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

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Marker (SSR): GBM1256

Related with

HA01K04

cDNA clone

Mapping Info
map	species	chr.	mapped as	position	submitter
Steptoe x Morex	Barley	6	GBM1256	67.9 cm	Dr. Nils Stein
Consensus Stein2006	Barley	6	GBM1256	69.2 cm	Dr. Nils Stein

Related to Sequence, correspondig to BioObject: HA01K04

Sequence: HA01K04r

submitter of sequence:	Dr. Nils Stein
length:	468
priming:	5-prime
GenBankAc:	BQ459297
IPK CR-EST:	HA01K04r

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.

HA01K04r
CGGACGAGGC GGCCTCGATC TGTGGAAAGA AGAGGATAGA TCGGGAGAGA GAGAGAGAGA         60
TAGGAGGAGG AGGAATCGCC TGACACGATG GGCGCCACCG GCCAACGTCG GCTGTCATCT        120
CTGCCCGCGG CGGCGGCGGC CGCGCCTCTC CTGCTTCTGC TCGCCGTGTC CTCCTGGAGC        180
CAGGCGGCGG CGTCGGCGGC GGCGGCTCCG GCCTGGACGA CGGACCTGGA GAAGCACGTG        240
GCGTTCTTCG ACACCGACAA CGACGGCATC GTCACCTTCT CCGAGACCGA GCAAGGGCTT        300
CGTGCCATCG GTCTTGGAGT TCTCGAGGCC ACGGCCAGCG CCACCCTCAT CAACGGAGTC        360
ATCGGACCCA AGACCAGACC CGAAAATGCT ACGACATCGA GGTTTGACAT CTACATAGCC        420
AACATCCACA AAGGGATGCA CGGAAGCGAC AGTGGCTCGT ACGACGCC                     468

Type	Position	Orientation
ORF	2 - 415:	forward
ORF	3 - 80:	forward
ORF	88 - 468:	forward
ORF	118 - 2:	reverse
ORF	410 - 3:	reverse
ORF	466 - 392:	reverse
ORF	468 - 118:	reverse

Cluster Info:
Contig5160.1	(12 members)

view Blast Searches

Oryza sativa pep on 09-MAR-07
E-val	simil.	overlap	accno	description
05e-24	61	373	TIGR:LOC_Os02g50174.1	LOC_Os02g50174.1\|11972.m10050\|protein Caleosin related protein, expressed
04e-22	60	242	TIGR:LOC_Os06g14370.1	LOC_Os06g14370.1\|11976.m32035\|protein ABA-induced protein, putative, expressed
08e-17	50	225	TIGR:LOC_Os06g14324.1	LOC_Os06g14324.1\|11976.m06147\|protein Calcium binding EF-hand protein, putative, expressed
02e-28	65	217	TIGR:LOC_Os02g50140.1	LOC_Os02g50140.1\|11972.m10048\|protein ABA-induced protein, putative
04e-22	60	215	TIGR:LOC_Os06g14370.2	LOC_Os06g14370.2\|11976.m06152\|protein ABA-induced protein, putative, expressed
non redundant GenBank CDS translations \+ PDB \+ SwissProt \+ PIR on 09-MAR-07
E-val	simil.	overlap	accno	description
01e-22	61	373	GenBankAc:XP_467658.1	ref\|XP_467658.1\| putative calcium binding protein [Oryza sativa (japonica cultivar-group)] dbj\|BAD15887.1\| putative calcium binding protein [Oryza sativa (japonica cultivar-group)] dbj\|BAD16163.1\| putative calcium binding protein [Oryza sativa (japonica cultivar-group)]
01e-15	50	225	GenBankAc:BAD46169.1	dbj\|BAD46169.1\| putative calcium binding protein [Oryza sativa (japonica cultivar-group)] dbj\|BAD45228.1\| putative calcium binding protein [Oryza sativa (japonica cultivar-group)]
04e-27	65	217	GenBankAc:XP_467656.1	ref\|XP_467656.1\| putative caleosin [Oryza sativa (japonica cultivar-group)] dbj\|BAD16161.1\| putative caleosin [Oryza sativa (japonica cultivar-group)]
06e-17	50	217	GenBankAc:CAB71337.1	emb\|CAB71337.1\| putative calcium binding EF-hand protein [Hordeum vulgare subsp. vulgare]
07e-21	60	215	GenBankAc:BAD46173.1	dbj\|BAD46173.1\| putative calcium binding protein [Oryza sativa (japonica cultivar-group)] dbj\|BAD45232.1\| putative calcium binding protein [Oryza sativa (japonica cultivar-group)]
All nt+env_nt+patnt+pdbnt on 31-MAR-10
E-val	simil.	overlap	accno	description
01e-106	94.2	258	GenBankAc:EA137407.1	Sequence 1722 from patent US 7214786
03e-96	92.6	258	GenBankAc:AK336071.1	Triticum aestivum cDNA, clone: SET3_C15, cultivar: Chinese Spring
02e-66	87.9	256	GenBankAc:HB838571.1	Sequence 187785 from Patent EP2090662
UniProt 15.12 UniRef100 on 28-DEC-09
E-val	simil.	overlap	accno	description
06e-26	68.7	83	UniProt_UniRef:UniRef100_C5XZA4	Putative uncharacterized protein Sb04g028740 n=1 Tax=Sorghum bicolor RepID=C5XZA4_SORBI
01e-26	65.1	83	UniProt_UniRef:UniRef100_B9F2K6	Putative uncharacterized protein n=1 Tax=Oryza sativa Japonica Group RepID=B9F2K6_ORYSJ
01e-26	65.1	83	UniProt_UniRef:UniRef100_Q6Z2H9	Putative caleosin n=1 Tax=Oryza sativa Japonica Group RepID=Q6Z2H9_ORYSJ
03e-26	65.1	83	UniProt_UniRef:UniRef100_B8AI26	Putative uncharacterized protein n=1 Tax=Oryza sativa Indica Group RepID=B8AI26_ORYSI
07e-25	62.7	83	UniProt_UniRef:UniRef100_B6TKU1	ABA-induced protein n=1 Tax=Zea mays RepID=B6TKU1_MAIZE
03e-22	61.4	83	UniProt_UniRef:UniRef100_A2YCT4	Putative uncharacterized protein n=1 Tax=Oryza sativa Indica Group RepID=A2YCT4_ORYSI
03e-22	61.4	83	UniProt_UniRef:UniRef100_A3AB40	Putative uncharacterized protein n=1 Tax=Oryza sativa Japonica Group RepID=A3AB40_ORYSJ
03e-22	61.4	83	UniProt_UniRef:UniRef100_Q6Z2H7	Os02g0734600 protein n=1 Tax=Oryza sativa Japonica Group RepID=Q6Z2H7_ORYSJ
03e-21	60.2	83	UniProt_UniRef:UniRef100_C0PBJ1	Putative uncharacterized protein n=1 Tax=Zea mays RepID=C0PBJ1_MAIZE
02e-24	60.2	83	UniProt_UniRef:UniRef100_B6UDK3	ABA-induced protein n=1 Tax=Zea mays RepID=B6UDK3_MAIZE
Oryza sativa japonica annotation TIGR 6.1 (cDNA)20091211 on 14-DEC-09 gave no results
UniGeneDec2009.fasta on 14-DEC-09 gave no results

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