barSeed - Barley Seed Development Database

Probe CUST_18073_PI390587928

Source Contig U35_39935

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_18073_PI390587928	Hv_44K_v2	CATAGCACCGGCTATACATACTTTGTTTGCAGCTGGAAATGCCTATGTCTTGCATTTTTT	109	GeneList: greenyellow MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	10.813	6.550	1.583	0.533	0.194	0.235
Raw	425.592	436.645	88.578	51.977	4.757	7.094

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_35548.1	315	7e-23	160 - 220	98	60 / 61	plus	ABC00594
JLOC1	JLOC1_22934.1	350	4e-23	160 - 220	98	60 / 61	plus
Harvest21	ABC49440	671	1e-23	55 - 114	98	59 / 60	minus
Harvest21	ABC00594	835	6e-22	739 - 799	97	59 / 61	plus	ABC00594
Harvest35	U35_39935	744	3e-25	110 - 169	100	60 / 60	minus
Harvest35	U35_485	1217	1e-23	1142 - 1201	98	59 / 60	plus

Contig Sequence (744 bp)

>U35_39935 744 Hv_44K_v2
TTTTCTTTTTTTGTTTCTCCACAGAAATTCGAAGTACTTTGGTATTCCATAACAATTTTT
GCATTAGATAATACACAACATATGATTGAGCAAAAAATGCATGAGAAGAAAAAAATGCAA
GACATAGGCATTTCCAGCTGCAAACAAAGTATGTATAGCCGGTGCTATGATTCTCATATG
CATCCTTCTCGGCCTACGTTGGTAGGTGCTTAAATACATATGCTCGTATATTCACATATG
ATTGGAACGAGAAGTAAAATTGAGAAAGCAGAGCTGCCGACCAACCAATGTGAACTAACA
TAGCATGTATATCGGTTACTTGAACTTGCACTTTATGCCTTGCCGGACTCCTCGCAACCC
GGTGGCCTGAAGGCGATGAAGCTGACGCACTGCACCTGCCGCAGGTTGTCAAAGCCGATG
ATGCGGACGTAGGCGTCAGGGTACTCCTTTTTGACCTCCTCAACCTCATTGAGCACCTGT
GTGGCGTCGGTGCACCCAAACATAGGCAGCTTCCACATTGTCCAGTATCGGCCGTCGTAA
TATCCGGGGGAGCTGTTGTGCTCACGGAAGACGAAGCCAACCTTGCTGAACTCGAGGCAG
GGCACCCACTTGGAGCGGATCAGGTAGTCGACCTGCTTCAGGAGGGCCTCCGTGGTGAGG
GGTGGCAAGTAAGACAGGGTCTCGAACTTCTTGATGCCCTCAATCGGCCACACCTGCATG
CATCTGATCCTTCCGNCATTGCTG

Homology of Contig U35_39935 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os12g19470.2	176	2e-84	protein\|ribulose bisphosphate carboxylase small chain, chloroplast precursor, putative, expressed
Brachypodium v1_2	Bradi4g08500.1	176	2e-92
Arabidopsis v10	AT1G67090.1	180	4e-69	\| Symbols: RBCS1A \| ribulose bisphosphate carboxylase small chain 1A \| chr1:25048465-25049249 REVERSE LENGTH=180