
Brachypodium v1_2	Bradi3g16040.1	532	4e-101
Arabidopsis v10	AT1G64860.1	502	2e-58	\| Symbols: SIGA, SIG1, SIG2, SIGB, RPOD1 \| sigma factor A \| chr1:24098497-24100746 FORWARD LENGTH=502