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

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Marker (RFLP): GBR1460

Related with

HB03O23

cDNA clone

Mapping Info
map	species	chr.	mapped as	position	submitter
Consensus Stein2006	Barley	5	GBR1460	94 cm	Dr. Nils Stein
Dom x Rec	Barley	5	GBR1460	108.2 cm	Dr. Nils Stein

Related to Sequence, correspondig to BioObject: HB03O23

Sequence: HB03O23r

submitter of sequence:	Dr. Nils Stein
length:	593
priming:	5-prime
GenBankAc:	BU967322
IPK CR-EST:	HB03O23r

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.

HB03O23r
CGGCACGAGG ACGAGCTCTC CGTGCTCTGC GATGCCGAGG TCGCCCTCAT CATCTTCTCC         60
AACCGCGGCA AGCTCTACGA GTTCTGCAGC GGCCAGAGCA TGCCCAAAAC ACTTGAGAGA        120
TACCAAAAAT GCAGTTATGG TGGGCCAGAT ACAGCAATAC AAAATAAGGA GAATGAGTTA        180
GTGCAGAGCA GTCGAAACGA GTACCTCAAA CTGAAAGCAC GAGTGGAGAA TTTGCAGAGA        240
ACTCAACGAA ATTTGCTTGG CGAAGATCTC GGGTCACTTG GCATCAAAGA TCTTGAGCAG        300
CTCGAAAAGC AACTTGATTC ATCCTTGAGG CACATAAGAT CCACAAGGAC ACAGCATATG        360
CTTGACCAGC TCACTGATCT CCAGAGGAAG GAACAAATGC TGTCTGAAGC AAATAAGTGC        420
CTTCGAAGAA AACTGGAGGA GAGCAGCCAG CAGATGCAGG GCCAAATGTG GGAGCAGCAT        480
GCCGCCAACT TGCTCGGCTA CGACCATCTG CGACAGTCCC CGCACCAGCA GCAGGCGCAA        540
CACCACGGCG GCAACGGCTT CTTTCACCCC CTGGACCCTA CCACTGAGCC TAC               593

Type	Position	Orientation
ORF	2 - 178:	forward
ORF	3 - 113:	forward
ORF	100 - 591:	forward
ORF	335 - 246:	reverse
ORF	479 - 592:	forward
ORF	591 - 322:	reverse

Cluster Info:
Contig315.3	(30 members)

view Blast Searches

Oryza sativa pep on 09-MAR-07
E-val	simil.	overlap	accno	description
01e-64	64	310	TIGR:LOC_Os08g41950.1	LOC_Os08g41950.1\|11978.m08173\|protein SRF-type transcription factor family protein, expressed
01e-40	59	257	TIGR:LOC_Os03g11614.1	LOC_Os03g11614.1\|11973.m06613\|protein Developmental protein SEPALLATA1, putative, expressed
06e-70	78	249	TIGR:LOC_Os08g41950.2	LOC_Os08g41950.2\|11978.m26533\|protein SRF-type transcription factor family protein, expressed
04e-79	89	248	TIGR:LOC_Os09g32948.1	LOC_Os09g32948.1\|11979.m06382\|protein Agamous-like MADS box protein AGL9 homolog, putative, expressed
07e-39	59	225	TIGR:LOC_Os06g06750.1	LOC_Os06g06750.1\|11976.m05400\|protein Agamous-like MADS box protein AGL9 homolog, putative, expressed
non redundant GenBank CDS translations \+ PDB \+ SwissProt \+ PIR on 09-MAR-07
E-val	simil.	overlap	accno	description
01e-68	78	249	GenBankAc:XP_483487.1	ref\|XP_483487.1\| MADS box protein [Oryza sativa (japonica cultivar-group)] dbj\|BAD11642.1\| MADS box protein [Oryza sativa (japonica cultivar-group)] sp\|Q6Q9I1\|MADS7_ORYSA MADS-box transcription factor 7 (OsMADS7) (Protein AGAMOUS-like 6) (MADS-box protein 45) (OsMADS45) (FDRMADS1) (RMADS216) gb\|AAB50180.1\| MADS box protein
09e-78	89	248	GenBankAc:Q9SAR1	sp\|Q9SAR1\|MADS8_ORYSA MADS-box transcription factor 8 (OsMADS8) (MADS-box protein 24) (OsMADS24) gb\|AAC49817.1\| MADS box protein [Oryza sativa]
02e-68	77	238	GenBankAc:AAD38370.1	gb\|AAD38370.1\| MADS-box protein FDRMADS1 [Oryza sativa]
09e-78	89	237	GenBankAc:AAB53193.1	gb\|AAB53193.1\| MADS box protein
01e-80	83	223	GenBankAc:AAO45880.1	gb\|AAO45880.1\| MADS8 [Lolium perenne]
All nt+env_nt+patnt+pdbnt on 31-MAR-10
E-val	simil.	overlap	accno	description
00e1	100	583	GenBankAc:EU557048.1	Hordeum vulgare MIKC-type MADS-box transcription factor WM10A mRNA, complete cds
00e1	97.3	583	GenBankAc:EA164633.1	Sequence 28948 from patent US 7214786
00e1	96.6	583	GenBankAc:AF543316.1	Triticum aestivum MADS box protein (MADS) mRNA, complete cds
00e1	95.9	583	GenBankAc:AM502876.1	Triticum aestivum mRNA for MIKC-type MADS-box transcription factor WM10B (WM10B gene)
00e1	96.6	580	GenBankAc:AM502875.1	Triticum aestivum mRNA for MIKC-type MADS-box transcription factor WM10A (WM10A gene)
01e-144	89.1	466	GenBankAc:XM_002460446.1	Sorghum bicolor hypothetical protein, mRNA
01e-136	88.4	466	GenBankAc:BT087942.1	Zea mays full-length cDNA clone ZM_BFb0323H23 mRNA, complete cds
01e-136	88.4	466	GenBankAc:GP653475.1	Sequence 61479 from patent US 7560542
01e-136	88.4	466	GenBankAc:CS485556.1	Sequence 239 from Patent WO2006032707
01e-136	88.4	466	GenBankAc:NM_001112055.1	Zea mays m27 protein (m27), mRNAemb\|AJ430694.1\| Zea mays mRNA for putative MADS-domain transcription factor (m27 gene)
01e-134	88.2	466	GenBankAc:BT033398.1	Zea mays full-length cDNA clone ZM_BFb0100K01 mRNA, complete cds
01e-127	87.6	466	GenBankAc:Y09302.1	Z.mays mRNA for putative MADS-domain transcription factor, ZMM7
01e-105	85.6	466	GenBankAc:EU960801.1	Zea mays clone 228740 MADS-box transcription factor 8 mRNA, complete cds
01e-105	85.6	466	GenBankAc:BT038301.1	Zea mays full-length cDNA clone ZM_BFb0224N09 mRNA, complete cds
01e-105	85.6	466	GenBankAc:GP644998.1	Sequence 53002 from patent US 7560542
01e-158	90.7	454	GenBankAc:AY198333.1	Lolium perenne MADS8 mRNA, partial cds
00e1	96	453	GenBankAc:AJ577376.1	Triticum aestivum partial mRNA for putative MADS-box protein
01e-148	90.2	440	GenBankAc:AY827469.1	Pharus virescens MADS box transcription factor mRNA, partial cds
01e-145	90	440	GenBankAc:HB446826.1	Sequence 249 from Patent EP2078753
01e-145	90	440	GenBankAc:AR088958.1	Sequence 16 from patent US 5990386
01e-145	90	440	GenBankAc:NM_001070148.1	Oryza sativa (japonica cultivar-group) Os09g0507200 (Os09g0507200) mRNA, complete cds
01e-145	90	440	GenBankAc:AK072867.1	Oryza sativa Japonica Group cDNA clone:J023143P16, full insert sequence
01e-145	90	440	GenBankAc:U78892.1	Oryza sativa MADS box protein (OsMADS8) mRNA, complete cds
01e-145	90	440	GenBankAc:U32109.1	Oryza sativa putative MADS box protein (OsMADS24) mRNA, partial cds
08e-76	83.4	440	GenBankAc:EU959867.1	Zea mays clone 220179 SRF-type transcription factor family protein mRNA, complete cds
08e-76	83.4	440	GenBankAc:EU960711.1	Zea mays clone 227805 SRF-type transcription factor family protein mRNA, complete cds
02e-73	83.2	440	GenBankAc:AY104331.1	Zea mays PCO155219 mRNA sequence
02e-73	83.2	440	GenBankAc:NM_001111683.1	Zea mays Zea mays MADS6 (zmm6), mRNAemb\|AJ430692.1\| Zea mays mRNA for putative MADS-domain transcription factor (m6 gene)
02e-73	83.2	440	GenBankAc:BT033360.1	Zea mays full-length cDNA clone ZM_BFb0092L03 mRNA, complete cds
02e-73	83.2	440	GenBankAc:BT042605.1	Zea mays full-length cDNA clone ZM_BFb0367C04 mRNA, complete cds
02e-73	83.2	440	GenBankAc:XM_002445769.1	Sorghum bicolor hypothetical protein, mRNA
02e-73	83.2	440	GenBankAc:AX658834.1	Sequence 107 from Patent WO03000904
02e-73	83.2	440	GenBankAc:CS485726.1	Sequence 409 from Patent WO2006032707
02e-73	83.2	440	GenBankAc:CS485738.1	Sequence 421 from Patent WO2006032707
02e-73	83.2	440	GenBankAc:CS485780.1	Sequence 463 from Patent WO2006032707
02e-73	83.2	440	GenBankAc:CS485812.1	Sequence 495 from Patent WO2006032707
02e-73	83.2	440	GenBankAc:GP454593.1	Sequence 5545 from patent US 7550578
05e-71	83	440	GenBankAc:CS485688.1	Sequence 371 from Patent WO2006032707
05e-71	83	440	GenBankAc:CS485842.1	Sequence 525 from Patent WO2006032707
02e-42	80.2	440	GenBankAc:AY541068.1	Hordeum vulgare subsp. vulgare AGAMOUS LIKE9-like protein mRNA, complete cds
02e-42	80.2	440	GenBankAc:AK249904.1	Hordeum vulgare subsp. vulgare cDNA clone: FLbaf59h02, mRNA sequence
02e-42	80.2	440	GenBankAc:AJ249147.1	Hordeum vulgare mRNA for MADS-box protein 9 (m9 gene)
01e-37	79.8	440	GenBankAc:AB295661.1	Triticum aestivum WSEP-D mRNA for MADS-box protein, complete cds
01e-37	79.8	440	GenBankAc:EA164634.1	Sequence 28949 from patent US 7214786
03e-35	79.5	440	GenBankAc:AB295659.1	Triticum aestivum WSEP-A mRNA for MADS-box protein, complete cds
03e-35	79.5	440	GenBankAc:DQ512334.1	Triticum aestivum MADS-box transcription factor TaAGL16 (AGL16) mRNA, complete cds
03e-35	79.5	440	GenBankAc:DQ512348.1	Triticum aestivum MADS-box transcription factor TaAGL30 (AGL30) mRNA, complete cds
01e-126	88.8	437	GenBankAc:U49734.1	Sorghum bicolor MADS box transcription factor SbMADS1 mRNA, complete cds
09e-45	81	436	GenBankAc:HC060204.1	Sequence 181 from Patent WO2009127443
09e-45	81	436	GenBankAc:U31994.1	Oryza sativa MADS box protein OsMADS45 mRNA, complete cds
09e-45	81	436	GenBankAc:AK100263.1	Oryza sativa Japonica Group cDNA clone:J023063L04, full insert sequence
09e-45	81	436	GenBankAc:U78891.2	Oryza sativa MADS box protein (MADS7) mRNA, complete cds
09e-45	81	436	GenBankAc:HB446778.1	Sequence 201 from Patent EP2078753
02e-42	80.7	436	GenBankAc:AF141966.1	Oryza sativa MADS-box protein FDRMADS1 mRNA, partial cds
02e-42	80.7	436	GenBankAc:Y15008.1	Oryza sativa mRNA for M79 protein
05e-40	80.5	436	GenBankAc:AY332477.1	Oryza sativa (japonica cultivar-group) MADS box protein (AGL6) mRNA, complete cds
01e-37	80.3	436	GenBankAc:HB446824.1	Sequence 247 from Patent EP2078753
01e-37	80.3	436	GenBankAc:AR088957.1	Sequence 14 from patent US 5990386
08e-42	80.2	435	GenBankAc:AB295660.1	Triticum aestivum WSEP-B mRNA for MADS-box protein, complete cds
02e-39	80	435	GenBankAc:DQ512345.1	Triticum aestivum MADS-box transcription factor TaAGL28 (AGL28) mRNA, complete cds
02e-39	80	435	GenBankAc:AM502877.1	Triticum aestivum mRNA for MIKC-type MADS-box transcription factor WM11 (WM11 gene)
03e-32	79.3	435	GenBankAc:AY198330.1	Lolium perenne MADS5 mRNA, complete cds
01e-163	91.9	434	GenBankAc:AY599760.1	Dendrocalamus latiflorus MADS7 protein (MADS7) mRNA, complete cds
01e-163	91.9	434	GenBankAc:AY599758.1	Dendrocalamus latiflorus MADS5 protein (MADS5) mRNA, complete cds
01e-160	91.7	434	GenBankAc:AY599759.1	Dendrocalamus latiflorus MADS6 protein (MADS6) mRNA, complete cds
01e-160	91.7	434	GenBankAc:AY599757.1	Dendrocalamus latiflorus MADS4 protein (MADS4) mRNA, complete cds
01e-160	91.7	434	GenBankAc:AY599756.1	Dendrocalamus latiflorus MADS3 protein (MADS3) mRNA, complete cds
00e1	96.5	430	GenBankAc:GP460258.1	Sequence 1679 from patent US 7553954
01e-74	84.9	370	GenBankAc:GP668328.1	Sequence 76332 from patent US 7560542
05e-43	81.3	369	GenBankAc:GP207410.1	Sequence 1239 from patent US 7491806
05e-43	81.3	369	GenBankAc:GP625569.1	Sequence 33573 from patent US 7560542
07e-95	87.5	368	GenBankAc:GP645715.1	Sequence 53719 from patent US 7560542
02e-95	87.9	356	GenBankAc:CS485574.1	Sequence 257 from Patent WO2006032707
02e-95	87.9	356	GenBankAc:CS485504.1	Sequence 187 from Patent WO2006032707
02e-95	87.9	356	GenBankAc:CS485474.1	Sequence 157 from Patent WO2006032707
02e-95	87.9	356	GenBankAc:CS485430.1	Sequence 113 from Patent WO2006032707
02e-95	87.9	356	GenBankAc:CS485458.1	Sequence 141 from Patent WO2006032707
07e-67	84.6	356	GenBankAc:CS485496.1	Sequence 179 from Patent WO2006032707
07e-67	84.6	356	GenBankAc:CS485746.1	Sequence 429 from Patent WO2006032707
07e-67	84.6	356	GenBankAc:CS485778.1	Sequence 461 from Patent WO2006032707
08e-39	81.1	354	GenBankAc:EU973326.1	Zea mays clone 396793 mRNA sequence
01e-71	85.2	345	GenBankAc:GP523241.1	Sequence 9716 from patent US 7572902
06e-55	83.4	337	GenBankAc:GP529007.1	Sequence 15482 from patent US 7572902
01e-31	80.5	334	GenBankAc:BT054676.1	Zea mays full-length cDNA clone ZM_BFb0066P18 mRNA, complete cds
05e-28	79.9	334	GenBankAc:EU975356.1	Zea mays clone 488482 mRNA sequence
01e-87	87.7	332	GenBankAc:BT068998.1	Zea mays full-length cDNA clone ZM_BFb0114O07 mRNA, complete cds
01e-77	87.1	311	GenBankAc:GP640540.1	Sequence 48544 from patent US 7560542
01e-77	87.1	311	GenBankAc:GP207334.1	Sequence 1163 from patent US 7491806
01e-148	96.8	309	GenBankAc:GP466057.1	Sequence 7478 from patent US 7553954
08e-73	86.8	303	GenBankAc:GP207335.1	Sequence 1164 from patent US 7491806
08e-73	86.8	303	GenBankAc:GP640541.1	Sequence 48545 from patent US 7560542
UniProt 15.12 UniRef100 on 28-DEC-09
E-val	simil.	overlap	accno	description
03e-80	83.2	196	UniProt_UniRef:UniRef100_Q84U96	MADS8 (Fragment) n=1 Tax=Lolium perenne RepID=Q84U96_LOLPR
03e-77	81.4	194	UniProt_UniRef:UniRef100_Q6J550	MADS5 protein n=1 Tax=Dendrocalamus latiflorus RepID=Q6J550_9POAL
02e-95	92.2	193	UniProt_UniRef:UniRef100_B2CZ81	MIKC-type MADS-box transcription factor WM10A n=1 Tax=Hordeum vulgare RepID=B2CZ81_HORVU
07e-94	91.2	193	UniProt_UniRef:UniRef100_Q718F3	MADS box protein n=1 Tax=Triticum aestivum RepID=Q718F3_WHEAT
04e-92	89.1	193	UniProt_UniRef:UniRef100_A9J1Y2	MIKC-type MADS-box transcription factor WM10A n=1 Tax=Triticum aestivum RepID=A9J1Y2_WHEAT
04e-90	88.1	193	UniProt_UniRef:UniRef100_A9J1Y3	MIKC-type MADS-box transcription factor WM10B n=1 Tax=Triticum aestivum RepID=A9J1Y3_WHEAT
06e-79	79.3	193	UniProt_UniRef:UniRef100_C5X4Q5	Putative uncharacterized protein Sb02g029310 n=1 Tax=Sorghum bicolor RepID=C5X4Q5_SORBI
06e-79	79.3	193	UniProt_UniRef:UniRef100_Q84V68	Putative uncharacterized protein n=1 Tax=Zea mays RepID=Q84V68_MAIZE
02e-78	78.8	193	UniProt_UniRef:UniRef100_B4F8G0	Putative uncharacterized protein n=1 Tax=Zea mays RepID=B4F8G0_MAIZE
02e-77	89.4	170	UniProt_UniRef:UniRef100_B8BDB7	Putative uncharacterized protein n=1 Tax=Oryza sativa Indica Group RepID=B8BDB7_ORYSI
Oryza sativa japonica annotation TIGR 6.1 (cDNA)20091211 on 14-DEC-09
E-val	simil.	overlap	accno	description
01e-147	90	440	GabiPD:LOC_Os09g32948.1 TIGR:LOC_Os09g32948.1	LOC_Os09g32948.1\|protein OsMADS8 - MADS-box family gene with MIKCc type-box, expressed (TIGR 6.1)
UniGeneDec2009.fasta on 14-DEC-09
E-val	simil.	overlap	accno	description
00e1	99.5	583	GabiPD:Hv.547 unigene:Hv.547	Hv.547
01e-136	88.2	466	GabiPD:Zm.1703 unigene:Zm.1703	Zm.1703
01e-107	85.6	466	GabiPD:Zm.99961 unigene:Zm.99961	Zm.99961
01e-128	88.8	437	GabiPD:Sbi.13594 unigene:Sbi.13594	Sbi.13594
04e-65	84.3	343	GabiPD:Sof.12127 unigene:Sof.12127	Sof.12127
02e-33	80.5	334	GabiPD:Zm.13833 unigene:Zm.13833	Zm.13833

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