barSeed - Barley Seed Development Database

Probe CUST_37775_PI390587928

Source Contig U35_22664

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_37775_PI390587928	Hv_44K_v2	AGAAGCTTTGGTCTTAATGTTGCACTGCTTGCACAGCTCCCGTTGAGATGTATTAAGCGT	1229	GeneList: green MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	1.168	1.311	1.420	1.375	0.694	0.746
Raw	103.116	194.855	173.656	279.858	45.966	54.793

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_38120.1	2298	2e-24	1161 - 1220	100	60 / 60	minus	ABC16911
MLOC	MLOC_38120.2	2406	2e-24	1161 - 1220	100	60 / 60	minus	ABC16911
JLOC1	JLOC1_24760.1	1739	8e-25	1079 - 1138	100	60 / 60	plus
Harvest21	ABC16911	1293	3e-25	1230 - 1289	100	60 / 60	plus	ABC16911
Harvest35	U35_22664	1293	3e-25	1230 - 1289	100	60 / 60	plus

Contig Sequence (1293 bp)

>U35_22664 1293 Hv_44K_v2
GGGACAGTTCTATGTTGAGAAGGCTCATAAGTACAGCTTCATCATCTGCTGTACTTGCTA
ATGCTGTGAAACTTCTGTCGTGTCTTGACAAAGATGCTGCTGCTCAAGGAGATATGATAA
ACCTGTTCATTTCATCTGCTGACCAGTTCCCCGAGGTTGCAGAGGGCCATGTAACTGTTG
AAATGGCCAAACAAAAACTGGATTTATTAATTGTTGGATATCGGAAGCAGCTTGGCATGC
GCAGCTTGGAGTACAAAACCGTATCTGGAACAGCTTACCTGATCGAACTACCAGTAGATA
GAAAGGTGCCTTCAAATTGGCTGAAAGTAAATAGCACCAAAAAAGCTATTAGATACCACA
CTCCCGAAGTATTGAAGAACTTGGACAACCTATTACTGGCTAAAGAAGAACTAGCAGTTA
TCTGCAGGAAAACATGGCACAAATTCCTTATGGATTTCGACAAATATTATGCGCAGTTTC
AAGCAACTGTTGAATCTCTTGCAGCTCTTGACTGCTTGTACTCTCTTGCTACTCTTGCAA
AACAAAATAATTATGTACAACCTAATTTTGTTCCTGAAAATGAAGCAAGTCAGATTCACA
TCAAAGATGGCCGCCATCCGGTTCTGGAGTCTCTACTTGGAGTGAACTTCGTTCCAAATG
ATACAGACCTTCATGTAGATGGGCAGTACTGCCAGATTGTTACAGGACCAAACATGGGAG
GAAAAAGTTGCTATATTCGCCAAGTTGCACTAATTACCATTATGGCCCAGGTTGGTTCCT
TTGTACCAGCTTCATCAGCAAGACTGCATGTTGTTGATGGAATTTATACTCGGATGGGTG
CATCTGATAGTATTCAACAAGGAACAAGTACCTTTTATGAAGAGATGAATGAAGCTTCCA
ACATATTGCAGAGCTGCTCATCTCGATCCCTAGTTATTATTGATGAGCTTGGTCGTGGAA
CAAGCACTCATGATGGTGTTGCTATAGCCTATGCTACATTACACTATCTCCTAAAAGTTA
AGAAATGCATTGTTATTTTTGTCACTCACTATCCAAAGATTCTTGATATCCGGAGTGAAT
TTGAAGGTTCTGTTGGGGCATACCATGTTTCGTATCTGTCGACAAGGAAGCTGTTGCAAA
CCACTGATGAAAAAATGGGCATTAGCACAGAAACAGAGGATCTTGGAGAAATTACTTTCT
TGTATAAACTTGTTGCTGGAGCTTCAGACAGAAGCTTTGGTCTTAATGTTGCACTGCTTG
CACAGCTCCCGTTGAGATGTATTAAGCGTGCAT

Homology of Contig U35_22664 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os04g58630.2	814	5e-107	protein\|DNA mismatch repair protein MSH3, putative, expressed
Brachypodium v1_2	Bradi5g26812.1	1606	0.0
Arabidopsis v10	AT4G25540.1	1081	3e-176	\| Symbols: MSH3, ATMSH3 \| homolog of DNA mismatch repair protein MSH3 \| chr4:13042700-13048115 REVERSE LENGTH=1081