Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0000930

Physical Location & Seq

Genomic Coordinates Forward (+)

1086700 .. 1090078

Gene Structure 3379 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00000660.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 741 bp

ATGGCAGAACAAGGGTTGGAGGGCAGCGGAAGCCAACCTGTAGATCTCAAGCAACATCCTTCTGGGATCGTCCCTACTCTTCAGTCGTGTAGGAATATTGTTTCCACAGTCAATTTGGACTGCAAATTGGATCTTAAGGCCATTGCGTTGCAAGCTCGTAATGCAGAATACAATCCCAAGGCATGTGATGTTCGTTTTGCAGCTGTGATTATGAGAATAAGAGAACCGAAAACTACTGCACTGATATTTGCATCTGGTAAAATGGTTTGTACAGGAGCTAAGAGTGAAGTACAATCGAAATTGGCAGCACGGAAGTATGCTCGAATCATTCAGAAACTTGGTTTTCCTGCCAAGTTCAAGGACTTTAAAATCCAGAACATAGTTGGTTCTTGTGATGTTAAATTCCCCATAAGACTCGAAGGTCTGGCATATTCCCACGGTGCCTTCTCAAGTTATGAACCAGAACTGTTCCCTGGCTTGATTTATCGAATGAAGCAACCAAAGATTGTGCTTCTTATCTTTGTGTCTGGAAAAATTGTTCTCACAGGAGCAAAGGTAAGAGGTGAGACATACGAAGCCTTTGAGAACATATACCCAGTTCTTACAGAATTCAGAAAAAAATCAGCAGTGATTAGTATTGGGAAGAACCAAGGTACAATTGTGTTTCAGGAAGGTCTTCCAAGAAGTATGGAAATGTGGAAATGGAATGCACAGGGGTTGAATTGGATTGTAAATAAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko03022 ko05016 ko05165 ko05166 ko05168 ko05169 ko05203 map03022 map05016 map05165 map05166 map05168 map05169 map05203

Pfam Domains

Protein Families

TBP

Protein Analysis

246

Amino Acids

27.36

Weight (kDa)

9.69

Isoelectric Point (pI)

38.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TBP	PF00352	30 - 113	3.1e-29	Transcription factor TFIID (or TATA-binding protein, TBP)
TBP	PF00352	121 - 204	2.4e-32	Transcription factor TFIID (or TATA-binding protein, TBP)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0000930)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55520 AT1G55520 AT1G55520 AT1G55520 AT3G13445 AT3G13445
fragaria_vesca	FvH4_1g28010 FvH4_1g28010 FvH4_1g28010 FvH4_1g28010 FvH4_1g28010 FvH4_1g28010 FvH4_1g28010 FvH4_3g32401 FvH4_3g32450 FvH4_3g45850 FvH4_3g45850 FvH4_4g21060 FvH4_6g12030
malus_domestica	MD03G1002100.v1.1 MD11G1002100.v1.1 MD12G1002700.v1.1 MD12G1176800.v1.1 MD14G1002000.v1.1
prunus_persica	Prupe.6G001900_v2.0.a1 Prupe.6G001900_v2.0.a1 Prupe.6G001900_v2.0.a1 Prupe.6G001900_v2.0.a1 Prupe.6G001900_v2.0.a1 Prupe.7G002800_v2.0.a1 Prupe.7G002800_v2.0.a1
pyrus_communis	pycom11g00190 pycom12g16680
rosa_chinensis	RchiOBHm_Chr3g0463861 RchiOBHm_Chr3g0497421 RchiOBHm_Chr5g0083961
rosa_laevigata	RLG00000022465 RLG00000024749 RLG00000035285 RLG00000037068
rosa_multiflora	Rmu_sc0004796.1_g000003
rosa_roxburghii	Rroxscaffold_1G00000660 Rroxscaffold_6G00388060 Rroxscaffold_6G00416240
rosa_rugosa	Rorug03G0068600 Rorug03G0292900 Rorug05G0488000 Rorug05G0488100
rosa_samantha	Rh3AG125700 Rh3AG336400 Rh3BG129800 Rh3BG374500 Rh3CG132300 Rh3CG370600 Rh3DG130900 Rh3DG371500 Rh3DG372800 Rh5AG540800 Rh5BG565800 Rh5CG587700 Rh5DG574400
rosa_wichuraiana	Rw3G010610 Rw3G029570 Rw5G050290

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	420
AccB1I	GGYRCC	1 cut(s)	440
AciI	CCGC	1 cut(s)	27
AclWI	GGATC	2 cut(s)	74, 138
AcsI	RAATTY	2 cut(s)	401, 608
AcuI	CTGAAG	1 cut(s)	65
AfaI	GTAC	3 cut(s)	271, 291, 655
AflII	CTTAAG	1 cut(s)	134
AgsI	TTSAA	2 cut(s)	358, 721
AjnI	CCWGG	1 cut(s)	472
AloI	GAACNNNNNNTCC	2 cut(s)	522, 554
AluBI	AGCT	3 cut(s)	155, 203, 278
AluI	AGCT	3 cut(s)	155, 203, 278
Alw26I	GTCTC	1 cut(s)	560
AlwI	GGATC	2 cut(s)	74, 138
AoxI	GGCC	1 cut(s)	138
ApeKI	GCWGC	3 cut(s)	24, 200, 305
ApoI	RAATTY	2 cut(s)	401, 608
Asp700I	GAANNNNTTC	1 cut(s)	675
AsuHPI	GGTGA	1 cut(s)	575
BaeI	ACNNNNGTAYC	2 cut(s)	645, 678
BanI	GGYRCC	1 cut(s)	440
BbsI	GAAGAC	1 cut(s)	668
BbvI	GCAGC	3 cut(s)	36, 212, 317
BciT130I	CCWGG	1 cut(s)	474
BcoDI	GTCTC	1 cut(s)	560
BfmI	CTRYAG	1 cut(s)	39
BfrI	CTTAAG	1 cut(s)	134
BglII	AGATCT	1 cut(s)	43
BisI	GCNGC	3 cut(s)	25, 201, 306
BlsI	GCNGC	3 cut(s)	26, 202, 307
Bme1390I	CCNGG	1 cut(s)	474
BmiI	GGNNCC	1 cut(s)	442
BmrFI	CCNGG	1 cut(s)	474
BmrI	ACTGGG	1 cut(s)	590
BmsI	GCATC	1 cut(s)	260
BmuI	ACTGGG	1 cut(s)	590
BpiI	GAAGAC	1 cut(s)	668
BpuEI	CTTGAG	2 cut(s)	32, 433
BsaJI	CCNNGG	4 cut(s)	177, 436, 472, 649
BsaXI	ACNNNNNCTCC	2 cut(s)	540, 570
Bse1I	ACTGG	1 cut(s)	596
Bse3DI	GCAATG	1 cut(s)	141
BseBI	CCWGG	1 cut(s)	474
BseDI	CCNNGG	4 cut(s)	177, 436, 472, 649
BseGI	GGATG	1 cut(s)	55
BseMI	GCAATG	1 cut(s)	141
BseNI	ACTGG	1 cut(s)	596
BseXI	GCAGC	3 cut(s)	36, 212, 317
BsgI	GTGCAG	1 cut(s)	222
BshFI	GGCC	1 cut(s)	140
BshNI	GGYRCC	1 cut(s)	440
BslFI	GGGAC	1 cut(s)	56
BsmAI	GTCTC	1 cut(s)	560
BsmFI	GGGAC	1 cut(s)	56
BsmI	GAATGC	1 cut(s)	712
BsnI	GGCC	1 cut(s)	140
Bsp1407I	TGTACA	1 cut(s)	269
Bsp143I	GATC	3 cut(s)	43, 66, 130
BspACI	CCGC	1 cut(s)	27
BspANI	GGCC	1 cut(s)	140
BspLI	GGNNCC	1 cut(s)	442
BspPI	GGATC	2 cut(s)	74, 138
BspT107I	GGYRCC	1 cut(s)	440
BspTI	CTTAAG	1 cut(s)	134
BsrDI	GCAATG	1 cut(s)	141
BsrGI	TGTACA	1 cut(s)	269
BsrI	ACTGG	1 cut(s)	596
BssECI	CCNNGG	4 cut(s)	177, 436, 472, 649
BssMI	GATC	3 cut(s)	43, 66, 130
BssT1I	CCWWGG	2 cut(s)	177, 649
Bst2UI	CCWGG	1 cut(s)	474
Bst4CI	ACNGT	3 cut(s)	109, 440, 468
Bst6I	CTCTTC	1 cut(s)	84
BstAFI	CTTAAG	1 cut(s)	134
BstAUI	TGTACA	1 cut(s)	269
BstC8I	GCNNGC	1 cut(s)	153
BstDEI	CTNAG	1 cut(s)	279
BstDSI	CCRYGG	1 cut(s)	436
BstF5I	GGATG	1 cut(s)	55
BstKTI	GATC	3 cut(s)	46, 69, 133
BstMAI	GTCTC	1 cut(s)	560
BstMBI	GATC	3 cut(s)	43, 66, 130
BstMWI	GCNNNNNNNGC	3 cut(s)	30, 152, 161
BstNI	CCWGG	1 cut(s)	474
BstNSI	RCATGY	1 cut(s)	186
BstSCI	CCNGG	1 cut(s)	472
BstSFI	CTRYAG	1 cut(s)	39
BstV1I	GCAGC	3 cut(s)	36, 212, 317
BstV2I	GAAGAC	1 cut(s)	668
BstX2I	RGATCY	2 cut(s)	43, 130
BstYI	RGATCY	2 cut(s)	43, 130
BsuRI	GGCC	1 cut(s)	140
BtgI	CCRYGG	1 cut(s)	436
BtsCI	GGATG	1 cut(s)	55
BtsI	GCAGTG	1 cut(s)	633
BtsIMutI	CAGTG	2 cut(s)	239, 633
Cac8I	GCNNGC	1 cut(s)	153
Csp6I	GTAC	3 cut(s)	270, 290, 654
CviAII	CATG	1 cut(s)	183
CviJI	RGCY	7 cut(s)	33, 140, 155, 203, 278, 477, 578
CviKI_1	RGCY	7 cut(s)	33, 140, 155, 203, 278, 477, 578
CviQI	GTAC	3 cut(s)	270, 290, 654
DdeI	CTNAG	1 cut(s)	279
DpnI	GATC	3 cut(s)	45, 68, 132
DpnII	GATC	3 cut(s)	43, 66, 130
DraI	TTTAAA	1 cut(s)	367
DrdI	GACNNNNNNGTC	1 cut(s)	420
DseDI	GACNNNNNNGTC	1 cut(s)	420
Eam1104I	CTCTTC	1 cut(s)	84
EarI	CTCTTC	1 cut(s)	84
Eco130I	CCWWGG	2 cut(s)	177, 649
Eco57I	CTGAAG	1 cut(s)	65
EcoRI	GAATTC	1 cut(s)	608
EcoRII	CCWGG	1 cut(s)	472
EcoT14I	CCWWGG	2 cut(s)	177, 649
ErhI	CCWWGG	2 cut(s)	177, 649
FaeI	CATG	1 cut(s)	186
FaqI	GGGAC	1 cut(s)	56
FatI	CATG	1 cut(s)	182
Fnu4HI	GCNGC	3 cut(s)	25, 201, 306
FokI	GGATG	1 cut(s)	42
Fsp4HI	GCNGC	3 cut(s)	25, 201, 306
GluI	GCNGC	3 cut(s)	25, 201, 306
HaeIII	GGCC	1 cut(s)	140
Hin1II	CATG	1 cut(s)	186
HinfI	GANTC	2 cut(s)	324, 414
HphI	GGTGA	1 cut(s)	575
Hpy188I	TCNGA	2 cut(s)	333, 614
Hpy188III	TCNNGA	3 cut(s)	373, 528, 668
HpyAV	CCTTC	4 cut(s)	69, 413, 454, 665
HpyCH4III	ACNGT	3 cut(s)	109, 440, 468
HpyCH4V	TGCA	7 cut(s)	123, 151, 164, 200, 239, 251, 710
HpyF10VI	GCNNNNNNNGC	3 cut(s)	30, 152, 161
HpyF3I	CTNAG	1 cut(s)	279
Hsp92II	CATG	1 cut(s)	186
Kzo9I	GATC	3 cut(s)	43, 66, 130
LmnI	GCTCC	2 cut(s)	275, 548
Lsp1109I	GCAGC	3 cut(s)	36, 212, 317
LweI	GCATC	1 cut(s)	260
MalI	GATC	3 cut(s)	45, 68, 132
MboI	GATC	3 cut(s)	43, 66, 130
MboII	GAAGA	3 cut(s)	71, 655, 668
MfeI	CAATTG	1 cut(s)	657
MflI	RGATCY	2 cut(s)	43, 130
MluCI	AATT	8 cut(s)	112, 125, 299, 401, 534, 608, 657, 721
MlyI	GAGTC	1 cut(s)	408
MnlI	CCTC	2 cut(s)	13, 554
MroXI	GAANNNNTTC	1 cut(s)	675
MseI	TTAA	3 cut(s)	135, 366, 399
MspA1I	CMGCKG	2 cut(s)	27, 203
MspCI	CTTAAG	1 cut(s)	134
MspR9I	CCNGG	1 cut(s)	474
MunI	CAATTG	1 cut(s)	657
Mva1269I	GAATGC	1 cut(s)	712
MvaI	CCWGG	1 cut(s)	474
MwoI	GCNNNNNNNGC	3 cut(s)	30, 152, 161
NdeII	GATC	3 cut(s)	43, 66, 130
NlaIII	CATG	1 cut(s)	186
NlaIV	GGNNCC	1 cut(s)	442
NspI	RCATGY	1 cut(s)	186
PctI	GAATGC	1 cut(s)	712
PdmI	GAANNNNTTC	1 cut(s)	675
PfeI	GAWTC	1 cut(s)	324
PkrI	GCNGC	3 cut(s)	26, 202, 307
PleI	GAGTC	1 cut(s)	408
PpsI	GAGTC	1 cut(s)	408
Psp6I	CCWGG	1 cut(s)	472
PspGI	CCWGG	1 cut(s)	472
PspN4I	GGNNCC	1 cut(s)	442
PsuI	RGATCY	2 cut(s)	43, 130
PvuII	CAGCTG	1 cut(s)	203
RsaI	GTAC	3 cut(s)	271, 291, 655
RsaNI	GTAC	3 cut(s)	270, 290, 654
SaqAI	TTAA	3 cut(s)	135, 366, 399
SatI	GCNGC	3 cut(s)	25, 201, 306
Sau3AI	GATC	3 cut(s)	43, 66, 130
SchI	GAGTC	1 cut(s)	408
ScrFI	CCNGG	1 cut(s)	474
SetI	ASST	9 cut(s)	40, 157, 205, 280, 424, 558, 565, 655, 676
SfaNI	GCATC	1 cut(s)	260
SfcI	CTRYAG	1 cut(s)	39
SmlI	CTYRAG	3 cut(s)	47, 134, 448
SmoI	CTYRAG	3 cut(s)	47, 134, 448
Sse9I	AATT	8 cut(s)	112, 125, 299, 401, 534, 608, 657, 721
SsiI	CCGC	1 cut(s)	27
SspI	AATATT	1 cut(s)	97
StyD4I	CCNGG	1 cut(s)	472
StyI	CCWWGG	2 cut(s)	177, 649
TaaI	ACNGT	3 cut(s)	109, 440, 468
TaqI	TCGA	4 cut(s)	296, 322, 417, 487
TasI	AATT	8 cut(s)	112, 125, 299, 401, 534, 608, 657, 721
TatI	WGTACW	2 cut(s)	269, 289
TfiI	GAWTC	1 cut(s)	324
Tru1I	TTAA	3 cut(s)	135, 366, 399
Tru9I	TTAA	3 cut(s)	135, 366, 399
TscAI	CASTG	2 cut(s)	246, 633
TseI	GCWGC	3 cut(s)	24, 200, 305
TspDTI	ATGAA	2 cut(s)	471, 506
TspGWI	ACGGA	1 cut(s)	325
TspRI	CASTG	2 cut(s)	246, 633
Vha464I	CTTAAG	1 cut(s)	134
XapI	RAATTY	2 cut(s)	401, 608
XceI	RCATGY	1 cut(s)	186
XcmI	CCANNNNNNNNNTGG	2 cut(s)	112, 380
XmnI	GAANNNNTTC	1 cut(s)	675

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.