Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0000756

Physical Location & Seq

Genomic Coordinates Forward (+)

3439786 .. 3440403

Gene Structure 618 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00080460.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 618 bp

ATGTCTCCTTATCAAGCTCTTTATGGAATTCCTCCTCCTCAAGTGAGAAAATATGTCCCTGGTAGTACTGCTGTTCATCAAGTGGATCTAGTACTGAGGAACAGAGATGAATTACTAAGCAAGCTCAAGTGTAACATGGAACAAGCTCAGGCCAGAATGAAGGTTTACTATGACAAACATCACACCGAAAGAGAGTTTGACATTGGTGATTGGGTATTCCTCAAATTGCAGCCATACAAACAAAAGTCAGTGCAGGTTAGGAAATCCCACAAATTGTCTCCAAAATACTTTGGTCCTTATCAGGTGATAGAAAAGATTGGTAAAGTGGCATACAAGTTAGAGCTCCCCGCTTCTGCGAGGGTGCATCCAGTGTTTCATGTATCTCTTCTAAAGAAGAAACTTGGAAGCTCAGTGGTTCCTTCTCCAACCTTGCCTCCTAGTTTTGATACCAACAAGAGCAATTGGGTTCCTGCCAAGGTGCTTCAGCGAGCTTTATTCAAGAAGGGTAACAAACCTGAGGTGAGATGGTTGATTCAATGGAAGAATGGTTCAGAGGATGATGCCACGTGGGAATGTGCAGAAGAATTTCAGAAGCGTTTTCCAGATTTTAAGGGGTAA

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

205

Amino Acids

23.77

Weight (kDa)

9.75

Isoelectric Point (pI)

44.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SH3_Tf2-1	PF24626	69 - 132	2.8e-26	Tf2-1-like, SH3 domain
Integrase_p58_C	PF22938	98 - 132	3.7e-06	Integrase p58, C-terminal domain

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: OG0000756)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G00155
fragaria_vesca	FvH4_2g19791 FvH4_3g30422 FvH4_3g30933 FvH4_3g30934 FvH4_3g31635 FvH4_4g05353 FvH4_4g06571 FvH4_4g06572 FvH4_4g06573 FvH4_4g08682 FvH4_4g12501 FvH4_5g33111 FvH4_6g20641 FvH4_6g22262 FvH4_6g24731 FvH4_6g52751
pyrus_communis	pycom10g18150
rosa_chinensis	RchiOBHm_Chr1g0321671 RchiOBHm_Chr2g0126521 RchiOBHm_Chr3g0451511 RchiOBHm_Chr3g0473251 RchiOBHm_Chr4g0397431 RchiOBHm_Chr4g0399101 RchiOBHm_Chr4g0399111 RchiOBHm_Chr4g0414841 RchiOBHm_Chr5g0021471 RchiOBHm_Chr5g0021481 RchiOBHm_Chr5g0075951 RchiOBHm_Chr5g0078051 RchiOBHm_Chr6g0286161 RchiOBHm_Chr6g0286171 RchiOBHm_Chr7g0185771
rosa_laevigata	RLG00000010238 RLG00000030464
rosa_roxburghii	Rroxscaffold_1G00071870 Rroxscaffold_2G00080460 Rroxscaffold_2G00085610 Rroxscaffold_2G00093090 Rroxscaffold_2G00134320 Rroxscaffold_3G00238340 Rroxscaffold_3G00255160 Rroxscaffold_4G00280870 Rroxscaffold_6G00402930 Rroxscaffold_6G00428840 Rroxscaffold_7G00197340
rosa_samantha	Rh3CG229300 Rh7BG226300
rosa_wichuraiana	Rw0G002510 Rw0G003200 Rw0G021820 Rw0G023810 Rw1G014640 Rw2G004390 Rw2G007910 Rw2G018470 Rw2G037630 Rw2G044860 Rw2G053420 Rw3G002230 Rw3G028200 Rw4G004770 Rw4G006640 Rw5G005440 Rw5G024120 Rw5G028050 Rw5G028410 Rw6G004650 Rw6G019400 Rw7G026910

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	244
AciI	CCGC	1 cut(s)	348
AclWI	GGATC	1 cut(s)	93
AcsI	RAATTY	2 cut(s)	27, 584
AcuI	CTGAAG	1 cut(s)	467
AcvI	CACGTG	1 cut(s)	567
AfaI	GTAC	2 cut(s)	67, 93
AgsI	TTSAA	2 cut(s)	499, 536
AjnI	CCWGG	1 cut(s)	58
AloI	GAACNNNNNNTCC	2 cut(s)	532, 564
AluBI	AGCT	6 cut(s)	17, 124, 146, 343, 408, 491
AluI	AGCT	6 cut(s)	17, 124, 146, 343, 408, 491
Alw21I	GWGCWC	1 cut(s)	345
Alw26I	GTCTC	2 cut(s)	9, 282
AlwI	GGATC	1 cut(s)	93
AoxI	GGCC	1 cut(s)	150
ApeKI	GCWGC	1 cut(s)	229
ApoI	RAATTY	2 cut(s)	27, 584
Asp700I	GAANNNNTTC	1 cut(s)	585
AspS9I	GGNCC	1 cut(s)	293
AsuHPI	GGTGA	3 cut(s)	218, 316, 532
AvaII	GGWCC	1 cut(s)	293
AxyI	CCTNAGG	1 cut(s)	516
BanII	GRGCYC	1 cut(s)	345
BbrPI	CACGTG	1 cut(s)	567
Bbv12I	GWGCWC	1 cut(s)	345
BbvI	GCAGC	1 cut(s)	241
BccI	CCATC	1 cut(s)	519
BciT130I	CCWGG	1 cut(s)	60
BcoDI	GTCTC	2 cut(s)	9, 282
BfaI	CTAG	2 cut(s)	89, 438
BfuAI	ACCTGC	1 cut(s)	244
BisI	GCNGC	1 cut(s)	230
BlsI	GCNGC	1 cut(s)	231
BmcAI	AGTACT	2 cut(s)	67, 93
Bme1390I	CCNGG	1 cut(s)	60
Bme18I	GGWCC	1 cut(s)	293
BmgT120I	GGNCC	1 cut(s)	293
BmiI	GGNNCC	2 cut(s)	417, 468
BmrFI	CCNGG	1 cut(s)	60
BmsI	GCATC	2 cut(s)	373, 550
Bpu10I	CCTNAGC	1 cut(s)	147
BpuEI	CTTGAG	2 cut(s)	24, 110
BsaAI	YACGTR	1 cut(s)	567
BsaJI	CCNNGG	2 cut(s)	58, 474
BsaXI	ACNNNNNCTCC	2 cut(s)	418, 448
Bse1I	ACTGG	1 cut(s)	368
Bse21I	CCTNAGG	1 cut(s)	516
BseBI	CCWGG	1 cut(s)	60
BseDI	CCNNGG	2 cut(s)	58, 474
BseGI	GGATG	2 cut(s)	364, 562
BseMII	CTCAG	4 cut(s)	86, 161, 423, 507
BseNI	ACTGG	1 cut(s)	368
BseRI	GAGGAG	2 cut(s)	24, 27
BseXI	GCAGC	1 cut(s)	241
BsgI	GTGCAG	2 cut(s)	272, 597
BshFI	GGCC	1 cut(s)	152
BsiHKAI	GWGCWC	1 cut(s)	345
BslFI	GGGAC	1 cut(s)	41
BsmAI	GTCTC	2 cut(s)	9, 282
BsmFI	GGGAC	1 cut(s)	41
BsnI	GGCC	1 cut(s)	152
Bsp1286I	GDGCHC	1 cut(s)	345
Bsp143I	GATC	1 cut(s)	85
BspACI	CCGC	1 cut(s)	348
BspANI	GGCC	1 cut(s)	152
BspCNI	CTCAG	4 cut(s)	87, 160, 422, 508
BspLI	GGNNCC	2 cut(s)	417, 468
BspMI	ACCTGC	1 cut(s)	244
BspPI	GGATC	1 cut(s)	93
BsrI	ACTGG	1 cut(s)	368
BssECI	CCNNGG	2 cut(s)	58, 474
BssMI	GATC	1 cut(s)	85
BssT1I	CCWWGG	1 cut(s)	474
Bst2UI	CCWGG	1 cut(s)	60
Bst6I	CTCTTC	1 cut(s)	390
BstBAI	YACGTR	1 cut(s)	567
BstC8I	GCNNGC	2 cut(s)	122, 489
BstDEI	CTNAG	5 cut(s)	95, 116, 147, 409, 516
BstF5I	GGATG	2 cut(s)	364, 562
BstKTI	GATC	1 cut(s)	88
BstMAI	GTCTC	2 cut(s)	9, 282
BstMBI	GATC	1 cut(s)	85
BstNI	CCWGG	1 cut(s)	60
BstSCI	CCNGG	1 cut(s)	58
BstV1I	GCAGC	1 cut(s)	241
BstX2I	RGATCY	1 cut(s)	85
BstYI	RGATCY	1 cut(s)	85
Bsu36I	CCTNAGG	1 cut(s)	516
BsuRI	GGCC	1 cut(s)	152
BtsCI	GGATG	2 cut(s)	364, 562
BtsIMutI	CAGTG	3 cut(s)	255, 375, 417
BveI	ACCTGC	1 cut(s)	244
Cac8I	GCNNGC	2 cut(s)	122, 489
Cfr13I	GGNCC	1 cut(s)	293
Csp6I	GTAC	2 cut(s)	66, 92
CviAII	CATG	2 cut(s)	136, 377
CviJI	RGCY	8 cut(s)	17, 124, 146, 152, 232, 343, 408, 491
CviKI_1	RGCY	8 cut(s)	17, 124, 146, 152, 232, 343, 408, 491
CviQI	GTAC	2 cut(s)	66, 92
DdeI	CTNAG	5 cut(s)	95, 116, 147, 409, 516
DpnI	GATC	1 cut(s)	87
DpnII	GATC	1 cut(s)	85
Eam1104I	CTCTTC	1 cut(s)	390
EarI	CTCTTC	1 cut(s)	390
Ecl136II	GAGCTC	1 cut(s)	343
Eco130I	CCWWGG	1 cut(s)	474
Eco24I	GRGCYC	1 cut(s)	345
Eco47I	GGWCC	1 cut(s)	293
Eco53kI	GAGCTC	1 cut(s)	343
Eco57I	CTGAAG	1 cut(s)	467
Eco72I	CACGTG	1 cut(s)	567
Eco81I	CCTNAGG	1 cut(s)	516
EcoICRI	GAGCTC	1 cut(s)	343
EcoRI	GAATTC	1 cut(s)	27
EcoRII	CCWGG	1 cut(s)	58
EcoT14I	CCWWGG	1 cut(s)	474
EcoT38I	GRGCYC	1 cut(s)	345
ErhI	CCWWGG	1 cut(s)	474
FaeI	CATG	2 cut(s)	139, 380
FaiI	YATR	7 cut(s)	24, 54, 137, 171, 235, 331, 378
FaqI	GGGAC	1 cut(s)	41
FatI	CATG	2 cut(s)	135, 376
FauI	CCCGC	1 cut(s)	355
Fnu4HI	GCNGC	1 cut(s)	230
FokI	GGATG	2 cut(s)	351, 569
FriOI	GRGCYC	1 cut(s)	345
Fsp4HI	GCNGC	1 cut(s)	230
FspBI	CTAG	2 cut(s)	89, 438
GluI	GCNGC	1 cut(s)	230
HaeIII	GGCC	1 cut(s)	152
Hin1II	CATG	2 cut(s)	139, 380
HinfI	GANTC	1 cut(s)	532
HphI	GGTGA	3 cut(s)	218, 316, 532
Hpy166II	GTNNAC	1 cut(s)	166
Hpy188I	TCNGA	2 cut(s)	553, 591
Hpy188III	TCNNGA	2 cut(s)	499, 602
Hpy8I	GTNNAC	1 cut(s)	166
HpyAV	CCTTC	3 cut(s)	154, 429, 496
HpyCH4IV	ACGT	1 cut(s)	566
HpyCH4V	TGCA	4 cut(s)	229, 253, 364, 578
HpyF3I	CTNAG	5 cut(s)	95, 116, 147, 409, 516
HpySE526I	ACGT	1 cut(s)	566
Hsp92II	CATG	2 cut(s)	139, 380
Kzo9I	GATC	1 cut(s)	85
LmnI	GCTCC	1 cut(s)	348
LpnPI	CCDG	9 cut(s)	45, 72, 134, 166, 239, 287, 381, 483, 528
Lsp1109I	GCAGC	1 cut(s)	241
LweI	GCATC	2 cut(s)	373, 550
MaeI	CTAG	2 cut(s)	89, 438
MaeII	ACGT	1 cut(s)	566
MaeIII	GTNAC	2 cut(s)	131, 506
MalI	GATC	1 cut(s)	87
MboI	GATC	1 cut(s)	85
MboII	GAAGA	4 cut(s)	377, 406, 553, 593
MfeI	CAATTG	1 cut(s)	460
MflI	RGATCY	1 cut(s)	85
MhlI	GDGCHC	1 cut(s)	345
MluCI	AATT	6 cut(s)	27, 110, 224, 272, 460, 584
MmeI	TCCRAC	1 cut(s)	449
MnlI	CCTC	9 cut(s)	42, 45, 48, 90, 230, 351, 444, 511, 547
MroXI	GAANNNNTTC	1 cut(s)	585
MseI	TTAA	1 cut(s)	609
MspR9I	CCNGG	1 cut(s)	60
MunI	CAATTG	1 cut(s)	460
MvaI	CCWGG	1 cut(s)	60
NdeII	GATC	1 cut(s)	85
NlaIII	CATG	2 cut(s)	139, 380
NlaIV	GGNNCC	2 cut(s)	417, 468
PdmI	GAANNNNTTC	1 cut(s)	585
PfeI	GAWTC	1 cut(s)	532
PkrI	GCNGC	1 cut(s)	231
PmaCI	CACGTG	1 cut(s)	567
PmlI	CACGTG	1 cut(s)	567
Ppu21I	YACGTR	1 cut(s)	567
Psp124BI	GAGCTC	1 cut(s)	345
Psp6I	CCWGG	1 cut(s)	58
PspCI	CACGTG	1 cut(s)	567
PspGI	CCWGG	1 cut(s)	58
PspN4I	GGNNCC	2 cut(s)	417, 468
PspPI	GGNCC	1 cut(s)	293
PsuI	RGATCY	1 cut(s)	85
RsaI	GTAC	2 cut(s)	67, 93
RsaNI	GTAC	2 cut(s)	66, 92
SacI	GAGCTC	1 cut(s)	345
SaqAI	TTAA	1 cut(s)	609
SatI	GCNGC	1 cut(s)	230
Sau3AI	GATC	1 cut(s)	85
Sau96I	GGNCC	1 cut(s)	293
ScaI	AGTACT	2 cut(s)	67, 93
ScrFI	CCNGG	1 cut(s)	60
SduI	GDGCHC	1 cut(s)	345
SfaNI	GCATC	2 cut(s)	373, 550
SinI	GGWCC	1 cut(s)	293
SmlI	CTYRAG	2 cut(s)	39, 125
SmoI	CTYRAG	2 cut(s)	39, 125
Sse9I	AATT	6 cut(s)	27, 110, 224, 272, 460, 584
SsiI	CCGC	1 cut(s)	348
SspMI	CTAG	2 cut(s)	89, 438
SstI	GAGCTC	1 cut(s)	345
StyD4I	CCNGG	1 cut(s)	58
StyI	CCWWGG	1 cut(s)	474
TaiI	ACGT	1 cut(s)	569
TasI	AATT	6 cut(s)	27, 110, 224, 272, 460, 584
TatI	WGTACW	2 cut(s)	65, 91
TfiI	GAWTC	1 cut(s)	532
Tru1I	TTAA	1 cut(s)	609
Tru9I	TTAA	1 cut(s)	609
TscAI	CASTG	3 cut(s)	255, 375, 417
TseI	GCWGC	1 cut(s)	229
TspDTI	ATGAA	4 cut(s)	65, 123, 173, 365
TspRI	CASTG	3 cut(s)	255, 375, 417
VpaK11BI	GGWCC	1 cut(s)	293
XapI	RAATTY	2 cut(s)	27, 584
XmnI	GAANNNNTTC	1 cut(s)	585
XspI	CTAG	2 cut(s)	89, 438
ZrmI	AGTACT	2 cut(s)	67, 93

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