Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0003938

Physical Location & Seq

Genomic Coordinates Forward (+)

24154605 .. 24172150

Gene Structure 17546 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG213900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 450 bp

ATGGATGATACTGAAATCAGAAACAGCGTGGATGATGTTGAAATGAATGAGTCTGATAATGAAAGTGTTGGCCAAGAGAGTCGTATTGGAAGTTCTTATATGCCAACTTTTCAATACTCTCAGCAGAAAATGAGACAAGGTTTGGCCAAGTACATTTCTTCAAGTGGGCAAGTTTATTCTTCTGCTCAACATGCTAGATTTGAAAAGTTTATTCAAGAATATGTTCAGTCTGAGTATTCTAGTCTTTGCCTGCGCACTATCAAAAGTGATTCTCTGAACTACTTCAATGATATGAAAAGAGCACTGGTATCCGAGCTTTCTGGTTTCAATGATTCCGATTCACCATCTCCGTCCTCCGATTCACCTTCACCCTCCAAGATCCGCGACCTCGCCCGCCACGTCAGCGCCAAGGTCTTAGAAGCTAGATCAAAGGCTGGGAGGCTCCGGTGA

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

DUF4413 Dimer_Tnp_hAT

Protein Analysis

149

Amino Acids

16.78

Weight (kDa)

5.72

Isoelectric Point (pI)

73.31

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0003938)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g15281 FvH4_6g23002
prunus_persica	Prupe.7G011700_v2.0.a1 Prupe.8G060700_v2.0.a1
pyrus_communis	pycom11g23400 pycom11g23410
rosa_chinensis	RchiOBHm_Chr3g0493121 RchiOBHm_Chr4g0416701 RchiOBHm_Chr5g0030191 RchiOBHm_Chr5g0030261 RchiOBHm_Chr5g0030451 RchiOBHm_Chr5g0030531
rosa_laevigata	RLG00000004075 RLG00000009332 RLG00000033223
rosa_roxburghii	Rroxscaffold_1G00012180 Rroxscaffold_3G00221970 Rroxscaffold_5G00352040 Rroxscaffold_5G00352700 Rroxscaffold_5G00366920 Rroxscaffold_6G00401320 Rroxscaffold_7G00214040
rosa_rugosa	Rorug05G0118200 Rorug05G0244100 Rorug05G0431600
rosa_samantha	Rh2AG303900 Rh5BG493400 Rh5CG358400 Rh5CG517400 Rh5DG213900 Rh6BG199100 Rh7DG307600
rosa_wichuraiana	Rw5G019230 Rw6G002650

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	254
AccII	CGCG	1 cut(s)	384
AciI	CCGC	2 cut(s)	382, 394
AclWI	GGATC	1 cut(s)	373
AcoI	YGGCCR	2 cut(s)	70, 144
AfaI	GTAC	1 cut(s)	152
AgsI	TTSAA	7 cut(s)	41, 113, 162, 203, 215, 286, 328
AjiI	CACGTC	1 cut(s)	400
AluBI	AGCT	2 cut(s)	316, 422
AluI	AGCT	2 cut(s)	316, 422
Alw21I	GWGCWC	1 cut(s)	304
Alw26I	GTCTC	1 cut(s)	127
AlwI	GGATC	1 cut(s)	373
AoxI	GGCC	2 cut(s)	70, 144
Asp700I	GAANNNNTTC	2 cut(s)	222, 281
AspLEI	GCGC	2 cut(s)	255, 407
AsuHPI	GGTGA	3 cut(s)	333, 354, 360
BalI	TGGCCA	2 cut(s)	72, 146
Bbv12I	GWGCWC	1 cut(s)	304
BccI	CCATC	1 cut(s)	352
BciVI	GTATCC	1 cut(s)	319
BcoDI	GTCTC	1 cut(s)	127
BfaI	CTAG	3 cut(s)	195, 240, 423
BfoI	RGCGCY	1 cut(s)	408
BfuI	GTATCC	1 cut(s)	319
BmgBI	CACGTC	1 cut(s)	400
BmiI	GGNNCC	1 cut(s)	443
BsaJI	CCNNGG	1 cut(s)	408
BsaWI	WCCGGW	1 cut(s)	444
Bse1I	ACTGG	1 cut(s)	309
BseDI	CCNNGG	1 cut(s)	408
BseGI	GGATG	2 cut(s)	10, 37
BseMII	CTCAG	2 cut(s)	134, 222
BseNI	ACTGG	1 cut(s)	309
BseYI	CCCAGC	1 cut(s)	434
Bsh1236I	CGCG	1 cut(s)	384
BshFI	GGCC	2 cut(s)	72, 146
BsiHKAI	GWGCWC	1 cut(s)	304
BsiSI	CCGG	1 cut(s)	445
BsmAI	GTCTC	1 cut(s)	127
BsnI	GGCC	2 cut(s)	72, 146
Bsp1286I	GDGCHC	1 cut(s)	304
Bsp143I	GATC	2 cut(s)	378, 425
BspACI	CCGC	2 cut(s)	382, 394
BspANI	GGCC	2 cut(s)	72, 146
BspCNI	CTCAG	2 cut(s)	133, 223
BspFNI	CGCG	1 cut(s)	384
BspLI	GGNNCC	1 cut(s)	443
BspPI	GGATC	1 cut(s)	373
BsrI	ACTGG	1 cut(s)	309
BssECI	CCNNGG	1 cut(s)	408
BssMI	GATC	2 cut(s)	378, 425
BssT1I	CCWWGG	1 cut(s)	408
BstC8I	GCNNGC	2 cut(s)	251, 394
BstDEI	CTNAG	3 cut(s)	120, 231, 415
BstF5I	GGATG	2 cut(s)	10, 37
BstFNI	CGCG	1 cut(s)	384
BstH2I	RGCGCY	1 cut(s)	408
BstHHI	GCGC	2 cut(s)	255, 407
BstKTI	GATC	2 cut(s)	381, 428
BstMAI	GTCTC	1 cut(s)	127
BstMBI	GATC	2 cut(s)	378, 425
BstMWI	GCNNNNNNNGC	2 cut(s)	191, 402
BstNSI	RCATGY	1 cut(s)	194
BstUI	CGCG	1 cut(s)	384
BstX2I	RGATCY	1 cut(s)	378
BstYI	RGATCY	1 cut(s)	378
BsuI	GTATCC	1 cut(s)	319
BsuRI	GGCC	2 cut(s)	72, 146
BtrI	CACGTC	1 cut(s)	400
BtsCI	GGATG	2 cut(s)	10, 37
BtsIMutI	CAGTG	1 cut(s)	302
Cac8I	GCNNGC	2 cut(s)	251, 394
CfoI	GCGC	2 cut(s)	255, 407
Csp6I	GTAC	1 cut(s)	151
CviAII	CATG	1 cut(s)	191
CviJI	RGCY	6 cut(s)	72, 146, 316, 422, 434, 442
CviKI_1	RGCY	6 cut(s)	72, 146, 316, 422, 434, 442
CviQI	GTAC	1 cut(s)	151
DdeI	CTNAG	3 cut(s)	120, 231, 415
DpnI	GATC	2 cut(s)	380, 427
DpnII	GATC	2 cut(s)	378, 425
EaeI	YGGCCR	2 cut(s)	70, 144
Eco130I	CCWWGG	1 cut(s)	408
EcoT14I	CCWWGG	1 cut(s)	408
ErhI	CCWWGG	1 cut(s)	408
FaeI	CATG	1 cut(s)	194
FaiI	YATR	5 cut(s)	99, 101, 192, 222, 293
FatI	CATG	1 cut(s)	190
FauI	CCCGC	1 cut(s)	401
FokI	GGATG	2 cut(s)	17, 44
FspBI	CTAG	3 cut(s)	195, 240, 423
FspI	TGCGCA	1 cut(s)	254
GlaI	GCGC	2 cut(s)	254, 406
GsaI	CCCAGC	1 cut(s)	438
HaeII	RGCGCY	1 cut(s)	408
HaeIII	GGCC	2 cut(s)	72, 146
HapII	CCGG	1 cut(s)	445
HhaI	GCGC	2 cut(s)	255, 407
Hin1II	CATG	1 cut(s)	194
Hin6I	GCGC	2 cut(s)	253, 405
HinP1I	GCGC	2 cut(s)	253, 405
HinfI	GANTC	6 cut(s)	50, 79, 269, 332, 338, 359
HpaII	CCGG	1 cut(s)	445
HphI	GGTGA	3 cut(s)	333, 354, 360
Hpy188I	TCNGA	7 cut(s)	20, 55, 232, 276, 313, 337, 358
Hpy188III	TCNNGA	1 cut(s)	215
HpyAV	CCTTC	1 cut(s)	375
HpyCH4IV	ACGT	1 cut(s)	399
HpyF10VI	GCNNNNNNNGC	2 cut(s)	191, 402
HpyF3I	CTNAG	3 cut(s)	120, 231, 415
HpySE526I	ACGT	1 cut(s)	399
Hsp92II	CATG	1 cut(s)	194
HspAI	GCGC	2 cut(s)	253, 405
Kzo9I	GATC	2 cut(s)	378, 425
LmnI	GCTCC	1 cut(s)	447
LpnPI	CCDG	4 cut(s)	263, 290, 306, 420
MaeI	CTAG	3 cut(s)	195, 240, 423
MaeII	ACGT	1 cut(s)	399
MalI	GATC	2 cut(s)	380, 427
MboI	GATC	2 cut(s)	378, 425
MboII	GAAGA	2 cut(s)	150, 171
MflI	RGATCY	1 cut(s)	378
MhlI	GDGCHC	1 cut(s)	304
MlsI	TGGCCA	2 cut(s)	72, 146
MluNI	TGGCCA	2 cut(s)	72, 146
MlyI	GAGTC	2 cut(s)	59, 88
MnlI	CCTC	4 cut(s)	364, 382, 398, 432
Mox20I	TGGCCA	2 cut(s)	72, 146
MroXI	GAANNNNTTC	2 cut(s)	222, 281
MscI	TGGCCA	2 cut(s)	72, 146
Msp20I	TGGCCA	2 cut(s)	72, 146
MspI	CCGG	1 cut(s)	445
MvnI	CGCG	1 cut(s)	384
MwoI	GCNNNNNNNGC	2 cut(s)	191, 402
NdeII	GATC	2 cut(s)	378, 425
NlaIII	CATG	1 cut(s)	194
NlaIV	GGNNCC	1 cut(s)	443
NsbI	TGCGCA	1 cut(s)	254
NspI	RCATGY	1 cut(s)	194
PcsI	WCGNNNNNNNCGW	1 cut(s)	396
PdmI	GAANNNNTTC	2 cut(s)	222, 281
PfeI	GAWTC	4 cut(s)	269, 332, 338, 359
PleI	GAGTC	2 cut(s)	58, 87
PpsI	GAGTC	2 cut(s)	58, 87
PspFI	CCCAGC	1 cut(s)	434
PspN4I	GGNNCC	1 cut(s)	443
PsrI	GAACNNNNNNTAC	2 cut(s)	76, 108
PsuI	RGATCY	1 cut(s)	378
RsaI	GTAC	1 cut(s)	152
RsaNI	GTAC	1 cut(s)	151
Sau3AI	GATC	2 cut(s)	378, 425
SchI	GAGTC	2 cut(s)	59, 88
SduI	GDGCHC	1 cut(s)	304
SetI	ASST	7 cut(s)	142, 318, 367, 390, 402, 414, 424
SsiI	CCGC	2 cut(s)	382, 394
SspMI	CTAG	3 cut(s)	195, 240, 423
StyI	CCWWGG	1 cut(s)	408
TaiI	ACGT	1 cut(s)	402
TatI	WGTACW	1 cut(s)	150
TfiI	GAWTC	4 cut(s)	269, 332, 338, 359
TscAI	CASTG	1 cut(s)	309
TspDTI	ATGAA	3 cut(s)	59, 75, 308
TspGWI	ACGGA	1 cut(s)	339
TspRI	CASTG	1 cut(s)	309
XceI	RCATGY	1 cut(s)	194
XmnI	GAANNNNTTC	2 cut(s)	222, 281
XspI	CTAG	3 cut(s)	195, 240, 423

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