Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0002857

Physical Location & Seq

Genomic Coordinates Reverse (-)

7277160 .. 7278597

Gene Structure 1438 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00224120.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 486 bp

ATGGCCCAACTAGAGCAATCTGTTATTGAAGAGGCGGTTATGGAGGAGTTGGATGCCATTGCTCAACGTGTTGTGGATGAGCCGTCCAACCAATTGCTTTTACAAAACACTAGTATGGAGGAGTGTGAGGATGATTCTAGCTCTAATGAGGCCGAGGAGCCGAACCAATCGTTCATGCGACAGGTAGAAATGGTTGCTGTGAATTCCTTGTTGAAAGGTGATGGATTCTTGTGGAGTAAAGGAGAAAATAAAGGAGAAAAGACGCATGAAATGCGAAATCAGGAAATCTGCCTGTGCAGATCAGTCAATTTCGACAGAGTACTGAGAACCTCTCAGAACGAACCAGATAATGATCTTTATATTGTTGGAAAGCCTCAGATGTCTAGTTTCTACAGCTTTTTACGGTTCATCGATATCATTTTTCTAGAAGAAGTTATGGCCGATTTAGTACAGGAAGGTCAAGCTGCGCGTGAATCTGGTTTTTGA

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

161

Amino Acids

18.37

Weight (kDa)

4.22

Isoelectric Point (pI)

58.66

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)
AccII	CGCG	1 cut(s)	469
AciI	CCGC	1 cut(s)	35
AcoI	YGGCCR	1 cut(s)	438
AcsI	RAATTY	1 cut(s)	202
AfaI	GTAC	2 cut(s)	321, 450
AflIII	ACRYGT	1 cut(s)	67
AgsI	TTSAA	2 cut(s)	29, 214
AhlI	ACTAGT	1 cut(s)	110
AluBI	AGCT	3 cut(s)	141, 396, 464
AluI	AGCT	3 cut(s)	141, 396, 464
AoxI	GGCC	3 cut(s)	3, 150, 438
ApeKI	GCWGC	1 cut(s)	464
ApoI	RAATTY	1 cut(s)	202
AspLEI	GCGC	1 cut(s)	469
AspS9I	GGNCC	1 cut(s)	4
AsuHPI	GGTGA	1 cut(s)	230
BbvI	GCAGC	1 cut(s)	451
BccI	CCATC	1 cut(s)	215
BceAI	ACGGC	1 cut(s)	67
BcuI	ACTAGT	1 cut(s)	110
BfaI	CTAG	5 cut(s)	11, 111, 138, 384, 425
BfmI	CTRYAG	1 cut(s)	391
BisI	GCNGC	1 cut(s)	465
BlsI	GCNGC	1 cut(s)	466
BmcAI	AGTACT	1 cut(s)	321
BmgT120I	GGNCC	1 cut(s)	4
BmiI	GGNNCC	1 cut(s)	159
BmsI	GCATC	1 cut(s)	43
BplI	GAGNNNNNCTC	2 cut(s)	316, 348
Bsa29I	ATCGAT	1 cut(s)	411
BsaBI	GATNNNNATC	1 cut(s)	351
BsaJI	CCNNGG	1 cut(s)	153
Bse3DI	GCAATG	1 cut(s)	57
Bse8I	GATNNNNATC	1 cut(s)	351
BseCI	ATCGAT	1 cut(s)	411
BseDI	CCNNGG	1 cut(s)	153
BseGI	GGATG	3 cut(s)	58, 82, 136
BseJI	GATNNNNATC	1 cut(s)	351
BseMI	GCAATG	1 cut(s)	57
BseMII	CTCAG	3 cut(s)	314, 347, 389
BseRI	GAGGAG	3 cut(s)	59, 134, 170
BseXI	GCAGC	1 cut(s)	451
BsgI	GTGCAG	1 cut(s)	316
Bsh1236I	CGCG	1 cut(s)	469
BshFI	GGCC	3 cut(s)	5, 152, 440
BshVI	ATCGAT	1 cut(s)	411
BsnI	GGCC	3 cut(s)	5, 152, 440
Bsp143I	GATC	2 cut(s)	299, 352
BspACI	CCGC	1 cut(s)	35
BspANI	GGCC	3 cut(s)	5, 152, 440
BspCNI	CTCAG	3 cut(s)	315, 346, 388
BspDI	ATCGAT	1 cut(s)	411
BspFNI	CGCG	1 cut(s)	469
BspLI	GGNNCC	1 cut(s)	159
BsrDI	GCAATG	1 cut(s)	57
BssECI	CCNNGG	1 cut(s)	153
BssMI	GATC	2 cut(s)	299, 352
Bst4CI	ACNGT	1 cut(s)	405
Bst6I	CTCTTC	1 cut(s)	24
BstAPI	GCANNNNNTGC	1 cut(s)	271
BstDEI	CTNAG	3 cut(s)	323, 333, 375
BstF5I	GGATG	3 cut(s)	58, 82, 136
BstFNI	CGCG	1 cut(s)	469
BstHHI	GCGC	1 cut(s)	469
BstKTI	GATC	2 cut(s)	302, 355
BstMBI	GATC	2 cut(s)	299, 352
BstMWI	GCNNNNNNNGC	1 cut(s)	271
BstSFI	CTRYAG	1 cut(s)	391
BstUI	CGCG	1 cut(s)	469
BstV1I	GCAGC	1 cut(s)	451
Bsu15I	ATCGAT	1 cut(s)	411
BsuRI	GGCC	3 cut(s)	5, 152, 440
BsuTUI	ATCGAT	1 cut(s)	411
BtsCI	GGATG	3 cut(s)	58, 82, 136
CfoI	GCGC	1 cut(s)	469
Cfr13I	GGNCC	1 cut(s)	4
ClaI	ATCGAT	1 cut(s)	411
CseI	GACGC	1 cut(s)	271
Csp6I	GTAC	2 cut(s)	320, 449
CviAII	CATG	2 cut(s)	175, 266
CviJI	RGCY	9 cut(s)	5, 82, 141, 152, 160, 373, 396, 440, 464
CviKI_1	RGCY	9 cut(s)	5, 82, 141, 152, 160, 373, 396, 440, 464
CviQI	GTAC	2 cut(s)	320, 449
DdeI	CTNAG	3 cut(s)	323, 333, 375
DpnI	GATC	2 cut(s)	301, 354
DpnII	GATC	2 cut(s)	299, 352
EaeI	YGGCCR	1 cut(s)	438
Eam1104I	CTCTTC	1 cut(s)	24
EarI	CTCTTC	1 cut(s)	24
Eco32I	GATATC	1 cut(s)	415
EcoRI	GAATTC	1 cut(s)	202
EcoRV	GATATC	1 cut(s)	415
FaeI	CATG	2 cut(s)	178, 269
FaiI	YATR	6 cut(s)	41, 116, 176, 267, 360, 437
FatI	CATG	2 cut(s)	174, 265
Fnu4HI	GCNGC	1 cut(s)	465
FokI	GGATG	3 cut(s)	65, 89, 143
Fsp4HI	GCNGC	1 cut(s)	465
FspBI	CTAG	5 cut(s)	11, 111, 138, 384, 425
GlaI	GCGC	1 cut(s)	468
GluI	GCNGC	1 cut(s)	465
HaeIII	GGCC	3 cut(s)	5, 152, 440
HgaI	GACGC	1 cut(s)	271
HhaI	GCGC	1 cut(s)	469
Hin1II	CATG	2 cut(s)	178, 269
Hin6I	GCGC	1 cut(s)	467
HinP1I	GCGC	1 cut(s)	467
HinfI	GANTC	3 cut(s)	134, 225, 473
HphI	GGTGA	1 cut(s)	230
Hpy188I	TCNGA	2 cut(s)	336, 378
Hpy188III	TCNNGA	2 cut(s)	281, 425
HpyAV	CCTTC	1 cut(s)	449
HpyCH4III	ACNGT	1 cut(s)	405
HpyCH4IV	ACGT	1 cut(s)	67
HpyCH4V	TGCA	1 cut(s)	297
HpyF10VI	GCNNNNNNNGC	1 cut(s)	271
HpyF3I	CTNAG	3 cut(s)	323, 333, 375
HpySE526I	ACGT	1 cut(s)	67
Hsp92II	CATG	2 cut(s)	178, 269
HspAI	GCGC	1 cut(s)	467
Kzo9I	GATC	2 cut(s)	299, 352
LmnI	GCTCC	1 cut(s)	157
LpnPI	CCDG	6 cut(s)	167, 266, 305, 357, 437, 462
Lsp1109I	GCAGC	1 cut(s)	451
LweI	GCATC	1 cut(s)	43
MaeI	CTAG	5 cut(s)	11, 111, 138, 384, 425
MaeII	ACGT	1 cut(s)	67
MalI	GATC	2 cut(s)	301, 354
MboI	GATC	2 cut(s)	299, 352
MboII	GAAGA	2 cut(s)	41, 440
MfeI	CAATTG	1 cut(s)	92
MluCI	AATT	3 cut(s)	92, 202, 307
MmeI	TCCRAC	3 cut(s)	30, 111, 346
MnlI	CCTC	8 cut(s)	25, 37, 112, 121, 142, 148, 340, 384
MslI	CAYNNNNRTG	1 cut(s)	113
MunI	CAATTG	1 cut(s)	92
MvnI	CGCG	1 cut(s)	469
MwoI	GCNNNNNNNGC	1 cut(s)	271
NdeII	GATC	2 cut(s)	299, 352
NlaIII	CATG	2 cut(s)	178, 269
NlaIV	GGNNCC	1 cut(s)	159
NmeAIII	GCCGAG	1 cut(s)	178
PfeI	GAWTC	3 cut(s)	134, 225, 473
PkrI	GCNGC	1 cut(s)	466
PspN4I	GGNNCC	1 cut(s)	159
PspPI	GGNCC	1 cut(s)	4
RsaI	GTAC	2 cut(s)	321, 450
RsaNI	GTAC	2 cut(s)	320, 449
RseI	CAYNNNNRTG	1 cut(s)	113
SatI	GCNGC	1 cut(s)	465
Sau3AI	GATC	2 cut(s)	299, 352
Sau96I	GGNCC	1 cut(s)	4
ScaI	AGTACT	1 cut(s)	321
SetI	ASST	8 cut(s)	70, 143, 186, 220, 332, 398, 460, 466
SfaNI	GCATC	1 cut(s)	43
SfcI	CTRYAG	1 cut(s)	391
SmiMI	CAYNNNNRTG	1 cut(s)	113
SpeI	ACTAGT	1 cut(s)	110
Sse9I	AATT	3 cut(s)	92, 202, 307
SsiI	CCGC	1 cut(s)	35
SspMI	CTAG	5 cut(s)	11, 111, 138, 384, 425
TaaI	ACNGT	1 cut(s)	405
TaiI	ACGT	1 cut(s)	70
TaqI	TCGA	2 cut(s)	312, 411
TasI	AATT	3 cut(s)	92, 202, 307
TatI	WGTACW	2 cut(s)	319, 448
TfiI	GAWTC	3 cut(s)	134, 225, 473
TseI	GCWGC	1 cut(s)	464
TspDTI	ATGAA	3 cut(s)	163, 282, 397
XapI	RAATTY	1 cut(s)	202
XbaI	TCTAGA	1 cut(s)	424
XspI	CTAG	5 cut(s)	11, 111, 138, 384, 425
ZrmI	AGTACT	1 cut(s)	321

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