Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0000310

Physical Location & Seq

Genomic Coordinates Forward (+)

26466199 .. 26466360

Gene Structure 162 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG271700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 162 bp

ATGGAGAAGCCGATCTACCACACGGTCGACGAGGACGAGTACGACGCGATCATCGCCAAGTGCCGCGAGGAGTTCGGGGACTTCATCGAGGACGACGACGGCTTAGGGTACCGCGACGACGGCGAGGAAGATGACTGGACCCGCCGTGGGCTTCCGACGTAG

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

53

Amino Acids

6.24

Weight (kDa)

4.05

Isoelectric Point (pI)

44.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_alpha_N	PF12254	2 - 46	1.6e-13	DNA polymerase alpha subunit p180 N terminal

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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)
Acc65I	GGTACC	1 cut(s)	108
AccB1I	GGYRCC	1 cut(s)	108
AccI	GTMKAC	1 cut(s)	27
AccII	CGCG	3 cut(s)	47, 66, 114
AciI	CCGC	3 cut(s)	64, 112, 142
AfaI	GTAC	2 cut(s)	41, 110
AfiI	CCNNNNNNNGG	1 cut(s)	147
Asp718I	GGTACC	1 cut(s)	108
AspS9I	GGNCC	1 cut(s)	138
AvaII	GGWCC	1 cut(s)	138
BanI	GGYRCC	1 cut(s)	108
BarI	GAAGNNNNNNTAC	1 cut(s)	31
BceAI	ACGGC	3 cut(s)	115, 129, 136
BisI	GCNGC	1 cut(s)	64
BlsI	GCNGC	1 cut(s)	65
Bme18I	GGWCC	1 cut(s)	138
BmgT120I	GGNCC	1 cut(s)	138
BmiI	GGNNCC	2 cut(s)	110, 140
Bpu10I	CCTNAGC	1 cut(s)	103
BsaJI	CCNNGG	1 cut(s)	145
Bsc4I	CCNNNNNNNGG	1 cut(s)	147
Bse1I	ACTGG	1 cut(s)	140
BseDI	CCNNGG	1 cut(s)	145
BseLI	CCNNNNNNNGG	1 cut(s)	147
BseNI	ACTGG	1 cut(s)	140
BseRI	GAGGAG	1 cut(s)	83
Bsh1236I	CGCG	3 cut(s)	47, 66, 114
Bsh1285I	CGRYCG	1 cut(s)	27
BshNI	GGYRCC	1 cut(s)	108
BsiEI	CGRYCG	1 cut(s)	27
BslFI	GGGAC	1 cut(s)	92
BslI	CCNNNNNNNGG	1 cut(s)	147
BsmFI	GGGAC	1 cut(s)	92
Bsp143I	GATC	2 cut(s)	12, 48
BspACI	CCGC	3 cut(s)	64, 112, 142
BspFNI	CGCG	3 cut(s)	47, 66, 114
BspLI	GGNNCC	2 cut(s)	110, 140
BspT107I	GGYRCC	1 cut(s)	108
BsrI	ACTGG	1 cut(s)	140
BssECI	CCNNGG	1 cut(s)	145
BssMI	GATC	2 cut(s)	12, 48
Bst4CI	ACNGT	1 cut(s)	25
BstDEI	CTNAG	1 cut(s)	103
BstDSI	CCRYGG	1 cut(s)	145
BstFNI	CGCG	3 cut(s)	47, 66, 114
BstKTI	GATC	2 cut(s)	15, 51
BstMBI	GATC	2 cut(s)	12, 48
BstMCI	CGRYCG	1 cut(s)	27
BstMWI	GCNNNNNNNGC	2 cut(s)	53, 120
BstUI	CGCG	3 cut(s)	47, 66, 114
BtgI	CCRYGG	1 cut(s)	145
BtgZI	GCGATG	1 cut(s)	37
Cfr13I	GGNCC	1 cut(s)	138
CseI	GACGC	1 cut(s)	53
Csp6I	GTAC	2 cut(s)	40, 109
CviJI	RGCY	3 cut(s)	10, 102, 151
CviKI_1	RGCY	3 cut(s)	10, 102, 151
CviQI	GTAC	2 cut(s)	40, 109
DdeI	CTNAG	1 cut(s)	103
DpnI	GATC	2 cut(s)	14, 50
DpnII	GATC	2 cut(s)	12, 48
Eco47I	GGWCC	1 cut(s)	138
FaqI	GGGAC	1 cut(s)	92
FauI	CCCGC	1 cut(s)	149
FblI	GTMKAC	1 cut(s)	27
Fnu4HI	GCNGC	1 cut(s)	64
Fsp4HI	GCNGC	1 cut(s)	64
GluI	GCNGC	1 cut(s)	64
HgaI	GACGC	1 cut(s)	53
HincII	GTYRAC	1 cut(s)	28
HindII	GTYRAC	1 cut(s)	28
Hpy166II	GTNNAC	1 cut(s)	28
Hpy188I	TCNGA	1 cut(s)	156
Hpy8I	GTNNAC	1 cut(s)	28
Hpy99I	CGWCG	7 cut(s)	32, 47, 98, 101, 119, 122, 160
HpyCH4III	ACNGT	1 cut(s)	25
HpyCH4IV	ACGT	1 cut(s)	158
HpyF10VI	GCNNNNNNNGC	2 cut(s)	53, 120
HpyF3I	CTNAG	1 cut(s)	103
HpySE526I	ACGT	1 cut(s)	158
KpnI	GGTACC	1 cut(s)	112
Kzo9I	GATC	2 cut(s)	12, 48
LpnPI	CCDG	1 cut(s)	121
MaeII	ACGT	1 cut(s)	158
MalI	GATC	2 cut(s)	14, 50
MboI	GATC	2 cut(s)	12, 48
MboII	GAAGA	1 cut(s)	140
MnlI	CCTC	4 cut(s)	25, 61, 82, 118
MvnI	CGCG	3 cut(s)	47, 66, 114
MwoI	GCNNNNNNNGC	2 cut(s)	53, 120
NdeII	GATC	2 cut(s)	12, 48
NlaIV	GGNNCC	2 cut(s)	110, 140
PcsI	WCGNNNNNNNCGW	2 cut(s)	33, 93
PkrI	GCNGC	1 cut(s)	65
PspN4I	GGNNCC	2 cut(s)	110, 140
PspPI	GGNCC	1 cut(s)	138
RsaI	GTAC	2 cut(s)	41, 110
RsaNI	GTAC	2 cut(s)	40, 109
SalI	GTCGAC	1 cut(s)	26
SatI	GCNGC	1 cut(s)	64
Sau3AI	GATC	2 cut(s)	12, 48
Sau96I	GGNCC	1 cut(s)	138
SetI	ASST	1 cut(s)	161
SinI	GGWCC	1 cut(s)	138
SsiI	CCGC	3 cut(s)	64, 112, 142
TaaI	ACNGT	1 cut(s)	25
TaiI	ACGT	1 cut(s)	161
TaqI	TCGA	2 cut(s)	27, 87
TauI	GCSGC	1 cut(s)	66
TspDTI	ATGAA	1 cut(s)	73
VpaK11BI	GGWCC	1 cut(s)	138
XmiI	GTMKAC	1 cut(s)	27

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