Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0008505

Physical Location & Seq

Genomic Coordinates Forward (+)

18084833 .. 18087813

Gene Structure 2981 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00178370.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1059 bp

ATGGACATCGACGGCGACGATAACAACCCCTCTCTAAAACCCAACAACAAGGGCAAAAACGTCGCCGTTTCCGGCCCCTCCCACGGCAAAGCCACTCCCTGGGTCGAGAAGTACCGCCCTCAATCCCTCGCCGACGTCGCCGCCCACCGCGACATTGTCGACACCAAACAGATTGCCACACCTCCTACTGTATGGCCCTCCTGGCACTGGAAAAACTTCCACGATTCTGGCCGTCGCGCACGCAAGCTCTATGGTGCACATTACCACAATATGATTCTCGAGTTGAATGCATCGGATGACAGGGGAATCGATGTTGTGAGGCAACAGATCCAGGATTTTGCCAGCACACAGAGTTTTTCGTTTGGGATTGACAATGCAAAGGCATCTGTAAAGTTGGTCTTACTGGATGAGGCAGATGCTATGACTAAGGATGCTCAGTTTGCTTTGAGAAGAGTGATTGAGAAATACACAAAGAACACCAGATTTTCACTAATCTGTAACCATGTCAACAAGATTATTCCAGCTTTACAGTCAAGATGTACTCGTTTTCGGTTTGCTCCACTTGATTCTTTTCATGTGACAGAGCGACTCAAACATGTTATAGAAGCTGAAGGGCTTGATGTGTCTGAGAGTGGCTTAGCAGCAGTTGTACGGCTTAGCAATGGTGACATGAGAAAGGCTCTGAACATTCTGCAGTCAACTCATATGGCTTCACAGAAGATAACAGAAGAAGCAGTATATCTTTGCACAGGAAACCCATTGCCTAAGGACATTGAGCAAATATCTCACTGGCTTTTGAATGAGTCATTTACAGAGGGTTTCAAACGAATTTCTGATATGAAAACAAGAAAGGGATTGGCTTTGGTAGATATCGTAAGAGAAGTGACTATGTTTGTTTTTAAGATTAAGATGCCGCCAGATGTTCGAGTTTTGTTGATTAATGATTTAGCTGACATAGAGTACAGATTGAGCTTTGGGTGCAACGATAAATTGCAACTTGGATCAATAATTGCTTCTTTTACGAAAGCTCGCTCTGCACTTGTTGCTGCTGCAAAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005663 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006275 GO:0006281 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010556 GO:0010557 GO:0010604 GO:0019219 GO:0019222 GO:0019899 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031347 GO:0031348 GO:0031390 GO:0032991 GO:0033554 GO:0034641 GO:0034645 GO:0043085 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044093 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044446 GO:0044464 GO:0045935 GO:0046483 GO:0048518 GO:0048519 GO:0048522 GO:0048583 GO:0048585 GO:0050789 GO:0050790 GO:0050794 GO:0050896 GO:0051052 GO:0051054 GO:0051171 GO:0051173 GO:0051338 GO:0051347 GO:0051716 GO:0060255 GO:0065007 GO:0065009 GO:0071704 GO:0080090 GO:0080134 GO:0090304 GO:0090329 GO:1900262 GO:1900264 GO:1901360 GO:1901576 GO:2000112 GO:2000278 GO:2000573

KEGG Pathways

Metabolic & Signaling

ko03030 ko03420 ko03430 map03030 map03420 map03430

Pfam Domains

Protein Families

AAA Rep_fac_C

Protein Analysis

352

Amino Acids

39.51

Weight (kDa)

9.12

Isoelectric Point (pI)

40.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol3_delta2	PF13177	121 - 188	7.3e-08	DNA polymerase III, delta subunit
RCF1-5-like_lid	PF21960	196 - 235	2e-07	RCF1/5-like, AAA+ ATPase lid domain
Rep_fac_C	PF08542	253 - 339	8.3e-22	Replication factor C C-terminal domain

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: OG0008505)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G77470
fragaria_vesca	FvH4_2g27410 FvH4_2g27410 FvH4_2g27410
malus_domestica	MD00G1028800.v1.1 MD15G1345300.v1.1
prunus_persica	Prupe.1G493300_v2.0.a1 Prupe.1G493300_v2.0.a1 Prupe.1G493300_v2.0.a1
pyrus_communis	pycom08g13720 pycom15g30980
rosa_chinensis	RchiOBHm_Chr6g0296261
rosa_laevigata	RLG00000011712
rosa_multiflora	Rmu_sc0004708.1_g000011
rosa_roxburghii	Rroxscaffold_7G00171690 Rroxscaffold_7G00178370
rosa_rugosa	Rorug06G0260300.1 Rorug06G0260400.1
rosa_samantha	Rh6AG372100 Rh6BG380100 Rh6CG385500 Rh6DG372700
rosa_wichuraiana	Rw6G032440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	138
AccB7I	CCANNNNNTGG	1 cut(s)	99
AccI	GTMKAC	1 cut(s)	159
AccII	CGCG	2 cut(s)	150, 237
AciI	CCGC	4 cut(s)	115, 141, 148, 914
AclWI	GGATC	2 cut(s)	322, 1009
AcoI	YGGCCR	1 cut(s)	229
AcsI	RAATTY	1 cut(s)	828
AcuI	CTGAAG	1 cut(s)	630
AcyI	GRCGYC	1 cut(s)	135
AfaI	GTAC	4 cut(s)	113, 541, 651, 962
AfiI	CCNNNNNNNGG	3 cut(s)	83, 99, 207
AflIII	ACRYGT	1 cut(s)	595
AgsI	TTSAA	3 cut(s)	286, 799, 823
AjnI	CCWGG	3 cut(s)	98, 200, 330
AluBI	AGCT	6 cut(s)	247, 524, 608, 950, 972, 1028
AluI	AGCT	6 cut(s)	247, 524, 608, 950, 972, 1028
Alw21I	GWGCWC	1 cut(s)	259
Alw44I	GTGCAC	1 cut(s)	255
AlwI	GGATC	2 cut(s)	322, 1009
Ama87I	CYCGRG	1 cut(s)	278
AoxI	GGCC	3 cut(s)	73, 194, 229
ApaLI	GTGCAC	1 cut(s)	255
ApeKI	GCWGC	3 cut(s)	641, 1046, 1049
ApoI	RAATTY	1 cut(s)	828
AseI	ATTAAT	1 cut(s)	939
Asp700I	GAANNNNTTC	1 cut(s)	215
AspLEI	GCGC	1 cut(s)	239
AspS9I	GGNCC	2 cut(s)	74, 195
AsuHPI	GGTGA	1 cut(s)	677
AvaI	CYCGRG	1 cut(s)	278
AxyI	CCTNAGG	1 cut(s)	765
BaeGI	GKGCMC	1 cut(s)	259
Bbv12I	GWGCWC	1 cut(s)	259
BbvI	GCAGC	3 cut(s)	653, 1033, 1036
BceAI	ACGGC	5 cut(s)	28, 50, 100, 216, 668
BcgI	CGANNNNNNTGC	4 cut(s)	43, 77, 269, 303
BciT130I	CCWGG	3 cut(s)	100, 202, 332
BfmI	CTRYAG	1 cut(s)	692
BglI	GCCNNNNNGGC	1 cut(s)	202
BisI	GCNGC	5 cut(s)	141, 642, 914, 1047, 1050
BlpI	GCTNAGC	2 cut(s)	637, 656
BlsI	GCNGC	5 cut(s)	142, 643, 915, 1048, 1051
Bme1390I	CCNGG	3 cut(s)	100, 202, 332
BmeT110I	CYCGRG	1 cut(s)	278
BmgT120I	GGNCC	2 cut(s)	74, 195
BmiI	GGNNCC	1 cut(s)	76
BmrFI	CCNGG	3 cut(s)	100, 202, 332
BmsI	GCATC	5 cut(s)	299, 392, 406, 421, 900
BplI	GAGNNNNNCTC	2 cut(s)	664, 696
Bpu1102I	GCTNAGC	2 cut(s)	637, 656
Bsa29I	ATCGAT	1 cut(s)	309
BsaHI	GRCGYC	1 cut(s)	135
BsaJI	CCNNGG	3 cut(s)	82, 98, 99
Bsc4I	CCNNNNNNNGG	3 cut(s)	83, 99, 207
Bse1I	ACTGG	3 cut(s)	212, 408, 794
Bse21I	CCTNAGG	1 cut(s)	765
Bse3DI	GCAATG	2 cut(s)	667, 758
BseBI	CCWGG	3 cut(s)	100, 202, 332
BseCI	ATCGAT	1 cut(s)	309
BseDI	CCNNGG	3 cut(s)	82, 98, 99
BseGI	GGATG	3 cut(s)	301, 412, 436
BseLI	CCNNNNNNNGG	3 cut(s)	83, 99, 207
BseMI	GCAATG	2 cut(s)	667, 758
BseMII	CTCAG	2 cut(s)	449, 618
BseNI	ACTGG	3 cut(s)	212, 408, 794
BseSI	GKGCMC	1 cut(s)	259
BseXI	GCAGC	3 cut(s)	653, 1033, 1036
BsgI	GTGCAG	1 cut(s)	1020
Bsh1236I	CGCG	2 cut(s)	150, 237
BshFI	GGCC	3 cut(s)	75, 196, 231
BshVI	ATCGAT	1 cut(s)	309
BsiHKAI	GWGCWC	1 cut(s)	259
BsiHKCI	CYCGRG	1 cut(s)	278
BsiSI	CCGG	1 cut(s)	72
BslI	CCNNNNNNNGG	3 cut(s)	83, 99, 207
BsmI	GAATGC	1 cut(s)	292
BsnI	GGCC	3 cut(s)	75, 196, 231
BsoBI	CYCGRG	1 cut(s)	278
Bsp1286I	GDGCHC	1 cut(s)	259
Bsp143I	GATC	2 cut(s)	327, 1001
Bsp1720I	GCTNAGC	2 cut(s)	637, 656
BspACI	CCGC	4 cut(s)	115, 141, 148, 914
BspANI	GGCC	3 cut(s)	75, 196, 231
BspCNI	CTCAG	2 cut(s)	448, 619
BspDI	ATCGAT	1 cut(s)	309
BspFNI	CGCG	2 cut(s)	150, 237
BspLI	GGNNCC	1 cut(s)	76
BspMAI	CTGCAG	1 cut(s)	696
BspPI	GGATC	2 cut(s)	322, 1009
BsrDI	GCAATG	2 cut(s)	667, 758
BsrI	ACTGG	3 cut(s)	212, 408, 794
BssECI	CCNNGG	3 cut(s)	82, 98, 99
BssMI	GATC	2 cut(s)	327, 1001
BssNI	GRCGYC	1 cut(s)	135
Bst2UI	CCWGG	3 cut(s)	100, 202, 332
Bst4CI	ACNGT	2 cut(s)	190, 531
Bst6I	CTCTTC	1 cut(s)	445
BstACI	GRCGYC	1 cut(s)	135
BstAPI	GCANNNNNTGC	1 cut(s)	1043
BstC8I	GCNNGC	4 cut(s)	241, 245, 343, 1030
BstDEI	CTNAG	6 cut(s)	426, 435, 627, 637, 656, 765
BstDSI	CCRYGG	1 cut(s)	82
BstF5I	GGATG	3 cut(s)	301, 412, 436
BstFNI	CGCG	2 cut(s)	150, 237
BstHHI	GCGC	1 cut(s)	239
BstKTI	GATC	2 cut(s)	330, 1004
BstMBI	GATC	2 cut(s)	327, 1001
BstMWI	GCNNNNNNNGC	6 cut(s)	137, 202, 440, 978, 1034, 1043
BstNI	CCWGG	3 cut(s)	100, 202, 332
BstNSI	RCATGY	1 cut(s)	599
BstSCI	CCNGG	3 cut(s)	98, 200, 330
BstSFI	CTRYAG	1 cut(s)	692
BstSLI	GKGCMC	1 cut(s)	259
BstUI	CGCG	2 cut(s)	150, 237
BstV1I	GCAGC	3 cut(s)	653, 1033, 1036
BstX2I	RGATCY	1 cut(s)	327
BstXI	CCANNNNNNTGG	1 cut(s)	227
BstYI	RGATCY	1 cut(s)	327
Bsu15I	ATCGAT	1 cut(s)	309
Bsu36I	CCTNAGG	1 cut(s)	765
BsuRI	GGCC	3 cut(s)	75, 196, 231
BsuTUI	ATCGAT	1 cut(s)	309
BtgI	CCRYGG	1 cut(s)	82
BtsCI	GGATG	3 cut(s)	301, 412, 436
BtsIMutI	CAGTG	2 cut(s)	205, 787
Cac8I	GCNNGC	4 cut(s)	241, 245, 343, 1030
CfoI	GCGC	1 cut(s)	239
Cfr13I	GGNCC	2 cut(s)	74, 195
ClaI	ATCGAT	1 cut(s)	309
Csp6I	GTAC	4 cut(s)	112, 540, 650, 961
CviAII	CATG	4 cut(s)	503, 575, 596, 670
CviQI	GTAC	4 cut(s)	112, 540, 650, 961
DdeI	CTNAG	6 cut(s)	426, 435, 627, 637, 656, 765
DpnI	GATC	2 cut(s)	329, 1003
DpnII	GATC	2 cut(s)	327, 1001
EaeI	YGGCCR	1 cut(s)	229
Eam1104I	CTCTTC	1 cut(s)	445
EarI	CTCTTC	1 cut(s)	445
Eco32I	GATATC	1 cut(s)	871
Eco57I	CTGAAG	1 cut(s)	630
Eco81I	CCTNAGG	1 cut(s)	765
Eco88I	CYCGRG	1 cut(s)	278
EcoRII	CCWGG	3 cut(s)	98, 200, 330
EcoRV	GATATC	1 cut(s)	871
EcoT22I	ATGCAT	1 cut(s)	292
FaeI	CATG	4 cut(s)	506, 578, 599, 673
FalI	AAGNNNNNCTT	2 cut(s)	383, 415
FatI	CATG	4 cut(s)	502, 574, 595, 669
FauNDI	CATATG	1 cut(s)	705
FblI	GTMKAC	1 cut(s)	159
Fnu4HI	GCNGC	5 cut(s)	141, 642, 914, 1047, 1050
FokI	GGATG	3 cut(s)	308, 419, 443
Fsp4HI	GCNGC	5 cut(s)	141, 642, 914, 1047, 1050
GlaI	GCGC	1 cut(s)	238
GluI	GCNGC	5 cut(s)	141, 642, 914, 1047, 1050
HaeIII	GGCC	3 cut(s)	75, 196, 231
HapII	CCGG	1 cut(s)	72
HhaI	GCGC	1 cut(s)	239
Hin1I	GRCGYC	1 cut(s)	135
Hin1II	CATG	4 cut(s)	506, 578, 599, 673
Hin6I	GCGC	1 cut(s)	237
HinP1I	GCGC	1 cut(s)	237
HincII	GTYRAC	3 cut(s)	160, 508, 699
HindII	GTYRAC	3 cut(s)	160, 508, 699
HinfI	GANTC	6 cut(s)	224, 274, 306, 566, 588, 803
HpaII	CCGG	1 cut(s)	72
HphI	GGTGA	1 cut(s)	677
Hpy166II	GTNNAC	4 cut(s)	160, 257, 508, 699
Hpy188I	TCNGA	4 cut(s)	295, 628, 684, 835
Hpy188III	TCNNGA	3 cut(s)	106, 278, 534
Hpy8I	GTNNAC	4 cut(s)	160, 257, 508, 699
Hpy99I	CGWCG	6 cut(s)	14, 20, 65, 137, 140, 237
HpyAV	CCTTC	1 cut(s)	605
HpyCH4III	ACNGT	2 cut(s)	190, 531
HpyCH4IV	ACGT	2 cut(s)	60, 135
HpyCH4V	TGCA	9 cut(s)	257, 290, 377, 694, 747, 981, 994, 1037, 1052
HpyF10VI	GCNNNNNNNGC	6 cut(s)	137, 202, 440, 978, 1034, 1043
HpyF3I	CTNAG	6 cut(s)	426, 435, 627, 637, 656, 765
HpySE526I	ACGT	2 cut(s)	60, 135
Hsp92I	GRCGYC	1 cut(s)	135
Hsp92II	CATG	4 cut(s)	506, 578, 599, 673
HspAI	GCGC	1 cut(s)	237
Kzo9I	GATC	2 cut(s)	327, 1001
LmnI	GCTCC	1 cut(s)	562
Lsp1109I	GCAGC	3 cut(s)	653, 1033, 1036
LweI	GCATC	5 cut(s)	299, 392, 406, 421, 900
MaeII	ACGT	2 cut(s)	60, 135
MaeIII	GTNAC	4 cut(s)	497, 577, 665, 883
MalI	GATC	2 cut(s)	329, 1003
MboI	GATC	2 cut(s)	327, 1001
MboII	GAAGA	3 cut(s)	462, 730, 740
MflI	RGATCY	1 cut(s)	327
MhlI	GDGCHC	1 cut(s)	259
MluCI	AATT	3 cut(s)	828, 989, 1008
MlyI	GAGTC	2 cut(s)	582, 812
MnlI	CCTC	9 cut(s)	40, 88, 129, 137, 192, 208, 312, 403, 808
Mph1103I	ATGCAT	1 cut(s)	292
MroXI	GAANNNNTTC	1 cut(s)	215
MseI	TTAA	3 cut(s)	900, 906, 939
MspI	CCGG	1 cut(s)	72
MspR9I	CCNGG	3 cut(s)	100, 202, 332
Mva1269I	GAATGC	1 cut(s)	292
MvaI	CCWGG	3 cut(s)	100, 202, 332
MvnI	CGCG	2 cut(s)	150, 237
MwoI	GCNNNNNNNGC	6 cut(s)	137, 202, 440, 978, 1034, 1043
NdeI	CATATG	1 cut(s)	705
NdeII	GATC	2 cut(s)	327, 1001
NlaIII	CATG	4 cut(s)	506, 578, 599, 673
NlaIV	GGNNCC	1 cut(s)	76
NmuCI	GTSAC	3 cut(s)	577, 665, 883
NsiI	ATGCAT	1 cut(s)	292
NspI	RCATGY	1 cut(s)	599
PaeR7I	CTCGAG	1 cut(s)	278
PasI	CCCWGGG	1 cut(s)	99
PciI	ACATGT	1 cut(s)	595
PcsI	WCGNNNNNNNCGW	1 cut(s)	15
PctI	GAATGC	1 cut(s)	292
PdmI	GAANNNNTTC	1 cut(s)	215
PfeI	GAWTC	4 cut(s)	224, 274, 306, 566
PflFI	GACNNNGTC	1 cut(s)	155
PflMI	CCANNNNNTGG	1 cut(s)	99
PfoI	TCCNGGA	1 cut(s)	330
PkrI	GCNGC	5 cut(s)	142, 643, 915, 1048, 1051
PleI	GAGTC	2 cut(s)	582, 811
PpsI	GAGTC	2 cut(s)	582, 811
PscI	ACATGT	1 cut(s)	595
PshBI	ATTAAT	1 cut(s)	939
Psp6I	CCWGG	3 cut(s)	98, 200, 330
PspGI	CCWGG	3 cut(s)	98, 200, 330
PspN4I	GGNNCC	1 cut(s)	76
PspPI	GGNCC	2 cut(s)	74, 195
PstI	CTGCAG	1 cut(s)	696
PsuI	RGATCY	1 cut(s)	327
PsyI	GACNNNGTC	1 cut(s)	155
RsaI	GTAC	4 cut(s)	113, 541, 651, 962
RsaNI	GTAC	4 cut(s)	112, 540, 650, 961
SalI	GTCGAC	1 cut(s)	158
SaqAI	TTAA	3 cut(s)	900, 906, 939
SatI	GCNGC	5 cut(s)	141, 642, 914, 1047, 1050
Sau3AI	GATC	2 cut(s)	327, 1001
Sau96I	GGNCC	2 cut(s)	74, 195
SchI	GAGTC	2 cut(s)	582, 812
ScrFI	CCNGG	3 cut(s)	100, 202, 332
SduI	GDGCHC	1 cut(s)	259
SetI	ASST	9 cut(s)	63, 138, 184, 249, 526, 610, 952, 974, 1030
SfaNI	GCATC	5 cut(s)	299, 392, 406, 421, 900
SfcI	CTRYAG	1 cut(s)	692
Sfr274I	CTCGAG	1 cut(s)	278
SlaI	CTCGAG	1 cut(s)	278
SmlI	CTYRAG	1 cut(s)	278
SmoI	CTYRAG	1 cut(s)	278
Sse9I	AATT	3 cut(s)	828, 989, 1008
SsiI	CCGC	4 cut(s)	115, 141, 148, 914
StyD4I	CCNGG	3 cut(s)	98, 200, 330
TaaI	ACNGT	2 cut(s)	190, 531
TaiI	ACGT	2 cut(s)	63, 138
TaqI	TCGA	6 cut(s)	9, 105, 159, 279, 309, 925
TasI	AATT	3 cut(s)	828, 989, 1008
TatI	WGTACW	2 cut(s)	539, 960
TauI	GCSGC	2 cut(s)	143, 916
TfiI	GAWTC	4 cut(s)	224, 274, 306, 566
Tru1I	TTAA	3 cut(s)	900, 906, 939
Tru9I	TTAA	3 cut(s)	900, 906, 939
TscAI	CASTG	2 cut(s)	212, 794
TseFI	GTSAC	3 cut(s)	577, 665, 883
TseI	GCWGC	3 cut(s)	641, 1046, 1049
Tsp45I	GTSAC	3 cut(s)	577, 665, 883
TspDTI	ATGAA	2 cut(s)	563, 854
TspRI	CASTG	2 cut(s)	212, 794
Tth111I	GACNNNGTC	1 cut(s)	155
Van91I	CCANNNNNTGG	1 cut(s)	99
VneI	GTGCAC	1 cut(s)	255
VspI	ATTAAT	1 cut(s)	939
XapI	RAATTY	1 cut(s)	828
XceI	RCATGY	1 cut(s)	599
XhoI	CTCGAG	1 cut(s)	278
XmiI	GTMKAC	1 cut(s)	159
XmnI	GAANNNNTTC	1 cut(s)	215
ZraI	GACGTC	1 cut(s)	136
Zsp2I	ATGCAT	1 cut(s)	292

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