barSeed - Barley Seed Development Database

Probe CUST_7390_PI390587928

Source Contig U35_47971

barSeed

Links

Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_7390_PI390587928	Hv_44K_v2	GGAATGTCGAGTATTTGCCAATAATCTTCCATATTATTTTTGTTACGCAATGCACATGGA	11	GeneList: turquoise MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	1.283	1.208	1.335	0.925	0.282	0.211
Raw	5254.033	7837.160	7675.507	8265.577	883.912	724.616

Probe Sequence's BLAST hits in Barley Unigene Datasets

Dataset	Hit	Hit Length	E-value	Position on Hit	% Identity	Match	Direction
JLOC1	JLOC1_53383.2	2631	1e-22	2224 - 2283	98	59 / 60	plus
JLOC1	JLOC1_53383.1	2041	1e-22	1634 - 1693	98	59 / 60	plus
Harvest21	ABC49590	626	3e-25	12 - 71	100	60 / 60	minus
Harvest35	U35_47971	626	3e-25	12 - 71	100	60 / 60	minus

Contig Sequence (626 bp)

>U35_47971 626 Hv_44K_v2
ACAGATTTTTTTCCATGTGCATTGCGTAACAAAAATAATATGGAAGATTATTGGCAAATA
CTCGACATTCCATGATCCCACGCGAACAATTCCTACAAAGAAATATGATGGGGATGTGGA
CGGCAAACAGAGCACAAGAGGTGGGAGGCGTTTACAAAACTATCCAGGGCTCCAGGGCGA
GCCAATAAATCTCATAGAAGCACAGCACGGTGGGCATTGCGCGGCGGCCAACAAGGCTTA
GAAGCACGAAGCGAGACAACCACGGCATATGTATCATCATCCTACTCCTTGTACTTCATG
CTCTCGAGCGTGAAGCCGGGCATGTCAAAGGAGAGGGCAAACTTCTCGACCTCGACCTTG
AGGTTCTCAATGTCCTTGTTGTTCACCAGGCCCTTGGAGAAATCCTTGAGCAGCTTGCCG
TGCTCCTTCTGGATGTTCAGGCAGATGGTCACTGCCTGGTGGAGGAACTCGGCGATCTGC
TCGAAGTCCTTCTCAACCAGACCCCTGGAGGTCATAGCAGGAGCACCAATGCGGACACCA
CCCGGGGACAATGCACTGCTGTCACCGAAGACAGCATTCTTGTTCAATGTAATGCTACAA
AGGTCACACATCTTTTCGACCTTGTT

Homology of Contig U35_47971 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os11g26860.1	257	6e-71	protein\|serine hydroxymethyltransferase, mitochondrial precursor, putative, expressed
Brachypodium v1_2	Bradi4g19470.1	517	1e-67
Arabidopsis v10	AT4G13930.1	471	4e-56	\| Symbols: SHM4 \| serine hydroxymethyltransferase 4 \| chr4:8048013-8050021 REVERSE LENGTH=471