Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0004144

Physical Location & Seq

Genomic Coordinates Reverse (-)

5302522 .. 5306386

Gene Structure 3865 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG070800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 690 bp

ATGAGAGGCTCATCTTCCACACCATCTAGCTCGGACGGTACCACCCGTTCATGGATAATAGCTGGAGCGGCTGTGGCTGCAGCGACGGCAGCGTACGCTGTGGTTTCAAGGCGGCGATCGGCGGGGTTTCGGAGCCGGGTGGTCGGAATCATCCCTGCGCGTTTCGCTTCCTCCAGATTTCCCGGCAAACCTCTGGTTCCAATTCTCGGAAAGCCCATGATCCAGAGGACATGGGAAAGAGCAAAACTTGCAAACAAGCTGGATCAACTTGTTGTCGCTACTGATGATAAGAAAATAGCAGCATGCTGTTCAGATTTTGGAGCTAATGTCATAATGACATCAGAAACTTGCAGAAATGGAACTGAACGCTGCACTGAGGCACTCCAAAAGCTTACGAAGAAGTTTGACATCGTTGTTAACATTCAGGGTGATGAACCTCTTATAGAGCCCGAGATAATTGATGGGGTTGTCATGGCCCTGCAGGCTGCCCCTGATGCTGTGTTTAGCACTGCAGTTACCTCATTGAAACCTGAAGATACCTCTGATCCAAATCGGGTAAAGTGTGTGGTGGACAATCATGGTTATGCAATCTATTTCTCAAGGGGTTTAATCCCCTATAACAAGTCAGGCAAGGTCAATCCACATTTTCCGTATTTACTTCATCTTGGTATTCAGGTACTAGCATTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00540 ko01100 map00540 map01100

Pfam Domains

Protein Families

CTP_transf_3

Protein Analysis

229

Amino Acids

24.71

Weight (kDa)

9.38

Isoelectric Point (pI)

42.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CTP_transf_3	PF02348	48 - 225	2.9e-50	Cytidylyltransferase
NTP_transf_3	PF12804	57 - 168	1.9e-09	MobA-like NTP transferase 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: OG0004144)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G53000 AT1G53000
fragaria_vesca	FvH4_3g20180 FvH4_3g20180 FvH4_3g20180
malus_domestica	MD03G1226400.v1.1 MD11G1244700.v1.1
prunus_persica	Prupe.4G047000_v2.0.a1 Prupe.4G047000_v2.0.a1 Prupe.4G183000_v2.0.a1 Prupe.4G183000_v2.0.a1
pyrus_communis	pycom03g17410 pycom11g21680
rosa_chinensis	RchiOBHm_Chr5g0008351 RchiOBHm_Chr5g0033991
rosa_laevigata	RLG00000033517
rosa_multiflora	Rmu_sc0012341.1_g000007 Rmu_sc0014753.1_g000003 Rmu_sc0021840.1_g000001
rosa_roxburghii	Rroxscaffold_1G00046240 Rroxscaffold_1G00068140
rosa_rugosa	Rorug04G0435400 Rorug04G0435400 Rorug05G0144000
rosa_samantha	Rh5AG063900 Rh5AG234900 Rh5BG060800 Rh5BG235700 Rh5CG070800 Rh5CG265500 Rh5DG059800
rosa_wichuraiana	Rw5G005710 Rw5G021470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	38
AccB1I	GGYRCC	1 cut(s)	38
AccBSI	CCGCTC	1 cut(s)	68
AccII	CGCG	1 cut(s)	160
AciI	CCGC	3 cut(s)	68, 112, 122
AclWI	GGATC	3 cut(s)	214, 270, 539
AcuI	CTGAAG	1 cut(s)	552
AfaI	GTAC	3 cut(s)	40, 95, 678
AfiI	CCNNNNNNNGG	2 cut(s)	51, 206
AgsI	TTSAA	2 cut(s)	108, 526
AluBI	AGCT	5 cut(s)	30, 62, 259, 323, 391
AluI	AGCT	5 cut(s)	30, 62, 259, 323, 391
AlwI	GGATC	3 cut(s)	214, 270, 539
Ama87I	CYCGRG	1 cut(s)	449
AoxI	GGCC	1 cut(s)	474
ApeKI	GCWGC	6 cut(s)	77, 80, 89, 299, 369, 485
Asp718I	GGTACC	1 cut(s)	38
AspLEI	GCGC	1 cut(s)	160
AspS9I	GGNCC	1 cut(s)	475
AsuC2I	CCSGG	2 cut(s)	137, 183
AsuHPI	GGTGA	1 cut(s)	440
AvaI	CYCGRG	1 cut(s)	449
BanI	GGYRCC	1 cut(s)	38
BanII	GRGCYC	1 cut(s)	450
BbvI	GCAGC	6 cut(s)	64, 92, 101, 311, 356, 472
BccI	CCATC	2 cut(s)	31, 455
BceAI	ACGGC	1 cut(s)	102
BcnI	CCSGG	2 cut(s)	137, 183
BfaI	CTAG	2 cut(s)	27, 680
BfmI	CTRYAG	3 cut(s)	78, 479, 510
BglI	GCCNNNNNGGC	1 cut(s)	482
BisI	GCNGC	8 cut(s)	69, 78, 81, 90, 113, 300, 370, 486
BlsI	GCNGC	8 cut(s)	70, 79, 82, 91, 114, 301, 371, 487
Bme1390I	CCNGG	2 cut(s)	137, 183
BmeT110I	CYCGRG	1 cut(s)	449
BmgT120I	GGNCC	1 cut(s)	475
BmiI	GGNNCC	3 cut(s)	40, 134, 198
BmrFI	CCNGG	2 cut(s)	137, 183
BmsI	GCATC	1 cut(s)	484
BpmI	CTGGAG	2 cut(s)	84, 157
BpuEI	CTTGAG	1 cut(s)	583
BpuMI	CCSGG	2 cut(s)	137, 183
BsaBI	GATNNNNATC	1 cut(s)	549
BsaXI	ACNNNNNCTCC	4 cut(s)	57, 87, 312, 342
Bsc4I	CCNNNNNNNGG	2 cut(s)	51, 206
Bse8I	GATNNNNATC	1 cut(s)	549
BseGI	GGATG	1 cut(s)	150
BseJI	GATNNNNATC	1 cut(s)	549
BseLI	CCNNNNNNNGG	2 cut(s)	51, 206
BseMII	CTCAG	1 cut(s)	366
BseXI	GCAGC	6 cut(s)	64, 92, 101, 311, 356, 472
BsgI	GTGCAG	1 cut(s)	355
Bsh1236I	CGCG	1 cut(s)	160
Bsh1285I	CGRYCG	1 cut(s)	119
BshFI	GGCC	1 cut(s)	476
BshNI	GGYRCC	1 cut(s)	38
BsiEI	CGRYCG	1 cut(s)	119
BsiHKCI	CYCGRG	1 cut(s)	449
BsiSI	CCGG	2 cut(s)	136, 183
BsiWI	CGTACG	1 cut(s)	93
BslI	CCNNNNNNNGG	2 cut(s)	51, 206
BsnI	GGCC	1 cut(s)	476
BsoBI	CYCGRG	1 cut(s)	449
Bsp1286I	GDGCHC	1 cut(s)	450
Bsp143I	GATC	4 cut(s)	116, 219, 262, 544
BspACI	CCGC	3 cut(s)	68, 112, 122
BspANI	GGCC	1 cut(s)	476
BspCNI	CTCAG	1 cut(s)	367
BspFNI	CGCG	1 cut(s)	160
BspLI	GGNNCC	3 cut(s)	40, 134, 198
BspMAI	CTGCAG	3 cut(s)	82, 483, 514
BspPI	GGATC	3 cut(s)	214, 270, 539
BspT107I	GGYRCC	1 cut(s)	38
BsrBI	CCGCTC	1 cut(s)	68
BssMI	GATC	4 cut(s)	116, 219, 262, 544
Bst4CI	ACNGT	1 cut(s)	38
BstAPI	GCANNNNNTGC	1 cut(s)	248
BstC8I	GCNNGC	2 cut(s)	304, 483
BstDEI	CTNAG	1 cut(s)	375
BstF5I	GGATG	1 cut(s)	150
BstFNI	CGCG	1 cut(s)	160
BstHHI	GCGC	1 cut(s)	160
BstKTI	GATC	4 cut(s)	119, 222, 265, 547
BstMBI	GATC	4 cut(s)	116, 219, 262, 544
BstMCI	CGRYCG	1 cut(s)	119
BstNSI	RCATGY	1 cut(s)	306
BstSCI	CCNGG	2 cut(s)	135, 181
BstSFI	CTRYAG	3 cut(s)	78, 479, 510
BstUI	CGCG	1 cut(s)	160
BstV1I	GCAGC	6 cut(s)	64, 92, 101, 311, 356, 472
BsuRI	GGCC	1 cut(s)	476
BtsCI	GGATG	1 cut(s)	150
BtsI	GCAGTG	1 cut(s)	507
BtsIMutI	CAGTG	2 cut(s)	372, 507
Cac8I	GCNNGC	2 cut(s)	304, 483
CfoI	GCGC	1 cut(s)	160
Cfr13I	GGNCC	1 cut(s)	475
Csp6I	GTAC	3 cut(s)	39, 94, 677
CviAII	CATG	6 cut(s)	51, 217, 231, 303, 472, 578
CviQI	GTAC	3 cut(s)	39, 94, 677
DdeI	CTNAG	1 cut(s)	375
DpnI	GATC	4 cut(s)	118, 221, 264, 546
DpnII	GATC	4 cut(s)	116, 219, 262, 544
Eco24I	GRGCYC	1 cut(s)	450
Eco57I	CTGAAG	1 cut(s)	552
Eco88I	CYCGRG	1 cut(s)	449
EcoT38I	GRGCYC	1 cut(s)	450
FaeI	CATG	6 cut(s)	54, 220, 234, 306, 475, 581
FatI	CATG	6 cut(s)	50, 216, 230, 302, 471, 577
FauI	CCCGC	1 cut(s)	115
Fnu4HI	GCNGC	8 cut(s)	69, 78, 81, 90, 113, 300, 370, 486
FokI	GGATG	1 cut(s)	137
FriOI	GRGCYC	1 cut(s)	450
Fsp4HI	GCNGC	8 cut(s)	69, 78, 81, 90, 113, 300, 370, 486
FspBI	CTAG	2 cut(s)	27, 680
GlaI	GCGC	1 cut(s)	159
GluI	GCNGC	8 cut(s)	69, 78, 81, 90, 113, 300, 370, 486
GsuI	CTGGAG	2 cut(s)	84, 157
HaeIII	GGCC	1 cut(s)	476
HapII	CCGG	2 cut(s)	136, 183
HhaI	GCGC	1 cut(s)	160
Hin1II	CATG	6 cut(s)	54, 220, 234, 306, 475, 581
Hin6I	GCGC	1 cut(s)	158
HinP1I	GCGC	1 cut(s)	158
HincII	GTYRAC	1 cut(s)	418
HindII	GTYRAC	1 cut(s)	418
HindIII	AAGCTT	1 cut(s)	389
HinfI	GANTC	1 cut(s)	147
HpaI	GTTAAC	1 cut(s)	418
HpaII	CCGG	2 cut(s)	136, 183
HphI	GGTGA	1 cut(s)	440
Hpy166II	GTNNAC	2 cut(s)	418, 571
Hpy188I	TCNGA	7 cut(s)	34, 132, 146, 209, 313, 343, 544
Hpy188III	TCNNGA	2 cut(s)	174, 223
Hpy8I	GTNNAC	2 cut(s)	418, 571
Hpy99I	CGWCG	1 cut(s)	88
HpyCH4III	ACNGT	1 cut(s)	38
HpyCH4V	TGCA	7 cut(s)	80, 251, 351, 372, 481, 512, 587
HpyF3I	CTNAG	1 cut(s)	375
Hsp92II	CATG	6 cut(s)	54, 220, 234, 306, 475, 581
HspAI	GCGC	1 cut(s)	158
KpnI	GGTACC	1 cut(s)	42
KspAI	GTTAAC	1 cut(s)	418
Kzo9I	GATC	4 cut(s)	116, 219, 262, 544
LmnI	GCTCC	3 cut(s)	65, 132, 320
Lsp1109I	GCAGC	6 cut(s)	64, 92, 101, 311, 356, 472
LweI	GCATC	1 cut(s)	484
MaeI	CTAG	2 cut(s)	27, 680
MaeIII	GTNAC	1 cut(s)	514
MalI	GATC	4 cut(s)	118, 221, 264, 546
MbiI	CCGCTC	1 cut(s)	68
MboI	GATC	4 cut(s)	116, 219, 262, 544
MboII	GAAGA	3 cut(s)	6, 409, 545
MhlI	GDGCHC	1 cut(s)	450
MluCI	AATT	2 cut(s)	201, 456
MmeI	TCCRAC	1 cut(s)	124
MnlI	CCTC	7 cut(s)	181, 201, 219, 370, 447, 529, 550
MseI	TTAA	2 cut(s)	417, 608
MslI	CAYNNNNRTG	1 cut(s)	582
MspI	CCGG	2 cut(s)	136, 183
MspR9I	CCNGG	2 cut(s)	137, 183
MvnI	CGCG	1 cut(s)	160
NciI	CCSGG	2 cut(s)	137, 183
NdeII	GATC	4 cut(s)	116, 219, 262, 544
NlaIII	CATG	6 cut(s)	54, 220, 234, 306, 475, 581
NlaIV	GGNNCC	3 cut(s)	40, 134, 198
NspI	RCATGY	1 cut(s)	306
PaeI	GCATGC	1 cut(s)	306
PfeI	GAWTC	1 cut(s)	147
Pfl23II	CGTACG	1 cut(s)	93
PkrI	GCNGC	8 cut(s)	70, 79, 82, 91, 114, 301, 371, 487
Ple19I	CGATCG	1 cut(s)	119
PspLI	CGTACG	1 cut(s)	93
PspN4I	GGNNCC	3 cut(s)	40, 134, 198
PspPI	GGNCC	1 cut(s)	475
PsrI	GAACNNNNNNTAC	2 cut(s)	31, 63
PstI	CTGCAG	3 cut(s)	82, 483, 514
PvuI	CGATCG	1 cut(s)	119
RsaI	GTAC	3 cut(s)	40, 95, 678
RsaNI	GTAC	3 cut(s)	39, 94, 677
RseI	CAYNNNNRTG	1 cut(s)	582
SaqAI	TTAA	2 cut(s)	417, 608
SatI	GCNGC	8 cut(s)	69, 78, 81, 90, 113, 300, 370, 486
Sau3AI	GATC	4 cut(s)	116, 219, 262, 544
Sau96I	GGNCC	1 cut(s)	475
SbfI	CCTGCAGG	1 cut(s)	483
ScrFI	CCNGG	2 cut(s)	137, 183
SdaI	CCTGCAGG	1 cut(s)	483
SduI	GDGCHC	1 cut(s)	450
SfaNI	GCATC	1 cut(s)	484
SfcI	CTRYAG	3 cut(s)	78, 479, 510
SmiMI	CAYNNNNRTG	1 cut(s)	582
SmlI	CTYRAG	1 cut(s)	598
SmoI	CTYRAG	1 cut(s)	598
SphI	GCATGC	1 cut(s)	306
Sse8387I	CCTGCAGG	1 cut(s)	483
Sse9I	AATT	2 cut(s)	201, 456
SsiI	CCGC	3 cut(s)	68, 112, 122
SspMI	CTAG	2 cut(s)	27, 680
StyD4I	CCNGG	2 cut(s)	135, 181
TaaI	ACNGT	1 cut(s)	38
TasI	AATT	2 cut(s)	201, 456
TauI	GCSGC	2 cut(s)	71, 115
TfiI	GAWTC	1 cut(s)	147
Tru1I	TTAA	2 cut(s)	417, 608
Tru9I	TTAA	2 cut(s)	417, 608
TscAI	CASTG	2 cut(s)	379, 514
TseI	GCWGC	6 cut(s)	77, 80, 89, 299, 369, 485
TspDTI	ATGAA	3 cut(s)	39, 447, 650
TspGWI	ACGGA	1 cut(s)	639
TspRI	CASTG	2 cut(s)	379, 514
XceI	RCATGY	1 cut(s)	306
XspI	CTAG	2 cut(s)	27, 680

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