barSeed - Barley Seed Development Database

Probe CUST_13879_PI390587928

Source Contig U35_1252

barSeed

Links

Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_13879_PI390587928	Hv_44K_v2	GTTGGAAATGTTGACTATGCTTGTACGCCAGAGGAAGTGCAGCAGCATTTTCAAGCTTGT	267	GeneList: darkturquoise MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	0.297	0.452	1.219	1.803	0.911	1.349
Raw	250.942	607.108	1393.280	3377.006	579.200	938.678

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	AK371819	949	2e-24	274 - 333	100	60 / 60	plus	ABC03409 ABC03410 ABC03412
MLOC	MLOC_62602.2	1205	2e-24	741 - 800	100	60 / 60	plus	ABC03409
JLOC1	JLOC1_40981.1	989	8e-25	171 - 230	100	60 / 60	plus
JLOC1	JLOC1_40981.3	1809	6e-21	998 - 1050	100	53 / 53	plus
Harvest21	ABC03409	999	3e-25	303 - 362	100	60 / 60	plus	ABC03409
Harvest35	U35_1252	696	3e-25	268 - 327	100	60 / 60	plus

Contig Sequence (696 bp)

>U35_1252 696 Hv_44K_v2
GCGGCCATGGACGAGGAGGAGCACGAGGTGTACGGCCAGGAGATCCCCGTGGACGGCGAC
ATGGAAGGCACCGACGTCGACATGGCCGCTGCCGGAGACGACGCAGCAAAGGAGCTCGAC
GAGATGAAGCGTAGGCTCAAGGAGATGGAGGAGGAGGCCGCCGCCCTGCGCGACATGCAG
GCCAAGGTCGCCAAGGAGATGCAAGGAGGAGATGCCAATGCGTCTACAGCTGAGGCAAAG
GAGCAAGTGGATGCTCGCTCTGTTTATGTTGGAAATGTTGACTATGCTTGTACGCCAGAG
GAAGTGCAGCAGCATTTTCAAGCTTGTGGAACCGTCAACAGAGTGACAATCTTGACTGAC
AAGTTTGGGCAGCCAAAAGGCTTTGCTTACGTGGAATTTCTAGAACAAGAAGCTGTTCAG
GAGGCTCTTAATCTGAATGAATCTGAATTGCATGGTCGTCAGATCAAGGTGTCACCAAAG
AGGACTAACGTCCCTGGGATGAAGCAGCGTCCTCCACGAGGATTCAGTCCCTACCATGCT
TACCCTTATAGGTCATACGGGGCACCGTATTTTCCACCATATGGATATGGGAGAGTTCCC
AGATTCCGCCGGCCAACACGATACAGGCCGTACTTTTGAGAGAAGAAGGCTCTCATGAAG
TCCAATGCATTGCCAGTAGCCATACTGCGGAATAAT

Homology of Contig U35_1252 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os02g52140.2	213	2e-93	protein\|RNA recognition motif containing protein, putative, expressed
Brachypodium v1_2	Bradi3g58600.1	211	4e-99
Arabidopsis v10	AT5G10350.1	217	5e-64	RNA-binding (RRM/RBD/RNP motifs) family protein \| chr5:3255674-3257746 REVERSE LENGTH=217