Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0008054

Physical Location & Seq

Genomic Coordinates Reverse (-)

80136578 .. 80140156

Gene Structure 3579 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00058300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1134 bp

ATGGGAAAGTCGAGCTACAAGAGGCTCTCTGGAAGCCACAACCTAAGACAACGGCTTGTATTGGCTACACTCTCGGCCACCCCGGTTTTGATTGAGGACATACGCACTGATGATACGTGGCCTGGTTTGCGTCGTCATGAAGTATCCTTCCTCCGCTTGCTCGAGAAGATTTGTGATGACTGTGCTGTTGAAATCAACGAGACCGGCACGAAATTGAAGTTCAAGCCAGGGATAGTGATGGGTGGGAGGAATCTGGTGCATGACTGTGGTCTTACTCGGTCTATTGGCTATTTCTTGGAGCCTTTGATTGTGCTTGGTCTCTTTGCGAAAAAACCTATTTCCATTAAACTTAAAGGAATCACAAATGATTCAAAGGACCCATCTGTTGATACCTTTCGGTCTACAACCTTTCCCATGTTAAAACGCTTTGGAGTTCCCTCAGAAGGGTTGGAGCTAAAAATAGAGAATCGTGGATCTCCTCCTCTGGGAGGTGGTGAAGTGCTTTTGGCAATTCCAGTTGTTCAAAGTCTCACTGCCGTAAAGTGGACTGATGAGGGGATGGTTAAGAGGATCAGAGGGGTTACATTCTCAACAAGAGTGTCTTCACAGTTTGAAAATACCATGGTTTTTGCAGCTCGTGGAATCTTTAATTCCTTCCTTCCAGATGTTCACATATTCACTGACCATAGAGCTGGTGTACATGCTGGAAATTCACCTGGTTATGGAATTTCACTGGTTGCGGAAACAACTTCTGGTTGCTGTCTCTCTGCTGATACAGCAATTTCTTATGCACGTGAGGAAGAAACAGCTGGACTTGAAGATGAGAAGAAAGAGCTGATGCCTCCAGATGAAGTTGGTGTGCAAATTGCTTCTGTTCTGCTTGGGGAGATCGAGCAGGGTGGAGTGGTAGATTCAACACACCAGGGTTTGTTGTTTCTTCTTTGTGCACTATGTCCGCAAGATGTTTCAAAAGTTCGGGTTGGAAAGCTCTCTCCTTATGGAATAGAAACACTCCGACACATCAAAGATTTTCTTGGAGTTCAATTTGTGATTACAGCCGACCCGACCACTGGAACTGTTATGCTCAAGTGTGTTGGCTGTGGTCTTGAGAACCTATCTAGAAAGGTCTCGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000469 GO:0000478 GO:0000479 GO:0003674 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004540 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0016787 GO:0016788 GO:0022613 GO:0031974 GO:0031981 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0140098 GO:1901360

KEGG Pathways

Metabolic & Signaling

ko03008 map03008

Pfam Domains

Protein Families

RTC RTC_insert

Protein Analysis

377

Amino Acids

40.96

Weight (kDa)

7.07

Isoelectric Point (pI)

36.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RTC	PF01137	10 - 351	7.7e-59	RNA 3'-terminal phosphate cyclase
RTC_insert	PF05189	183 - 298	2.7e-27	RNA 3'-terminal phosphate cyclase (RTC), insert 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: OG0008054)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G22100
fragaria_vesca	FvH4_3g12140 FvH4_3g12140 FvH4_3g12140 FvH4_3g12140 FvH4_3g12140 FvH4_3g12140
malus_domestica	MD05G1254500.v1.1 MD10G1234700.v1.1
prunus_persica	Prupe.4G110100_v2.0.a1
pyrus_communis	pycom05g23230 pycom10g19650
rosa_chinensis	RchiOBHm_Chr5g0019871
rosa_laevigata	RLG00000032480
rosa_multiflora	Rmu_sc0000344.1_g000019 Rmu_sc0001319.1_g000005
rosa_roxburghii	Rroxscaffold_1G00058300
rosa_rugosa	Rorug05G0054600.1 Rorug05G0054700
rosa_samantha	Rh5AG144800 Rh5BG144000 Rh5CG155700 Rh5DG143700
rosa_wichuraiana	Rw5G012790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	401
AciI	CCGC	3 cut(s)	154, 740, 956
AclWI	GGATC	2 cut(s)	481, 578
AcoI	YGGCCR	1 cut(s)	75
AcsI	RAATTY	2 cut(s)	709, 726
AcvI	CACGTG	1 cut(s)	794
AfaI	GTAC	1 cut(s)	699
AfiI	CCNNNNNNNGG	7 cut(s)	443, 444, 485, 488, 543, 722, 1070
AjnI	CCWGG	4 cut(s)	121, 226, 715, 921
AluBI	AGCT	7 cut(s)	15, 454, 635, 692, 809, 835, 988
AluI	AGCT	7 cut(s)	15, 454, 635, 692, 809, 835, 988
Alw21I	GWGCWC	1 cut(s)	949
Alw26I	GTCTC	4 cut(s)	194, 323, 533, 767
Alw44I	GTGCAC	1 cut(s)	945
AlwI	GGATC	2 cut(s)	481, 578
Ama87I	CYCGRG	1 cut(s)	161
AoxI	GGCC	2 cut(s)	75, 119
ApaLI	GTGCAC	1 cut(s)	945
ApeKI	GCWGC	1 cut(s)	632
ApoI	RAATTY	2 cut(s)	709, 726
AspS9I	GGNCC	1 cut(s)	376
AsuC2I	CCSGG	1 cut(s)	83
AsuHPI	GGTGA	2 cut(s)	506, 705
AvaI	CYCGRG	1 cut(s)	161
AvaII	GGWCC	1 cut(s)	376
BaeGI	GKGCMC	1 cut(s)	949
BauI	CACGAG	2 cut(s)	636, 1129
BbrPI	CACGTG	1 cut(s)	794
BbsI	GAAGAC	1 cut(s)	594
Bbv12I	GWGCWC	1 cut(s)	949
BbvI	GCAGC	1 cut(s)	644
BccI	CCATC	3 cut(s)	232, 388, 553
BceAI	ACGGC	2 cut(s)	68, 521
BciT130I	CCWGG	4 cut(s)	123, 228, 717, 923
BciVI	GTATCC	1 cut(s)	154
BcnI	CCSGG	1 cut(s)	83
BcoDI	GTCTC	4 cut(s)	194, 323, 533, 767
BfaI	CTAG	1 cut(s)	1119
BfuI	GTATCC	1 cut(s)	154
BisI	GCNGC	1 cut(s)	633
BlsI	GCNGC	1 cut(s)	634
Bme1390I	CCNGG	5 cut(s)	83, 123, 228, 717, 923
Bme18I	GGWCC	1 cut(s)	376
BmeT110I	CYCGRG	1 cut(s)	161
BmgT120I	GGNCC	1 cut(s)	376
BmiI	GGNNCC	2 cut(s)	300, 378
BmrFI	CCNGG	5 cut(s)	83, 123, 228, 717, 923
BmsI	GCATC	1 cut(s)	828
BoxI	GACNNNNGTC	1 cut(s)	267
BpiI	GAAGAC	1 cut(s)	594
BpmI	CTGGAG	1 cut(s)	828
BpuEI	CTTGAG	2 cut(s)	1070, 1127
BpuMI	CCSGG	1 cut(s)	83
BsaAI	YACGTR	2 cut(s)	117, 794
BsaI	GGTCTC	2 cut(s)	194, 323
BsaJI	CCNNGG	4 cut(s)	81, 227, 621, 922
Bsc4I	CCNNNNNNNGG	7 cut(s)	443, 444, 485, 488, 543, 722, 1070
Bse118I	RCCGGY	1 cut(s)	203
Bse1I	ACTGG	3 cut(s)	515, 738, 1075
BseBI	CCWGG	4 cut(s)	123, 228, 717, 923
BseDI	CCNNGG	4 cut(s)	81, 227, 621, 922
BseGI	GGATG	1 cut(s)	564
BseLI	CCNNNNNNNGG	7 cut(s)	443, 444, 485, 488, 543, 722, 1070
BseMII	CTCAG	1 cut(s)	453
BseNI	ACTGG	3 cut(s)	515, 738, 1075
BseRI	GAGGAG	2 cut(s)	468, 471
BseSI	GKGCMC	1 cut(s)	949
BseXI	GCAGC	1 cut(s)	644
BshFI	GGCC	2 cut(s)	77, 121
BsiHKAI	GWGCWC	1 cut(s)	949
BsiHKCI	CYCGRG	1 cut(s)	161
BsiSI	CCGG	2 cut(s)	83, 204
BslI	CCNNNNNNNGG	7 cut(s)	443, 444, 485, 488, 543, 722, 1070
BsmAI	GTCTC	4 cut(s)	194, 323, 533, 767
BsnI	GGCC	2 cut(s)	77, 121
Bso31I	GGTCTC	2 cut(s)	194, 323
BsoBI	CYCGRG	1 cut(s)	161
Bsp1286I	GDGCHC	1 cut(s)	949
Bsp1407I	TGTACA	1 cut(s)	697
Bsp143I	GATC	3 cut(s)	473, 570, 888
Bsp19I	CCATGG	1 cut(s)	621
BspACI	CCGC	3 cut(s)	154, 740, 956
BspANI	GGCC	2 cut(s)	77, 121
BspCNI	CTCAG	1 cut(s)	452
BspHI	TCATGA	1 cut(s)	136
BspLI	GGNNCC	2 cut(s)	300, 378
BspPI	GGATC	2 cut(s)	481, 578
BspTNI	GGTCTC	2 cut(s)	194, 323
BsrFI	RCCGGY	1 cut(s)	203
BsrGI	TGTACA	1 cut(s)	697
BsrI	ACTGG	3 cut(s)	515, 738, 1075
BssAI	RCCGGY	1 cut(s)	203
BssECI	CCNNGG	4 cut(s)	81, 227, 621, 922
BssMI	GATC	3 cut(s)	473, 570, 888
BssSI	CACGAG	2 cut(s)	636, 1129
BssT1I	CCWWGG	1 cut(s)	621
Bst2BI	CACGAG	2 cut(s)	636, 1129
Bst2UI	CCWGG	4 cut(s)	123, 228, 717, 923
Bst4CI	ACNGT	4 cut(s)	182, 266, 609, 1078
BstAUI	TGTACA	1 cut(s)	697
BstBAI	YACGTR	2 cut(s)	117, 794
BstC8I	GCNNGC	1 cut(s)	158
BstDEI	CTNAG	2 cut(s)	44, 439
BstDSI	CCRYGG	1 cut(s)	621
BstENI	CCTNNNNNAGG	1 cut(s)	486
BstF5I	GGATG	1 cut(s)	564
BstKTI	GATC	3 cut(s)	476, 573, 891
BstMAI	GTCTC	4 cut(s)	194, 323, 533, 767
BstMBI	GATC	3 cut(s)	473, 570, 888
BstMWI	GCNNNNNNNGC	2 cut(s)	127, 776
BstNI	CCWGG	4 cut(s)	123, 228, 717, 923
BstNSI	RCATGY	1 cut(s)	704
BstPAI	GACNNNNGTC	1 cut(s)	267
BstSCI	CCNGG	5 cut(s)	81, 121, 226, 715, 921
BstSLI	GKGCMC	1 cut(s)	949
BstV1I	GCAGC	1 cut(s)	644
BstV2I	GAAGAC	1 cut(s)	594
BstX2I	RGATCY	1 cut(s)	473
BstXI	CCANNNNNNTGG	1 cut(s)	692
BstYI	RGATCY	1 cut(s)	473
BsuI	GTATCC	1 cut(s)	154
BsuRI	GGCC	2 cut(s)	77, 121
BtgI	CCRYGG	1 cut(s)	621
BtsCI	GGATG	1 cut(s)	564
BtsI	GCAGTG	1 cut(s)	531
BtsIMutI	CAGTG	5 cut(s)	105, 531, 678, 731, 1068
Cac8I	GCNNGC	1 cut(s)	158
CciI	TCATGA	1 cut(s)	136
Cfr10I	RCCGGY	1 cut(s)	203
Cfr13I	GGNCC	1 cut(s)	376
CseI	GACGC	1 cut(s)	119
CsiI	ACCWGGT	1 cut(s)	715
Csp6I	GTAC	1 cut(s)	698
CviAII	CATG	5 cut(s)	137, 260, 415, 622, 701
CviQI	GTAC	1 cut(s)	698
DdeI	CTNAG	2 cut(s)	44, 439
DpnI	GATC	3 cut(s)	475, 572, 890
DpnII	GATC	3 cut(s)	473, 570, 888
EaeI	YGGCCR	1 cut(s)	75
Eco130I	CCWWGG	1 cut(s)	621
Eco31I	GGTCTC	2 cut(s)	194, 323
Eco47I	GGWCC	1 cut(s)	376
Eco72I	CACGTG	1 cut(s)	794
Eco88I	CYCGRG	1 cut(s)	161
EcoNI	CCTNNNNNAGG	1 cut(s)	486
EcoO109I	RGGNCCY	1 cut(s)	376
EcoRII	CCWGG	4 cut(s)	121, 226, 715, 921
EcoT14I	CCWWGG	1 cut(s)	621
ErhI	CCWWGG	1 cut(s)	621
FaeI	CATG	5 cut(s)	140, 263, 418, 625, 704
FalI	AAGNNNNNCTT	4 cut(s)	586, 618, 1017, 1049
FatI	CATG	5 cut(s)	136, 259, 414, 621, 700
FblI	GTMKAC	1 cut(s)	401
Fnu4HI	GCNGC	1 cut(s)	633
FokI	GGATG	1 cut(s)	571
Fsp4HI	GCNGC	1 cut(s)	633
FspBI	CTAG	1 cut(s)	1119
GluI	GCNGC	1 cut(s)	633
GsuI	CTGGAG	1 cut(s)	828
HaeIII	GGCC	2 cut(s)	77, 121
HapII	CCGG	2 cut(s)	83, 204
HgaI	GACGC	1 cut(s)	119
Hin1II	CATG	5 cut(s)	140, 263, 418, 625, 704
HinfI	GANTC	6 cut(s)	250, 357, 368, 466, 642, 911
HpaII	CCGG	2 cut(s)	83, 204
HphI	GGTGA	2 cut(s)	506, 705
Hpy166II	GTNNAC	5 cut(s)	402, 546, 670, 698, 947
Hpy188I	TCNGA	3 cut(s)	442, 575, 1016
Hpy188III	TCNNGA	8 cut(s)	30, 137, 163, 662, 845, 1106, 1119, 1131
Hpy8I	GTNNAC	5 cut(s)	402, 546, 670, 698, 947
Hpy99I	CGWCG	1 cut(s)	135
HpyAV	CCTTC	4 cut(s)	157, 437, 664, 668
HpyCH4III	ACNGT	4 cut(s)	182, 266, 609, 1078
HpyCH4IV	ACGT	2 cut(s)	116, 793
HpyCH4V	TGCA	5 cut(s)	259, 632, 791, 862, 947
HpyF10VI	GCNNNNNNNGC	2 cut(s)	127, 776
HpyF3I	CTNAG	2 cut(s)	44, 439
HpySE526I	ACGT	2 cut(s)	116, 793
Hsp92II	CATG	5 cut(s)	140, 263, 418, 625, 704
Kzo9I	GATC	3 cut(s)	473, 570, 888
LmnI	GCTCC	2 cut(s)	298, 451
Lsp1109I	GCAGC	1 cut(s)	644
LweI	GCATC	1 cut(s)	828
MabI	ACCWGGT	1 cut(s)	715
MaeI	CTAG	1 cut(s)	1119
MaeII	ACGT	2 cut(s)	116, 793
MaeIII	GTNAC	1 cut(s)	580
MalI	GATC	3 cut(s)	475, 572, 890
MboI	GATC	3 cut(s)	473, 570, 888
MboII	GAAGA	6 cut(s)	178, 594, 812, 830, 838, 929
MflI	RGATCY	1 cut(s)	473
MhlI	GDGCHC	1 cut(s)	949
MluCI	AATT	8 cut(s)	212, 510, 649, 709, 726, 780, 864, 1043
MmeI	TCCRAC	3 cut(s)	429, 961, 1039
MseI	TTAA	5 cut(s)	345, 351, 419, 564, 648
MslI	CAYNNNNRTG	1 cut(s)	264
MspA1I	CMGCKG	1 cut(s)	809
MspI	CCGG	2 cut(s)	83, 204
MspR9I	CCNGG	5 cut(s)	83, 123, 228, 717, 923
MvaI	CCWGG	4 cut(s)	123, 228, 717, 923
MwoI	GCNNNNNNNGC	2 cut(s)	127, 776
NciI	CCSGG	1 cut(s)	83
NcoI	CCATGG	1 cut(s)	621
NdeII	GATC	3 cut(s)	473, 570, 888
NlaIII	CATG	5 cut(s)	140, 263, 418, 625, 704
NlaIV	GGNNCC	2 cut(s)	300, 378
NmeAIII	GCCGAG	1 cut(s)	53
NspI	RCATGY	1 cut(s)	704
PaeR7I	CTCGAG	1 cut(s)	161
PagI	TCATGA	1 cut(s)	136
PfeI	GAWTC	6 cut(s)	250, 357, 368, 466, 642, 911
PkrI	GCNGC	1 cut(s)	634
PmaCI	CACGTG	1 cut(s)	794
PmlI	CACGTG	1 cut(s)	794
Ppu21I	YACGTR	2 cut(s)	117, 794
PpuMI	RGGWCCY	1 cut(s)	376
PshAI	GACNNNNGTC	1 cut(s)	267
Psp5II	RGGWCCY	1 cut(s)	376
Psp6I	CCWGG	4 cut(s)	121, 226, 715, 921
PspCI	CACGTG	1 cut(s)	794
PspGI	CCWGG	4 cut(s)	121, 226, 715, 921
PspN4I	GGNNCC	2 cut(s)	300, 378
PspPI	GGNCC	1 cut(s)	376
PspPPI	RGGWCCY	1 cut(s)	376
PsuI	RGATCY	1 cut(s)	473
PvuII	CAGCTG	1 cut(s)	809
RsaI	GTAC	1 cut(s)	699
RsaNI	GTAC	1 cut(s)	698
RseI	CAYNNNNRTG	1 cut(s)	264
SaqAI	TTAA	5 cut(s)	345, 351, 419, 564, 648
SatI	GCNGC	1 cut(s)	633
Sau3AI	GATC	3 cut(s)	473, 570, 888
Sau96I	GGNCC	1 cut(s)	376
ScrFI	CCNGG	5 cut(s)	83, 123, 228, 717, 923
SduI	GDGCHC	1 cut(s)	949
SexAI	ACCWGGT	1 cut(s)	715
SfaNI	GCATC	1 cut(s)	828
Sfr274I	CTCGAG	1 cut(s)	161
SinI	GGWCC	1 cut(s)	376
SlaI	CTCGAG	1 cut(s)	161
SmiMI	CAYNNNNRTG	1 cut(s)	264
SmlI	CTYRAG	3 cut(s)	161, 1085, 1106
SmoI	CTYRAG	3 cut(s)	161, 1085, 1106
Sse9I	AATT	8 cut(s)	212, 510, 649, 709, 726, 780, 864, 1043
SsiI	CCGC	3 cut(s)	154, 740, 956
SspMI	CTAG	1 cut(s)	1119
StyD4I	CCNGG	5 cut(s)	81, 121, 226, 715, 921
StyI	CCWWGG	1 cut(s)	621
TaaI	ACNGT	4 cut(s)	182, 266, 609, 1078
TaiI	ACGT	2 cut(s)	119, 796
TaqI	TCGA	3 cut(s)	11, 162, 891
TaqII	GACCGA	2 cut(s)	267, 387
TasI	AATT	8 cut(s)	212, 510, 649, 709, 726, 780, 864, 1043
TatI	WGTACW	1 cut(s)	697
TfiI	GAWTC	6 cut(s)	250, 357, 368, 466, 642, 911
Tru1I	TTAA	5 cut(s)	345, 351, 419, 564, 648
Tru9I	TTAA	5 cut(s)	345, 351, 419, 564, 648
TscAI	CASTG	5 cut(s)	112, 538, 685, 738, 1075
TseI	GCWGC	1 cut(s)	632
TspDTI	ATGAA	2 cut(s)	153, 864
TspRI	CASTG	5 cut(s)	112, 538, 685, 738, 1075
VneI	GTGCAC	1 cut(s)	945
VpaK11BI	GGWCC	1 cut(s)	376
XagI	CCTNNNNNAGG	1 cut(s)	486
XapI	RAATTY	2 cut(s)	709, 726
XbaI	TCTAGA	1 cut(s)	1118
XceI	RCATGY	1 cut(s)	704
XhoI	CTCGAG	1 cut(s)	161
XmiI	GTMKAC	1 cut(s)	401
XspI	CTAG	1 cut(s)	1119

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