barSeed - Barley Seed Development Database

Probe CUST_37202_PI390587928

Source Contig U35_2204

barSeed

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_37202_PI390587928	Hv_44K_v2	CTGATGCATGCTTAGAGCTCAAGAGTAGTAGGGTTTTTGGTGTTTCGGTTTGGACATATG	2524	GeneList: brown MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	1.961	1.813	1.384	0.787	0.444	0.533
Raw	697.044	1015.526	672.800	584.890	120.022	155.324

Probe Sequence's BLAST hits in Barley Unigene Datasets

Dataset	Hit	Hit Length	E-value	Position on Hit	% Identity	Match	Direction	Probes on Sequence
JLOC1	JLOC1_52155.1	4409	6e-21	4320 - 4375	98	56 / 57	plus
Harvest35	U35_2204	2584	3e-25	2525 - 2584	100	60 / 60	plus

Contig Sequence (2584 bp)

>U35_2204 2584 Hv_44K_v2
GGATCAGACTTATCAGGGAGGATGGCCGTGTCAATGAGTGGAGGACGCCTGGGAAGAAAA
CTATCACTAAGGTTGGGTCAAACCGGCTCCAGGTGGTAATTGCCCTCAGTGGTGGAGAGC
TCATCTATTTTGAGATGGATATGACAGGTCAGCTCATGGAGGTGGAGAAGCAGGACATGT
CTGGTGATGTCGCATGCCTGGCCATTGCTCCGGTTCCTGAAGGGAGGCAAAGGTCCCGTT
TTCTTGCAGTTGGCTCCTATGATAACACCATCAGGATACTCTCCCTTGACCCCGATGACT
GCTTGCAGCCTCTTAGTGTACAAAGTGTGTCCTCTGCCCCTGAATCTCTCTTGTTCTTAG
AAGTACAGGCATCAGTTGGTGGCGAGGATGGTGCAGATTATCCAGCCAACCTTTTCCTTA
ATGCTGGTTTGCAGAATGGTGTCCTTTTCCGAACCAATGTTGATATGGTCACTGGTCAGC
TATCAGACACACGGTCTCGATTCCTTGGTCTGAGACCTCCAAAGCTGTTTCCCTGCATAG
TTAGCCACCGACAAGCAATGCTTTGCTTGTCCAGCCGCCCCTGGCTTGGCTATATACATC
AAGGTCACTTCCTCTTGACACCACTCTCATGTGACACACTTGAGTCTGCTGCGTCGTTCT
CTTCTGACCAGTGCTCAGAAGGTGTTGTTGCTGTTGCTGGTGACGCTCTGCGTATTTTCA
CCATTGAACGTCTGGGAGAGACATTCAATGAGACATCTATCCCTCTGCGTTACACCCCGA
GGAAATTTGTGATTCTACCAAAAAAGAAATACCTTGCAGTCATTGAGAGCGACAAGGGTG
CATTTAGCGCAGAACAGCGAGAAGCTGCTAAGAAGGAGTGCCTTGAGGCTGCTGGTTCAG
CGGAAAATGGAAATGGTAATGGGGATCAAATGGAGAATGGTGATGGTCAAGAAGATGGTG
AGGAGAGTAACACACTTCCTGATGAACAATATGGTTATCCAAAGGCAGAATCAGAGAAGT
GGGTTTCCTGCATTAGAATTCTTGATCCAAGGAGCAGGGACACAACTTGTCTTCTGGAAT
TGCAGGACAATGAGGCGGCTGTCAGTATTTGCACTGTGAATTTCCATGATAAGGAGCATG
GTACTCTTCTGGCTGTTGGTACTACCAAGGGATTGCAGTTCTGGCCAAAGAGGAGCCTCG
CTTCTGGTTTCATCCACATATACAAGTTTGTTAATGAAGGGAAGTCACTTGAACTTCTTC
ACAAAACACAAGTGGAGGAAGTGCCTCTTTCTTTGTGCCAGTTTCAAGGACGGTTGCTTG
CAGGTGTTGGTTCAGTGCTCAGGTTATATGATCTTGGGAAGAGAAAGTTGCTCAGAAAAT
GTGAAAACAAGCTATTCCCAAGGACAATAGTGTCTATTCATACTTACCGTGATAGGATCT
ATGTTGGTGATATGCAAGAGTCATTTCATTACTGCAAGTACAGACGGGACGAAAACCAGC
TGTATATCTTCGCTGATGACAGTGTTCCTAGATGGCTTACAGCAGCAAATCACATAGATT
TCGACACTATGGCAGGAGCCGACAAGTTTGGGAACATATATTTTGCTCGTCTTCCCCAGG
ATCTCTCAGATGAAATTGAGGAAGACCCAACTGGAGGCAAGATTAAATGGGAGCAAGGGA
AGTTAAATGGTGCTCCAAACAAAGTGGAGGAGATTGTGCAGTTTCATGTTGGTGATGTTG
TGACATGTTTGCAGAAGGCTTCTTTGATACCTGGCGGAGGTGAATGCCTTATTTATGGGA
CTGTAATGGGTAGTGTCGGAGCACTGCTTGCATTCACCTCAAGGGAAGATGTTGACTTCT
TCTCTCACTTGGAGATGCATCTCCGCCAGGAGCATCCACCATTATGTGGAAGAGATCACA
TGGCCTACAGATCTGCTTATTTCCCAGTGAAGGATGTTATTGATGGTGATCTCTGTGAGC
AGTATCCGTCCCTCCCAGCTGATATGCAGAGGAAGATTGCCGATGAGCTTGACCGAACTC
CAGGTGAAATCCTGAAGAAGCTGGAAGACATCAGAAACAAAATCATCTAGGGTCATCGAA
TAGCATGAATGAATCTGACTGTGGAATGCGACTGTCAAGTCCTCATCGGTGTAAAATATT
TATCTCCTCACCCAGTACAGCCGTTGTGTGGCGTTTTTCTTTTGACACAACACAGCATTC
CATAATTCATGAGTCAACGGAGTGGACAGGACCCACAACCCATAATCGTCGGATCTGGTG
TACCGTTGACATTGTTGACACTGGCTCAGTTTGCCTTGTAGATTCAAGCAAGAACGGACA
ATTAAATGGCTGTACCAGAGTAGTCTTTCTGTACCTGTTTCAACAACTGTTATTTGGCCT
GATGTAACTGAACTTGTTTGATGCAAAAAAAAAAAAAAAAATGCATAACAAAACTTTCCA
AGTTACTGAGGTACTCTTGAGGGTTGTTGGTGATTCGTTTTGGAAAGTTTTGTACTACTC
TTTCCTGATGCATGCTTAGAGCTCAAGAGTAGTAGGGTTTTTGGTGTTTCGGTTTGGACA
TATG

Homology of Contig U35_2204 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	Description
Rice v7	LOC_Os02g04480.1	846	protein\|cleavage and polyadenylation specificity factor, putative, expressed
Brachypodium v1_2	Bradi3g03317.1	1229
Arabidopsis v10	AT3G55200.1	1214	Cleavage and polyadenylation specificity factor (CPSF) A subunit protein \| chr3:20460533-20464361 FORWARD LENGTH=1214