Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0009870

Physical Location & Seq

Genomic Coordinates Forward (+)

58836671 .. 58839374

Gene Structure 2704 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00265440.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 639 bp

ATGTCTGCCTCCTCATCCTCTGCTCACTCTACGTACAGCATGCGAGCCGCGGCGGTAATCGGAACGGCGTCGTTGCTCTTCGTCGGAGTAGTGGCTGCGGCGCTGGTGTTGTTGTGCTCGCCTGGGTTTCTGAACGGTGGCCATGGTTTTATGGAATCAAGGTTGTTGAGGTCTGGGGAAGGAGACAGCACGCTCGCCGCTGCTCACCGCAAGCTTCTTGTTCGGGAATTCTTGGGACCAATTTTGTTTTGTTGGTTTTCAAATGATATTTGGGGTGGTGTTGATCAGATTGGGGCAAGAAAATGTGGAGGAACCAAATCGAATTTGGGGGAGAAGTGTAGCCGGTCCGACATAGTGATTGAACAGGGTCCCACGGCACCGCTGCCGAGCGGCATTCCCACTTACACGGTGGAGATCATGAACGTGTGCGTCACCGGCTGTAACATTAGCCACATCCACCTCACCTGCGGTTGGTTCAGCTCCGCCACGCTGGTTAGCCCGAAAGTCTTCAGGCGGCTTCGCTATAATGACTGCCTTGTGAACGACGGCAAGCCTCTGGTCAATGGTGGTACAATCTCTTTTGAGTATGCTAACACCTTCCTCTACCCACTCAAGGTTTCCTCTGTAGCTTGCTACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001708 GO:0001709 GO:0003006 GO:0007049 GO:0007275 GO:0008150 GO:0009555 GO:0009556 GO:0009653 GO:0009791 GO:0009908 GO:0009987 GO:0010234 GO:0019953 GO:0022402 GO:0022414 GO:0030154 GO:0032501 GO:0032502 GO:0034293 GO:0043934 GO:0044703 GO:0045165 GO:0048229 GO:0048236 GO:0048367 GO:0048437 GO:0048438 GO:0048443 GO:0048444 GO:0048448 GO:0048449 GO:0048455 GO:0048466 GO:0048608 GO:0048646 GO:0048653 GO:0048654 GO:0048655 GO:0048656 GO:0048657 GO:0048658 GO:0048731 GO:0048827 GO:0048856 GO:0048869 GO:0051321 GO:0051704 GO:0061458 GO:0090567 GO:0090696 GO:0090697 GO:0090698 GO:0099402 GO:1903046 GO:1905392 GO:1905393

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

No domains found.

Protein Analysis

212

Amino Acids

22.56

Weight (kDa)

8.59

Isoelectric Point (pI)

41.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPD1_C	PF24068	115 - 211	1.1e-40	Tapetum determinant 1, C-terminal

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0009870)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G24972
fragaria_vesca	FvH4_5g08940 FvH4_5g08940
malus_domestica	MD06G1137000.v1.1 MD14G1151800.v1.1
prunus_persica	Prupe.5G146900_v2.0.a1 Prupe.5G146900_v2.0.a1 Prupe.5G146900_v2.0.a1 Prupe.5G146900_v2.0.a1 Prupe.5G146900_v2.0.a1
pyrus_communis	pycom06g12830
rosa_chinensis	RchiOBHm_Chr7g0189441
rosa_laevigata	RLG00000004611
rosa_roxburghii	Rroxscaffold_3G00265440
rosa_rugosa	Rorug06G0497800 Rorug06G0497900 Rorug06G0498000 Rorug06G0498000
rosa_samantha	Rh7AG102700 Rh7DG104800
rosa_wichuraiana	Rw7G008880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	473
Acc36I	ACCTGC	1 cut(s)	473
AccB1I	GGYRCC	1 cut(s)	376
AccBSI	CCGCTC	1 cut(s)	390
AccII	CGCG	1 cut(s)	50
AcoI	YGGCCR	1 cut(s)	139
AcsI	RAATTY	2 cut(s)	227, 322
AcuI	CTGAAG	1 cut(s)	493
AcyI	GRCGYC	1 cut(s)	68
AfaI	GTAC	2 cut(s)	35, 571
AfiI	CCNNNNNNNGG	2 cut(s)	471, 613
AflIII	ACRYGT	1 cut(s)	423
AgsI	TTSAA	2 cut(s)	261, 362
AjnI	CCWGG	1 cut(s)	121
AluBI	AGCT	3 cut(s)	214, 480, 629
AluI	AGCT	3 cut(s)	214, 480, 629
Alw21I	GWGCWC	1 cut(s)	119
Alw26I	GTCTC	1 cut(s)	177
AoxI	GGCC	1 cut(s)	139
ApeKI	GCWGC	3 cut(s)	95, 200, 382
ApoI	RAATTY	2 cut(s)	227, 322
Asp700I	GAANNNNTTC	1 cut(s)	506
AspLEI	GCGC	1 cut(s)	103
AspS9I	GGNCC	3 cut(s)	236, 345, 368
AsuHPI	GGTGA	3 cut(s)	197, 424, 454
AvaII	GGWCC	3 cut(s)	236, 345, 368
BalI	TGGCCA	1 cut(s)	141
BanI	GGYRCC	1 cut(s)	376
BbsI	GAAGAC	1 cut(s)	499
Bbv12I	GWGCWC	1 cut(s)	119
BbvI	GCAGC	3 cut(s)	82, 187, 369
BceAI	ACGGC	3 cut(s)	81, 390, 562
BciT130I	CCWGG	1 cut(s)	123
BclI	TGATCA	1 cut(s)	283
BcoDI	GTCTC	1 cut(s)	177
BfmI	CTRYAG	1 cut(s)	624
BfoI	RGCGCY	1 cut(s)	104
BfuAI	ACCTGC	1 cut(s)	473
BisI	GCNGC	9 cut(s)	48, 51, 96, 99, 198, 201, 383, 391, 515
BlsI	GCNGC	9 cut(s)	49, 52, 97, 100, 199, 202, 384, 392, 516
Bme1390I	CCNGG	1 cut(s)	123
Bme18I	GGWCC	3 cut(s)	236, 345, 368
BmgT120I	GGNCC	3 cut(s)	236, 345, 368
BmiI	GGNNCC	5 cut(s)	237, 313, 369, 370, 378
BmrFI	CCNGG	1 cut(s)	123
BpiI	GAAGAC	1 cut(s)	499
BpuEI	CTTGAG	1 cut(s)	596
BsaAI	YACGTR	1 cut(s)	33
BsaHI	GRCGYC	1 cut(s)	68
BsaJI	CCNNGG	4 cut(s)	48, 122, 142, 372
Bsc4I	CCNNNNNNNGG	2 cut(s)	471, 613
Bse118I	RCCGGY	2 cut(s)	342, 434
BseBI	CCWGG	1 cut(s)	123
BseDI	CCNNGG	4 cut(s)	48, 122, 142, 372
BseGI	GGATG	2 cut(s)	14, 453
BseLI	CCNNNNNNNGG	2 cut(s)	471, 613
BseXI	GCAGC	3 cut(s)	82, 187, 369
Bsh1236I	CGCG	1 cut(s)	50
BshFI	GGCC	1 cut(s)	141
BshNI	GGYRCC	1 cut(s)	376
BsiHKAI	GWGCWC	1 cut(s)	119
BsiSI	CCGG	2 cut(s)	343, 435
BslFI	GGGAC	2 cut(s)	249, 354
BslI	CCNNNNNNNGG	2 cut(s)	471, 613
BsmAI	GTCTC	1 cut(s)	177
BsmFI	GGGAC	2 cut(s)	249, 354
BsmI	GAATGC	1 cut(s)	393
BsnI	GGCC	1 cut(s)	141
Bsp1286I	GDGCHC	1 cut(s)	119
Bsp143I	GATC	2 cut(s)	283, 414
Bsp19I	CCATGG	1 cut(s)	142
BspANI	GGCC	1 cut(s)	141
BspFNI	CGCG	1 cut(s)	50
BspHI	TCATGA	1 cut(s)	417
BspLI	GGNNCC	5 cut(s)	237, 313, 369, 370, 378
BspMI	ACCTGC	1 cut(s)	473
BspQI	GCTCTTC	1 cut(s)	83
BspT107I	GGYRCC	1 cut(s)	376
BsrBI	CCGCTC	1 cut(s)	390
BsrFI	RCCGGY	2 cut(s)	342, 434
BssAI	RCCGGY	2 cut(s)	342, 434
BssECI	CCNNGG	4 cut(s)	48, 122, 142, 372
BssMI	GATC	2 cut(s)	283, 414
BssNI	GRCGYC	1 cut(s)	68
BssT1I	CCWWGG	1 cut(s)	142
Bst2UI	CCWGG	1 cut(s)	123
Bst4CI	ACNGT	2 cut(s)	137, 409
Bst6I	CTCTTC	1 cut(s)	83
BstACI	GRCGYC	1 cut(s)	68
BstBAI	YACGTR	1 cut(s)	33
BstC8I	GCNNGC	8 cut(s)	41, 45, 119, 191, 195, 212, 551, 631
BstDSI	CCRYGG	3 cut(s)	48, 142, 372
BstF5I	GGATG	2 cut(s)	14, 453
BstFNI	CGCG	1 cut(s)	50
BstH2I	RGCGCY	1 cut(s)	104
BstHHI	GCGC	1 cut(s)	103
BstKTI	GATC	2 cut(s)	286, 417
BstMAI	GTCTC	1 cut(s)	177
BstMBI	GATC	2 cut(s)	283, 414
BstMWI	GCNNNNNNNGC	1 cut(s)	435
BstNI	CCWGG	1 cut(s)	123
BstNSI	RCATGY	1 cut(s)	43
BstSCI	CCNGG	1 cut(s)	121
BstSFI	CTRYAG	1 cut(s)	624
BstSNI	TACGTA	1 cut(s)	33
BstUI	CGCG	1 cut(s)	50
BstV1I	GCAGC	3 cut(s)	82, 187, 369
BstV2I	GAAGAC	1 cut(s)	499
BsuRI	GGCC	1 cut(s)	141
BtgI	CCRYGG	3 cut(s)	48, 142, 372
BtsCI	GGATG	2 cut(s)	14, 453
BveI	ACCTGC	1 cut(s)	473
Cac8I	GCNNGC	8 cut(s)	41, 45, 119, 191, 195, 212, 551, 631
CciI	TCATGA	1 cut(s)	417
CfoI	GCGC	1 cut(s)	103
Cfr10I	RCCGGY	2 cut(s)	342, 434
Cfr13I	GGNCC	3 cut(s)	236, 345, 368
Cfr42I	CCGCGG	1 cut(s)	51
CpoI	CGGWCCG	1 cut(s)	345
CseI	GACGC	2 cut(s)	57, 418
Csp6I	GTAC	2 cut(s)	34, 570
CspI	CGGWCCG	1 cut(s)	345
CviAII	CATG	3 cut(s)	40, 143, 418
CviQI	GTAC	2 cut(s)	34, 570
DpnI	GATC	2 cut(s)	285, 416
DpnII	GATC	2 cut(s)	283, 414
EaeI	YGGCCR	1 cut(s)	139
Eam1104I	CTCTTC	1 cut(s)	83
EarI	CTCTTC	1 cut(s)	83
EciI	GGCGGA	1 cut(s)	472
Eco105I	TACGTA	1 cut(s)	33
Eco130I	CCWWGG	1 cut(s)	142
Eco47I	GGWCC	3 cut(s)	236, 345, 368
Eco57I	CTGAAG	1 cut(s)	493
EcoO109I	RGGNCCY	1 cut(s)	368
EcoRI	GAATTC	1 cut(s)	227
EcoRII	CCWGG	1 cut(s)	121
EcoT14I	CCWWGG	1 cut(s)	142
ErhI	CCWWGG	1 cut(s)	142
FaeI	CATG	3 cut(s)	43, 146, 421
FaiI	YATR	7 cut(s)	41, 144, 152, 353, 419, 525, 588
FaqI	GGGAC	2 cut(s)	249, 354
FatI	CATG	3 cut(s)	39, 142, 417
FbaI	TGATCA	1 cut(s)	283
Fnu4HI	GCNGC	9 cut(s)	48, 51, 96, 99, 198, 201, 383, 391, 515
FokI	GGATG	1 cut(s)	440
Fsp4HI	GCNGC	9 cut(s)	48, 51, 96, 99, 198, 201, 383, 391, 515
GlaI	GCGC	1 cut(s)	102
GluI	GCNGC	9 cut(s)	48, 51, 96, 99, 198, 201, 383, 391, 515
HaeII	RGCGCY	1 cut(s)	104
HaeIII	GGCC	1 cut(s)	141
HapII	CCGG	2 cut(s)	343, 435
HgaI	GACGC	2 cut(s)	57, 418
HhaI	GCGC	1 cut(s)	103
Hin1I	GRCGYC	1 cut(s)	68
Hin1II	CATG	3 cut(s)	43, 146, 421
Hin6I	GCGC	1 cut(s)	101
HinP1I	GCGC	1 cut(s)	101
HindIII	AAGCTT	1 cut(s)	212
HinfI	GANTC	1 cut(s)	155
HpaII	CCGG	2 cut(s)	343, 435
HphI	GGTGA	3 cut(s)	197, 424, 454
Hpy166II	GTNNAC	1 cut(s)	541
Hpy188I	TCNGA	5 cut(s)	62, 86, 132, 288, 349
Hpy188III	TCNNGA	2 cut(s)	224, 418
Hpy8I	GTNNAC	1 cut(s)	541
Hpy99I	CGWCG	3 cut(s)	73, 86, 548
HpyAV	CCTTC	2 cut(s)	173, 607
HpyCH4III	ACNGT	2 cut(s)	137, 409
HpyCH4IV	ACGT	2 cut(s)	32, 423
HpyF10VI	GCNNNNNNNGC	1 cut(s)	435
HpySE526I	ACGT	2 cut(s)	32, 423
Hsp92I	GRCGYC	1 cut(s)	68
Hsp92II	CATG	3 cut(s)	43, 146, 421
HspAI	GCGC	1 cut(s)	101
KflI	GGGWCCC	1 cut(s)	368
Ksp22I	TGATCA	1 cut(s)	283
KspI	CCGCGG	1 cut(s)	51
Kzo9I	GATC	2 cut(s)	283, 414
LguI	GCTCTTC	1 cut(s)	83
LmnI	GCTCC	1 cut(s)	485
Lsp1109I	GCAGC	3 cut(s)	82, 187, 369
MaeII	ACGT	2 cut(s)	32, 423
MaeIII	GTNAC	2 cut(s)	430, 440
MalI	GATC	2 cut(s)	285, 416
MbiI	CCGCTC	1 cut(s)	390
MboI	GATC	2 cut(s)	283, 414
MboII	GAAGA	2 cut(s)	70, 499
MhlI	GDGCHC	1 cut(s)	119
MlsI	TGGCCA	1 cut(s)	141
MluCI	AATT	3 cut(s)	227, 240, 322
MluNI	TGGCCA	1 cut(s)	141
MmeI	TCCRAC	2 cut(s)	64, 372
MnlI	CCTC	9 cut(s)	19, 22, 28, 162, 302, 470, 564, 611, 631
Mox20I	TGGCCA	1 cut(s)	141
MroXI	GAANNNNTTC	1 cut(s)	506
MscI	TGGCCA	1 cut(s)	141
MslI	CAYNNNNRTG	1 cut(s)	422
Msp20I	TGGCCA	1 cut(s)	141
MspA1I	CMGCKG	3 cut(s)	50, 200, 382
MspI	CCGG	2 cut(s)	343, 435
MspR9I	CCNGG	1 cut(s)	123
Mva1269I	GAATGC	1 cut(s)	393
MvaI	CCWGG	1 cut(s)	123
MvnI	CGCG	1 cut(s)	50
MwoI	GCNNNNNNNGC	1 cut(s)	435
NcoI	CCATGG	1 cut(s)	142
NdeII	GATC	2 cut(s)	283, 414
NlaIII	CATG	3 cut(s)	43, 146, 421
NlaIV	GGNNCC	5 cut(s)	237, 313, 369, 370, 378
NmeAIII	GCCGAG	1 cut(s)	411
NmuCI	GTSAC	1 cut(s)	430
NspI	RCATGY	1 cut(s)	43
PaeI	GCATGC	1 cut(s)	43
PagI	TCATGA	1 cut(s)	417
PaqCI	CACCTGC	1 cut(s)	473
PciSI	GCTCTTC	1 cut(s)	83
PctI	GAATGC	1 cut(s)	393
PdmI	GAANNNNTTC	1 cut(s)	506
PfeI	GAWTC	1 cut(s)	155
PkrI	GCNGC	9 cut(s)	49, 52, 97, 100, 199, 202, 384, 392, 516
Ppu21I	YACGTR	1 cut(s)	33
PpuMI	RGGWCCY	1 cut(s)	368
Psp5II	RGGWCCY	1 cut(s)	368
Psp6I	CCWGG	1 cut(s)	121
PspGI	CCWGG	1 cut(s)	121
PspN4I	GGNNCC	5 cut(s)	237, 313, 369, 370, 378
PspPI	GGNCC	3 cut(s)	236, 345, 368
PspPPI	RGGWCCY	1 cut(s)	368
RsaI	GTAC	2 cut(s)	35, 571
RsaNI	GTAC	2 cut(s)	34, 570
RseI	CAYNNNNRTG	1 cut(s)	422
Rsr2I	CGGWCCG	1 cut(s)	345
RsrII	CGGWCCG	1 cut(s)	345
SacII	CCGCGG	1 cut(s)	51
SapI	GCTCTTC	1 cut(s)	83
SatI	GCNGC	9 cut(s)	48, 51, 96, 99, 198, 201, 383, 391, 515
Sau3AI	GATC	2 cut(s)	283, 414
Sau96I	GGNCC	3 cut(s)	236, 345, 368
ScrFI	CCNGG	1 cut(s)	123
SduI	GDGCHC	1 cut(s)	119
SfcI	CTRYAG	1 cut(s)	624
Sfr303I	CCGCGG	1 cut(s)	51
SgrBI	CCGCGG	1 cut(s)	51
SinI	GGWCC	3 cut(s)	236, 345, 368
SmiMI	CAYNNNNRTG	1 cut(s)	422
SmlI	CTYRAG	1 cut(s)	611
SmoI	CTYRAG	1 cut(s)	611
SnaBI	TACGTA	1 cut(s)	33
SphI	GCATGC	1 cut(s)	43
Sse9I	AATT	3 cut(s)	227, 240, 322
StyD4I	CCNGG	1 cut(s)	121
StyI	CCWWGG	1 cut(s)	142
TaaI	ACNGT	2 cut(s)	137, 409
TaiI	ACGT	2 cut(s)	35, 426
TaqI	TCGA	1 cut(s)	320
TasI	AATT	3 cut(s)	227, 240, 322
TauI	GCSGC	6 cut(s)	50, 53, 101, 200, 393, 517
TfiI	GAWTC	1 cut(s)	155
TseFI	GTSAC	1 cut(s)	430
TseI	GCWGC	3 cut(s)	95, 200, 382
Tsp45I	GTSAC	1 cut(s)	430
TspDTI	ATGAA	1 cut(s)	434
VpaK11BI	GGWCC	3 cut(s)	236, 345, 368
XapI	RAATTY	2 cut(s)	227, 322
XceI	RCATGY	1 cut(s)	43
XcmI	CCANNNNNNNNNTGG	2 cut(s)	322, 406
XmnI	GAANNNNTTC	1 cut(s)	506

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