Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0002857

Physical Location & Seq

Genomic Coordinates Reverse (-)

43647120 .. 43655424

Gene Structure 8305 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00116450.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 552 bp

ATGATCCAAAGAATCCCTTCTGCAGGGTGTGTTAAGAGAATATCAGAAGAGATCAGAGACATGAACTTCTCCCTCTTGCCACCTGTCCTGTCTTTTAAAATCATCGCAGAGAAAATAGAAGAAAGAGTTGATCAAAAGAAGAAACAGGTTCGGTGTATACTTGGTAAGCTCTATTGGGCAGGCCCGACGTATTCATCACCTAAAGTGTTGCCCATTTGGGAGCACCGTCATGGTGGTACTGGACCCGGTCTCAAATATGGCATTTGGGAAGTCCTGCGGAGTCCGGAGATGGTACAAAATTTTCTAGCGTCAAGTAACTGCTGGTATTTTAGAGCAAAGAAGAAGAAAAGAAGCAAAAGAGGGATTGAAAGACAAAATCAGCAAATCTGCCTGTGCAGATTAGTCAACTTCGACAGAGTACTGAGAATAGTTCTGGACGATCCAGATAATGATCTTTATATTGATGGAAAGCCACGTATGTCTAGTTTCCAAAGCTTTTTATGGTTTGTGAATATGATTTTTCTAGAAGAAGTTATGACTGATTTAGTATAA

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

Retrotran_gag_2

Protein Analysis

183

Amino Acids

21.45

Weight (kDa)

9.53

Isoelectric Point (pI)

47.43

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002857)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g02941
rosa_chinensis	RchiOBHm_Chr1g0327601 RchiOBHm_Chr1g0328211 RchiOBHm_Chr1g0328421 RchiOBHm_Chr1g0369921 RchiOBHm_Chr1g0371671 RchiOBHm_Chr1g0382031 RchiOBHm_Chr2g0130721 RchiOBHm_Chr2g0141321 RchiOBHm_Chr4g0401261 RchiOBHm_Chr4g0435071 RchiOBHm_Chr5g0030411 RchiOBHm_Chr5g0036821 RchiOBHm_Chr5g0070441 RchiOBHm_Chr6g0268181 RchiOBHm_Chr7g0222111
rosa_multiflora	Rmu_sc0003249.1_g000016 Rmu_sc0009671.1_g000003
rosa_roxburghii	Rroxscaffold_2G00095380 Rroxscaffold_2G00095630 Rroxscaffold_2G00110260 Rroxscaffold_2G00116450 Rroxscaffold_2G00117310 Rroxscaffold_3G00224120 Rroxscaffold_3G00275380 Rroxscaffold_4G00308610 Rroxscaffold_5G00338190 Rroxscaffold_5G00358130 Rroxscaffold_6G00389220 Rroxscaffold_7G00176840 Rroxscaffold_7G00198260
rosa_rugosa	Rorug03G0282500 Rorug05G0003200 Rorug06G0002200 Rorug07G0046500 Rorug07G0046600
rosa_samantha	Rh4AG337700 Rh4CG049400 Rh4DG340200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	157
AccIII	TCCGGA	1 cut(s)	283
AciI	CCGC	1 cut(s)	277
AclWI	GGATC	1 cut(s)	434
AcsI	RAATTY	1 cut(s)	298
AfaI	GTAC	3 cut(s)	238, 294, 420
AfiI	CCNNNNNNNGG	1 cut(s)	23
AgsI	TTSAA	1 cut(s)	368
AluBI	AGCT	2 cut(s)	169, 495
AluI	AGCT	2 cut(s)	169, 495
Alw21I	GWGCWC	1 cut(s)	225
Alw26I	GTCTC	2 cut(s)	51, 254
AlwI	GGATC	1 cut(s)	434
Aor13HI	TCCGGA	1 cut(s)	283
AoxI	GGCC	1 cut(s)	181
ApoI	RAATTY	1 cut(s)	298
Asp700I	GAANNNNTTC	1 cut(s)	16
AspS9I	GGNCC	2 cut(s)	182, 242
AsuC2I	CCSGG	1 cut(s)	246
AsuHPI	GGTGA	1 cut(s)	189
AvaII	GGWCC	1 cut(s)	242
Bbv12I	GWGCWC	1 cut(s)	225
BccI	CCATC	2 cut(s)	283, 458
BclI	TGATCA	1 cut(s)	130
BcnI	CCSGG	1 cut(s)	246
BcoDI	GTCTC	2 cut(s)	51, 254
BfaI	CTAG	3 cut(s)	305, 483, 524
BfmI	CTRYAG	1 cut(s)	21
BmcAI	AGTACT	1 cut(s)	420
Bme1390I	CCNGG	1 cut(s)	246
Bme18I	GGWCC	1 cut(s)	242
BmgT120I	GGNCC	2 cut(s)	182, 242
BmiI	GGNNCC	1 cut(s)	244
BmrFI	CCNGG	1 cut(s)	246
BpuMI	CCSGG	1 cut(s)	246
BsaAI	YACGTR	1 cut(s)	476
BsaBI	GATNNNNATC	1 cut(s)	450
BsaI	GGTCTC	1 cut(s)	254
BsaWI	WCCGGW	1 cut(s)	283
Bsc4I	CCNNNNNNNGG	1 cut(s)	23
Bse1I	ACTGG	1 cut(s)	244
Bse8I	GATNNNNATC	1 cut(s)	450
BseAI	TCCGGA	1 cut(s)	283
BseJI	GATNNNNATC	1 cut(s)	450
BseLI	CCNNNNNNNGG	1 cut(s)	23
BseMII	CTCAG	1 cut(s)	413
BseNI	ACTGG	1 cut(s)	244
BsgI	GTGCAG	1 cut(s)	415
BshFI	GGCC	1 cut(s)	183
BsiHKAI	GWGCWC	1 cut(s)	225
BsiSI	CCGG	2 cut(s)	246, 284
BslI	CCNNNNNNNGG	1 cut(s)	23
BsmAI	GTCTC	2 cut(s)	51, 254
BsnI	GGCC	1 cut(s)	183
Bso31I	GGTCTC	1 cut(s)	254
Bsp1286I	GDGCHC	1 cut(s)	225
Bsp13I	TCCGGA	1 cut(s)	283
Bsp143I	GATC	5 cut(s)	3, 51, 130, 439, 451
BspACI	CCGC	1 cut(s)	277
BspANI	GGCC	1 cut(s)	183
BspCNI	CTCAG	1 cut(s)	414
BspEI	TCCGGA	1 cut(s)	283
BspLI	GGNNCC	1 cut(s)	244
BspMAI	CTGCAG	1 cut(s)	25
BspPI	GGATC	1 cut(s)	434
BspTNI	GGTCTC	1 cut(s)	254
BsrI	ACTGG	1 cut(s)	244
BssMI	GATC	5 cut(s)	3, 51, 130, 439, 451
BssNAI	GTATAC	1 cut(s)	158
Bst1107I	GTATAC	1 cut(s)	158
Bst4CI	ACNGT	1 cut(s)	227
Bst6I	CTCTTC	1 cut(s)	42
BstBAI	YACGTR	1 cut(s)	476
BstC8I	GCNNGC	1 cut(s)	181
BstDEI	CTNAG	1 cut(s)	422
BstENI	CCTNNNNNAGG	1 cut(s)	21
BstKTI	GATC	5 cut(s)	6, 54, 133, 442, 454
BstMAI	GTCTC	2 cut(s)	51, 254
BstMBI	GATC	5 cut(s)	3, 51, 130, 439, 451
BstSCI	CCNGG	1 cut(s)	244
BstSFI	CTRYAG	1 cut(s)	21
BstZ17I	GTATAC	1 cut(s)	158
BsuRI	GGCC	1 cut(s)	183
BtgZI	GCGATG	1 cut(s)	88
Cac8I	GCNNGC	1 cut(s)	181
Cfr13I	GGNCC	2 cut(s)	182, 242
CseI	GACGC	1 cut(s)	297
Csp6I	GTAC	3 cut(s)	237, 293, 419
CviAII	CATG	2 cut(s)	61, 230
CviJI	RGCY	4 cut(s)	169, 183, 472, 495
CviKI_1	RGCY	4 cut(s)	169, 183, 472, 495
CviQI	GTAC	3 cut(s)	237, 293, 419
DdeI	CTNAG	1 cut(s)	422
DpnI	GATC	5 cut(s)	5, 53, 132, 441, 453
DpnII	GATC	5 cut(s)	3, 51, 130, 439, 451
DraI	TTTAAA	1 cut(s)	97
Eam1104I	CTCTTC	1 cut(s)	42
EarI	CTCTTC	1 cut(s)	42
Eco31I	GGTCTC	1 cut(s)	254
Eco47I	GGWCC	1 cut(s)	242
EcoNI	CCTNNNNNAGG	1 cut(s)	21
FaeI	CATG	2 cut(s)	64, 233
FalI	AAGNNNNNCTT	1 cut(s)	33
FatI	CATG	2 cut(s)	60, 229
FbaI	TGATCA	1 cut(s)	130
FblI	GTMKAC	1 cut(s)	157
FspBI	CTAG	3 cut(s)	305, 483, 524
HaeIII	GGCC	1 cut(s)	183
HapII	CCGG	2 cut(s)	246, 284
HgaI	GACGC	1 cut(s)	297
Hin1II	CATG	2 cut(s)	64, 233
HincII	GTYRAC	1 cut(s)	406
HindII	GTYRAC	1 cut(s)	406
HindIII	AAGCTT	1 cut(s)	493
HinfI	GANTC	2 cut(s)	12, 280
HpaII	CCGG	2 cut(s)	246, 284
HphI	GGTGA	1 cut(s)	189
Hpy166II	GTNNAC	2 cut(s)	158, 406
Hpy188I	TCNGA	2 cut(s)	46, 56
Hpy188III	TCNNGA	4 cut(s)	284, 434, 443, 524
Hpy8I	GTNNAC	2 cut(s)	158, 406
Hpy99I	CGWCG	1 cut(s)	190
HpyAV	CCTTC	1 cut(s)	27
HpyCH4III	ACNGT	1 cut(s)	227
HpyCH4IV	ACGT	2 cut(s)	188, 475
HpyCH4V	TGCA	2 cut(s)	23, 396
HpyF3I	CTNAG	1 cut(s)	422
HpySE526I	ACGT	2 cut(s)	188, 475
Hsp92II	CATG	2 cut(s)	64, 233
Kpn2I	TCCGGA	1 cut(s)	283
Ksp22I	TGATCA	1 cut(s)	130
Kzo9I	GATC	5 cut(s)	3, 51, 130, 439, 451
LmnI	GCTCC	1 cut(s)	220
MaeI	CTAG	3 cut(s)	305, 483, 524
MaeII	ACGT	2 cut(s)	188, 475
MaeIII	GTNAC	1 cut(s)	314
MalI	GATC	5 cut(s)	5, 53, 132, 441, 453
MboI	GATC	5 cut(s)	3, 51, 130, 439, 451
MboII	GAAGA	6 cut(s)	59, 131, 151, 352, 355, 539
MhlI	GDGCHC	1 cut(s)	225
MluCI	AATT	1 cut(s)	298
MlyI	GAGTC	1 cut(s)	289
MnlI	CCTC	2 cut(s)	83, 353
MroI	TCCGGA	1 cut(s)	283
MroXI	GAANNNNTTC	1 cut(s)	16
MseI	TTAA	2 cut(s)	33, 96
MslI	CAYNNNNRTG	1 cut(s)	228
MspI	CCGG	2 cut(s)	246, 284
MspR9I	CCNGG	1 cut(s)	246
NciI	CCSGG	1 cut(s)	246
NdeII	GATC	5 cut(s)	3, 51, 130, 439, 451
NlaIII	CATG	2 cut(s)	64, 233
NlaIV	GGNNCC	1 cut(s)	244
PdmI	GAANNNNTTC	1 cut(s)	16
PfeI	GAWTC	1 cut(s)	12
PflFI	GACNNNGTC	1 cut(s)	246
PleI	GAGTC	1 cut(s)	288
PpsI	GAGTC	1 cut(s)	288
Ppu21I	YACGTR	1 cut(s)	476
PspN4I	GGNNCC	1 cut(s)	244
PspPI	GGNCC	2 cut(s)	182, 242
PstI	CTGCAG	1 cut(s)	25
PsyI	GACNNNGTC	1 cut(s)	246
RsaI	GTAC	3 cut(s)	238, 294, 420
RsaNI	GTAC	3 cut(s)	237, 293, 419
RseI	CAYNNNNRTG	1 cut(s)	228
SaqAI	TTAA	2 cut(s)	33, 96
Sau3AI	GATC	5 cut(s)	3, 51, 130, 439, 451
Sau96I	GGNCC	2 cut(s)	182, 242
ScaI	AGTACT	1 cut(s)	420
SchI	GAGTC	1 cut(s)	289
ScrFI	CCNGG	1 cut(s)	246
SduI	GDGCHC	1 cut(s)	225
SetI	ASST	7 cut(s)	85, 150, 171, 191, 202, 478, 497
SfcI	CTRYAG	1 cut(s)	21
SinI	GGWCC	1 cut(s)	242
SmiMI	CAYNNNNRTG	1 cut(s)	228
Sse9I	AATT	1 cut(s)	298
SsiI	CCGC	1 cut(s)	277
SspMI	CTAG	3 cut(s)	305, 483, 524
StyD4I	CCNGG	1 cut(s)	244
TaaI	ACNGT	1 cut(s)	227
TaiI	ACGT	2 cut(s)	191, 478
TaqI	TCGA	1 cut(s)	411
TasI	AATT	1 cut(s)	298
TatI	WGTACW	1 cut(s)	418
TfiI	GAWTC	1 cut(s)	12
Tru1I	TTAA	2 cut(s)	33, 96
Tru9I	TTAA	2 cut(s)	33, 96
TspDTI	ATGAA	2 cut(s)	77, 183
Tth111I	GACNNNGTC	1 cut(s)	246
VpaK11BI	GGWCC	1 cut(s)	242
XagI	CCTNNNNNAGG	1 cut(s)	21
XapI	RAATTY	1 cut(s)	298
XbaI	TCTAGA	1 cut(s)	523
XmiI	GTMKAC	1 cut(s)	157
XmnI	GAANNNNTTC	1 cut(s)	16
XspI	CTAG	3 cut(s)	305, 483, 524
ZrmI	AGTACT	1 cut(s)	420

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