barSeed - Barley Seed Development Database

Probe CUST_29499_PI390587928

Source Contig U35_50161

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_29499_PI390587928	Hv_44K_v2	TTATAAGTTTATGAACATGTCTTGATACGCAGAGAAGAGCTCAGCACTGCGGAAGACCAA	449	GeneList: blue MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	1.571	1.872	1.365	0.624	0.281	0.426
Raw	54.876	99.243	63.629	42.987	7.399	11.759

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_59220.2	2114	2e-24	1069 - 1128	100	60 / 60	plus	ABC14897 ABC38453
Harvest21	ABC52198	667	3e-25	450 - 509	100	60 / 60	plus
Harvest35	U35_50161	667	3e-25	450 - 509	100	60 / 60	plus

Contig Sequence (667 bp)

>U35_50161 667 Hv_44K_v2
TTTTTGCGAGAGTAATAAAAGGAATGGGCGTGGTTCGCTCTTGTGAGCACATTCCTGCTG
GAGAAGCTGACCGTCCCACAGTTGATGCCGTAATTGCTGAATGTGGGGAACTTCCTGAAG
GTGCCGATGATGGAGTTGTAAACTTTTTCAAGGATGGTGACATGTATCCTGACTGGCCAA
ATGATCTCGATGAAAAGCCTGCAGAGGTTTCATGGTGGATGGAAGCTGTGGAGTCTGCTA
AGGCTTTTGGGAATGATAATTTCAAGAAACAGAATTATAAGACGGCCCTCAGGAAGTACA
GGAAAGCTCTGCGCTACTTGGATGTTTGCTGGGAGAAAGAAGAGATAGATGAAGGCATTT
TTTACTGTTTCTGTTATGCACTATAATTGCTCAGTTTTTTGTTGGTTCTGTCGTTCTACA
TACTGATCATAAAACATGTCGCATGGCACTTATAAGTTTATGAACATGTCTTGATACGCA
GAGAAGAGCTCAGCACTGCGGAAGACCAAGTCCATAATACTCACGAATAGCTCTGCATGC
AAAATGAAGCTGGGAGATTTGAAGGGTGCTTTGTTGGATGCAGATTTTGCGCTGCGTGAA
ACAGAGGGCAATGCTAAGGCTTTTTTCCGACAAGGACAGGCACACATAGCACTTAATGAC
ATTGATG

Homology of Contig U35_50161 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os06g11320.2	397	3e-68	protein\|peptidyl-prolyl cis-trans isomerase CYP40, putative, expressed
Brachypodium v1_2	Bradi1g45800.1	391	1e-73
Arabidopsis v10	AT2G15790.1	361	1e-55	\| Symbols: SQN, CYP40 \| peptidyl-prolyl cis-trans isomerase / cyclophilin-40 (CYP40) / rotamase \| chr2:6878144-6880743 REVERSE LENGTH=361