Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0004144

Physical Location & Seq

Genomic Coordinates Reverse (-)

28453166 .. 28456934

Gene Structure 3769 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG234900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 666 bp

ATGAACCCTAAAGCGCTTTGCTCTTCTTCTTCTTCTTCCTCATCCTCATCATTGTCATCCGGGTCTTGGAACACCTCCAAGGTATGGATCGTCCACGGAATCGTCGCCGGAGTCGCAATTGCGGCGGCGATCGGCGCCCGGGTCTACCTGGGCCCAGTTAAGAAGTTCCGGAGCCGGGTCGTCGGCATCATACCCGCCCGTTTTGCTTCGTCGCGGTTTGAGGGGAAGCCTCTTGTTCAGATCCTTGGAAAGCCCATGATCCAGAGAACATGGGAGAGGGCAAAGCTGGCAACTACATTGGATCATATTGTTGTGGCAACAGATGATGAGAAGATAGCAGAATGCTGTAGAAGTTTTGGCGCTGATGTCATAATGACCTCAGAGTCTTGTGCTAATGGTACTGAGCGTTGTTATGAAGCCATTCAGAAGCTTGAGAAGAAGTATGATGTAGTTGTCAATATTCAGGGGGATGAGCCTCTTGTTGAACCAGAGATAATAGATGGGATTGTTAAAGCTCTGCAGGAAGCCCCAGATGCAGTGTTTAGCACCGCAGTCACGTCTTTAAAACTTGAAGATGCATTTGATCCGAATCGAGTGAAATGTGTGGTGGATAATAATGGTTATGCTATCTATTTTTCAAGGGGGCTGATTCCATTTAACAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000902 GO:0000904 GO:0003006 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005740 GO:0005741 GO:0006139 GO:0006725 GO:0006793 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008690 GO:0009058 GO:0009225 GO:0009226 GO:0009555 GO:0009653 GO:0009826 GO:0009856 GO:0009860 GO:0009932 GO:0009987 GO:0016020 GO:0016021 GO:0016043 GO:0016049 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0019867 GO:0022414 GO:0030154 GO:0031090 GO:0031224 GO:0031300 GO:0031301 GO:0031306 GO:0031307 GO:0031966 GO:0031967 GO:0031968 GO:0031975 GO:0032501 GO:0032502 GO:0032592 GO:0032989 GO:0033467 GO:0033468 GO:0034641 GO:0034654 GO:0040007 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044271 GO:0044281 GO:0044422 GO:0044424 GO:0044425 GO:0044429 GO:0044444 GO:0044446 GO:0044455 GO:0044464 GO:0044706 GO:0046483 GO:0048229 GO:0048468 GO:0048588 GO:0048589 GO:0048856 GO:0048868 GO:0048869 GO:0051704 GO:0055086 GO:0060560 GO:0070567 GO:0071704 GO:0071840 GO:0098573 GO:0098588 GO:0098805 GO:1901135 GO:1901137 GO:1901360 GO:1901362 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00540 ko01100 map00540 map01100

Pfam Domains

Protein Families

CTP_transf_3

Protein Analysis

221

Amino Acids

23.93

Weight (kDa)

8.18

Isoelectric Point (pI)

35.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CTP_transf_3	PF02348	61 - 220	6.6e-52	Cytidylyltransferase
NTP_transf_3	PF12804	70 - 181	3.1e-11	MobA-like NTP transferase 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: 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)
AasI	GACNNNNNNGTC	1 cut(s)	382
AccB1I	GGYRCC	1 cut(s)	134
AccB7I	CCANNNNNTGG	1 cut(s)	84
AccI	GTMKAC	1 cut(s)	144
AccII	CGCG	1 cut(s)	214
AccIII	TCCGGA	1 cut(s)	168
AciI	CCGC	5 cut(s)	122, 125, 195, 214, 549
AclWI	GGATC	5 cut(s)	95, 235, 253, 309, 578
AcyI	GRCGYC	1 cut(s)	135
AfaI	GTAC	1 cut(s)	400
AfeI	AGCGCT	1 cut(s)	15
AfiI	CCNNNNNNNGG	3 cut(s)	66, 84, 175
AgsI	TTSAA	3 cut(s)	485, 572, 639
AjiI	CACGTC	1 cut(s)	558
AjnI	CCWGG	1 cut(s)	147
AluBI	AGCT	3 cut(s)	286, 430, 515
AluI	AGCT	3 cut(s)	286, 430, 515
AlwI	GGATC	5 cut(s)	95, 235, 253, 309, 578
Ama87I	CYCGRG	1 cut(s)	138
Aor13HI	TCCGGA	1 cut(s)	168
Aor51HI	AGCGCT	1 cut(s)	15
AoxI	GGCC	1 cut(s)	151
ApaI	GGGCCC	1 cut(s)	155
Asp700I	GAANNNNTTC	1 cut(s)	420
AspLEI	GCGC	3 cut(s)	16, 137, 362
AspS9I	GGNCC	2 cut(s)	151, 152
AsuC2I	CCSGG	4 cut(s)	61, 139, 140, 176
AvaI	CYCGRG	1 cut(s)	138
BaeGI	GKGCMC	1 cut(s)	155
BanI	GGYRCC	1 cut(s)	134
BanII	GRGCYC	1 cut(s)	155
BccI	CCATC	1 cut(s)	494
BciT130I	CCWGG	1 cut(s)	149
BcnI	CCSGG	4 cut(s)	61, 139, 140, 176
BfmI	CTRYAG	2 cut(s)	346, 518
BfoI	RGCGCY	3 cut(s)	17, 138, 363
BisI	GCNGC	2 cut(s)	123, 126
BlsI	GCNGC	2 cut(s)	124, 127
Bme1390I	CCNGG	5 cut(s)	61, 139, 140, 149, 176
BmeT110I	CYCGRG	1 cut(s)	138
BmgBI	CACGTC	1 cut(s)	558
BmgT120I	GGNCC	2 cut(s)	151, 152
BmiI	GGNNCC	3 cut(s)	136, 153, 173
BmrFI	CCNGG	5 cut(s)	61, 139, 140, 149, 176
BmrI	ACTGGG	1 cut(s)	149
BmsI	GCATC	3 cut(s)	195, 523, 565
BmuI	ACTGGG	1 cut(s)	149
BpuEI	CTTGAG	1 cut(s)	452
BpuMI	CCSGG	4 cut(s)	61, 139, 140, 176
BsaBI	GATNNNNATC	1 cut(s)	588
BsaHI	GRCGYC	1 cut(s)	135
BsaJI	CCNNGG	5 cut(s)	78, 94, 138, 148, 244
BsaWI	WCCGGW	1 cut(s)	168
Bsc4I	CCNNNNNNNGG	3 cut(s)	66, 84, 175
Bse1I	ACTGG	1 cut(s)	155
Bse8I	GATNNNNATC	1 cut(s)	588
BseAI	TCCGGA	1 cut(s)	168
BseBI	CCWGG	1 cut(s)	149
BseDI	CCNNGG	5 cut(s)	78, 94, 138, 148, 244
BseGI	GGATG	3 cut(s)	41, 56, 475
BseJI	GATNNNNATC	1 cut(s)	588
BseLI	CCNNNNNNNGG	3 cut(s)	66, 84, 175
BseMII	CTCAG	2 cut(s)	393, 393
BseNI	ACTGG	1 cut(s)	155
BseSI	GKGCMC	1 cut(s)	155
Bsh1236I	CGCG	1 cut(s)	214
Bsh1285I	CGRYCG	1 cut(s)	132
BshFI	GGCC	1 cut(s)	153
BshNI	GGYRCC	1 cut(s)	134
BsiEI	CGRYCG	1 cut(s)	132
BsiHKCI	CYCGRG	1 cut(s)	138
BsiSI	CCGG	5 cut(s)	60, 108, 139, 169, 175
BslI	CCNNNNNNNGG	3 cut(s)	66, 84, 175
BsmI	GAATGC	1 cut(s)	347
BsnI	GGCC	1 cut(s)	153
BsoBI	CYCGRG	1 cut(s)	138
Bsp120I	GGGCCC	1 cut(s)	151
Bsp1286I	GDGCHC	1 cut(s)	155
Bsp13I	TCCGGA	1 cut(s)	168
Bsp143I	GATC	6 cut(s)	87, 129, 240, 258, 301, 583
BspACI	CCGC	5 cut(s)	122, 125, 195, 214, 549
BspANI	GGCC	1 cut(s)	153
BspCNI	CTCAG	2 cut(s)	392, 394
BspEI	TCCGGA	1 cut(s)	168
BspFNI	CGCG	1 cut(s)	214
BspLI	GGNNCC	3 cut(s)	136, 153, 173
BspMAI	CTGCAG	1 cut(s)	522
BspPI	GGATC	5 cut(s)	95, 235, 253, 309, 578
BspQI	GCTCTTC	1 cut(s)	28
BspT107I	GGYRCC	1 cut(s)	134
BsrI	ACTGG	1 cut(s)	155
BssECI	CCNNGG	5 cut(s)	78, 94, 138, 148, 244
BssMI	GATC	6 cut(s)	87, 129, 240, 258, 301, 583
BssNI	GRCGYC	1 cut(s)	135
BssT1I	CCWWGG	2 cut(s)	78, 244
Bst2UI	CCWGG	1 cut(s)	149
Bst6I	CTCTTC	1 cut(s)	28
BstACI	GRCGYC	1 cut(s)	135
BstC8I	GCNNGC	1 cut(s)	288
BstDEI	CTNAG	2 cut(s)	379, 402
BstDSI	CCRYGG	1 cut(s)	94
BstF5I	GGATG	3 cut(s)	41, 56, 475
BstFNI	CGCG	1 cut(s)	214
BstH2I	RGCGCY	3 cut(s)	17, 138, 363
BstHHI	GCGC	3 cut(s)	16, 137, 362
BstKTI	GATC	6 cut(s)	90, 132, 243, 261, 304, 586
BstMBI	GATC	6 cut(s)	87, 129, 240, 258, 301, 583
BstMCI	CGRYCG	1 cut(s)	132
BstMWI	GCNNNNNNNGC	6 cut(s)	113, 122, 134, 203, 287, 533
BstNI	CCWGG	1 cut(s)	149
BstSCI	CCNGG	5 cut(s)	59, 137, 138, 147, 174
BstSFI	CTRYAG	2 cut(s)	346, 518
BstSLI	GKGCMC	1 cut(s)	155
BstUI	CGCG	1 cut(s)	214
BstX2I	RGATCY	1 cut(s)	240
BstYI	RGATCY	1 cut(s)	240
BsuRI	GGCC	1 cut(s)	153
BtgI	CCRYGG	1 cut(s)	94
BtrI	CACGTC	1 cut(s)	558
BtsCI	GGATG	3 cut(s)	41, 56, 475
BtsI	GCAGTG	1 cut(s)	543
BtsIMutI	CAGTG	1 cut(s)	543
Cac8I	GCNNGC	1 cut(s)	288
CfoI	GCGC	3 cut(s)	16, 137, 362
Cfr13I	GGNCC	2 cut(s)	151, 152
Cfr9I	CCCGGG	1 cut(s)	138
Csp6I	GTAC	1 cut(s)	399
CviAII	CATG	2 cut(s)	256, 270
CviQI	GTAC	1 cut(s)	399
DdeI	CTNAG	2 cut(s)	379, 402
DinI	GGCGCC	1 cut(s)	136
DpnI	GATC	6 cut(s)	89, 131, 242, 260, 303, 585
DpnII	GATC	6 cut(s)	87, 129, 240, 258, 301, 583
DraI	TTTAAA	1 cut(s)	564
DrdI	GACNNNNNNGTC	1 cut(s)	382
DseDI	GACNNNNNNGTC	1 cut(s)	382
Eam1104I	CTCTTC	1 cut(s)	28
EarI	CTCTTC	1 cut(s)	28
Eco130I	CCWWGG	2 cut(s)	78, 244
Eco24I	GRGCYC	1 cut(s)	155
Eco47III	AGCGCT	1 cut(s)	15
Eco88I	CYCGRG	1 cut(s)	138
EcoRII	CCWGG	1 cut(s)	147
EcoT14I	CCWWGG	2 cut(s)	78, 244
EcoT22I	ATGCAT	1 cut(s)	580
EcoT38I	GRGCYC	1 cut(s)	155
EgeI	GGCGCC	1 cut(s)	136
EheI	GGCGCC	1 cut(s)	136
ErhI	CCWWGG	2 cut(s)	78, 244
FaeI	CATG	2 cut(s)	259, 273
FaiI	YATR	9 cut(s)	85, 191, 257, 271, 306, 371, 414, 444, 624
FatI	CATG	2 cut(s)	255, 269
FauI	CCCGC	1 cut(s)	202
FblI	GTMKAC	1 cut(s)	144
Fnu4HI	GCNGC	2 cut(s)	123, 126
FokI	GGATG	3 cut(s)	28, 43, 482
FriOI	GRGCYC	1 cut(s)	155
Fsp4HI	GCNGC	2 cut(s)	123, 126
GlaI	GCGC	3 cut(s)	15, 136, 361
GluI	GCNGC	2 cut(s)	123, 126
HaeII	RGCGCY	3 cut(s)	17, 138, 363
HaeIII	GGCC	1 cut(s)	153
HapII	CCGG	5 cut(s)	60, 108, 139, 169, 175
HhaI	GCGC	3 cut(s)	16, 137, 362
Hin1I	GRCGYC	1 cut(s)	135
Hin1II	CATG	2 cut(s)	259, 273
Hin6I	GCGC	3 cut(s)	14, 135, 360
HinP1I	GCGC	3 cut(s)	14, 135, 360
HindIII	AAGCTT	1 cut(s)	428
HinfI	GANTC	5 cut(s)	99, 111, 383, 589, 649
HpaII	CCGG	5 cut(s)	60, 108, 139, 169, 175
Hpy166II	GTNNAC	2 cut(s)	94, 145
Hpy188I	TCNGA	4 cut(s)	240, 382, 426, 588
Hpy188III	TCNNGA	2 cut(s)	169, 262
Hpy8I	GTNNAC	2 cut(s)	94, 145
Hpy99I	CGWCG	3 cut(s)	107, 185, 214
HpyCH4IV	ACGT	1 cut(s)	557
HpyCH4V	TGCA	3 cut(s)	520, 536, 578
HpyF10VI	GCNNNNNNNGC	6 cut(s)	113, 122, 134, 203, 287, 533
HpyF3I	CTNAG	2 cut(s)	379, 402
HpySE526I	ACGT	1 cut(s)	557
Hsp92I	GRCGYC	1 cut(s)	135
Hsp92II	CATG	2 cut(s)	259, 273
HspAI	GCGC	3 cut(s)	14, 135, 360
KasI	GGCGCC	1 cut(s)	134
Kpn2I	TCCGGA	1 cut(s)	168
Kzo9I	GATC	6 cut(s)	87, 129, 240, 258, 301, 583
LguI	GCTCTTC	1 cut(s)	28
LmnI	GCTCC	1 cut(s)	171
LweI	GCATC	3 cut(s)	195, 523, 565
MaeII	ACGT	1 cut(s)	557
MaeIII	GTNAC	1 cut(s)	553
MalI	GATC	6 cut(s)	89, 131, 242, 260, 303, 585
MboI	GATC	6 cut(s)	87, 129, 240, 258, 301, 583
MboII	GAAGA	8 cut(s)	15, 18, 21, 24, 27, 343, 448, 584
MfeI	CAATTG	1 cut(s)	117
MflI	RGATCY	1 cut(s)	240
MhlI	GDGCHC	1 cut(s)	155
MluCI	AATT	1 cut(s)	117
Mly113I	GGCGCC	1 cut(s)	135
MlyI	GAGTC	2 cut(s)	120, 392
MnlI	CCTC	8 cut(s)	49, 55, 85, 214, 240, 270, 388, 486
Mph1103I	ATGCAT	1 cut(s)	580
MroI	TCCGGA	1 cut(s)	168
MroXI	GAANNNNTTC	1 cut(s)	420
MseI	TTAA	4 cut(s)	159, 510, 563, 657
MspI	CCGG	5 cut(s)	60, 108, 139, 169, 175
MspR9I	CCNGG	5 cut(s)	61, 139, 140, 149, 176
MunI	CAATTG	1 cut(s)	117
Mva1269I	GAATGC	1 cut(s)	347
MvaI	CCWGG	1 cut(s)	149
MvnI	CGCG	1 cut(s)	214
MwoI	GCNNNNNNNGC	6 cut(s)	113, 122, 134, 203, 287, 533
NarI	GGCGCC	1 cut(s)	135
NciI	CCSGG	4 cut(s)	61, 139, 140, 176
NdeII	GATC	6 cut(s)	87, 129, 240, 258, 301, 583
NlaIII	CATG	2 cut(s)	259, 273
NlaIV	GGNNCC	3 cut(s)	136, 153, 173
NmuCI	GTSAC	1 cut(s)	553
NsiI	ATGCAT	1 cut(s)	580
PciSI	GCTCTTC	1 cut(s)	28
PctI	GAATGC	1 cut(s)	347
PdmI	GAANNNNTTC	1 cut(s)	420
PfeI	GAWTC	3 cut(s)	99, 589, 649
PflMI	CCANNNNNTGG	1 cut(s)	84
PkrI	GCNGC	2 cut(s)	124, 127
Ple19I	CGATCG	1 cut(s)	132
PleI	GAGTC	2 cut(s)	119, 391
PluTI	GGCGCC	1 cut(s)	138
PpsI	GAGTC	2 cut(s)	119, 391
Psp6I	CCWGG	1 cut(s)	147
PspGI	CCWGG	1 cut(s)	147
PspN4I	GGNNCC	3 cut(s)	136, 153, 173
PspOMI	GGGCCC	1 cut(s)	151
PspPI	GGNCC	2 cut(s)	151, 152
PstI	CTGCAG	1 cut(s)	522
PsuI	RGATCY	1 cut(s)	240
PvuI	CGATCG	1 cut(s)	132
RsaI	GTAC	1 cut(s)	400
RsaNI	GTAC	1 cut(s)	399
SapI	GCTCTTC	1 cut(s)	28
SaqAI	TTAA	4 cut(s)	159, 510, 563, 657
SatI	GCNGC	2 cut(s)	123, 126
Sau3AI	GATC	6 cut(s)	87, 129, 240, 258, 301, 583
Sau96I	GGNCC	2 cut(s)	151, 152
SchI	GAGTC	2 cut(s)	120, 392
ScrFI	CCNGG	5 cut(s)	61, 139, 140, 149, 176
SduI	GDGCHC	1 cut(s)	155
SetI	ASST	8 cut(s)	77, 84, 150, 288, 380, 432, 517, 560
SfaNI	GCATC	3 cut(s)	195, 523, 565
SfcI	CTRYAG	2 cut(s)	346, 518
SfoI	GGCGCC	1 cut(s)	136
SmaI	CCCGGG	1 cut(s)	140
SmlI	CTYRAG	1 cut(s)	431
SmoI	CTYRAG	1 cut(s)	431
Sse9I	AATT	1 cut(s)	117
SsiI	CCGC	5 cut(s)	122, 125, 195, 214, 549
SspDI	GGCGCC	1 cut(s)	134
SspI	AATATT	1 cut(s)	460
StyD4I	CCNGG	5 cut(s)	59, 137, 138, 147, 174
StyI	CCWWGG	2 cut(s)	78, 244
TaiI	ACGT	1 cut(s)	560
TaqI	TCGA	1 cut(s)	592
TasI	AATT	1 cut(s)	117
TauI	GCSGC	2 cut(s)	125, 128
TfiI	GAWTC	3 cut(s)	99, 589, 649
Tru1I	TTAA	4 cut(s)	159, 510, 563, 657
Tru9I	TTAA	4 cut(s)	159, 510, 563, 657
TscAI	CASTG	1 cut(s)	543
TseFI	GTSAC	1 cut(s)	553
Tsp45I	GTSAC	1 cut(s)	553
TspDTI	ATGAA	2 cut(s)	17, 429
TspGWI	ACGGA	1 cut(s)	111
TspMI	CCCGGG	1 cut(s)	138
TspRI	CASTG	1 cut(s)	543
Van91I	CCANNNNNTGG	1 cut(s)	84
XmaI	CCCGGG	1 cut(s)	138
XmiI	GTMKAC	1 cut(s)	144
XmnI	GAANNNNTTC	1 cut(s)	420
Zsp2I	ATGCAT	1 cut(s)	580

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