Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0001875

Physical Location & Seq

Genomic Coordinates Reverse (-)

58426078 .. 58429563

Gene Structure 3486 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG397300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 714 bp

ATGGAGAATTCTCTGCTCTGCTCTCTGCCTGTGAAACTTTTTGTAACTATGAAGCTTGAATGGCACGGAAAGATTATAGACACTGTTATAGAATTTCAGGCAAGGCCTTTGCTTGCACAAGCATTGGAAAAGGGAAACTTTGATGGTCTTGTTGATGCAAGGTTGCAGAATGATTACAACTCCAGCGAAATGGCTTGTATGGTTGCCAGCGCTGCTGCTTGTGTGCATCATTCTGCCTGCCGTCGGCCAAGAATGAGCCAGGATAGTTCGAGATTGAATGTATCTATTGTTCAGGTAGGTTATGCAAACATGAAGTTCTGTGTTCAAATGCAGCAGCAGCAGCTATACATCATGAAGCAGTTTCTCTGCGCAGTTTTCCTCTTCGGTCTCAATGTTGGAGGCCAGTGCTTTGGTTGCTCTGTGAAGGATATCTCAATTGAACAATCTCGGACGGGAAAGTCGGTCCAAAACAAGCCAGAATGGAATGTGACGATCGCGAATGGTTGCTCGTGTTCTCAATTGAATGTTAAACTAGGCTGCGATGGATTTCAAACTGTTGAAGACATTGATCCTTCCATTTTAAGTGTATCTGGTGGTGAGTGTCTGGTCAAGAATGGCCAACCTGTCTATGCCAATGGAGGTTTCAACTTCATCTATGCTTGGGACACTTCATTTTCTTTCAATCCAATCTCCTCCCAAATTGCTTGCTCCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

No domains found.

Protein Analysis

237

Amino Acids

26.03

Weight (kDa)

6.28

Isoelectric Point (pI)

48.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPD1_C	PF24068	141 - 233	1.8e-29	Tapetum determinant 1, C-terminal

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: OG0001875)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G32100 AT4G32105 AT4G32110
fragaria_vesca	FvH4_2g27480 FvH4_2g28690 FvH4_2g28701 FvH4_2g28710 FvH4_2g28712 FvH4_5g03660 FvH4_5g25410
malus_domestica	MD08G1079500.v1.1 MD08G1151500.v1.1 MD15G1128800.v1.1
prunus_persica	Prupe.1G484000_v2.0.a1 Prupe.1G484100_v2.0.a1
rosa_chinensis	RchiOBHm_Chr6g0286461 RchiOBHm_Chr6g0297461 RchiOBHm_Chr6g0297491
rosa_laevigata	RLG00000004068 RLG00000011592 RLG00000011595 RLG00000011596 RLG00000012570
rosa_multiflora	Rmu_sc0008467.1_g000015
rosa_roxburghii	Rroxscaffold_1G00001490 Rroxscaffold_7G00170440 Rroxscaffold_7G00170460
rosa_rugosa	Rorug06G0055900 Rorug06G0179800 Rorug06G0272400 Rorug06G0272600 Rorug07G0030000
rosa_samantha	Rh6AG383500 Rh6AG383600 Rh6AG383800 Rh6BG391700 Rh6BG392000 Rh6CG296400 Rh6CG397300 Rh6CG397700 Rh6DG288200 Rh6DG384200
rosa_wichuraiana	Rw6G025190 Rw6G033400 Rw6G033410 Rw6G033430

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	457
Acc16I	TGCGCA	1 cut(s)	370
AccII	CGCG	1 cut(s)	497
AclWI	GGATC	1 cut(s)	563
AcoI	YGGCCR	2 cut(s)	245, 616
AcsI	RAATTY	2 cut(s)	7, 92
AfeI	AGCGCT	1 cut(s)	211
AfiI	CCNNNNNNNGG	1 cut(s)	243
AgsI	TTSAA	9 cut(s)	59, 277, 326, 440, 523, 551, 560, 646, 682
AjnI	CCWGG	1 cut(s)	258
AjuI	GAANNNNNNNTTGG	2 cut(s)	626, 658
AluBI	AGCT	2 cut(s)	55, 343
AluI	AGCT	2 cut(s)	55, 343
Alw26I	GTCTC	1 cut(s)	392
AlwI	GGATC	1 cut(s)	563
Aor51HI	AGCGCT	1 cut(s)	211
AoxI	GGCC	4 cut(s)	104, 245, 400, 616
ApeKI	GCWGC	7 cut(s)	212, 215, 331, 334, 337, 340, 537
ApoI	RAATTY	2 cut(s)	7, 92
AspLEI	GCGC	2 cut(s)	212, 371
AspS9I	GGNCC	1 cut(s)	463
AsuHPI	GGTGA	1 cut(s)	608
AvaII	GGWCC	1 cut(s)	463
BalI	TGGCCA	1 cut(s)	618
BauI	CACGAG	1 cut(s)	508
BbsI	GAAGAC	1 cut(s)	567
BbvI	GCAGC	7 cut(s)	199, 202, 343, 346, 349, 352, 524
BccI	CCATC	2 cut(s)	137, 536
BceAI	ACGGC	1 cut(s)	225
BciT130I	CCWGG	1 cut(s)	260
BcoDI	GTCTC	1 cut(s)	392
BfaI	CTAG	1 cut(s)	533
BfoI	RGCGCY	1 cut(s)	213
BisI	GCNGC	7 cut(s)	213, 216, 332, 335, 338, 341, 538
BlsI	GCNGC	7 cut(s)	214, 217, 333, 336, 339, 342, 539
Bme1390I	CCNGG	1 cut(s)	260
Bme18I	GGWCC	1 cut(s)	463
BmgT120I	GGNCC	1 cut(s)	463
BmrFI	CCNGG	1 cut(s)	260
BmsI	GCATC	2 cut(s)	145, 235
BpiI	GAAGAC	1 cut(s)	567
BpmI	CTGGAG	1 cut(s)	166
BsaI	GGTCTC	1 cut(s)	392
Bsc4I	CCNNNNNNNGG	1 cut(s)	243
Bse1I	ACTGG	1 cut(s)	403
BseBI	CCWGG	1 cut(s)	260
BseLI	CCNNNNNNNGG	1 cut(s)	243
BseNI	ACTGG	1 cut(s)	403
BseRI	GAGGAG	1 cut(s)	682
BseXI	GCAGC	7 cut(s)	199, 202, 343, 346, 349, 352, 524
Bsh1236I	CGCG	1 cut(s)	497
Bsh1285I	CGRYCG	1 cut(s)	495
BshFI	GGCC	4 cut(s)	106, 247, 402, 618
BsiEI	CGRYCG	1 cut(s)	495
BslFI	GGGAC	1 cut(s)	677
BslI	CCNNNNNNNGG	1 cut(s)	243
BsmAI	GTCTC	1 cut(s)	392
BsmFI	GGGAC	1 cut(s)	677
BsnI	GGCC	4 cut(s)	106, 247, 402, 618
Bso31I	GGTCTC	1 cut(s)	392
Bsp143I	GATC	2 cut(s)	492, 568
Bsp68I	TCGCGA	1 cut(s)	497
BspANI	GGCC	4 cut(s)	106, 247, 402, 618
BspFNI	CGCG	1 cut(s)	497
BspHI	TCATGA	1 cut(s)	351
BspPI	GGATC	1 cut(s)	563
BspTNI	GGTCTC	1 cut(s)	392
BsrI	ACTGG	1 cut(s)	403
BssMI	GATC	2 cut(s)	492, 568
BssSI	CACGAG	1 cut(s)	508
Bst2BI	CACGAG	1 cut(s)	508
Bst2UI	CCWGG	1 cut(s)	260
Bst4CI	ACNGT	2 cut(s)	85, 556
Bst6I	CTCTTC	1 cut(s)	386
BstC8I	GCNNGC	4 cut(s)	114, 208, 238, 706
BstFNI	CGCG	1 cut(s)	497
BstH2I	RGCGCY	1 cut(s)	213
BstHHI	GCGC	2 cut(s)	212, 371
BstKTI	GATC	2 cut(s)	495, 571
BstMAI	GTCTC	1 cut(s)	392
BstMBI	GATC	2 cut(s)	492, 568
BstMCI	CGRYCG	1 cut(s)	495
BstMWI	GCNNNNNNNGC	5 cut(s)	61, 212, 337, 340, 414
BstNI	CCWGG	1 cut(s)	260
BstSCI	CCNGG	1 cut(s)	258
BstUI	CGCG	1 cut(s)	497
BstV1I	GCAGC	7 cut(s)	199, 202, 343, 346, 349, 352, 524
BstV2I	GAAGAC	1 cut(s)	567
BstXI	CCANNNNNNTGG	2 cut(s)	190, 410
BsuRI	GGCC	4 cut(s)	106, 247, 402, 618
BtgZI	GCGATG	1 cut(s)	555
BtsIMutI	CAGTG	2 cut(s)	81, 410
BtuMI	TCGCGA	1 cut(s)	497
Cac8I	GCNNGC	4 cut(s)	114, 208, 238, 706
CciI	TCATGA	1 cut(s)	351
CfoI	GCGC	2 cut(s)	212, 371
Cfr13I	GGNCC	1 cut(s)	463
CviAII	CATG	2 cut(s)	310, 352
DpnI	GATC	2 cut(s)	494, 570
DpnII	GATC	2 cut(s)	492, 568
DrdI	GACNNNNNNGTC	1 cut(s)	457
DseDI	GACNNNNNNGTC	1 cut(s)	457
EaeI	YGGCCR	2 cut(s)	245, 616
Eam1104I	CTCTTC	1 cut(s)	386
EarI	CTCTTC	1 cut(s)	386
Eco147I	AGGCCT	1 cut(s)	106
Eco31I	GGTCTC	1 cut(s)	392
Eco32I	GATATC	1 cut(s)	430
Eco47I	GGWCC	1 cut(s)	463
Eco47III	AGCGCT	1 cut(s)	211
EcoRI	GAATTC	1 cut(s)	7
EcoRII	CCWGG	1 cut(s)	258
EcoRV	GATATC	1 cut(s)	430
FaeI	CATG	2 cut(s)	313, 355
FalI	AAGNNNNNCTT	2 cut(s)	122, 154
FaqI	GGGAC	1 cut(s)	677
FatI	CATG	2 cut(s)	309, 351
Fnu4HI	GCNGC	7 cut(s)	213, 216, 332, 335, 338, 341, 538
Fsp4HI	GCNGC	7 cut(s)	213, 216, 332, 335, 338, 341, 538
FspBI	CTAG	1 cut(s)	533
FspI	TGCGCA	1 cut(s)	370
GlaI	GCGC	2 cut(s)	211, 370
GluI	GCNGC	7 cut(s)	213, 216, 332, 335, 338, 341, 538
GsuI	CTGGAG	1 cut(s)	166
HaeII	RGCGCY	1 cut(s)	213
HaeIII	GGCC	4 cut(s)	106, 247, 402, 618
HhaI	GCGC	2 cut(s)	212, 371
Hin1II	CATG	2 cut(s)	313, 355
Hin6I	GCGC	2 cut(s)	210, 369
HinP1I	GCGC	2 cut(s)	210, 369
HindIII	AAGCTT	1 cut(s)	53
HphI	GGTGA	1 cut(s)	608
Hpy188I	TCNGA	1 cut(s)	450
Hpy188III	TCNNGA	5 cut(s)	270, 352, 496, 610, 711
Hpy99I	CGWCG	1 cut(s)	246
HpyAV	CCTTC	2 cut(s)	418, 582
HpyCH4III	ACNGT	2 cut(s)	85, 556
HpyCH4V	TGCA	6 cut(s)	116, 158, 166, 226, 305, 331
HpyF10VI	GCNNNNNNNGC	5 cut(s)	61, 212, 337, 340, 414
Hsp92II	CATG	2 cut(s)	313, 355
HspAI	GCGC	2 cut(s)	210, 369
Kzo9I	GATC	2 cut(s)	492, 568
LmnI	GCTCC	1 cut(s)	713
Lsp1109I	GCAGC	7 cut(s)	199, 202, 343, 346, 349, 352, 524
LweI	GCATC	2 cut(s)	145, 235
MaeI	CTAG	1 cut(s)	533
MaeIII	GTNAC	2 cut(s)	43, 487
MalI	GATC	2 cut(s)	494, 570
MboI	GATC	2 cut(s)	492, 568
MboII	GAAGA	2 cut(s)	373, 572
MfeI	CAATTG	2 cut(s)	435, 518
MlsI	TGGCCA	1 cut(s)	618
MluCI	AATT	5 cut(s)	7, 92, 435, 518, 699
MluNI	TGGCCA	1 cut(s)	618
MmeI	TCCRAC	1 cut(s)	376
MnlI	CCTC	4 cut(s)	389, 392, 632, 703
Mox20I	TGGCCA	1 cut(s)	618
MscI	TGGCCA	1 cut(s)	618
MseI	TTAA	2 cut(s)	528, 581
Msp20I	TGGCCA	1 cut(s)	618
MspR9I	CCNGG	1 cut(s)	260
MunI	CAATTG	2 cut(s)	435, 518
MvaI	CCWGG	1 cut(s)	260
MvnI	CGCG	1 cut(s)	497
MwoI	GCNNNNNNNGC	5 cut(s)	61, 212, 337, 340, 414
NdeII	GATC	2 cut(s)	492, 568
NlaIII	CATG	2 cut(s)	313, 355
NmuCI	GTSAC	1 cut(s)	487
NruI	TCGCGA	1 cut(s)	497
NsbI	TGCGCA	1 cut(s)	370
PagI	TCATGA	1 cut(s)	351
PceI	AGGCCT	1 cut(s)	106
PkrI	GCNGC	7 cut(s)	214, 217, 333, 336, 339, 342, 539
Ple19I	CGATCG	1 cut(s)	495
Psp6I	CCWGG	1 cut(s)	258
PspGI	CCWGG	1 cut(s)	258
PspPI	GGNCC	1 cut(s)	463
PsrI	GAACNNNNNNTAC	2 cut(s)	273, 305
PvuI	CGATCG	1 cut(s)	495
RruI	TCGCGA	1 cut(s)	497
SaqAI	TTAA	2 cut(s)	528, 581
SatI	GCNGC	7 cut(s)	213, 216, 332, 335, 338, 341, 538
Sau3AI	GATC	2 cut(s)	492, 568
Sau96I	GGNCC	1 cut(s)	463
ScrFI	CCNGG	1 cut(s)	260
SetI	ASST	7 cut(s)	57, 164, 297, 301, 345, 625, 643
SfaNI	GCATC	2 cut(s)	145, 235
SinI	GGWCC	1 cut(s)	463
Sse9I	AATT	5 cut(s)	7, 92, 435, 518, 699
SseBI	AGGCCT	1 cut(s)	106
SspMI	CTAG	1 cut(s)	533
StuI	AGGCCT	1 cut(s)	106
StyD4I	CCNGG	1 cut(s)	258
TaaI	ACNGT	2 cut(s)	85, 556
TaqI	TCGA	1 cut(s)	269
TaqII	GACCGA	2 cut(s)	374, 451
TasI	AATT	5 cut(s)	7, 92, 435, 518, 699
Tru1I	TTAA	2 cut(s)	528, 581
Tru9I	TTAA	2 cut(s)	528, 581
TscAI	CASTG	2 cut(s)	88, 410
TseFI	GTSAC	1 cut(s)	487
TseI	GCWGC	7 cut(s)	212, 215, 331, 334, 337, 340, 537
Tsp45I	GTSAC	1 cut(s)	487
TspDTI	ATGAA	5 cut(s)	65, 326, 368, 640, 660
TspGWI	ACGGA	1 cut(s)	81
TspRI	CASTG	2 cut(s)	88, 410
VpaK11BI	GGWCC	1 cut(s)	463
XapI	RAATTY	2 cut(s)	7, 92
XspI	CTAG	1 cut(s)	533

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