Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0007548

Physical Location & Seq

Genomic Coordinates Reverse (-)

60963929 .. 60966848

Gene Structure 2920 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00042630.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 420 bp

ATGAGAGCATTGAGTTGCTTTCCTGTATGGCCAAGAAATTATGGCAGTGAAGGGAGGGTCTTGCAAGTTCCACCGGTGTTCAGCATCGTTTGTAAGAGGCCTCATCCAAATGAATGTTCTGGAAGTGATCTTGATGGAGATATTTACTTTGTTTGCTGGGACCCCGAGTTGATTTCTTGCAATCAAATCCAACCTATGGATTATACCCCAGCACCAACTATAAAGATGGATCATGATGTCACAATTGAGACTATTGATCCAGATGCAGCTAGAACTATAGAAAGACATCAAAAAGCTCCTAAAAGGCCTATTCATAATAGTGCTTGGAAGCTTGCAAAGCTAGACTCCAATGGTGCCATGAGAGCGGCAAAGCTTGCCAAGCTAGACTTCTTAAGTAAATTTCTGGATGTGTATTGCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009605 GO:0009607 GO:0009615 GO:0009719 GO:0009725 GO:0009751 GO:0009892 GO:0009987 GO:0010025 GO:0010033 GO:0010166 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016246 GO:0016441 GO:0016458 GO:0019222 GO:0030422 GO:0031047 GO:0031050 GO:0034641 GO:0035194 GO:0040029 GO:0042221 GO:0042493 GO:0043170 GO:0043207 GO:0043331 GO:0044237 GO:0044238 GO:0046483 GO:0046677 GO:0048518 GO:0048519 GO:0048522 GO:0050789 GO:0050794 GO:0050896 GO:0051704 GO:0051707 GO:0051716 GO:0060147 GO:0060148 GO:0060255 GO:0060968 GO:0065007 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:1901360 GO:1901568 GO:1901570 GO:1901576 GO:1901698 GO:1901699 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RdRP

Protein Analysis

139

Amino Acids

15.73

Weight (kDa)

6.88

Isoelectric Point (pI)

47.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RdRP	PF05183	26 - 89	1.7e-18	RNA dependent RNA polymerase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0007548)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0152821 RchiOBHm_Chr3g0495421
rosa_laevigata	RLG00000002537 RLG00000013116 RLG00000035479
rosa_multiflora	Rmu_sc0000185.1_g000009 Rmu_sc0000662.1_g000017 Rmu_sc0002244.1_g000021 Rmu_sc0002858.1_g000009 Rmu_sc0006805.1_g000008
rosa_roxburghii	Rroxscaffold_1G00035930 Rroxscaffold_1G00042630 Rroxscaffold_5G00344740
rosa_samantha	Rh2AG316200 Rh2AG528400 Rh2BG485600 Rh2CG229200 Rh2CG512700 Rh2DG403000 Rh2DG494800 Rh3DG247800 Rh4BG207000 Rh5AG221400 Rh5DG249400 Rh6BG071800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	353
AccB7I	CCANNNNNTGG	1 cut(s)	196
AccBSI	CCGCTC	1 cut(s)	365
AciI	CCGC	1 cut(s)	365
AclWI	GGATC	2 cut(s)	237, 251
AcoI	YGGCCR	1 cut(s)	29
AcsI	RAATTY	1 cut(s)	398
AfiI	CCNNNNNNNGG	1 cut(s)	196
AflII	CTTAAG	1 cut(s)	391
AgeI	ACCGGT	1 cut(s)	73
AjuI	GAANNNNNNNTTGG	4 cut(s)	100, 132, 371, 403
AluBI	AGCT	6 cut(s)	269, 296, 331, 340, 373, 382
AluI	AGCT	6 cut(s)	269, 296, 331, 340, 373, 382
Alw26I	GTCTC	1 cut(s)	242
AlwI	GGATC	2 cut(s)	237, 251
Ama87I	CYCGRG	1 cut(s)	164
AoxI	GGCC	3 cut(s)	29, 98, 305
ApeKI	GCWGC	1 cut(s)	266
ApoI	RAATTY	1 cut(s)	398
AsiGI	ACCGGT	1 cut(s)	73
AspS9I	GGNCC	1 cut(s)	160
AvaI	CYCGRG	1 cut(s)	164
AvaII	GGWCC	1 cut(s)	160
BalI	TGGCCA	1 cut(s)	31
BanI	GGYRCC	1 cut(s)	353
BbvI	GCAGC	1 cut(s)	278
BccI	CCATC	2 cut(s)	128, 220
BcoDI	GTCTC	1 cut(s)	242
BfaI	CTAG	4 cut(s)	270, 341, 383, 418
BfmI	CTRYAG	1 cut(s)	276
BfrI	CTTAAG	1 cut(s)	391
BisI	GCNGC	2 cut(s)	267, 366
BlsI	GCNGC	2 cut(s)	268, 367
Bme18I	GGWCC	1 cut(s)	160
BmeT110I	CYCGRG	1 cut(s)	164
BmgT120I	GGNCC	1 cut(s)	160
BmiI	GGNNCC	3 cut(s)	161, 162, 355
BmsI	GCATC	2 cut(s)	93, 253
BsaWI	WCCGGW	1 cut(s)	73
Bsc4I	CCNNNNNNNGG	1 cut(s)	196
Bse118I	RCCGGY	1 cut(s)	73
BseGI	GGATG	2 cut(s)	103, 412
BseLI	CCNNNNNNNGG	1 cut(s)	196
BseXI	GCAGC	1 cut(s)	278
BseYI	CCCAGC	2 cut(s)	156, 208
BshFI	GGCC	3 cut(s)	31, 100, 307
BshNI	GGYRCC	1 cut(s)	353
BshTI	ACCGGT	1 cut(s)	73
BsiHKCI	CYCGRG	1 cut(s)	164
BsiSI	CCGG	1 cut(s)	74
BslFI	GGGAC	1 cut(s)	173
BslI	CCNNNNNNNGG	1 cut(s)	196
BsmAI	GTCTC	1 cut(s)	242
BsmFI	GGGAC	1 cut(s)	173
BsnI	GGCC	3 cut(s)	31, 100, 307
BsoBI	CYCGRG	1 cut(s)	164
Bsp143I	GATC	3 cut(s)	127, 229, 256
BspACI	CCGC	1 cut(s)	365
BspANI	GGCC	3 cut(s)	31, 100, 307
BspHI	TCATGA	1 cut(s)	232
BspLI	GGNNCC	3 cut(s)	161, 162, 355
BspPI	GGATC	2 cut(s)	237, 251
BspT107I	GGYRCC	1 cut(s)	353
BspTI	CTTAAG	1 cut(s)	391
BsrBI	CCGCTC	1 cut(s)	365
BsrFI	RCCGGY	1 cut(s)	73
BssAI	RCCGGY	1 cut(s)	73
BssMI	GATC	3 cut(s)	127, 229, 256
BstAFI	CTTAAG	1 cut(s)	391
BstAPI	GCANNNNNTGC	1 cut(s)	374
BstC8I	GCNNGC	2 cut(s)	333, 375
BstF5I	GGATG	2 cut(s)	103, 412
BstKTI	GATC	3 cut(s)	130, 232, 259
BstMAI	GTCTC	1 cut(s)	242
BstMBI	GATC	3 cut(s)	127, 229, 256
BstMWI	GCNNNNNNNGC	4 cut(s)	337, 362, 374, 379
BstSFI	CTRYAG	1 cut(s)	276
BstV1I	GCAGC	1 cut(s)	278
BsuRI	GGCC	3 cut(s)	31, 100, 307
BtsCI	GGATG	2 cut(s)	103, 412
BtsI	GCAGTG	1 cut(s)	52
BtsIMutI	CAGTG	1 cut(s)	52
Cac8I	GCNNGC	2 cut(s)	333, 375
CciI	TCATGA	1 cut(s)	232
Cfr10I	RCCGGY	1 cut(s)	73
Cfr13I	GGNCC	1 cut(s)	160
CspAI	ACCGGT	1 cut(s)	73
CviAII	CATG	2 cut(s)	233, 358
CviJI	RGCY	9 cut(s)	31, 100, 269, 296, 307, 331, 340, 373, 382
CviKI_1	RGCY	9 cut(s)	31, 100, 269, 296, 307, 331, 340, 373, 382
DpnI	GATC	3 cut(s)	129, 231, 258
DpnII	GATC	3 cut(s)	127, 229, 256
EaeI	YGGCCR	1 cut(s)	29
Eco147I	AGGCCT	2 cut(s)	100, 307
Eco47I	GGWCC	1 cut(s)	160
Eco88I	CYCGRG	1 cut(s)	164
EcoO109I	RGGNCCY	1 cut(s)	160
FaeI	CATG	2 cut(s)	236, 361
FaiI	YATR	9 cut(s)	28, 42, 197, 204, 221, 234, 278, 315, 359
FalI	AAGNNNNNCTT	2 cut(s)	371, 403
FaqI	GGGAC	1 cut(s)	173
FatI	CATG	2 cut(s)	232, 357
Fnu4HI	GCNGC	2 cut(s)	267, 366
FokI	GGATG	1 cut(s)	90
Fsp4HI	GCNGC	2 cut(s)	267, 366
FspBI	CTAG	4 cut(s)	270, 341, 383, 418
GluI	GCNGC	2 cut(s)	267, 366
GsaI	CCCAGC	2 cut(s)	160, 212
HaeIII	GGCC	3 cut(s)	31, 100, 307
HapII	CCGG	1 cut(s)	74
Hin1II	CATG	2 cut(s)	236, 361
HindIII	AAGCTT	2 cut(s)	329, 371
HinfI	GANTC	1 cut(s)	344
HpaII	CCGG	1 cut(s)	74
Hpy188III	TCNNGA	5 cut(s)	120, 131, 233, 260, 404
HpyAV	CCTTC	1 cut(s)	44
HpyCH4V	TGCA	4 cut(s)	64, 180, 266, 335
HpyF10VI	GCNNNNNNNGC	4 cut(s)	337, 362, 374, 379
Hsp92II	CATG	2 cut(s)	236, 361
KflI	GGGWCCC	1 cut(s)	160
Kzo9I	GATC	3 cut(s)	127, 229, 256
LmnI	GCTCC	1 cut(s)	301
LpnPI	CCDG	7 cut(s)	36, 87, 105, 142, 222, 273, 389
Lsp1109I	GCAGC	1 cut(s)	278
LweI	GCATC	2 cut(s)	93, 253
MaeI	CTAG	4 cut(s)	270, 341, 383, 418
MaeIII	GTNAC	1 cut(s)	238
MalI	GATC	3 cut(s)	129, 231, 258
MbiI	CCGCTC	1 cut(s)	365
MboI	GATC	3 cut(s)	127, 229, 256
MfeI	CAATTG	1 cut(s)	243
MlsI	TGGCCA	1 cut(s)	31
MluCI	AATT	3 cut(s)	37, 243, 398
MluNI	TGGCCA	1 cut(s)	31
MlyI	GAGTC	1 cut(s)	338
MmeI	TCCRAC	1 cut(s)	214
MnlI	CCTC	3 cut(s)	48, 90, 111
Mox20I	TGGCCA	1 cut(s)	31
MscI	TGGCCA	1 cut(s)	31
MseI	TTAA	1 cut(s)	392
MslI	CAYNNNNRTG	2 cut(s)	108, 318
Msp20I	TGGCCA	1 cut(s)	31
MspCI	CTTAAG	1 cut(s)	391
MspI	CCGG	1 cut(s)	74
MunI	CAATTG	1 cut(s)	243
MwoI	GCNNNNNNNGC	4 cut(s)	337, 362, 374, 379
NdeII	GATC	3 cut(s)	127, 229, 256
NlaIII	CATG	2 cut(s)	236, 361
NlaIV	GGNNCC	3 cut(s)	161, 162, 355
NmuCI	GTSAC	1 cut(s)	238
PagI	TCATGA	1 cut(s)	232
PceI	AGGCCT	2 cut(s)	100, 307
PflMI	CCANNNNNTGG	1 cut(s)	196
PinAI	ACCGGT	1 cut(s)	73
PkrI	GCNGC	2 cut(s)	268, 367
PleI	GAGTC	1 cut(s)	338
PpsI	GAGTC	1 cut(s)	338
PpuMI	RGGWCCY	1 cut(s)	160
Psp5II	RGGWCCY	1 cut(s)	160
PspFI	CCCAGC	2 cut(s)	156, 208
PspN4I	GGNNCC	3 cut(s)	161, 162, 355
PspPI	GGNCC	1 cut(s)	160
PspPPI	RGGWCCY	1 cut(s)	160
RseI	CAYNNNNRTG	2 cut(s)	108, 318
SaqAI	TTAA	1 cut(s)	392
SatI	GCNGC	2 cut(s)	267, 366
Sau3AI	GATC	3 cut(s)	127, 229, 256
Sau96I	GGNCC	1 cut(s)	160
SchI	GAGTC	1 cut(s)	338
SetI	ASST	7 cut(s)	196, 271, 298, 333, 342, 375, 384
SfaNI	GCATC	2 cut(s)	93, 253
SfcI	CTRYAG	1 cut(s)	276
SgrAI	CRCCGGYG	1 cut(s)	73
SinI	GGWCC	1 cut(s)	160
SmiMI	CAYNNNNRTG	2 cut(s)	108, 318
SmlI	CTYRAG	1 cut(s)	391
SmoI	CTYRAG	1 cut(s)	391
Sse9I	AATT	3 cut(s)	37, 243, 398
SseBI	AGGCCT	2 cut(s)	100, 307
SsiI	CCGC	1 cut(s)	365
SspMI	CTAG	4 cut(s)	270, 341, 383, 418
StuI	AGGCCT	2 cut(s)	100, 307
TasI	AATT	3 cut(s)	37, 243, 398
TauI	GCSGC	1 cut(s)	368
Tru1I	TTAA	1 cut(s)	392
Tru9I	TTAA	1 cut(s)	392
TscAI	CASTG	1 cut(s)	52
TseFI	GTSAC	1 cut(s)	238
TseI	GCWGC	1 cut(s)	266
Tsp45I	GTSAC	1 cut(s)	238
TspDTI	ATGAA	2 cut(s)	126, 302
TspRI	CASTG	1 cut(s)	52
Van91I	CCANNNNNTGG	1 cut(s)	196
Vha464I	CTTAAG	1 cut(s)	391
VpaK11BI	GGWCC	1 cut(s)	160
XapI	RAATTY	1 cut(s)	398
XspI	CTAG	4 cut(s)	270, 341, 383, 418

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