barSeed - Barley Seed Development Database

Probe CUST_24679_PI390587928

Source Contig U35_20678

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_24679_PI390587928	Hv_44K_v2	GTCAGCTACTCCCTCCGTTTCATAATTCTTGTCATGGTTTTAGTTCAAAATAACAAACCA	1356	GeneList: blue MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	1.949	1.834	1.461	0.803	0.656	0.737
Raw	366.114	514.147	383.438	313.582	90.620	114.168

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_4430.1	1784	7e-23	16 - 75	98	59 / 60	minus	ABC14386
JLOC1	JLOC1_2757.3	2411	4e-23	2338 - 2397	98	59 / 60	plus
JLOC1	JLOC1_2757.2	1597	4e-23	1524 - 1583	98	59 / 60	plus
JLOC1	JLOC1_2757.1	1786	4e-23	1713 - 1772	98	59 / 60	plus
Harvest21	ABC14386	1416	3e-25	1357 - 1416	100	60 / 60	plus	ABC14386
Harvest35	U35_20678	1416	3e-25	1357 - 1416	100	60 / 60	plus

Contig Sequence (1416 bp)

>U35_20678 1416 Hv_44K_v2
GAATCTTAGTTGGTACCATGCCTGATGAGATAAGAGAACACGTATTTTTACTGGTCCTGA
GTGCTCTCTGGCAGTATGTGACTTTGTTTTCATTGTTCAAGGTTTCAGCAAAAGATCACC
TACTGCCTGGTGATACCCTCTTTCTACCTGTTAATATTCAAGAATCTTCTGTTGCTGAGA
AGGCCAGGAAATTTGATAACAGGAATGAGATTGATTTTTTACGTAGCCTTGAGATTTATA
AGGATAAAGCCATTATTGTGGTTAACAAACCCCCTGGAATGCCAGTTCAAGTAGGGTGGT
GTTGGCATAAAAAACAGTATAGATGTGCTGGCCCCGATGTTTGAAGAAAATTCTTCTGAT
GCGCCTCGCCTGGTCCATAGACTTGATAGGGATTGTAGCGGTGTCCTTGTTCTGGGTAGA
ACTCAACTTAGCGCTTCCATTTTGCATGCTATCTTTCGTGAGAAAACTGCTGATGCTTTA
GCTGATGGTACTCAACAAGTATTGCAACGAAAATATGTTGCACTTGTTATGGGAACACCT
AGACATCCCAAGGGTTTACTATCGGCTCCACTTGCAAAGGTTTTATTGCAAGATGGCAAG
TCTGAGCGTCTGACTGTTAGAGCTGGTCCAAATACGACATCTGTTCAGGATGCTTTGACA
GAATACAGAGTGATTGAATCTTGCCCCCAAGGGTTCACTTGGTTGGAACTATTTCCCCTT
ACCGGAAGAAAGCATCAGCTCCGAGTCCACTGCGCAGAGGTTCTTGGAACGCCGATTGTA
GGGGATTACAAGTACGGGCGCCAAGCGCACCAGGACTGGACACCTCTCCCCGTGTCGCAA
ACCGTCGACAAGGAACTCCTCAGGAAGCAGAGGCTTCCCTTTGGTCTTGTCCTGGGTGGC
GGGAGCATCGCAGAGCAGCAGCCTCAGTTGCATCTGCACTGCAAGCAGATGATGCTCCCT
GATATCTCAGCTGCCGTCCAAGGGTTGCAGTCTGAAGACGCCGATCGTGACTTCTCGGAT
CTCGAGAAGCTCAGCTTCGTTGCTCCATTGCCGCTGCACATGCGGCTGAGCTGGGAGGTT
TTGAAGTCCGTTGACAAGTAAGCGAAGACTGGCGTCCTGAGTCTGTCAGTTCTTTACACC
GACCTACTGTGATGCGGATGATGTGTTGCTCAAGACTACAACGACAGAAGCTTCACCAAA
AATCTCATTTATAGCACAGTGATAGCGATTCTTTTTTTTCTTTTCGTTAGGGAATTCACT
ATCCGCATTTTCATTTTCTGCTTGGGAGTCTTAACGCAATGTACTTTTCTGGTTACACTG
TTTTCTACCAGCAATCATAGAATATATCTACATCTTGTCAGCTACTCCCTCCGTTTCATA
ATTCTTGTCATGGTTTTAGTTCAAAATAACAAACCA

Homology of Contig U35_20678 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os09g01620.1	466	1e-161	protein\|RNA pseudouridine synthase, putative, expressed
Brachypodium v1_2	Bradi4g08187.1	466	6e-176
Arabidopsis v10	AT3G19440.1	477	4e-91	Pseudouridine synthase family protein \| chr3:6740778-6743132 FORWARD LENGTH=477