barSeed - Barley Seed Development Database

Probe CUST_2240_PI390587928

Source Contig U35_2980

barSeed

Links

Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_2240_PI390587928	Hv_44K_v2	CCCTGTTCATTGAGCATGCGATGCTTGATTCTTCATGCTGCCTTTTCTCCTTATTCTTTA	746	GeneList: greenyellow MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	10.616	7.814	1.879	0.471	0.239	0.213
Raw	305.766	378.041	76.128	32.259	2.851	3.006

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	AK251925.1	854	3e-22	771 - 830	98	59 / 60	plus	ABC07237 ABC07238 ABC07239
MLOC	MLOC_12822.1	2034	3e-22	974 - 1033	98	59 / 60	minus	ABC07237 ABC07238 ABC07239 ABC08996 ABC08997
MLOC	MLOC_12822.2	2123	3e-22	1066 - 1125	98	59 / 60	minus	ABC07237 ABC07238 ABC07239 ABC08996 ABC08997
JLOC1	JLOC1_8620.1	2265	1e-22	972 - 1031	98	59 / 60	minus
Harvest21	ABC07239	782	3e-25	2 - 61	100	60 / 60	minus	ABC07239
Harvest21	ABC07237	864	5e-23	42 - 101	98	59 / 60	minus	ABC07237
Harvest35	U35_2980	807	3e-25	747 - 806	100	60 / 60	plus
Harvest35	U35_2982	864	5e-23	764 - 823	98	59 / 60	plus

Contig Sequence (807 bp)

>U35_2980 807 Hv_44K_v2
GCTGCCTCTCTTGCTCGCCCAGGCGGCCATGGAAGCTCTGGCCGTCGCCTCGCCGGCCCT
GACGCGGCCGCAGCCCCGCCGACGATGCCTCGCCGCAGGCTCGTGGTGCCAGAGGAGGAC
GAGCCAACTGCACACCTCCTTCAGCGGCGTCACGGTGCAGCTGCACAAACCGCTGAGCCC
AACGGCGACCAGTTCCCGGCGATCATCATCGTCAGTGGTGGCGGTGGCGATGTTGTCGCG
TCCGTCGATCCAGTTCATCCAGGGCACGGACGAGCAGACGATCCCGGACGTGCGGCTGAC
CAAGTCCCGGGACGGCAGCAACGGGGTGGCCATCTTCACCTTCGAGCAGCCGTCGGTGTT
CGACTCGTCGGCGGAGCTGGGCGACATCACCGGATTCTACATGGTCGACGAGGAGGGCAC
GCTGAGCTCCGTGGACGTCAGCGCCAAGTTCGTCAACGGCAAGCCGGCGGCCGTGGAGGC
CAAGTACGTGATGCGCACCCCCAGGGACTGGGACCGATTCATGCGCTTCATGGAGCGCTA
CTCCCAGGCCAACGGCCTCCAGTTCCTCAAGAAGTAGCCATCCGTCCGTTCGTCCATCCA
ATCCATCATCATCATCATCATCATCTTCGATTCTTATTCTTCTTCTACATGTTTTTGGTT
TCATGGATGGATTCCTGACAGAAAACTAGCTGCATTGAGTTCAGTCATCGCTGTGACTGT
TGATTTGTGTGCTCTGTGGCTGCGTACCCTGTTCATTGAGCATGCGATGCTTGATTCTTC
ATGCTGCCTTTTCTCCTTATTCTTTAT

Homology of Contig U35_2980 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os01g71190.1	181	9e-71	protein\|photosystem II reaction center PSB28 protein, chloroplast precursor, putative, expressed
Brachypodium v1_2	Bradi1g02550.1	180	4e-77
Arabidopsis v10	AT4G28660.2	198	2e-55	\| Symbols: PSB28 \| photosystem II reaction center PSB28 protein \| chr4:14150008-14150933 FORWARD LENGTH=198