GABI Primary Database ( GabiPD ) - Genomanalyse im biologischen System Pflanze

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Clone: HA27O08

Genotype (Genotype)

	species:	Hordeum vulgare
	type:	wildtype
	common name:	barley
	cultivar:	Barke

Library:

	lib name:	IPKc 2018
	tissue:	embryosac
	stage/tissue:	0-7 DAP (days after pollination)
	cloning vector:	pBluescript SK+ site_1: EcoRI (5'-end of cDNA); site_2: XhoI (3'-end of cDNA)
	host:	XL10-Gold
	antibiotic:	Ampicillin
	library description:
	0-7 DAP(days after pollination) Due to a cloning artefact caused by the kit, in most cases the EcoRI site is NOT present, as well as the EcoRIadapter used for cloning. To excise the insert, restriction sites upstream EcoRI should be used (e.g. BamHI, SalI,PstI). NOTE: Also due to the cloning system used Blue/white selection for recombinats is not 100% reliable. Average insert size is 1 kb

Related with

Hv.17243

unigene cluster

Sequence: HA27O08r

submitter of sequence:	Dr. Nils Stein
length:	394
priming:	5-prime
GenBankAc:	BU982884
IPK CR-EST:	HA27O08r

Sequence features and Clone alignments (BLAST):

	X

Gene structure	UTR	start codon	stop codon	exon-exon border
Clone alignments	forward	reverse	start	stop
Protein domains	domain

Click on sequence features to obtain additional information.

HA27O08r
CGGCACGAGG CGTCGATGGT AGAAGGTCGC GCGGTGGTGG TGCCGGCGGC GGACTGCTCG         60
GTGACTGTGA TCGGGCGGGG CGAGAAGTGC GAGCCCCGGA AGTGCGAGGC GGAGTGTCGG        120
AGGCAGCACG ATGGTATGGG CGCGTGCGCC GCCATGGGGT GCAGTTGCGC CGTCTGCGCC        180
AAGTATCCTC CCTCCTCCTC CGTCGCAAAG GGAAACCGAT ACTGATAAAT GACGACTAGT        240
AGTAGTACAC CAGTGCTAGG TTCAAAGTGT GTACTCACTA GATAGCGGGG ATCCTTGCAA        300
TGCTCATTTT CACAGATAAT TTGGATCTGA TAAACAATAT GTACTACATG AATGCTTGAC        360
AACAAGAAAT AATCCTTGAT GATTAACTCG TGGT                                    394

Type	Position	Orientation
ORF	1 - 222:	forward
ORF	3 - 236:	forward
ORF	131 - 229:	forward
ORF	155 - 3:	reverse
ORF	393 - 313:	reverse

Cluster Info:
Contig12237.1	(4 members)

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Sequence: RUS23C05w

submitter of sequence:	Dr. Nese Sreenivasulu
length:	364
priming:	3-prime
GenBankAc:	FD521101
IPK CR-EST:	RUS23C05w

RUS23C05w
ACCACGAGTT AATCATCAAG GATTATTTCT TGTTGTCAAG CATTCATGTA CTACATATTG         60
TTTATCAGAT CCAAATTATC TGTGAAAATG AGCATTGCAA GGATCCCCGC TATCTAGTGA        120
GTACACACTT TGAACCTAGC ACTGGTGTAC TACTACTAGT CGTCATTTAT CAGTATCGGT        180
TTCCCTTTGC GACGGAGGAG GAGGGAGGAT ACTTGGCGCA GACGGCGCAA CTGCACCCCA        240
TGGCGGCGCA CGCGCCCATA CCATCGTGCT GCCTCCGACA CTCCGCCTCG CACTTCCGGG        300
GCTCGCACTT CTCGCCCCGC CCGATCACAG TCACCGAGCA GTCCGCCGCC GGCACCACCA        360
CCGC                                                                     364

Type	Position	Orientation
ORF	2 - 82:	forward
ORF	46 - 114:	forward
ORF	240 - 362:	forward
ORF	264 - 166:	reverse
ORF	362 - 159:	reverse
ORF	364 - 173:	reverse

Cluster Info:
Contig12237.1	(4 members)

view Blast Searches

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