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

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Marker (RFLP): GBR0284

Related with

HW06C05

cDNA clone

Mapping Info
map	species	chr.	mapped as	position	submitter
Consensus Stein2006	Barley	6	GBR0284	36.6 cm	Dr. Nils Stein
Igri x Franka	Barley	6	GBR0284	28.5 cm	Dr. Nils Stein

Related to Sequence, correspondig to BioObject: HW06C05

Sequence: HW06C05u

submitter of sequence:	Dr. Wolfgang Michalek
length:	467
priming:	3-prime
EBI-Id:	HVUL02837
GenBankAc:	AL501995
IPK CR-EST:	HW06C05u

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.

HW06C05u
TTTTTTTTTT TTTTTTTTAC GGATAATTCA TAGCGGAGTT CATCTCATTC ATTCAAACGG         60
TAACAGACAA GGGAAGATAA CCATGGCGGC CGGACGCAGA TCCAGCAGCC TAAAGAGTCC        120
ACCTAAAACC CTCCTAAACC AACCACGGAG ATCTCATCGG ACGGACAGGG GCAAGACACG        180
ACACGACTTC TTATTTAGAC CGACGACACG ACAGGGGACA CATGGCACGA CGACGACGAC        240
GACGGGCGAG CGCGACGGGC GGACGGACCT AGAGCTGGCC GCAGTCGGCG ATGACGACCT        300
GCTTGGAGCA GATGCCGCTG CGGGAGCCCA CCTTCTCGAT GTTCTTGACG ACGTCCATGC        360
CCTCGACGAC CTCGCCGAAG ACCACGTGCT TGCCGTCGAG CCAATTGCAG GGGACGGTGC        420
AGATGAAGAA CTGGGAGCCG TTGGTGTTGG GCCCGGCGTT GGCCATG                      467

Type	Position	Orientation
ORF	83 - 466:	forward
ORF	291 - 467:	forward
ORF	465 - 157:	reverse
ORF	466 - 272:	reverse
ORF	467 - 198:	reverse

Cluster Info:
Contig13.1	(328 members)

view Blast Searches

Oryza sativa pep on 09-MAR-07
E-val	simil.	overlap	accno	description
01e-18	66	250	TIGR:LOC_Os05g01270.1	LOC_Os05g01270.1\|11975.m04668\|protein peptidyl-prolyl cis-trans isomerase, cyclophilin-type family protein, expressed
03e-17	65	220	TIGR:LOC_Os06g49480.2	LOC_Os06g49480.2\|11976.m09472\|protein Peptidyl-prolyl cis-trans isomerase 1, putative, expressed
03e-20	68	179	TIGR:LOC_Os09g39780.2	LOC_Os09g39780.2\|11979.m22203\|protein Peptidyl-prolyl cis-trans isomerase, putative, expressed
03e-20	68	179	TIGR:LOC_Os09g39780.1	LOC_Os09g39780.1\|11979.m06915\|protein Peptidyl-prolyl cis-trans isomerase, putative, expressed
01e-27	87	172	TIGR:LOC_Os02g02890.1	LOC_Os02g02890.1\|11972.m05639\|protein Peptidyl-prolyl cis-trans isomerase, putative, expressed
non redundant GenBank CDS translations \+ PDB \+ SwissProt \+ PIR on 09-MAR-07
E-val	simil.	overlap	accno	description
02e-26	87	172	GenBankAc:XP_463914.1	ref\|XP_463914.1\| peptidylprolyl isomerase Cyp2 [Oryza sativa (japonica cultivar-group)] ref\|XP_506694.1\| PREDICTED OSJNBb0088N06.23 gene product [Oryza sativa (japonica cultivar-group)] dbj\|BAD07601.1\| peptidylprolyl isomerase Cyp2 [Oryza sativa (japonica cultivar-group)] dbj\|BAD08141.1\| peptidylprolyl isomerase Cyp2 [Oryza sativa (japonica cultivar-group)] gb\|AAA57045.1\| cyclophilin 2
09e-26	87	172	GenBankAc:AAA57046.1	gb\|AAA57046.1\| cyclophilin 2
03e-23	81	172	GenBankAc:CAA48638.1	emb\|CAA48638.1\| cyclophilin [Zea mays] sp\|P21569\|CYPH_MAIZE Peptidyl-prolyl cis-trans isomerase (PPIase) (Rotamase) (Cyclophilin) (Cyclosporin A-binding protein) gb\|AAA63403.1\| cyclophilin
03e-31	98	171	GenBankAc:AAK49427.1	gb\|AAK49427.1\| cyclophilin A-2 [Triticum aestivum] gb\|AAS17067.1\| cyclophilin A [Triticum aestivum]
03e-31	98	101	GenBankAc:AAS17069.1	gb\|AAS17069.1\| cyclophilin A [Triticum aestivum] gb\|AAS17068.1\| cyclophilin A [Triticum aestivum]
All nt+env_nt+patnt+pdbnt on 31-MAR-10 gave no results
UniProt 15.12 UniRef100 on 28-DEC-09 gave no results
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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