Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0000949

Physical Location & Seq

Genomic Coordinates Forward (+)

36502162 .. 36502626

Gene Structure 465 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00111780.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 465 bp

ATGCCCTCTCATTTCATGGTCGGCACAATCCCTATTTACCCGCCCACCGTGGAGATCGTGATGGTAACTTCCACCAATGGAAGTGATGAAGATGATTCAAAGGATAAGCGCGAAGCTCGTCCTTCACATGGAAGCTCACAAAGGTCAACCGTGCCTTCACAACAAGCGACCTCGCAGGAGAGCCGGGACTTGGACCCAAAGAAACTAGCGGAGGAGATAGTGAAGGCCCTCGATGCACCACCAAAAGCTCCAGGGAGGCCAAAGGGAGCCAAGAACAAAGAGTATCCGGTTTATGGAGGTGATTCTTACCCTGGACCGGTTACTCGCAATATGGCTAAAAGGATGACACCGGTACATCGTCAACAAGTACCACGTCGGAAGAGGGATATTTGTCTCTCGAAGGATAGTCCTTTATATGTGTCTGGAAGGGTAATCCTTTATATGAGGCATCCACACGAGCATTAA

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

RVT_1 RVT_3 Retrotrans_gag rve

Protein Analysis

154

Amino Acids

17.21

Weight (kDa)

9.6

Isoelectric Point (pI)

68.59

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

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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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: OG0000949)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g16861 FvH4_3g30530 FvH4_4g10331
prunus_persica	Prupe.2G142600_v2.0.a1 Prupe.5G153300_v2.0.a1
pyrus_communis	pycom11g20890
rosa_chinensis	RchiOBHm_Chr1g0344221 RchiOBHm_Chr2g0147381 RchiOBHm_Chr2g0154091 RchiOBHm_Chr4g0394431 RchiOBHm_Chr4g0421521 RchiOBHm_Chr6g0274071 RchiOBHm_Chr6g0277071
rosa_laevigata	RLG00000014255
rosa_multiflora	Rmu_co8240637.1_g000001 Rmu_co8485309.1_g000002 Rmu_sc0000455.1_g000055 Rmu_sc0001846.1_g000005 Rmu_sc0002281.1_g000023 Rmu_sc0002772.1_g000021 Rmu_sc0003316.1_g000009 Rmu_sc0004915.1_g000013 Rmu_sc0005465.1_g000001 Rmu_sc0007612.1_g000028 Rmu_sc0009481.1_g000011 Rmu_sc0011709.1_g000004 Rmu_sc0012179.1_g000003 Rmu_sc0014556.1_g000001 Rmu_sc0018308.1_g000001 Rmu_sc0033766.1_g000001
rosa_roxburghii	Rroxscaffold_1G00021100 Rroxscaffold_2G00111780 Rroxscaffold_3G00254520 Rroxscaffold_4G00318760 Rroxscaffold_4G00318770 Rroxscaffold_5G00364750 Rroxscaffold_5G00377430 Rroxscaffold_6G00423030 Rroxscaffold_7G00203610 Rroxscaffold_7G00203960
rosa_rugosa	Rorug01G0056200 Rorug07G0209200
rosa_samantha	Rh1AG072800 Rh1BG059400 Rh1BG092000 Rh1CG071900 Rh2BG331300 Rh2BG512600 Rh2BG515900 Rh2BG517600 Rh2DG120700 Rh2DG420800 Rh2DG433100 Rh2DG524200 Rh2DG529300 Rh4AG003200 Rh4BG121400 Rh4CG032100 Rh4CG052300 Rh5BG244400 Rh5CG363100 Rh6AG117400 Rh7BG296900 Rh7BG452300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	111
AciI	CCGC	2 cut(s)	41, 209
AfaI	GTAC	2 cut(s)	354, 369
AfiI	CCNNNNNNNGG	4 cut(s)	128, 190, 293, 316
AgeI	ACCGGT	2 cut(s)	316, 349
AgsI	TTSAA	1 cut(s)	99
AjiI	CACGTC	1 cut(s)	374
AjnI	CCWGG	2 cut(s)	250, 310
AluBI	AGCT	3 cut(s)	116, 135, 248
AluI	AGCT	3 cut(s)	116, 135, 248
Alw26I	GTCTC	1 cut(s)	398
AoxI	GGCC	2 cut(s)	225, 257
AsiGI	ACCGGT	2 cut(s)	316, 349
AspLEI	GCGC	1 cut(s)	111
AspS9I	GGNCC	3 cut(s)	193, 226, 314
AsuC2I	CCSGG	1 cut(s)	185
AsuHPI	GGTGA	1 cut(s)	311
AvaII	GGWCC	2 cut(s)	193, 314
BauI	CACGAG	1 cut(s)	455
BccI	CCATC	1 cut(s)	55
BciT130I	CCWGG	2 cut(s)	252, 312
BciVI	GTATCC	1 cut(s)	294
BcnI	CCSGG	1 cut(s)	185
BcoDI	GTCTC	1 cut(s)	398
BfaI	CTAG	1 cut(s)	206
BfuI	GTATCC	1 cut(s)	294
Bme1390I	CCNGG	3 cut(s)	185, 252, 312
Bme18I	GGWCC	2 cut(s)	193, 314
BmgBI	CACGTC	1 cut(s)	374
BmgT120I	GGNCC	3 cut(s)	193, 226, 314
BmiI	GGNNCC	2 cut(s)	195, 268
BmrFI	CCNGG	3 cut(s)	185, 252, 312
BmsI	GCATC	2 cut(s)	223, 457
BpmI	CTGGAG	1 cut(s)	234
BpuMI	CCSGG	1 cut(s)	185
BsaJI	CCNNGG	3 cut(s)	48, 251, 310
BsaWI	WCCGGW	3 cut(s)	286, 316, 349
Bsc4I	CCNNNNNNNGG	4 cut(s)	128, 190, 293, 316
Bse118I	RCCGGY	2 cut(s)	316, 349
BseBI	CCWGG	2 cut(s)	252, 312
BseDI	CCNNGG	3 cut(s)	48, 251, 310
BseGI	GGATG	2 cut(s)	348, 448
BseLI	CCNNNNNNNGG	4 cut(s)	128, 190, 293, 316
BseRI	GAGGAG	1 cut(s)	227
Bsh1236I	CGCG	1 cut(s)	111
BshFI	GGCC	2 cut(s)	227, 259
BshTI	ACCGGT	2 cut(s)	316, 349
BsiSI	CCGG	4 cut(s)	184, 287, 317, 350
BslFI	GGGAC	1 cut(s)	200
BslI	CCNNNNNNNGG	4 cut(s)	128, 190, 293, 316
BsmAI	GTCTC	1 cut(s)	398
BsmFI	GGGAC	1 cut(s)	200
BsnI	GGCC	2 cut(s)	227, 259
Bsp143I	GATC	1 cut(s)	54
BspACI	CCGC	2 cut(s)	41, 209
BspANI	GGCC	2 cut(s)	227, 259
BspFNI	CGCG	1 cut(s)	111
BspLI	GGNNCC	2 cut(s)	195, 268
BsrFI	RCCGGY	2 cut(s)	316, 349
BssAI	RCCGGY	2 cut(s)	316, 349
BssECI	CCNNGG	3 cut(s)	48, 251, 310
BssMI	GATC	1 cut(s)	54
BssSI	CACGAG	1 cut(s)	455
Bst2BI	CACGAG	1 cut(s)	455
Bst2UI	CCWGG	2 cut(s)	252, 312
Bst4CI	ACNGT	2 cut(s)	49, 151
Bst6I	CTCTTC	1 cut(s)	374
BstDSI	CCRYGG	1 cut(s)	48
BstF5I	GGATG	2 cut(s)	348, 448
BstFNI	CGCG	1 cut(s)	111
BstHHI	GCGC	1 cut(s)	111
BstKTI	GATC	1 cut(s)	57
BstMAI	GTCTC	1 cut(s)	398
BstMBI	GATC	1 cut(s)	54
BstMWI	GCNNNNNNNGC	1 cut(s)	233
BstNI	CCWGG	2 cut(s)	252, 312
BstSCI	CCNGG	3 cut(s)	183, 250, 310
BstUI	CGCG	1 cut(s)	111
BsuI	GTATCC	1 cut(s)	294
BsuRI	GGCC	2 cut(s)	227, 259
BtgI	CCRYGG	1 cut(s)	48
BtrI	CACGTC	1 cut(s)	374
BtsCI	GGATG	2 cut(s)	348, 448
CfoI	GCGC	1 cut(s)	111
Cfr10I	RCCGGY	2 cut(s)	316, 349
Cfr13I	GGNCC	3 cut(s)	193, 226, 314
Csp6I	GTAC	2 cut(s)	353, 368
CspAI	ACCGGT	2 cut(s)	316, 349
CviAII	CATG	2 cut(s)	16, 128
CviJI	RGCY	8 cut(s)	116, 135, 183, 227, 248, 259, 269, 335
CviKI_1	RGCY	8 cut(s)	116, 135, 183, 227, 248, 259, 269, 335
CviQI	GTAC	2 cut(s)	353, 368
DpnI	GATC	1 cut(s)	56
DpnII	GATC	1 cut(s)	54
Eam1104I	CTCTTC	1 cut(s)	374
EarI	CTCTTC	1 cut(s)	374
Eco47I	GGWCC	2 cut(s)	193, 314
EcoO109I	RGGNCCY	1 cut(s)	226
EcoRII	CCWGG	2 cut(s)	250, 310
FaeI	CATG	2 cut(s)	19, 131
FaiI	YATR	8 cut(s)	17, 129, 294, 332, 415, 417, 441, 443
FaqI	GGGAC	1 cut(s)	200
FatI	CATG	2 cut(s)	15, 127
FauI	CCCGC	1 cut(s)	48
FokI	GGATG	2 cut(s)	355, 435
FspBI	CTAG	1 cut(s)	206
GlaI	GCGC	1 cut(s)	110
GsuI	CTGGAG	1 cut(s)	234
HaeIII	GGCC	2 cut(s)	227, 259
HapII	CCGG	4 cut(s)	184, 287, 317, 350
HhaI	GCGC	1 cut(s)	111
Hin1II	CATG	2 cut(s)	19, 131
Hin6I	GCGC	1 cut(s)	109
HinP1I	GCGC	1 cut(s)	109
HincII	GTYRAC	2 cut(s)	147, 362
HindII	GTYRAC	2 cut(s)	147, 362
HinfI	GANTC	2 cut(s)	95, 302
HpaII	CCGG	4 cut(s)	184, 287, 317, 350
HphI	GGTGA	1 cut(s)	311
Hpy166II	GTNNAC	2 cut(s)	147, 362
Hpy188I	TCNGA	1 cut(s)	378
Hpy188III	TCNNGA	3 cut(s)	58, 397, 423
Hpy8I	GTNNAC	2 cut(s)	147, 362
Hpy99I	CGWCG	1 cut(s)	378
HpyAV	CCTTC	5 cut(s)	132, 165, 217, 394, 420
HpyCH4III	ACNGT	2 cut(s)	49, 151
HpyCH4IV	ACGT	1 cut(s)	373
HpyCH4V	TGCA	1 cut(s)	236
HpyF10VI	GCNNNNNNNGC	1 cut(s)	233
HpySE526I	ACGT	1 cut(s)	373
Hsp92II	CATG	2 cut(s)	19, 131
HspAI	GCGC	1 cut(s)	109
Kzo9I	GATC	1 cut(s)	54
LmnI	GCTCC	2 cut(s)	253, 266
LweI	GCATC	2 cut(s)	223, 457
MaeI	CTAG	1 cut(s)	206
MaeII	ACGT	1 cut(s)	373
MaeIII	GTNAC	2 cut(s)	64, 319
MalI	GATC	1 cut(s)	56
MboI	GATC	1 cut(s)	54
MboII	GAAGA	2 cut(s)	101, 391
MmeI	TCCRAC	1 cut(s)	356
MnlI	CCTC	8 cut(s)	16, 181, 205, 239, 249, 290, 375, 438
MseI	TTAA	1 cut(s)	463
MspI	CCGG	4 cut(s)	184, 287, 317, 350
MspR9I	CCNGG	3 cut(s)	185, 252, 312
MvaI	CCWGG	2 cut(s)	252, 312
MvnI	CGCG	1 cut(s)	111
MwoI	GCNNNNNNNGC	1 cut(s)	233
NciI	CCSGG	1 cut(s)	185
NdeII	GATC	1 cut(s)	54
NlaIII	CATG	2 cut(s)	19, 131
NlaIV	GGNNCC	2 cut(s)	195, 268
PfeI	GAWTC	2 cut(s)	95, 302
PinAI	ACCGGT	2 cut(s)	316, 349
Psp6I	CCWGG	2 cut(s)	250, 310
PspGI	CCWGG	2 cut(s)	250, 310
PspN4I	GGNNCC	2 cut(s)	195, 268
PspPI	GGNCC	3 cut(s)	193, 226, 314
RsaI	GTAC	2 cut(s)	354, 369
RsaNI	GTAC	2 cut(s)	353, 368
SaqAI	TTAA	1 cut(s)	463
Sau3AI	GATC	1 cut(s)	54
Sau96I	GGNCC	3 cut(s)	193, 226, 314
ScrFI	CCNGG	3 cut(s)	185, 252, 312
SetI	ASST	7 cut(s)	118, 137, 146, 173, 250, 301, 376
SfaNI	GCATC	2 cut(s)	223, 457
SinI	GGWCC	2 cut(s)	193, 314
SsiI	CCGC	2 cut(s)	41, 209
SspMI	CTAG	1 cut(s)	206
StyD4I	CCNGG	3 cut(s)	183, 250, 310
TaaI	ACNGT	2 cut(s)	49, 151
TaiI	ACGT	1 cut(s)	376
TaqI	TCGA	2 cut(s)	231, 398
TfiI	GAWTC	2 cut(s)	95, 302
Tru1I	TTAA	1 cut(s)	463
Tru9I	TTAA	1 cut(s)	463
TspDTI	ATGAA	2 cut(s)	4, 102
VpaK11BI	GGWCC	2 cut(s)	193, 314
XspI	CTAG	1 cut(s)	206

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