Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0000930

Physical Location & Seq

Genomic Coordinates Reverse (-)

47540566 .. 47546875

Gene Structure 6310 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG374500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 696 bp

ATGGCCTTGCAGCGTTTTGCTGCTGTCATAATGAGAATAAGGGAACCAAAAACTACAGCTTTGATTTTTGCCTCTGGGAAGATGGTATGCACAGGAGCCAAAAGTGAACAGCAATCAAAGCTGGCAGCAAGGAAGTATGCTCGAATTATCCAGAAGCTTGGTTTTCCCGCTAAGTTTAAGGATTTTAAGATTCAAAACATTGTTGCCTCATGTGATGTTAAATTCCCAATCAGACTTGAAGGTCTTGCATACTCCCATGGTGCCTTTTCAAGTTATGAGCCAGAACTTTTTCCTGGACTAATATATCGCATGAAGCAGCCCAAGATTGTTCTTCTCATATTTGTGTCGGGGAAAATTGTTATAACGGGTGCAAAGGTGAGAGATGACACGTACAAGGCTTTTGAGCTGATATACCCTGTCCTTACAGAGTTCAGGAAGGTCCAGCAATGGTATGAGCCTCCCCTCTTTCTTTTCTCATCCAGAAAATCCCAAATCGTTGCTCATTTCTTTTGTCTTATTTTATTTTATTTTATATCCATATTGCATCTGTTAGATCATACTTACATGTATCTCCTGTTGGTGGCAGACGCACATCTCAACGGAGCTCAAGGGCTGTTGTGGGCAATGCCTGCTGCAACATTTTTGCTTCTTTCTTGCATGGTGTTGAAGGCAGTAGATTTAGTTGTGAATACATAA

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

231

Amino Acids

26.26

Weight (kDa)

9.65

Isoelectric Point (pI)

37.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TBP	PF00352	4 - 53	7.8e-19	Transcription factor TFIID (or TATA-binding protein, TBP)
TBP	PF00352	61 - 144	1.4e-33	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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Align Labels (Cladogram)

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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)
AanI	TTATAA	1 cut(s)	362
AasI	GACNNNNNNGTC	1 cut(s)	240
AccB1I	GGYRCC	1 cut(s)	260
AciI	CCGC	1 cut(s)	168
AcsI	RAATTY	1 cut(s)	221
AfaI	GTAC	1 cut(s)	392
AfiI	CCNNNNNNNGG	1 cut(s)	580
AflIII	ACRYGT	2 cut(s)	387, 564
AgsI	TTSAA	4 cut(s)	194, 239, 270, 667
AjnI	CCWGG	1 cut(s)	292
AluBI	AGCT	5 cut(s)	59, 121, 157, 406, 605
AluI	AGCT	5 cut(s)	59, 121, 157, 406, 605
Alw21I	GWGCWC	1 cut(s)	607
AoxI	GGCC	1 cut(s)	3
ApeKI	GCWGC	5 cut(s)	10, 20, 125, 316, 632
ApoI	RAATTY	1 cut(s)	221
Asp700I	GAANNNNTTC	1 cut(s)	288
AspS9I	GGNCC	1 cut(s)	439
AsuHPI	GGTGA	1 cut(s)	388
AvaII	GGWCC	1 cut(s)	439
BanI	GGYRCC	1 cut(s)	260
BanII	GRGCYC	1 cut(s)	607
Bbv12I	GWGCWC	1 cut(s)	607
BbvI	GCAGC	5 cut(s)	7, 22, 137, 328, 619
BccI	CCATC	1 cut(s)	76
BciT130I	CCWGG	1 cut(s)	294
BfmI	CTRYAG	1 cut(s)	54
BisI	GCNGC	5 cut(s)	11, 21, 126, 317, 633
BlsI	GCNGC	5 cut(s)	12, 22, 127, 318, 634
Bme1390I	CCNGG	1 cut(s)	294
Bme18I	GGWCC	1 cut(s)	439
BmgT120I	GGNCC	1 cut(s)	439
BmiI	GGNNCC	3 cut(s)	45, 97, 262
BmrFI	CCNGG	1 cut(s)	294
BmsI	GCATC	1 cut(s)	553
BpuEI	CTTGAG	1 cut(s)	591
BsaAI	YACGTR	1 cut(s)	390
BsaJI	CCNNGG	1 cut(s)	256
Bsc4I	CCNNNNNNNGG	1 cut(s)	580
Bse3DI	GCAATG	2 cut(s)	452, 630
BseBI	CCWGG	1 cut(s)	294
BseDI	CCNNGG	1 cut(s)	256
BseGI	GGATG	1 cut(s)	476
BseLI	CCNNNNNNNGG	1 cut(s)	580
BseMI	GCAATG	2 cut(s)	452, 630
BseXI	GCAGC	5 cut(s)	7, 22, 137, 328, 619
BshFI	GGCC	1 cut(s)	5
BshNI	GGYRCC	1 cut(s)	260
BsiHKAI	GWGCWC	1 cut(s)	607
BslI	CCNNNNNNNGG	1 cut(s)	580
BsnI	GGCC	1 cut(s)	5
Bsp1286I	GDGCHC	1 cut(s)	607
Bsp143I	GATC	1 cut(s)	553
Bsp19I	CCATGG	1 cut(s)	256
BspACI	CCGC	1 cut(s)	168
BspANI	GGCC	1 cut(s)	5
BspLI	GGNNCC	3 cut(s)	45, 97, 262
BspT107I	GGYRCC	1 cut(s)	260
BsrDI	GCAATG	2 cut(s)	452, 630
BssECI	CCNNGG	1 cut(s)	256
BssMI	GATC	1 cut(s)	553
BssT1I	CCWWGG	1 cut(s)	256
Bst2UI	CCWGG	1 cut(s)	294
BstAPI	GCANNNNNTGC	1 cut(s)	629
BstBAI	YACGTR	1 cut(s)	390
BstC8I	GCNNGC	2 cut(s)	123, 630
BstDEI	CTNAG	1 cut(s)	171
BstDSI	CCRYGG	1 cut(s)	256
BstF5I	GGATG	1 cut(s)	476
BstKTI	GATC	1 cut(s)	556
BstMBI	GATC	1 cut(s)	553
BstMWI	GCNNNNNNNGC	2 cut(s)	118, 629
BstNI	CCWGG	1 cut(s)	294
BstNSI	RCATGY	1 cut(s)	568
BstSCI	CCNGG	1 cut(s)	292
BstSFI	CTRYAG	1 cut(s)	54
BstV1I	GCAGC	5 cut(s)	7, 22, 137, 328, 619
BstXI	CCANNNNNNTGG	1 cut(s)	158
BsuRI	GGCC	1 cut(s)	5
BtgI	CCRYGG	1 cut(s)	256
BtsCI	GGATG	1 cut(s)	476
Cac8I	GCNNGC	2 cut(s)	123, 630
Cfr13I	GGNCC	1 cut(s)	439
CseI	GACGC	1 cut(s)	596
Csp6I	GTAC	1 cut(s)	391
CviAII	CATG	5 cut(s)	210, 257, 310, 565, 658
CviQI	GTAC	1 cut(s)	391
DdeI	CTNAG	1 cut(s)	171
DpnI	GATC	1 cut(s)	555
DpnII	GATC	1 cut(s)	553
DrdI	GACNNNNNNGTC	1 cut(s)	240
DseDI	GACNNNNNNGTC	1 cut(s)	240
Ecl136II	GAGCTC	1 cut(s)	605
Eco130I	CCWWGG	1 cut(s)	256
Eco24I	GRGCYC	1 cut(s)	607
Eco47I	GGWCC	1 cut(s)	439
Eco53kI	GAGCTC	1 cut(s)	605
EcoICRI	GAGCTC	1 cut(s)	605
EcoRII	CCWGG	1 cut(s)	292
EcoT14I	CCWWGG	1 cut(s)	256
EcoT38I	GRGCYC	1 cut(s)	607
ErhI	CCWWGG	1 cut(s)	256
FaeI	CATG	5 cut(s)	213, 260, 313, 568, 661
FatI	CATG	5 cut(s)	209, 256, 309, 564, 657
FauI	CCCGC	1 cut(s)	175
Fnu4HI	GCNGC	5 cut(s)	11, 21, 126, 317, 633
FokI	GGATG	1 cut(s)	463
FriOI	GRGCYC	1 cut(s)	607
Fsp4HI	GCNGC	5 cut(s)	11, 21, 126, 317, 633
GluI	GCNGC	5 cut(s)	11, 21, 126, 317, 633
HaeIII	GGCC	1 cut(s)	5
HgaI	GACGC	1 cut(s)	596
Hin1II	CATG	5 cut(s)	213, 260, 313, 568, 661
HindIII	AAGCTT	1 cut(s)	155
HinfI	GANTC	1 cut(s)	190
HphI	GGTGA	1 cut(s)	388
Hpy166II	GTNNAC	1 cut(s)	107
Hpy188I	TCNGA	1 cut(s)	233
Hpy188III	TCNNGA	3 cut(s)	151, 433, 480
Hpy8I	GTNNAC	1 cut(s)	107
HpyAV	CCTTC	3 cut(s)	233, 430, 661
HpyCH4IV	ACGT	1 cut(s)	389
HpyCH4V	TGCA	7 cut(s)	10, 90, 248, 371, 544, 635, 657
HpyF10VI	GCNNNNNNNGC	2 cut(s)	118, 629
HpyF3I	CTNAG	1 cut(s)	171
HpySE526I	ACGT	1 cut(s)	389
Hsp92II	CATG	5 cut(s)	213, 260, 313, 568, 661
Kzo9I	GATC	1 cut(s)	553
LmnI	GCTCC	2 cut(s)	95, 602
Lsp1109I	GCAGC	5 cut(s)	7, 22, 137, 328, 619
LweI	GCATC	1 cut(s)	553
MaeII	ACGT	1 cut(s)	389
MalI	GATC	1 cut(s)	555
MboI	GATC	1 cut(s)	553
MboII	GAAGA	2 cut(s)	91, 323
MhlI	GDGCHC	1 cut(s)	607
MluCI	AATT	3 cut(s)	144, 221, 354
MnlI	CCTC	4 cut(s)	82, 217, 468, 473
MroXI	GAANNNNTTC	1 cut(s)	288
MseI	TTAA	3 cut(s)	177, 186, 219
MslI	CAYNNNNRTG	1 cut(s)	341
MspR9I	CCNGG	1 cut(s)	294
MvaI	CCWGG	1 cut(s)	294
MwoI	GCNNNNNNNGC	2 cut(s)	118, 629
NcoI	CCATGG	1 cut(s)	256
NdeII	GATC	1 cut(s)	553
NlaIII	CATG	5 cut(s)	213, 260, 313, 568, 661
NlaIV	GGNNCC	3 cut(s)	45, 97, 262
NspI	RCATGY	1 cut(s)	568
PciI	ACATGT	1 cut(s)	564
PdmI	GAANNNNTTC	1 cut(s)	288
PfeI	GAWTC	1 cut(s)	190
PfoI	TCCNGGA	1 cut(s)	292
PkrI	GCNGC	5 cut(s)	12, 22, 127, 318, 634
Ppu21I	YACGTR	1 cut(s)	390
PscI	ACATGT	1 cut(s)	564
PsiI	TTATAA	1 cut(s)	362
Psp124BI	GAGCTC	1 cut(s)	607
Psp6I	CCWGG	1 cut(s)	292
PspGI	CCWGG	1 cut(s)	292
PspN4I	GGNNCC	3 cut(s)	45, 97, 262
PspPI	GGNCC	1 cut(s)	439
RsaI	GTAC	1 cut(s)	392
RsaNI	GTAC	1 cut(s)	391
RseI	CAYNNNNRTG	1 cut(s)	341
SacI	GAGCTC	1 cut(s)	607
SaqAI	TTAA	3 cut(s)	177, 186, 219
SatI	GCNGC	5 cut(s)	11, 21, 126, 317, 633
Sau3AI	GATC	1 cut(s)	553
Sau96I	GGNCC	1 cut(s)	439
ScrFI	CCNGG	1 cut(s)	294
SduI	GDGCHC	1 cut(s)	607
SetI	ASST	9 cut(s)	61, 123, 159, 244, 378, 392, 408, 441, 607
SfaNI	GCATC	1 cut(s)	553
SfcI	CTRYAG	1 cut(s)	54
SinI	GGWCC	1 cut(s)	439
SmiMI	CAYNNNNRTG	1 cut(s)	341
SmlI	CTYRAG	1 cut(s)	606
SmoI	CTYRAG	1 cut(s)	606
Sse9I	AATT	3 cut(s)	144, 221, 354
SsiI	CCGC	1 cut(s)	168
SstI	GAGCTC	1 cut(s)	607
StyD4I	CCNGG	1 cut(s)	292
StyI	CCWWGG	1 cut(s)	256
TaiI	ACGT	1 cut(s)	392
TaqI	TCGA	1 cut(s)	142
TasI	AATT	3 cut(s)	144, 221, 354
TfiI	GAWTC	1 cut(s)	190
Tru1I	TTAA	3 cut(s)	177, 186, 219
Tru9I	TTAA	3 cut(s)	177, 186, 219
TseI	GCWGC	5 cut(s)	10, 20, 125, 316, 632
TspDTI	ATGAA	1 cut(s)	326
TspGWI	ACGGA	1 cut(s)	615
VpaK11BI	GGWCC	1 cut(s)	439
XapI	RAATTY	1 cut(s)	221
XceI	RCATGY	1 cut(s)	568
XmnI	GAANNNNTTC	1 cut(s)	288

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