Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0008054

Physical Location & Seq

Genomic Coordinates Forward (+)

14948775 .. 14952674

Gene Structure 3900 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG144000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1134 bp

ATGGGAAAGTCGAGCTACAAGAGGCTCTCTGGAAGCCAGAACCTAAGACAACGGCTTGTATTGGCTACTCTCTCGGCCACCCCAGTTTTAATAGAGGACATACGCACGGATGATACATGGCCTGGTTTGCGTCGTCATGAAGTATCCTTCCTCCGCTTGCTTGAGAAGATTTGTGATGACTGTGCTGTTGAAATCAACGAGACTGGCACGAAATTGAAGTTCAAGCCAGGGATAGTGATGGGCGGGAGGAATCTGGTGCACGACTGTGGTCTTACTCGGTCTATTGGCTATTTCTTGGAGCCTTTGATTGTGCTTGGTCTCTTTGCGAAAAAACCTATTTCCATTAAACTTAAAGGAATCACAAATGATTCAAAGGACCGATCTGTTGATACCTTTCGGTCTACAACCTTTCCCATGTTAAAACGCTTTGGAGTTCCCTCAGAAGGGTTGGAGCTAAAAATAGAGAATCGTGGATCTCCTCCTCTGGGAGGTGGTGAAGTGCTTTTGGCAATTCCGGTTGTTCAAAGTCTCACTGCAGTAAAGTGGACCGATGAGGGGATGGTTAAGAGGATCAGAGGGGTTACATTCTCAACAAGAGTGTCTTCACAGTTTGAAAATACCATGGTTTTTGCAGCTCGTGGAATCTTTAATTCCTTCCTTCCAGATGTTCACATATTCACTGACCATAGAGCTGGTGTTCATGCTGGAAATTCACCTGGTTATGGAATTTCACTGGTTGCGGAAACAACTTCTGGTTGCTGTCTCTCTGCTGATACAGCAATTTCTTATGCACGTGAGGAAGAAACAGCTGGACTTGAAGATGAGAAGAAAGAGCTGATGGCCCCAGATGAAGTTGGTGTGCAAATTGCTTCTGTTCTGCTTGGGGAGATCGAGCAGGGTGGAGTGGTAGATTCAACACACCAGGGTTTGTTGTTTCTTCTTTGTGCACTATGTCCACAAGATGTTTCAAAAGTTCGGGTTGGAAGGCTCTCTCCTTATGGAATAGAAACACTCCGACACATCAAAGATTTTCTTGTAGTTCAATTTGTGATTACAGCCGATCCAACCACTGGAACTGTTATGCTCAAGTGTGTTGGCTGTGGTCTTAAGAACCTATCTAGAAAGGTCTCGTGA

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

41.06

Weight (kDa)

8.31

Isoelectric Point (pI)

36.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RTC	PF01137	10 - 351	2.3e-57	RNA 3'-terminal phosphate cyclase
RTC_insert	PF05189	183 - 298	1.2e-26	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)
AccB7I	CCANNNNNTGG	1 cut(s)	1070
AccI	GTMKAC	1 cut(s)	401
AciI	CCGC	3 cut(s)	154, 243, 740
AclWI	GGATC	3 cut(s)	481, 578, 1055
AcoI	YGGCCR	1 cut(s)	75
AcsI	RAATTY	2 cut(s)	709, 726
AcvI	CACGTG	1 cut(s)	794
AfiI	CCNNNNNNNGG	7 cut(s)	443, 444, 485, 488, 555, 722, 1070
AflII	CTTAAG	1 cut(s)	1106
AjnI	CCWGG	4 cut(s)	121, 226, 715, 921
AleI	CACNNNNGTG	1 cut(s)	264
AluBI	AGCT	6 cut(s)	15, 454, 635, 692, 809, 835
AluI	AGCT	6 cut(s)	15, 454, 635, 692, 809, 835
Alw21I	GWGCWC	2 cut(s)	261, 949
Alw26I	GTCTC	4 cut(s)	194, 323, 533, 767
Alw44I	GTGCAC	2 cut(s)	257, 945
AlwI	GGATC	3 cut(s)	481, 578, 1055
AoxI	GGCC	3 cut(s)	75, 119, 840
ApaLI	GTGCAC	2 cut(s)	257, 945
ApeKI	GCWGC	1 cut(s)	632
ApoI	RAATTY	2 cut(s)	709, 726
AspS9I	GGNCC	3 cut(s)	376, 546, 841
AsuHPI	GGTGA	2 cut(s)	506, 705
AvaII	GGWCC	2 cut(s)	376, 546
BaeGI	GKGCMC	2 cut(s)	261, 949
BauI	CACGAG	2 cut(s)	636, 1129
BbrPI	CACGTG	1 cut(s)	794
BbsI	GAAGAC	1 cut(s)	594
Bbv12I	GWGCWC	2 cut(s)	261, 949
BbvI	GCAGC	1 cut(s)	644
BccI	CCATC	3 cut(s)	232, 553, 832
BceAI	ACGGC	1 cut(s)	68
BciT130I	CCWGG	4 cut(s)	123, 228, 717, 923
BciVI	GTATCC	1 cut(s)	154
BcoDI	GTCTC	4 cut(s)	194, 323, 533, 767
BfaI	CTAG	1 cut(s)	1119
BfmI	CTRYAG	1 cut(s)	534
BfrI	CTTAAG	1 cut(s)	1106
BfuI	GTATCC	1 cut(s)	154
BisI	GCNGC	1 cut(s)	633
BlsI	GCNGC	1 cut(s)	634
Bme1390I	CCNGG	4 cut(s)	123, 228, 717, 923
Bme18I	GGWCC	2 cut(s)	376, 546
BmgT120I	GGNCC	3 cut(s)	376, 546, 841
BmiI	GGNNCC	2 cut(s)	300, 843
BmrFI	CCNGG	4 cut(s)	123, 228, 717, 923
BmrI	ACTGGG	1 cut(s)	77
BmuI	ACTGGG	1 cut(s)	77
BoxI	GACNNNNGTC	1 cut(s)	267
BpiI	GAAGAC	1 cut(s)	594
BpuEI	CTTGAG	2 cut(s)	182, 1070
BsaAI	YACGTR	1 cut(s)	794
BsaI	GGTCTC	1 cut(s)	323
BsaJI	CCNNGG	3 cut(s)	227, 621, 922
BsaWI	WCCGGW	1 cut(s)	514
Bsc4I	CCNNNNNNNGG	7 cut(s)	443, 444, 485, 488, 555, 722, 1070
Bse1I	ACTGG	4 cut(s)	83, 208, 738, 1075
BseBI	CCWGG	4 cut(s)	123, 228, 717, 923
BseDI	CCNNGG	3 cut(s)	227, 621, 922
BseGI	GGATG	2 cut(s)	115, 564
BseLI	CCNNNNNNNGG	7 cut(s)	443, 444, 485, 488, 555, 722, 1070
BseMII	CTCAG	1 cut(s)	453
BseNI	ACTGG	4 cut(s)	83, 208, 738, 1075
BseRI	GAGGAG	2 cut(s)	468, 471
BseSI	GKGCMC	2 cut(s)	261, 949
BseXI	GCAGC	1 cut(s)	644
BshFI	GGCC	3 cut(s)	77, 121, 842
BsiHKAI	GWGCWC	2 cut(s)	261, 949
BsiSI	CCGG	1 cut(s)	515
BslI	CCNNNNNNNGG	7 cut(s)	443, 444, 485, 488, 555, 722, 1070
BsmAI	GTCTC	4 cut(s)	194, 323, 533, 767
BsnI	GGCC	3 cut(s)	77, 121, 842
Bso31I	GGTCTC	1 cut(s)	323
Bsp1286I	GDGCHC	2 cut(s)	261, 949
Bsp143I	GATC	5 cut(s)	380, 473, 570, 888, 1060
Bsp19I	CCATGG	1 cut(s)	621
BspACI	CCGC	3 cut(s)	154, 243, 740
BspANI	GGCC	3 cut(s)	77, 121, 842
BspCNI	CTCAG	1 cut(s)	452
BspHI	TCATGA	1 cut(s)	136
BspLI	GGNNCC	2 cut(s)	300, 843
BspMAI	CTGCAG	1 cut(s)	538
BspPI	GGATC	3 cut(s)	481, 578, 1055
BspTI	CTTAAG	1 cut(s)	1106
BspTNI	GGTCTC	1 cut(s)	323
BsrI	ACTGG	4 cut(s)	83, 208, 738, 1075
BssECI	CCNNGG	3 cut(s)	227, 621, 922
BssMI	GATC	5 cut(s)	380, 473, 570, 888, 1060
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
BstAFI	CTTAAG	1 cut(s)	1106
BstBAI	YACGTR	1 cut(s)	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	2 cut(s)	115, 564
BstKTI	GATC	5 cut(s)	383, 476, 573, 891, 1063
BstMAI	GTCTC	4 cut(s)	194, 323, 533, 767
BstMBI	GATC	5 cut(s)	380, 473, 570, 888, 1060
BstMWI	GCNNNNNNNGC	2 cut(s)	127, 776
BstNI	CCWGG	4 cut(s)	123, 228, 717, 923
BstPAI	GACNNNNGTC	1 cut(s)	267
BstSCI	CCNGG	4 cut(s)	121, 226, 715, 921
BstSFI	CTRYAG	1 cut(s)	534
BstSLI	GKGCMC	2 cut(s)	261, 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	3 cut(s)	77, 121, 842
BtgI	CCRYGG	1 cut(s)	621
BtsCI	GGATG	2 cut(s)	115, 564
BtsI	GCAGTG	1 cut(s)	531
BtsIMutI	CAGTG	4 cut(s)	531, 678, 731, 1068
Cac8I	GCNNGC	1 cut(s)	158
CciI	TCATGA	1 cut(s)	136
Cfr13I	GGNCC	3 cut(s)	376, 546, 841
CseI	GACGC	1 cut(s)	119
CsiI	ACCWGGT	1 cut(s)	715
CviAII	CATG	5 cut(s)	117, 137, 415, 622, 701
DdeI	CTNAG	2 cut(s)	44, 439
DpnI	GATC	5 cut(s)	382, 475, 572, 890, 1062
DpnII	GATC	5 cut(s)	380, 473, 570, 888, 1060
EaeI	YGGCCR	1 cut(s)	75
Eco130I	CCWWGG	1 cut(s)	621
Eco31I	GGTCTC	1 cut(s)	323
Eco47I	GGWCC	2 cut(s)	376, 546
Eco72I	CACGTG	1 cut(s)	794
EcoNI	CCTNNNNNAGG	1 cut(s)	486
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)	120, 140, 418, 625, 704
FalI	AAGNNNNNCTT	4 cut(s)	586, 618, 1017, 1049
FatI	CATG	5 cut(s)	116, 136, 414, 621, 700
FauI	CCCGC	1 cut(s)	236
FblI	GTMKAC	1 cut(s)	401
Fnu4HI	GCNGC	1 cut(s)	633
FokI	GGATG	2 cut(s)	122, 571
Fsp4HI	GCNGC	1 cut(s)	633
FspBI	CTAG	1 cut(s)	1119
GluI	GCNGC	1 cut(s)	633
HaeIII	GGCC	3 cut(s)	77, 121, 842
HapII	CCGG	1 cut(s)	515
HgaI	GACGC	1 cut(s)	119
Hin1II	CATG	5 cut(s)	120, 140, 418, 625, 704
HinfI	GANTC	6 cut(s)	250, 357, 368, 466, 642, 911
HpaII	CCGG	1 cut(s)	515
HphI	GGTGA	2 cut(s)	506, 705
Hpy166II	GTNNAC	6 cut(s)	259, 402, 546, 670, 947, 956
Hpy188I	TCNGA	3 cut(s)	442, 575, 1016
Hpy188III	TCNNGA	5 cut(s)	30, 137, 662, 1119, 1131
Hpy8I	GTNNAC	6 cut(s)	259, 402, 546, 670, 947, 956
Hpy99I	CGWCG	1 cut(s)	135
HpyAV	CCTTC	5 cut(s)	157, 437, 664, 668, 978
HpyCH4III	ACNGT	4 cut(s)	182, 266, 609, 1078
HpyCH4IV	ACGT	1 cut(s)	793
HpyCH4V	TGCA	6 cut(s)	259, 536, 632, 791, 862, 947
HpyF10VI	GCNNNNNNNGC	2 cut(s)	127, 776
HpyF3I	CTNAG	2 cut(s)	44, 439
HpySE526I	ACGT	1 cut(s)	793
Hsp92II	CATG	5 cut(s)	120, 140, 418, 625, 704
Kzo9I	GATC	5 cut(s)	380, 473, 570, 888, 1060
LmnI	GCTCC	2 cut(s)	298, 451
Lsp1109I	GCAGC	1 cut(s)	644
MabI	ACCWGGT	1 cut(s)	715
MaeI	CTAG	1 cut(s)	1119
MaeII	ACGT	1 cut(s)	793
MaeIII	GTNAC	1 cut(s)	580
MalI	GATC	5 cut(s)	382, 475, 572, 890, 1062
MboI	GATC	5 cut(s)	380, 473, 570, 888, 1060
MboII	GAAGA	6 cut(s)	178, 594, 812, 830, 838, 929
MflI	RGATCY	1 cut(s)	473
MhlI	GDGCHC	2 cut(s)	261, 949
MluCI	AATT	8 cut(s)	212, 510, 649, 709, 726, 780, 864, 1043
MmeI	TCCRAC	4 cut(s)	429, 961, 1039, 1088
MseI	TTAA	7 cut(s)	89, 345, 351, 419, 564, 648, 1107
MslI	CAYNNNNRTG	1 cut(s)	264
MspA1I	CMGCKG	1 cut(s)	809
MspCI	CTTAAG	1 cut(s)	1106
MspI	CCGG	1 cut(s)	515
MspR9I	CCNGG	4 cut(s)	123, 228, 717, 923
MvaI	CCWGG	4 cut(s)	123, 228, 717, 923
MwoI	GCNNNNNNNGC	2 cut(s)	127, 776
NcoI	CCATGG	1 cut(s)	621
NdeII	GATC	5 cut(s)	380, 473, 570, 888, 1060
NlaIII	CATG	5 cut(s)	120, 140, 418, 625, 704
NlaIV	GGNNCC	2 cut(s)	300, 843
NmeAIII	GCCGAG	1 cut(s)	53
OliI	CACNNNNGTG	1 cut(s)	264
PagI	TCATGA	1 cut(s)	136
PfeI	GAWTC	6 cut(s)	250, 357, 368, 466, 642, 911
PflMI	CCANNNNNTGG	1 cut(s)	1070
PkrI	GCNGC	1 cut(s)	634
PmaCI	CACGTG	1 cut(s)	794
PmlI	CACGTG	1 cut(s)	794
Ppu21I	YACGTR	1 cut(s)	794
PshAI	GACNNNNGTC	1 cut(s)	267
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, 843
PspPI	GGNCC	3 cut(s)	376, 546, 841
PstI	CTGCAG	1 cut(s)	538
PsuI	RGATCY	1 cut(s)	473
PvuII	CAGCTG	1 cut(s)	809
RseI	CAYNNNNRTG	1 cut(s)	264
SaqAI	TTAA	7 cut(s)	89, 345, 351, 419, 564, 648, 1107
SatI	GCNGC	1 cut(s)	633
Sau3AI	GATC	5 cut(s)	380, 473, 570, 888, 1060
Sau96I	GGNCC	3 cut(s)	376, 546, 841
ScrFI	CCNGG	4 cut(s)	123, 228, 717, 923
SduI	GDGCHC	2 cut(s)	261, 949
SexAI	ACCWGGT	1 cut(s)	715
SfcI	CTRYAG	1 cut(s)	534
SinI	GGWCC	2 cut(s)	376, 546
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, 243, 740
SspMI	CTAG	1 cut(s)	1119
StyD4I	CCNGG	4 cut(s)	121, 226, 715, 921
StyI	CCWWGG	1 cut(s)	621
TaaI	ACNGT	4 cut(s)	182, 266, 609, 1078
TaiI	ACGT	1 cut(s)	796
TaqI	TCGA	2 cut(s)	11, 891
TaqII	GACCGA	4 cut(s)	267, 387, 393, 563
TasI	AATT	8 cut(s)	212, 510, 649, 709, 726, 780, 864, 1043
TfiI	GAWTC	6 cut(s)	250, 357, 368, 466, 642, 911
Tru1I	TTAA	7 cut(s)	89, 345, 351, 419, 564, 648, 1107
Tru9I	TTAA	7 cut(s)	89, 345, 351, 419, 564, 648, 1107
TscAI	CASTG	4 cut(s)	538, 685, 738, 1075
TseI	GCWGC	1 cut(s)	632
TspDTI	ATGAA	3 cut(s)	153, 689, 864
TspGWI	ACGGA	1 cut(s)	122
TspRI	CASTG	4 cut(s)	538, 685, 738, 1075
Van91I	CCANNNNNTGG	1 cut(s)	1070
Vha464I	CTTAAG	1 cut(s)	1106
VneI	GTGCAC	2 cut(s)	257, 945
VpaK11BI	GGWCC	2 cut(s)	376, 546
XagI	CCTNNNNNAGG	1 cut(s)	486
XapI	RAATTY	2 cut(s)	709, 726
XbaI	TCTAGA	1 cut(s)	1118
XmiI	GTMKAC	1 cut(s)	401
XspI	CTAG	1 cut(s)	1119

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