Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0001157

Physical Location & Seq

Genomic Coordinates Reverse (-)

87809360 .. 87811240

Gene Structure 1881 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00066280.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 468 bp

ATGGAGAAGGCTAGGATGAAAGCTTGGACAAACAAGATATTTCCTTCACTTATCGGTCTGAATGGTTCGATTGCGGTAGATCTTGTTGAAGTCGAGTTACAATCAAGAGATGAGCTGTTGACCATATTGAAAAGAAACCTCCAAGTGGCTCAATGTAGGATGAAGAATTTCTATGATAAACATCATACAGAGAGGTCCTTTACTAAAGGTCACTGGGTTTATTTGAAGTTGCGACCATATAGGCGGCATTCGGTGGACAAACGACCGGTCCATAAGCTTGCTCCTAGATACTATGGCCCATTCTTGATTGAACAAAAAATTGGTCCAGTTGCTTACAAATTGAAGCTACCTAGCTCATCCAAGGGTAATGCCCCTGTAACGAAATGGCTAATTCGGTGCCGTGGTACTGTGGAGGAGGCCACACGGGAGGAGGCCACACTGGGAGGAGGCTGCCGAAATAATGCATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000943 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0003887 GO:0003964 GO:0004518 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006278 GO:0006508 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008233 GO:0009058 GO:0009059 GO:0009987 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0016787 GO:0016788 GO:0018130 GO:0019438 GO:0019538 GO:0032196 GO:0032197 GO:0034061 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0071704 GO:0071897 GO:0090304 GO:0090305 GO:0090501 GO:0097159 GO:0140096 GO:0140097 GO:0140098 GO:1901360 GO:1901362 GO:1901363 GO:1901564 GO:1901576

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Chromo RVP_2 RVT_1 Retrotrans_gag rve

Protein Analysis

155

Amino Acids

17.86

Weight (kDa)

10.05

Isoelectric Point (pI)

50.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SH3_Tf2-1	PF24626	70 - 122	5.5e-15	Tf2-1-like, SH3 domain

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: OG0001157)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATMG00850
fragaria_vesca	FvH4_1g23441 FvH4_2g05351 FvH4_3g42702 FvH4_4g00102 FvH4_4g14286 FvH4_4g15489 FvH4_6g15081 FvH4_6g32371 FvH4_7g29723 FvH4_7g29724
malus_domestica	MD03G1059800.v1.1
pyrus_communis	pycom02g17090 pycom04g00340
rosa_chinensis	RchiOBHm_Chr1g0313301 RchiOBHm_Chr1g0339801 RchiOBHm_Chr1g0384471 RchiOBHm_Chr2g0098581 RchiOBHm_Chr2g0099161 RchiOBHm_Chr2g0174581 RchiOBHm_Chr3g0488331 RchiOBHm_Chr5g0056121 RchiOBHm_Chr5g0056131 RchiOBHm_Chr5g0082941 RchiOBHm_Chr6g0250891 RchiOBHm_Chr6g0258591 RchiOBHm_Chr6g0290351
rosa_laevigata	RLG00000002118 RLG00000010853 RLG00000024377 RLG00000030355
rosa_roxburghii	Rroxscaffold_155G00443850 Rroxscaffold_159G00432700 Rroxscaffold_1G00045030 Rroxscaffold_1G00066280 Rroxscaffold_3G00276420 Rroxscaffold_5G00359430 Rroxscaffold_5G00378120
rosa_rugosa	Rorug06G0154800
rosa_samantha	Rh1AG114400 Rh3BG237700 Rh3CG227400
rosa_wichuraiana	Rw0G004600 Rw0G007090 Rw1G026280 Rw1G036440 Rw2G004680 Rw2G015650 Rw3G000560 Rw3G014520 Rw3G020520 Rw4G027690 Rw5G014430 Rw5G014610 Rw6G001250 Rw7G007160 Rw7G031470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	396
AciI	CCGC	2 cut(s)	74, 244
AcsI	RAATTY	1 cut(s)	166
AfaI	GTAC	1 cut(s)	406
AfiI	CCNNNNNNNGG	1 cut(s)	145
AgeI	ACCGGT	1 cut(s)	265
AgsI	TTSAA	5 cut(s)	89, 130, 226, 311, 343
AjuI	GAANNNNNNNTTGG	2 cut(s)	303, 335
AluBI	AGCT	5 cut(s)	23, 115, 277, 346, 354
AluI	AGCT	5 cut(s)	23, 115, 277, 346, 354
AoxI	GGCC	3 cut(s)	295, 417, 432
ApeKI	GCWGC	1 cut(s)	450
ApoI	RAATTY	1 cut(s)	166
ArsI	GACNNNNNNTTYG	4 cut(s)	252, 284, 307, 339
AsiGI	ACCGGT	1 cut(s)	265
Asp700I	GAANNNNTTC	1 cut(s)	167
AspS9I	GGNCC	4 cut(s)	195, 268, 296, 323
AvaII	GGWCC	3 cut(s)	195, 268, 323
BanI	GGYRCC	1 cut(s)	396
BarI	GAAGNNNNNNTAC	2 cut(s)	81, 113
BbvI	GCAGC	1 cut(s)	437
BceAI	ACGGC	1 cut(s)	384
BfaI	CTAG	3 cut(s)	12, 285, 351
BglII	AGATCT	1 cut(s)	79
BisI	GCNGC	2 cut(s)	245, 451
BlsI	GCNGC	2 cut(s)	246, 452
Bme18I	GGWCC	3 cut(s)	195, 268, 323
BmgT120I	GGNCC	4 cut(s)	195, 268, 296, 323
BmiI	GGNNCC	1 cut(s)	398
BmrI	ACTGGG	2 cut(s)	223, 449
BmuI	ACTGGG	2 cut(s)	223, 449
BsaBI	GATNNNNATC	1 cut(s)	180
BsaJI	CCNNGG	2 cut(s)	360, 400
BsaWI	WCCGGW	1 cut(s)	265
Bsc4I	CCNNNNNNNGG	1 cut(s)	145
Bse118I	RCCGGY	1 cut(s)	265
Bse1I	ACTGG	3 cut(s)	218, 326, 444
Bse8I	GATNNNNATC	1 cut(s)	180
BseDI	CCNNGG	2 cut(s)	360, 400
BseGI	GGATG	3 cut(s)	21, 165, 356
BseJI	GATNNNNATC	1 cut(s)	180
BseLI	CCNNNNNNNGG	1 cut(s)	145
BseNI	ACTGG	3 cut(s)	218, 326, 444
BseRI	GAGGAG	3 cut(s)	428, 443, 459
BseXI	GCAGC	1 cut(s)	437
Bsh1285I	CGRYCG	1 cut(s)	266
BshFI	GGCC	3 cut(s)	297, 419, 434
BshNI	GGYRCC	1 cut(s)	396
BshTI	ACCGGT	1 cut(s)	265
BsiEI	CGRYCG	1 cut(s)	266
BsiSI	CCGG	1 cut(s)	266
BslI	CCNNNNNNNGG	1 cut(s)	145
BsmI	GAATGC	1 cut(s)	247
BsnI	GGCC	3 cut(s)	297, 419, 434
Bsp143I	GATC	1 cut(s)	79
BspACI	CCGC	2 cut(s)	74, 244
BspANI	GGCC	3 cut(s)	297, 419, 434
BspLI	GGNNCC	1 cut(s)	398
BspT107I	GGYRCC	1 cut(s)	396
BsrFI	RCCGGY	1 cut(s)	265
BsrI	ACTGG	3 cut(s)	218, 326, 444
BssAI	RCCGGY	1 cut(s)	265
BssECI	CCNNGG	2 cut(s)	360, 400
BssMI	GATC	1 cut(s)	79
BssT1I	CCWWGG	1 cut(s)	360
Bst4CI	ACNGT	1 cut(s)	409
BstC8I	GCNNGC	1 cut(s)	279
BstDSI	CCRYGG	1 cut(s)	400
BstF5I	GGATG	3 cut(s)	21, 165, 356
BstKTI	GATC	1 cut(s)	82
BstMBI	GATC	1 cut(s)	79
BstMCI	CGRYCG	1 cut(s)	266
BstV1I	GCAGC	1 cut(s)	437
BstX2I	RGATCY	1 cut(s)	79
BstYI	RGATCY	1 cut(s)	79
BsuRI	GGCC	3 cut(s)	297, 419, 434
BtgI	CCRYGG	1 cut(s)	400
BtsCI	GGATG	3 cut(s)	21, 165, 356
BtsIMutI	CAGTG	2 cut(s)	211, 437
Cac8I	GCNNGC	1 cut(s)	279
Cfr10I	RCCGGY	1 cut(s)	265
Cfr13I	GGNCC	4 cut(s)	195, 268, 296, 323
Csp6I	GTAC	1 cut(s)	405
CspAI	ACCGGT	1 cut(s)	265
CviQI	GTAC	1 cut(s)	405
DpnI	GATC	1 cut(s)	81
DpnII	GATC	1 cut(s)	79
Eco130I	CCWWGG	1 cut(s)	360
Eco47I	GGWCC	3 cut(s)	195, 268, 323
EcoO109I	RGGNCCY	1 cut(s)	195
EcoT14I	CCWWGG	1 cut(s)	360
EcoT22I	ATGCAT	1 cut(s)	466
ErhI	CCWWGG	1 cut(s)	360
FaiI	YATR	8 cut(s)	125, 174, 186, 238, 240, 273, 294, 466
Fnu4HI	GCNGC	2 cut(s)	245, 451
FokI	GGATG	3 cut(s)	28, 172, 343
Fsp4HI	GCNGC	2 cut(s)	245, 451
FspBI	CTAG	3 cut(s)	12, 285, 351
GluI	GCNGC	2 cut(s)	245, 451
HaeIII	GGCC	3 cut(s)	297, 419, 434
HapII	CCGG	1 cut(s)	266
HincII	GTYRAC	1 cut(s)	120
HindII	GTYRAC	1 cut(s)	120
HindIII	AAGCTT	2 cut(s)	21, 275
HpaII	CCGG	1 cut(s)	266
Hpy166II	GTNNAC	2 cut(s)	120, 256
Hpy188I	TCNGA	1 cut(s)	60
Hpy188III	TCNNGA	2 cut(s)	105, 304
Hpy8I	GTNNAC	2 cut(s)	120, 256
HpyAV	CCTTC	1 cut(s)	54
HpyCH4III	ACNGT	1 cut(s)	409
HpyCH4V	TGCA	1 cut(s)	464
Kzo9I	GATC	1 cut(s)	79
LmnI	GCTCC	1 cut(s)	286
LpnPI	CCDG	5 cut(s)	199, 279, 339, 387, 425
Lsp1109I	GCAGC	1 cut(s)	437
MaeI	CTAG	3 cut(s)	12, 285, 351
MaeIII	GTNAC	3 cut(s)	96, 209, 376
MalI	GATC	1 cut(s)	81
MboI	GATC	1 cut(s)	79
MboII	GAAGA	1 cut(s)	175
MflI	RGATCY	1 cut(s)	79
MluCI	AATT	4 cut(s)	166, 318, 338, 390
MnlI	CCTC	8 cut(s)	149, 186, 406, 409, 421, 424, 437, 440
Mph1103I	ATGCAT	1 cut(s)	466
MroXI	GAANNNNTTC	1 cut(s)	167
MspI	CCGG	1 cut(s)	266
Mva1269I	GAATGC	1 cut(s)	247
NdeII	GATC	1 cut(s)	79
NlaIV	GGNNCC	1 cut(s)	398
NmuCI	GTSAC	1 cut(s)	209
NsiI	ATGCAT	1 cut(s)	466
PctI	GAATGC	1 cut(s)	247
PdmI	GAANNNNTTC	1 cut(s)	167
PinAI	ACCGGT	1 cut(s)	265
PkrI	GCNGC	2 cut(s)	246, 452
PpuMI	RGGWCCY	1 cut(s)	195
Psp5II	RGGWCCY	1 cut(s)	195
PspN4I	GGNNCC	1 cut(s)	398
PspPI	GGNCC	4 cut(s)	195, 268, 296, 323
PspPPI	RGGWCCY	1 cut(s)	195
PsuI	RGATCY	1 cut(s)	79
RsaI	GTAC	1 cut(s)	406
RsaNI	GTAC	1 cut(s)	405
SatI	GCNGC	2 cut(s)	245, 451
Sau3AI	GATC	1 cut(s)	79
Sau96I	GGNCC	4 cut(s)	195, 268, 296, 323
SetI	ASST	9 cut(s)	25, 117, 141, 197, 211, 279, 348, 352, 356
SinI	GGWCC	3 cut(s)	195, 268, 323
Sse9I	AATT	4 cut(s)	166, 318, 338, 390
SsiI	CCGC	2 cut(s)	74, 244
SspMI	CTAG	3 cut(s)	12, 285, 351
StyI	CCWWGG	1 cut(s)	360
TaaI	ACNGT	1 cut(s)	409
TaqI	TCGA	2 cut(s)	68, 93
TaqII	GACCGA	1 cut(s)	44
TasI	AATT	4 cut(s)	166, 318, 338, 390
TauI	GCSGC	1 cut(s)	247
TscAI	CASTG	2 cut(s)	218, 444
TseFI	GTSAC	1 cut(s)	209
TseI	GCWGC	1 cut(s)	450
Tsp45I	GTSAC	1 cut(s)	209
TspDTI	ATGAA	2 cut(s)	32, 176
TspRI	CASTG	2 cut(s)	218, 444
VpaK11BI	GGWCC	3 cut(s)	195, 268, 323
XapI	RAATTY	1 cut(s)	166
XmnI	GAANNNNTTC	1 cut(s)	167
XspI	CTAG	3 cut(s)	12, 285, 351
Zsp2I	ATGCAT	1 cut(s)	466

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