Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0000310

Physical Location & Seq

Genomic Coordinates Forward (+)

6350786 .. 6362282

Gene Structure 11497 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG075000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 540 bp

ATGGAGAAGCCGGTCTACGACACGGTCGACAAGGACGAGTACGACGCCATCATCACCAAGCAGAGCAAGGAGTTTGGGGACTTCATTGAGGACGACGACGGCCTAGGGTACCGCGACGACGGCGAGGAAGAGGACTGGACCCGCCACGGGCTTCCGACGTCGTCGGATGAATCGAATGGCGATATGAGGCCCAGGAGGAGGAAGACGGTGGAGAAGAAGGAGAAGGAGAAGGAGCCGAGGCCCAAAAAGCCCAATTCGTCGCTTACGGCGGCGGCAGCGATGATGGGGAAGCAGTGGCTTTCGTCGATGTTCACGTCGCCGGTGTTTAATAAAAGTATGGATGGTGACAAGGCCAAAGGATTGTCTTGTGATAGCATTGTGGATGATGTGATTGCCGAGTTTGTGCTGGACGAGGCTGATAGAGAGAGACGGAGGAGGGCACAGCCGGCGAGGAGTTTCGTTCCGATTACCGGAGTTAAGAGTGAGAGACAAAAAAAACAAGGGAACCAAGTCCTTGCTTCCTTCGCAGATATTAAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000428 GO:0000726 GO:0003674 GO:0003824 GO:0003887 GO:0003896 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005658 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006269 GO:0006270 GO:0006271 GO:0006272 GO:0006273 GO:0006281 GO:0006302 GO:0006303 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009653 GO:0009965 GO:0009987 GO:0010016 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0022616 GO:0030880 GO:0030894 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032774 GO:0032991 GO:0032993 GO:0033554 GO:0034061 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043596 GO:0043601 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0046483 GO:0048366 GO:0048367 GO:0048731 GO:0048827 GO:0048856 GO:0050896 GO:0051716 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0071897 GO:0090304 GO:0097747 GO:0099402 GO:0140097 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1905392 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03030 map00230 map00240 map01100 map03030

Pfam Domains

Protein Families

DNA_pol_B DNA_pol_B_exo1 DNA_pol_alpha_N zf-DNA_Pol

Protein Analysis

179

Amino Acids

20.31

Weight (kDa)

5.29

Isoelectric Point (pI)

55.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_alpha_N	PF12254	2 - 46	9.4e-12	DNA polymerase alpha subunit p180 N terminal

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0000310)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G67100 AT5G67100
fragaria_vesca	FvH4_1g20001 FvH4_1g22730 FvH4_1g22730 FvH4_1g22730 FvH4_6g13861 FvH4_6g33603
malus_domestica	MD02G1174100.v1.1 MD02G1174200.v1.1 MD02G1174400.v1.1 MD15G1285400.v1.1
prunus_persica	Prupe.7G131600_v2.0.a1
pyrus_communis	pycom02g14040 pycom02g14050 pycom02g14060 pycom02g14070 pycom15g24830 pycom15g24840
rosa_chinensis	RchiOBHm_Chr2g0109901 RchiOBHm_Chr2g0117021 RchiOBHm_Chr2g0168121 RchiOBHm_Chr4g0394581
rosa_laevigata	RLG00000001621 RLG00000001943 RLG00000003450 RLG00000006116 RLG00000006535 RLG00000008147 RLG00000009121 RLG00000010680 RLG00000013987 RLG00000017585 RLG00000017603 RLG00000017638 RLG00000017923 RLG00000018320 RLG00000021520 RLG00000022613 RLG00000022614 RLG00000023966 RLG00000025998 RLG00000027760 RLG00000033421
rosa_multiflora	Rmu_co7985806.1_g000001 Rmu_co8250293.1_g000001 Rmu_co8353517.1_g000001 Rmu_sc0000697.1_g000011 Rmu_sc0000776.1_g000079 Rmu_sc0001023.1_g000057 Rmu_sc0001266.1_g000019 Rmu_sc0002711.1_g000010 Rmu_sc0002731.1_g000005 Rmu_sc0003002.1_g000047 Rmu_sc0003030.1_g000002 Rmu_sc0003672.1_g000003 Rmu_sc0004168.1_g000062 Rmu_sc0004180.1_g000003 Rmu_sc0009205.1_g000008 Rmu_sc0011259.1_g000001 Rmu_sc0011259.1_g000002 Rmu_sc0027274.1_g000001
rosa_roxburghii	Rroxscaffold_1G00023520 Rroxscaffold_2G00104450 Rroxscaffold_2G00126810 Rroxscaffold_2G00144870 Rroxscaffold_4G00315680 Rroxscaffold_4G00331480 Rroxscaffold_7G00182820
rosa_rugosa	Rorug02G0209600 Rorug04G0130600 Rorug04G0130600 Rorug04G0130700 Rorug05G0230000
rosa_samantha	Rh1AG170000 Rh1CG157700 Rh1CG385600 Rh2AG215100 Rh2AG265500 Rh2BG277300 Rh2CG217600 Rh2CG217700 Rh2DG220600 Rh2DG272800 Rh2DG291800 Rh3AG215700 Rh3BG271700 Rh3DG075200 Rh3DG242600 Rh4AG115400 Rh4AG138100 Rh4AG333600 Rh4BG115100 Rh4BG366300 Rh4CG125400 Rh4CG380400 Rh4DG083500 Rh4DG113200 Rh4DG192900 Rh4DG246300 Rh5AG075000 Rh5BG482300 Rh5CG181200 Rh5CG247200 Rh5CG506900 Rh5DG167600 Rh5DG202900 Rh6AG000500 Rh6AG213400 Rh6BG335800 Rh6CG255700 Rh7AG337500 Rh7BG404500 Rh7BG461500 Rh7CG355600
rosa_wichuraiana	Rw0G019110 Rw2G020950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	161
Acc65I	GGTACC	1 cut(s)	108
AccB1I	GGYRCC	1 cut(s)	108
AccI	GTMKAC	2 cut(s)	15, 27
AccII	CGCG	1 cut(s)	114
AciI	CCGC	4 cut(s)	112, 142, 269, 272
AcyI	GRCGYC	2 cut(s)	45, 158
AfaI	GTAC	2 cut(s)	41, 110
AfiI	CCNNNNNNNGG	3 cut(s)	147, 198, 470
AjiI	CACGTC	1 cut(s)	315
AjnI	CCWGG	1 cut(s)	191
Alw26I	GTCTC	2 cut(s)	421, 481
AoxI	GGCC	4 cut(s)	100, 188, 239, 351
ApeKI	GCWGC	1 cut(s)	275
Asp718I	GGTACC	1 cut(s)	108
AspA2I	CCTAGG	1 cut(s)	103
AspS9I	GGNCC	3 cut(s)	138, 189, 240
AsuHPI	GGTGA	2 cut(s)	46, 356
AvaII	GGWCC	1 cut(s)	138
AvrII	CCTAGG	1 cut(s)	103
BaeGI	GKGCMC	1 cut(s)	442
BanI	GGYRCC	1 cut(s)	108
BarI	GAAGNNNNNNTAC	1 cut(s)	31
BbsI	GAAGAC	1 cut(s)	209
BbvI	GCAGC	1 cut(s)	287
BccI	CCATC	3 cut(s)	56, 277, 335
BceAI	ACGGC	3 cut(s)	115, 136, 282
BciT130I	CCWGG	1 cut(s)	193
BcoDI	GTCTC	2 cut(s)	421, 481
BfaI	CTAG	1 cut(s)	104
BisI	GCNGC	3 cut(s)	270, 273, 276
BlnI	CCTAGG	1 cut(s)	103
BlsI	GCNGC	3 cut(s)	271, 274, 277
Bme1390I	CCNGG	1 cut(s)	193
Bme18I	GGWCC	1 cut(s)	138
BmgBI	CACGTC	1 cut(s)	315
BmgT120I	GGNCC	3 cut(s)	138, 189, 240
BmiI	GGNNCC	4 cut(s)	110, 140, 234, 506
BmrFI	CCNGG	1 cut(s)	193
BpiI	GAAGAC	1 cut(s)	209
BsaHI	GRCGYC	2 cut(s)	45, 158
BsaJI	CCNNGG	4 cut(s)	103, 145, 191, 236
BsaWI	WCCGGW	1 cut(s)	470
Bsc4I	CCNNNNNNNGG	3 cut(s)	147, 198, 470
Bse118I	RCCGGY	3 cut(s)	10, 319, 445
Bse1I	ACTGG	1 cut(s)	140
BseBI	CCWGG	1 cut(s)	193
BseDI	CCNNGG	4 cut(s)	103, 145, 191, 236
BseGI	GGATG	3 cut(s)	172, 346, 388
BseLI	CCNNNNNNNGG	3 cut(s)	147, 198, 470
BseNI	ACTGG	1 cut(s)	140
BseRI	GAGGAG	3 cut(s)	211, 448, 466
BseSI	GKGCMC	1 cut(s)	442
BseXI	GCAGC	1 cut(s)	287
Bsh1236I	CGCG	1 cut(s)	114
Bsh1285I	CGRYCG	1 cut(s)	27
BshFI	GGCC	4 cut(s)	102, 190, 241, 353
BshNI	GGYRCC	1 cut(s)	108
BsiEI	CGRYCG	1 cut(s)	27
BsiSI	CCGG	4 cut(s)	11, 320, 446, 471
BslFI	GGGAC	1 cut(s)	92
BslI	CCNNNNNNNGG	3 cut(s)	147, 198, 470
BsmAI	GTCTC	2 cut(s)	421, 481
BsmBI	CGTCTC	1 cut(s)	421
BsmFI	GGGAC	1 cut(s)	92
BsnI	GGCC	4 cut(s)	102, 190, 241, 353
Bsp1286I	GDGCHC	1 cut(s)	442
BspACI	CCGC	4 cut(s)	112, 142, 269, 272
BspANI	GGCC	4 cut(s)	102, 190, 241, 353
BspFNI	CGCG	1 cut(s)	114
BspLI	GGNNCC	4 cut(s)	110, 140, 234, 506
BspT107I	GGYRCC	1 cut(s)	108
BsrFI	RCCGGY	3 cut(s)	10, 319, 445
BsrI	ACTGG	1 cut(s)	140
BssAI	RCCGGY	3 cut(s)	10, 319, 445
BssECI	CCNNGG	4 cut(s)	103, 145, 191, 236
BssNI	GRCGYC	2 cut(s)	45, 158
BssT1I	CCWWGG	1 cut(s)	103
Bst2UI	CCWGG	1 cut(s)	193
Bst4CI	ACNGT	2 cut(s)	25, 208
Bst6I	CTCTTC	1 cut(s)	123
BstACI	GRCGYC	2 cut(s)	45, 158
BstC8I	GCNNGC	1 cut(s)	447
BstDSI	CCRYGG	1 cut(s)	145
BstF5I	GGATG	3 cut(s)	172, 346, 388
BstFNI	CGCG	1 cut(s)	114
BstMAI	GTCTC	2 cut(s)	421, 481
BstMCI	CGRYCG	1 cut(s)	27
BstMWI	GCNNNNNNNGC	5 cut(s)	120, 247, 275, 446, 524
BstNI	CCWGG	1 cut(s)	193
BstSCI	CCNGG	1 cut(s)	191
BstSLI	GKGCMC	1 cut(s)	442
BstUI	CGCG	1 cut(s)	114
BstV1I	GCAGC	1 cut(s)	287
BstV2I	GAAGAC	1 cut(s)	209
BsuRI	GGCC	4 cut(s)	102, 190, 241, 353
BtgI	CCRYGG	1 cut(s)	145
BtgZI	GCGATG	1 cut(s)	293
BtrI	CACGTC	1 cut(s)	315
BtsCI	GGATG	3 cut(s)	172, 346, 388
BtsI	GCAGTG	1 cut(s)	299
BtsIMutI	CAGTG	1 cut(s)	299
Cac8I	GCNNGC	1 cut(s)	447
Cfr10I	RCCGGY	3 cut(s)	10, 319, 445
Cfr13I	GGNCC	3 cut(s)	138, 189, 240
CseI	GACGC	1 cut(s)	53
Csp6I	GTAC	2 cut(s)	40, 109
CviQI	GTAC	2 cut(s)	40, 109
Eam1104I	CTCTTC	1 cut(s)	123
EarI	CTCTTC	1 cut(s)	123
Eco130I	CCWWGG	1 cut(s)	103
Eco47I	GGWCC	1 cut(s)	138
EcoRII	CCWGG	1 cut(s)	191
EcoT14I	CCWWGG	1 cut(s)	103
ErhI	CCWWGG	1 cut(s)	103
Esp3I	CGTCTC	1 cut(s)	421
FaiI	YATR	2 cut(s)	185, 338
FaqI	GGGAC	1 cut(s)	92
FauI	CCCGC	1 cut(s)	149
FblI	GTMKAC	2 cut(s)	15, 27
Fnu4HI	GCNGC	3 cut(s)	270, 273, 276
FokI	GGATG	3 cut(s)	179, 353, 395
Fsp4HI	GCNGC	3 cut(s)	270, 273, 276
FspBI	CTAG	1 cut(s)	104
GluI	GCNGC	3 cut(s)	270, 273, 276
HaeIII	GGCC	4 cut(s)	102, 190, 241, 353
HapII	CCGG	4 cut(s)	11, 320, 446, 471
HgaI	GACGC	1 cut(s)	53
Hin1I	GRCGYC	2 cut(s)	45, 158
HincII	GTYRAC	1 cut(s)	28
HindII	GTYRAC	1 cut(s)	28
HinfI	GANTC	1 cut(s)	170
HpaII	CCGG	4 cut(s)	11, 320, 446, 471
HphI	GGTGA	2 cut(s)	46, 356
Hpy166II	GTNNAC	3 cut(s)	16, 28, 312
Hpy188I	TCNGA	3 cut(s)	156, 166, 465
Hpy8I	GTNNAC	3 cut(s)	16, 28, 312
HpyAV	CCTTC	4 cut(s)	211, 217, 223, 532
HpyCH4III	ACNGT	2 cut(s)	25, 208
HpyCH4IV	ACGT	2 cut(s)	158, 314
HpyF10VI	GCNNNNNNNGC	5 cut(s)	120, 247, 275, 446, 524
HpySE526I	ACGT	2 cut(s)	158, 314
Hsp92I	GRCGYC	2 cut(s)	45, 158
KpnI	GGTACC	1 cut(s)	112
KroI	GCCGGC	1 cut(s)	445
KroNI	GCCGGC	1 cut(s)	447
LmnI	GCTCC	1 cut(s)	232
LpnPI	CCDG	8 cut(s)	24, 121, 178, 205, 333, 392, 459, 484
Lsp1109I	GCAGC	1 cut(s)	287
MaeI	CTAG	1 cut(s)	104
MaeII	ACGT	2 cut(s)	158, 314
MaeIII	GTNAC	1 cut(s)	344
MboII	GAAGA	3 cut(s)	140, 214, 226
MhlI	GDGCHC	1 cut(s)	442
MluCI	AATT	1 cut(s)	253
MmeI	TCCRAC	2 cut(s)	144, 179
MroNI	GCCGGC	1 cut(s)	445
MseI	TTAA	3 cut(s)	327, 477, 534
MspI	CCGG	4 cut(s)	11, 320, 446, 471
MspR9I	CCNGG	1 cut(s)	193
MvaI	CCWGG	1 cut(s)	193
MvnI	CGCG	1 cut(s)	114
MwoI	GCNNNNNNNGC	5 cut(s)	120, 247, 275, 446, 524
NaeI	GCCGGC	1 cut(s)	447
NgoMIV	GCCGGC	1 cut(s)	445
NlaIV	GGNNCC	4 cut(s)	110, 140, 234, 506
NmeAIII	GCCGAG	2 cut(s)	261, 421
NmuCI	GTSAC	1 cut(s)	344
PcsI	WCGNNNNNNNCGW	4 cut(s)	24, 33, 170, 311
PdiI	GCCGGC	1 cut(s)	447
PfeI	GAWTC	1 cut(s)	170
PflFI	GACNNNGTC	2 cut(s)	23, 160
PkrI	GCNGC	3 cut(s)	271, 274, 277
Psp6I	CCWGG	1 cut(s)	191
PspGI	CCWGG	1 cut(s)	191
PspN4I	GGNNCC	4 cut(s)	110, 140, 234, 506
PspPI	GGNCC	3 cut(s)	138, 189, 240
PsyI	GACNNNGTC	2 cut(s)	23, 160
RsaI	GTAC	2 cut(s)	41, 110
RsaNI	GTAC	2 cut(s)	40, 109
SalI	GTCGAC	1 cut(s)	26
SaqAI	TTAA	3 cut(s)	327, 477, 534
SatI	GCNGC	3 cut(s)	270, 273, 276
Sau96I	GGNCC	3 cut(s)	138, 189, 240
ScrFI	CCNGG	1 cut(s)	193
SduI	GDGCHC	1 cut(s)	442
SetI	ASST	2 cut(s)	161, 317
SgrAI	CRCCGGYG	1 cut(s)	319
SinI	GGWCC	1 cut(s)	138
Sse9I	AATT	1 cut(s)	253
SsiI	CCGC	4 cut(s)	112, 142, 269, 272
SspMI	CTAG	1 cut(s)	104
StyD4I	CCNGG	1 cut(s)	191
StyI	CCWWGG	1 cut(s)	103
TaaI	ACNGT	2 cut(s)	25, 208
TaiI	ACGT	2 cut(s)	161, 317
TaqI	TCGA	3 cut(s)	27, 173, 305
TasI	AATT	1 cut(s)	253
TauI	GCSGC	2 cut(s)	272, 275
TfiI	GAWTC	1 cut(s)	170
Tru1I	TTAA	3 cut(s)	327, 477, 534
Tru9I	TTAA	3 cut(s)	327, 477, 534
TscAI	CASTG	1 cut(s)	299
TseFI	GTSAC	1 cut(s)	344
TseI	GCWGC	1 cut(s)	275
Tsp45I	GTSAC	1 cut(s)	344
TspDTI	ATGAA	2 cut(s)	73, 183
TspGWI	ACGGA	1 cut(s)	445
TspRI	CASTG	1 cut(s)	299
Tth111I	GACNNNGTC	2 cut(s)	23, 160
VpaK11BI	GGWCC	1 cut(s)	138
XmaJI	CCTAGG	1 cut(s)	103
XmiI	GTMKAC	2 cut(s)	15, 27
XspI	CTAG	1 cut(s)	104
ZraI	GACGTC	1 cut(s)	159

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