barSeed - Barley Seed Development Database

Probe CUST_17634_PI390587928

Source Contig U35_19661

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_17634_PI390587928	Hv_44K_v2	CTTGCAAAGCCTGTATGATGTAGATGACAACATACCTTCTCTTGGTCTCTTTACGGAGAG	1107	GeneList: skyblue MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	0.621	0.609	1.550	1.338	1.083	1.019
Raw	20.617	29.624	70.301	85.563	27.104	28.516

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	AK375660	3879	2e-24	1057 - 1116	100	60 / 60	plus	ABC00736
MLOC	AK369248	3769	2e-24	1065 - 1124	100	60 / 60	plus	ABC00736
MLOC	MLOC_37182.1	1282	2e-24	1130 - 1189	100	60 / 60	plus	None
JLOC1	JLOC1_24041.1	1435	8e-25	1157 - 1216	100	60 / 60	plus
Harvest35	U35_19661	1167	3e-25	1108 - 1167	100	60 / 60	plus

Contig Sequence (1167 bp)

>U35_19661 1167 Hv_44K_v2
TGTTGGCCTACAACCTTTTCCATTTCCCTCCCACACACGGACGTAGAATCCCGAATTCTC
TAGGGTTTGCTCTCCCCGCACCACCACATTCCCGTCTCATCCCTCCCGAATGGCGGAGAC
GTTGGCCTCCACGCGCCGCCCGAAGCGTGGCCGCCCGCCGCGGCCGAGGGAGAGCGACTT
CGTGACCGGCGAAGAGTTTGAGGACGAGGAGGAGGGGGAGGACCACGCAGAGGCGGCCGA
TGGGCTCGCGCCACCCCGGTCTAAGCGCAAGCGCGAGGCGTCCGCCGCTGCCGCCGCCGC
GCTCGAGGATTTGACCCTCATCGACATAGTCAAACATAATGGCAGGCTAATCAGCCATGC
TGCCAAAAGATTGGTCGAGGATTATGAATCAAACCCAAAGTCAGTGCTATTTCAGATATT
AACAATGTTATTTGAGGCCTGTGGCGCCAGACATGATATATATGCAAGCGACCTTCATGA
GGCAGCTGTGGATGACATTGTATTCAAACTAGCTGAACTAGCAAGAAAAGGTCTGGTGGA
TGATAATTATAGCTCAAAAAGGAAGGACCTGAAGAACTTCAAAGAAAATCTCGTTACTTT
TTGGGATAGTTTGGTCCTTGAGTGTCAGAATGGTCCGTTATTTGATGATAACTTATTCAC
GACAATCAAGGATTACGTGGTTGCTATATCATGTACTCCCCCAAGGGTTTATCGTCAAGT
AGCTTCATTGGTCGGGCTCCAGCTTGTGACATCCTTCATATCTGTCGCTAAGACTCTCAG
TGGACAGCGTGAGACCACCCAAAGGCAGTTGAATGCAGAGAAGAAGAAGAAGAGTGATGG
ACCAGCTGTTGAATCTCTCAACAAAAGGCTATCTATTACTCATGAAAATATTACATATTT
GGAGGAATCAATGCGTAAAATATTCAGCGGGTTATTCATGCACCGTTATCGGGATGTTGA
CCCTGAGATCCGAATGTTATGCATAAAATCCCTAGGTATTTGGGTTGTCTCATATCCATC
ACTGTTCTTACAAGATATATATTTAAAGTATCTTGGGTGGACACTGAATGACAAGAATGC
TGGAGTTAGAAGAACTTCTATTCTTGCCTTGCAAAGCCTGTATGATGTAGATGACAACAT
ACCTTCTCTTGGTCTCTTTACGGAGAG

Homology of Contig U35_19661 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os05g09620.1	1117	1e-168	protein\|SCC3, putative, expressed
Brachypodium v1_2	Bradi4g11510.2	900	0.0
Arabidopsis v10	AT2G47980.1	1098	4e-127	\| Symbols: SCC3, ATSCC3 \| sister-chromatid cohesion protein 3 \| chr2:19631423-19636795 FORWARD LENGTH=1098