Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0016443

Physical Location & Seq

Genomic Coordinates Reverse (-)

30382204 .. 30393582

Gene Structure 11379 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG267500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 372 bp

ATGGGATCAAGAAAAGAGATGGGACAAAATAGTAATCCGTCCTCACGATCAACCGCGGTAGAATCCATCTCCCATGATGAAGCTGCAAGGTTATTACTTGGGGATGCACACAATGCATCCGTAATGAGAAGAGTTGAAACTCTTGCCTTTTCTCTACTTGAAGAAGCAGGTAAAGTAAGGCGGATTTATGATATTGCAAATGTTTCGTCCTCCATGAATCTTATTGAAAAGACCCACACAGCAGATACAAGGAAGCCTGCATATAAATGGTTGGGATTGAGAGGAAAAGATGCTACGAGTTCAACTTCAGACGAGTCTAGAAAAAGAGCCTTTGGAACAGATATCACAAACGTTGTAAGAGGGGCAAAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006275 GO:0006355 GO:0006725 GO:0006807 GO:0007049 GO:0008150 GO:0008152 GO:0008156 GO:0009058 GO:0009059 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010564 GO:0010605 GO:0010948 GO:0019219 GO:0019222 GO:0022402 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032875 GO:0032876 GO:0034641 GO:0034645 GO:0042023 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044424 GO:0044464 GO:0044786 GO:0045786 GO:0045934 GO:0046483 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0051052 GO:0051053 GO:0051171 GO:0051172 GO:0051252 GO:0051726 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090329 GO:0097159 GO:0140110 GO:1901360 GO:1901363 GO:1901576 GO:1903506 GO:2000104 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

E2F_TDP

Protein Analysis

123

Amino Acids

13.47

Weight (kDa)

9.81

Isoelectric Point (pI)

44.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_E2F_TDP	PF02319	23 - 92	3.2e-09	E2F/DP family winged-helix DNA-binding 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

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Publication-ready

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Orthologous Genes (Group: OG0016443)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0118381 RchiOBHm_Chr5g0036461 RchiOBHm_Chr5g0067381 RchiOBHm_Chr6g0305371 RchiOBHm_Chr7g0214071
rosa_laevigata	RLG00000034614
rosa_roxburghii	Rroxscaffold_4G00316410
rosa_rugosa	Rorug03G0188300.1 Rorug04G0050200 Rorug04G0050300 Rorug05G0296500
rosa_samantha	Rh1AG221600 Rh3AG267500
rosa_wichuraiana	Rw3G025160 Rw5G041480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	158
AccII	CGCG	1 cut(s)	56
AciI	CCGC	3 cut(s)	54, 56, 181
AclI	AACGTT	1 cut(s)	351
AclWI	GGATC	1 cut(s)	13
AcuI	CTGAAG	1 cut(s)	291
AgsI	TTSAA	4 cut(s)	137, 161, 227, 303
AluBI	AGCT	1 cut(s)	83
AluI	AGCT	1 cut(s)	83
AlwI	GGATC	1 cut(s)	13
ApeKI	GCWGC	1 cut(s)	83
ArsI	GACNNNNNNTTYG	2 cut(s)	191, 223
BbvI	GCAGC	1 cut(s)	70
BccI	CCATC	2 cut(s)	13, 74
BcgI	CGANNNNNNTGC	2 cut(s)	186, 220
BfaI	CTAG	1 cut(s)	318
BfuAI	ACCTGC	1 cut(s)	158
BisI	GCNGC	1 cut(s)	84
BlsI	GCNGC	1 cut(s)	85
BmsI	GCATC	3 cut(s)	94, 125, 280
BsaJI	CCNNGG	1 cut(s)	54
BseDI	CCNNGG	1 cut(s)	54
BseGI	GGATG	2 cut(s)	109, 116
BseXI	GCAGC	1 cut(s)	70
Bsh1236I	CGCG	1 cut(s)	56
BslFI	GGGAC	1 cut(s)	36
BsmFI	GGGAC	1 cut(s)	36
Bsp143I	GATC	2 cut(s)	5, 47
BspACI	CCGC	3 cut(s)	54, 56, 181
BspFNI	CGCG	1 cut(s)	56
BspMI	ACCTGC	1 cut(s)	158
BspPI	GGATC	1 cut(s)	13
BssECI	CCNNGG	1 cut(s)	54
BssMI	GATC	2 cut(s)	5, 47
Bst6I	CTCTTC	1 cut(s)	124
BstAPI	GCANNNNNTGC	1 cut(s)	113
BstC8I	GCNNGC	1 cut(s)	258
BstDSI	CCRYGG	1 cut(s)	54
BstF5I	GGATG	2 cut(s)	109, 116
BstFNI	CGCG	1 cut(s)	56
BstKTI	GATC	2 cut(s)	8, 50
BstMBI	GATC	2 cut(s)	5, 47
BstMWI	GCNNNNNNNGC	1 cut(s)	113
BstUI	CGCG	1 cut(s)	56
BstV1I	GCAGC	1 cut(s)	70
BtgI	CCRYGG	1 cut(s)	54
BtsCI	GGATG	2 cut(s)	109, 116
BveI	ACCTGC	1 cut(s)	158
Cac8I	GCNNGC	1 cut(s)	258
Cfr42I	CCGCGG	1 cut(s)	57
CviAII	CATG	2 cut(s)	74, 214
CviJI	RGCY	3 cut(s)	83, 256, 329
CviKI_1	RGCY	3 cut(s)	83, 256, 329
DpnI	GATC	2 cut(s)	7, 49
DpnII	GATC	2 cut(s)	5, 47
Eam1104I	CTCTTC	1 cut(s)	124
EarI	CTCTTC	1 cut(s)	124
EciI	GGCGGA	1 cut(s)	196
Eco32I	GATATC	1 cut(s)	343
Eco57I	CTGAAG	1 cut(s)	291
EcoRV	GATATC	1 cut(s)	343
EcoT22I	ATGCAT	1 cut(s)	118
FaeI	CATG	2 cut(s)	77, 217
FaiI	YATR	5 cut(s)	75, 189, 215, 262, 264
FaqI	GGGAC	1 cut(s)	36
FatI	CATG	2 cut(s)	73, 213
Fnu4HI	GCNGC	1 cut(s)	84
FokI	GGATG	2 cut(s)	103, 116
Fsp4HI	GCNGC	1 cut(s)	84
FspBI	CTAG	1 cut(s)	318
GluI	GCNGC	1 cut(s)	84
Hin1II	CATG	2 cut(s)	77, 217
HinfI	GANTC	3 cut(s)	62, 217, 314
Hpy188I	TCNGA	1 cut(s)	310
Hpy188III	TCNNGA	3 cut(s)	9, 45, 318
HpyCH4IV	ACGT	1 cut(s)	351
HpyCH4V	TGCA	5 cut(s)	86, 107, 116, 197, 260
HpyF10VI	GCNNNNNNNGC	1 cut(s)	113
HpySE526I	ACGT	1 cut(s)	351
Hsp92II	CATG	2 cut(s)	77, 217
KspI	CCGCGG	1 cut(s)	57
Kzo9I	GATC	2 cut(s)	5, 47
LpnPI	CCDG	2 cut(s)	153, 270
Lsp1109I	GCAGC	1 cut(s)	70
LweI	GCATC	3 cut(s)	94, 125, 280
MaeI	CTAG	1 cut(s)	318
MaeII	ACGT	1 cut(s)	351
MalI	GATC	2 cut(s)	7, 49
MboI	GATC	2 cut(s)	5, 47
MboII	GAAGA	2 cut(s)	141, 173
MlyI	GAGTC	1 cut(s)	323
MnlI	CCTC	4 cut(s)	52, 220, 275, 353
Mph1103I	ATGCAT	1 cut(s)	118
MslI	CAYNNNNRTG	1 cut(s)	265
MspA1I	CMGCKG	1 cut(s)	56
MvnI	CGCG	1 cut(s)	56
MwoI	GCNNNNNNNGC	1 cut(s)	113
NdeII	GATC	2 cut(s)	5, 47
NlaIII	CATG	2 cut(s)	77, 217
NsiI	ATGCAT	1 cut(s)	118
PfeI	GAWTC	2 cut(s)	62, 217
PkrI	GCNGC	1 cut(s)	85
PleI	GAGTC	1 cut(s)	322
PpsI	GAGTC	1 cut(s)	322
Psp1406I	AACGTT	1 cut(s)	351
RseI	CAYNNNNRTG	1 cut(s)	265
SacII	CCGCGG	1 cut(s)	57
SatI	GCNGC	1 cut(s)	84
Sau3AI	GATC	2 cut(s)	5, 47
SchI	GAGTC	1 cut(s)	323
SetI	ASST	4 cut(s)	85, 92, 172, 354
SfaNI	GCATC	3 cut(s)	94, 125, 280
Sfr303I	CCGCGG	1 cut(s)	57
SgrBI	CCGCGG	1 cut(s)	57
SmiMI	CAYNNNNRTG	1 cut(s)	265
SsiI	CCGC	3 cut(s)	54, 56, 181
SspMI	CTAG	1 cut(s)	318
TaiI	ACGT	1 cut(s)	354
TfiI	GAWTC	2 cut(s)	62, 217
TseI	GCWGC	1 cut(s)	83
TspDTI	ATGAA	2 cut(s)	93, 230
TspGWI	ACGGA	2 cut(s)	27, 109
XbaI	TCTAGA	1 cut(s)	317
XspI	CTAG	1 cut(s)	318
Zsp2I	ATGCAT	1 cut(s)	118

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