Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0006381

Physical Location & Seq

Genomic Coordinates Reverse (-)

11653343 .. 11655048

Gene Structure 1706 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00171340.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 441 bp

ATGGCGGAGAGGTATCTTCGAGTCCACAAGGTACCTCTCCACGAGCACGTACTCATAGTTGGTGCTCACCTCGGTCCCGATGCCTCCTTGTGGATGAACGCCTTCGAGTCACGCCACCCAGCACCAACCTGGGATTGTTTTGTATCTGCCTTTCTAGACCGCTTTGGGGGTTCTTGTAACACCACATTGGACTTGATGGCTCAGCTTTCTCATCTGCAACACCACAACACTGTCTATGAGTACATCACAGAGTTCACAAAGCTTTCTTGTCGCGCTCCGGGATGGACGGACACCCAGCTCATACCCATTTTCTGCGGCGGCCTGAAGCCGGAGCTCCGCCGCGACGTCTTGGCCATGGACCCCCACTCCCTTGCACAGGCGAAACGCCTAGCCAGACTCTACGAAGCCAAGCTTCAGGACATCAAAGGCCTGTGCTTTTAA

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

RVP_2 RVT_1 Retrotrans_gag gag-asp_proteas rve

Protein Analysis

146

Amino Acids

16.62

Weight (kDa)

7.11

Isoelectric Point (pI)

36.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ty3_capsid	PF19259	14 - 135	9.5e-14	Ty3 transposon capsid-like protein
Retrotrans_gag	PF03732	23 - 110	2.3e-12	Retrotransposon gag 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

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Publication-ready

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Orthologous Genes (Group: OG0006381)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g06201 FvH4_1g08061 FvH4_1g08061 FvH4_5g27691 FvH4_6g16962 FvH4_7g30611
rosa_chinensis	RchiOBHm_Chr2g0094121 RchiOBHm_Chr6g0296601
rosa_laevigata	RLG00000008247 RLG00000016457
rosa_roxburghii	Rroxscaffold_2G00076380 Rroxscaffold_2G00132740 Rroxscaffold_2G00147460 Rroxscaffold_3G00257090 Rroxscaffold_7G00171340
rosa_rugosa	Rorug03G0253300 Rorug03G0304200
rosa_samantha	Rh1DG093900 Rh2AG088700 Rh2AG365300 Rh2BG088800 Rh2BG325600 Rh2CG091200 Rh2DG087800 Rh4AG227300 Rh4CG009100
rosa_wichuraiana	Rw4G001570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	348
Acc65I	GGTACC	1 cut(s)	31
AccB1I	GGYRCC	1 cut(s)	31
AccII	CGCG	2 cut(s)	273, 342
AciI	CCGC	6 cut(s)	5, 160, 315, 318, 337, 340
AcoI	YGGCCR	1 cut(s)	351
AcuI	CTGAAG	2 cut(s)	344, 398
AcyI	GRCGYC	1 cut(s)	345
AfaI	GTAC	3 cut(s)	33, 51, 242
AfiI	CCNNNNNNNGG	4 cut(s)	90, 166, 328, 376
AjnI	CCWGG	1 cut(s)	128
AluBI	AGCT	5 cut(s)	205, 262, 298, 334, 412
AluI	AGCT	5 cut(s)	205, 262, 298, 334, 412
Alw21I	GWGCWC	3 cut(s)	48, 67, 336
AoxI	GGCC	3 cut(s)	319, 351, 427
Asp700I	GAANNNNTTC	1 cut(s)	101
Asp718I	GGTACC	1 cut(s)	31
AspLEI	GCGC	1 cut(s)	275
AspS9I	GGNCC	2 cut(s)	74, 358
AsuC2I	CCSGG	1 cut(s)	279
AsuHPI	GGTGA	1 cut(s)	59
AvaII	GGWCC	2 cut(s)	74, 358
BalI	TGGCCA	1 cut(s)	353
BanI	GGYRCC	1 cut(s)	31
BanII	GRGCYC	1 cut(s)	336
BauI	CACGAG	1 cut(s)	41
Bbv12I	GWGCWC	3 cut(s)	48, 67, 336
BccI	CCATC	2 cut(s)	190, 276
BciT130I	CCWGG	1 cut(s)	130
BcnI	CCSGG	1 cut(s)	279
BfaI	CTAG	2 cut(s)	155, 389
BisI	GCNGC	3 cut(s)	316, 319, 340
BlpI	GCTNAGC	1 cut(s)	201
BlsI	GCNGC	3 cut(s)	317, 320, 341
Bme1390I	CCNGG	2 cut(s)	130, 279
Bme18I	GGWCC	2 cut(s)	74, 358
BmgT120I	GGNCC	2 cut(s)	74, 358
BmiI	GGNNCC	3 cut(s)	33, 76, 360
BmrFI	CCNGG	2 cut(s)	130, 279
BmsI	GCATC	1 cut(s)	70
Bpu1102I	GCTNAGC	1 cut(s)	201
BpuMI	CCSGG	1 cut(s)	279
BsaAI	YACGTR	1 cut(s)	49
BsaHI	GRCGYC	1 cut(s)	345
BsaJI	CCNNGG	3 cut(s)	70, 129, 354
BsaXI	ACNNNNNCTCC	2 cut(s)	350, 380
Bsc4I	CCNNNNNNNGG	4 cut(s)	90, 166, 328, 376
BseBI	CCWGG	1 cut(s)	130
BseDI	CCNNGG	3 cut(s)	70, 129, 354
BseGI	GGATG	2 cut(s)	99, 287
BseLI	CCNNNNNNNGG	4 cut(s)	90, 166, 328, 376
BseMII	CTCAG	1 cut(s)	215
BseYI	CCCAGC	2 cut(s)	118, 294
Bsh1236I	CGCG	2 cut(s)	273, 342
BshFI	GGCC	3 cut(s)	321, 353, 429
BshNI	GGYRCC	1 cut(s)	31
BsiHKAI	GWGCWC	3 cut(s)	48, 67, 336
BsiSI	CCGG	2 cut(s)	278, 329
BslFI	GGGAC	1 cut(s)	60
BslI	CCNNNNNNNGG	4 cut(s)	90, 166, 328, 376
BsmFI	GGGAC	1 cut(s)	60
BsnI	GGCC	3 cut(s)	321, 353, 429
Bsp1286I	GDGCHC	3 cut(s)	48, 67, 336
Bsp1720I	GCTNAGC	1 cut(s)	201
Bsp19I	CCATGG	1 cut(s)	354
BspACI	CCGC	6 cut(s)	5, 160, 315, 318, 337, 340
BspANI	GGCC	3 cut(s)	321, 353, 429
BspCNI	CTCAG	1 cut(s)	214
BspFNI	CGCG	2 cut(s)	273, 342
BspLI	GGNNCC	3 cut(s)	33, 76, 360
BspT107I	GGYRCC	1 cut(s)	31
BssECI	CCNNGG	3 cut(s)	70, 129, 354
BssNI	GRCGYC	1 cut(s)	345
BssSI	CACGAG	1 cut(s)	41
BssT1I	CCWWGG	1 cut(s)	354
Bst2BI	CACGAG	1 cut(s)	41
Bst2UI	CCWGG	1 cut(s)	130
Bst4CI	ACNGT	1 cut(s)	232
BstACI	GRCGYC	1 cut(s)	345
BstBAI	YACGTR	1 cut(s)	49
BstDEI	CTNAG	1 cut(s)	201
BstDSI	CCRYGG	1 cut(s)	354
BstENI	CCTNNNNNAGG	1 cut(s)	374
BstF5I	GGATG	2 cut(s)	99, 287
BstFNI	CGCG	2 cut(s)	273, 342
BstHHI	GCGC	1 cut(s)	275
BstNI	CCWGG	1 cut(s)	130
BstSCI	CCNGG	2 cut(s)	128, 277
BstUI	CGCG	2 cut(s)	273, 342
BsuRI	GGCC	3 cut(s)	321, 353, 429
BtgI	CCRYGG	1 cut(s)	354
BtsCI	GGATG	2 cut(s)	99, 287
BtsIMutI	CAGTG	1 cut(s)	228
CfoI	GCGC	1 cut(s)	275
Cfr13I	GGNCC	2 cut(s)	74, 358
Csp6I	GTAC	3 cut(s)	32, 50, 241
CviAII	CATG	1 cut(s)	355
CviQI	GTAC	3 cut(s)	32, 50, 241
DdeI	CTNAG	1 cut(s)	201
EaeI	YGGCCR	1 cut(s)	351
EciI	GGCGGA	2 cut(s)	20, 326
Ecl136II	GAGCTC	1 cut(s)	334
Eco130I	CCWWGG	1 cut(s)	354
Eco147I	AGGCCT	1 cut(s)	429
Eco24I	GRGCYC	1 cut(s)	336
Eco47I	GGWCC	2 cut(s)	74, 358
Eco53kI	GAGCTC	1 cut(s)	334
Eco57I	CTGAAG	2 cut(s)	344, 398
EcoICRI	GAGCTC	1 cut(s)	334
EcoNI	CCTNNNNNAGG	1 cut(s)	374
EcoRII	CCWGG	1 cut(s)	128
EcoT14I	CCWWGG	1 cut(s)	354
EcoT38I	GRGCYC	1 cut(s)	336
ErhI	CCWWGG	1 cut(s)	354
FaeI	CATG	1 cut(s)	358
FaiI	YATR	4 cut(s)	56, 237, 302, 356
FalI	AAGNNNNNCTT	2 cut(s)	396, 428
FaqI	GGGAC	1 cut(s)	60
FatI	CATG	1 cut(s)	354
Fnu4HI	GCNGC	3 cut(s)	316, 319, 340
FokI	GGATG	2 cut(s)	106, 294
FriOI	GRGCYC	1 cut(s)	336
Fsp4HI	GCNGC	3 cut(s)	316, 319, 340
FspBI	CTAG	2 cut(s)	155, 389
GlaI	GCGC	1 cut(s)	274
GluI	GCNGC	3 cut(s)	316, 319, 340
GsaI	CCCAGC	2 cut(s)	122, 298
HaeIII	GGCC	3 cut(s)	321, 353, 429
HapII	CCGG	2 cut(s)	278, 329
HhaI	GCGC	1 cut(s)	275
Hin1I	GRCGYC	1 cut(s)	345
Hin1II	CATG	1 cut(s)	358
Hin6I	GCGC	1 cut(s)	273
HinP1I	GCGC	1 cut(s)	273
HindIII	AAGCTT	2 cut(s)	260, 410
HinfI	GANTC	3 cut(s)	21, 107, 396
HpaII	CCGG	2 cut(s)	278, 329
HphI	GGTGA	1 cut(s)	59
Hpy166II	GTNNAC	2 cut(s)	25, 255
Hpy188III	TCNNGA	3 cut(s)	77, 155, 416
Hpy8I	GTNNAC	2 cut(s)	25, 255
Hpy99I	CGWCG	1 cut(s)	347
HpyAV	CCTTC	1 cut(s)	112
HpyCH4III	ACNGT	1 cut(s)	232
HpyCH4IV	ACGT	2 cut(s)	48, 345
HpyCH4V	TGCA	2 cut(s)	217, 374
HpyF3I	CTNAG	1 cut(s)	201
HpySE526I	ACGT	2 cut(s)	48, 345
Hsp92I	GRCGYC	1 cut(s)	345
Hsp92II	CATG	1 cut(s)	358
HspAI	GCGC	1 cut(s)	273
KpnI	GGTACC	1 cut(s)	35
LmnI	GCTCC	3 cut(s)	280, 331, 339
LweI	GCATC	1 cut(s)	70
MaeI	CTAG	2 cut(s)	155, 389
MaeII	ACGT	2 cut(s)	48, 345
MaeIII	GTNAC	2 cut(s)	108, 176
MboII	GAAGA	1 cut(s)	8
MhlI	GDGCHC	3 cut(s)	48, 67, 336
MlsI	TGGCCA	1 cut(s)	353
MluNI	TGGCCA	1 cut(s)	353
MlyI	GAGTC	3 cut(s)	30, 116, 390
MnlI	CCTC	4 cut(s)	3, 45, 80, 94
Mox20I	TGGCCA	1 cut(s)	353
MroXI	GAANNNNTTC	1 cut(s)	101
MscI	TGGCCA	1 cut(s)	353
MseI	TTAA	1 cut(s)	439
Msp20I	TGGCCA	1 cut(s)	353
MspI	CCGG	2 cut(s)	278, 329
MspR9I	CCNGG	2 cut(s)	130, 279
MvaI	CCWGG	1 cut(s)	130
MvnI	CGCG	2 cut(s)	273, 342
NciI	CCSGG	1 cut(s)	279
NcoI	CCATGG	1 cut(s)	354
NlaIII	CATG	1 cut(s)	358
NlaIV	GGNNCC	3 cut(s)	33, 76, 360
NmuCI	GTSAC	1 cut(s)	108
PceI	AGGCCT	1 cut(s)	429
PdmI	GAANNNNTTC	1 cut(s)	101
PfoI	TCCNGGA	1 cut(s)	277
PkrI	GCNGC	3 cut(s)	317, 320, 341
PleI	GAGTC	3 cut(s)	29, 115, 390
PpsI	GAGTC	3 cut(s)	29, 115, 390
Ppu21I	YACGTR	1 cut(s)	49
Psp124BI	GAGCTC	1 cut(s)	336
Psp6I	CCWGG	1 cut(s)	128
PspFI	CCCAGC	2 cut(s)	118, 294
PspGI	CCWGG	1 cut(s)	128
PspN4I	GGNNCC	3 cut(s)	33, 76, 360
PspPI	GGNCC	2 cut(s)	74, 358
RsaI	GTAC	3 cut(s)	33, 51, 242
RsaNI	GTAC	3 cut(s)	32, 50, 241
SacI	GAGCTC	1 cut(s)	336
SaqAI	TTAA	1 cut(s)	439
SatI	GCNGC	3 cut(s)	316, 319, 340
Sau96I	GGNCC	2 cut(s)	74, 358
SchI	GAGTC	3 cut(s)	30, 116, 390
ScrFI	CCNGG	2 cut(s)	130, 279
SduI	GDGCHC	3 cut(s)	48, 67, 336
SfaNI	GCATC	1 cut(s)	70
SinI	GGWCC	2 cut(s)	74, 358
SseBI	AGGCCT	1 cut(s)	429
SsiI	CCGC	6 cut(s)	5, 160, 315, 318, 337, 340
SspMI	CTAG	2 cut(s)	155, 389
SstI	GAGCTC	1 cut(s)	336
StuI	AGGCCT	1 cut(s)	429
StyD4I	CCNGG	2 cut(s)	128, 277
StyI	CCWWGG	1 cut(s)	354
TaaI	ACNGT	1 cut(s)	232
TaiI	ACGT	2 cut(s)	51, 348
TaqI	TCGA	2 cut(s)	19, 105
TaqII	GACCGA	1 cut(s)	62
TatI	WGTACW	1 cut(s)	240
TauI	GCSGC	3 cut(s)	318, 321, 342
Tru1I	TTAA	1 cut(s)	439
Tru9I	TTAA	1 cut(s)	439
TscAI	CASTG	1 cut(s)	235
TseFI	GTSAC	1 cut(s)	108
Tsp45I	GTSAC	1 cut(s)	108
TspDTI	ATGAA	1 cut(s)	110
TspGWI	ACGGA	1 cut(s)	302
TspRI	CASTG	1 cut(s)	235
VpaK11BI	GGWCC	2 cut(s)	74, 358
XagI	CCTNNNNNAGG	1 cut(s)	374
XbaI	TCTAGA	1 cut(s)	154
XcmI	CCANNNNNNNNNTGG	1 cut(s)	126
XmnI	GAANNNNTTC	1 cut(s)	101
XspI	CTAG	2 cut(s)	155, 389
ZraI	GACGTC	1 cut(s)	346

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