barSeed - Barley Seed Development Database

Probe CUST_18275_PI390587928

Source Contig U35_3347

barSeed

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Probe Details

Probe ID	Chip	Probe Sequence (60 bp)	Probe location	Differentially Expressed
CUST_18275_PI390587928	Hv_44K_v2	TCTTGTTTGCAGCATCTATGGACGTGTTTGCTTTGTACTCCTTTGTTTTAAAACAACTGT	1484	GeneList: yellow MasterList: None

Probe Values

	3 dpa	4 dpa	5 dpa	6 dpa	7 dpa	8 dpa
Normalized	2.693	2.647	1.148	0.770	0.253	0.440
Raw	248.429	385.722	146.818	164.479	17.063	33.780

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_36397.1	665	2e-21	586 - 646	97	59 / 61	plus
Harvest21	ABC14860	1544	3e-25	1485 - 1544	100	60 / 60	plus	ABC14860
Harvest35	U35_3347	1544	3e-25	1485 - 1544	100	60 / 60	plus

Contig Sequence (1544 bp)

>U35_3347 1544 Hv_44K_v2
GCAGAGGTATTTGAGAATTTTGCTGCAATTATATCTGATTTGGATGTTTTACAGAGTTTT
GCTGATTTGGCAGTCAGTTGCCCAGTTCCTTATGTAAGACCAGACATCACAACATCGGAG
GAAGGAGATATTATTCTACAAGGTAGTCGGCATCCTTGTGTGGAGGCCCAAGATGGTGTT
AACTTCATACCAAATGATTGCACTTTGGCGAGGGGAAAAAGTTGGTTTCAAATCATCACT
GGGCCAAACATGGGTGGAAAATCCACTTTTATTCGTCAGGTTGGTGTAAATGTCTTGATG
GCACAAGTTGGTTCCTTCGTTCCTTGTGACCAGGCAAGCATTAGTGTGAGAGATTGTATT
TTTGCTCGTGTTGGTGCTGGTGATTGCCAACTCCGTGGTGTTTCAACCTTTATGCAAGAG
ATGCTTGAAACAGCATCCATTTTGAAAGGTGCATCTGAGAAATCTCTCATAATTATCGAT
GAGTTGGGACGCGGGACTTCCACATATGATGGATTTGGTCTTGCATGGGCTATCTGTGAG
CATCTTGTGGAAGTGACTAGGGCGCCTACATTGTTTGCAACTCATTTTCATGAATTAACT
GCATTAGCAAATAAAAATGGTGATCAGCACCAACATGTTCCAGATTTGGGAATTGCAAAT
TATCACGTGGGTGCACATATAGACCCATCAAGTCGGAAGTTGACTATGCTTTATAAGGTT
GAGCCTGGTTCCTGCGACCAAAGTTTTGGTATCCATGTTGCGGAATTTGCTAATTTTCCA
GAAGCTGTCATTGCTCTTGCGAAAAGCAAAGCTGAAGAGTTAGAAGACTTTACCAGTGCA
CCTAACTTGAGTGGTGAACCCAGTGACGAGGTTGGATCGAAACGCAAGAGGGTGTTTAGC
CCAGATGATGTGACGAGGGGAGCTGCTCGGGCTCGCCTTTTGTTAGAGGATTTTGCTGCA
TTGCCTCTAGATGAGGTGGATGGGAGCAAGGCTACGGAGATGGTAGCTAAACTGAAATCA
GACTTCGAGAAAGACGCAGCCAGTAATCCCTGGCTACACCAGTTCCTCTGAATGGAATGG
AAAGGAATGGATCGCTGATCCTTCTGTTACTGCGCGTCAGCTTGGGACGATCCTTTCCTT
TTCTTAGTGCAAGTAAACAGAAACGATTGTCTACTAAATTCTCTACTAAATCCTTTTGTT
AGTGCAAGTAAACAGAAACGATTGTCTACTAAATAAAAATTGAAAGCCACTATTTCATTT
TACCTCGTTATTAGCAAGATTATTAGGGCATCTCTAACAGTGATTCATAAATTTTCTCCT
GCATTCATCCATGGACAGGTGGGGCACGGACCACATACAAGGATGCGGGAGATCGCCAGG
CAATCCTAGCCGCATACATTTCAAACATCATAACTAACCGGATGAAATTTGTGTAAATAT
GGCTGGATTTCATCCAAACACGGCTAGAAATTCATGCAGACTAGTCTTGTTTGCAGCATC
TATGGACGTGTTTGCTTTGTACTCCTTTGTTTTAAAACAACTGT

Homology of Contig U35_3347 to Model Species (E-value threshold 1e-50)

Pseudo-peptide dataset	Hit	Hit length	E-value	Description
Rice v7	LOC_Os05g19270.1	943	0.0	protein\|MSH-like DNA mismatch repair protein, putative, expressed
Brachypodium v1_2	Bradi1g15260.1	924	0.0
Arabidopsis v10	AT3G18524.1	937	4e-175	\| Symbols: MSH2, ATMSH2 \| MUTS homolog 2 \| chr3:6368151-6372409 REVERSE LENGTH=937