Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0016443

Physical Location & Seq

Genomic Coordinates Reverse (-)

42286351 .. 42287644

Gene Structure 1294 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG221600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 279 bp

ATGGTAGAATCCATCTCCCTTGATGAAGCTGCAAGGTTATTACTTGGGGATGCACACAATGCATCCGTAATGAGAAGTAAAGTAAGGCGGATTTATGATATTGCAAATGTTTCGTCCTCCATGAATCTTATTGAAAAGACCCACACAGCAGATACAAGGAAGCCTGCATATAAATGGTTGGGATTGAGAGGAAAAGATGCTACGAGTTCAACTTCAGACGAGTCTAGAAAAAGAGCCTTTGGAACAGATATCACAAACGTTGTACGAGGGGCAAAGTAG

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

92

Amino Acids

10.14

Weight (kDa)

9.89

Isoelectric Point (pI)

39.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_E2F_TDP	PF02319	4 - 61	9.9e-11	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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AciI	CCGC	1 cut(s)	88
AclI	AACGTT	1 cut(s)	258
AcuI	CTGAAG	1 cut(s)	198
AfaI	GTAC	1 cut(s)	264
AgsI	TTSAA	2 cut(s)	134, 210
AluBI	AGCT	1 cut(s)	29
AluI	AGCT	1 cut(s)	29
ApeKI	GCWGC	1 cut(s)	29
ArsI	GACNNNNNNTTYG	2 cut(s)	98, 130
BbvI	GCAGC	1 cut(s)	16
BccI	CCATC	1 cut(s)	20
BcgI	CGANNNNNNTGC	2 cut(s)	93, 127
BfaI	CTAG	1 cut(s)	225
BisI	GCNGC	1 cut(s)	30
BlsI	GCNGC	1 cut(s)	31
BmsI	GCATC	3 cut(s)	40, 71, 187
BseGI	GGATG	2 cut(s)	55, 62
BseXI	GCAGC	1 cut(s)	16
BspACI	CCGC	1 cut(s)	88
BstAPI	GCANNNNNTGC	1 cut(s)	59
BstC8I	GCNNGC	1 cut(s)	165
BstF5I	GGATG	2 cut(s)	55, 62
BstMWI	GCNNNNNNNGC	1 cut(s)	59
BstV1I	GCAGC	1 cut(s)	16
BtsCI	GGATG	2 cut(s)	55, 62
Cac8I	GCNNGC	1 cut(s)	165
Csp6I	GTAC	1 cut(s)	263
CviAII	CATG	1 cut(s)	121
CviJI	RGCY	3 cut(s)	29, 163, 236
CviKI_1	RGCY	3 cut(s)	29, 163, 236
CviQI	GTAC	1 cut(s)	263
EciI	GGCGGA	1 cut(s)	103
Eco32I	GATATC	1 cut(s)	250
Eco57I	CTGAAG	1 cut(s)	198
EcoRV	GATATC	1 cut(s)	250
EcoT22I	ATGCAT	1 cut(s)	64
FaeI	CATG	1 cut(s)	124
FaiI	YATR	4 cut(s)	96, 122, 169, 171
FatI	CATG	1 cut(s)	120
Fnu4HI	GCNGC	1 cut(s)	30
FokI	GGATG	2 cut(s)	49, 62
Fsp4HI	GCNGC	1 cut(s)	30
FspBI	CTAG	1 cut(s)	225
GluI	GCNGC	1 cut(s)	30
Hin1II	CATG	1 cut(s)	124
HinfI	GANTC	3 cut(s)	8, 124, 221
Hpy188I	TCNGA	1 cut(s)	217
Hpy188III	TCNNGA	1 cut(s)	225
HpyCH4IV	ACGT	1 cut(s)	258
HpyCH4V	TGCA	5 cut(s)	32, 53, 62, 104, 167
HpyF10VI	GCNNNNNNNGC	1 cut(s)	59
HpySE526I	ACGT	1 cut(s)	258
Hsp92II	CATG	1 cut(s)	124
LpnPI	CCDG	1 cut(s)	177
Lsp1109I	GCAGC	1 cut(s)	16
LweI	GCATC	3 cut(s)	40, 71, 187
MaeI	CTAG	1 cut(s)	225
MaeII	ACGT	1 cut(s)	258
MlyI	GAGTC	1 cut(s)	230
MnlI	CCTC	3 cut(s)	127, 182, 260
Mph1103I	ATGCAT	1 cut(s)	64
MslI	CAYNNNNRTG	1 cut(s)	172
MwoI	GCNNNNNNNGC	1 cut(s)	59
NlaIII	CATG	1 cut(s)	124
NsiI	ATGCAT	1 cut(s)	64
PfeI	GAWTC	2 cut(s)	8, 124
PkrI	GCNGC	1 cut(s)	31
PleI	GAGTC	1 cut(s)	229
PpsI	GAGTC	1 cut(s)	229
Psp1406I	AACGTT	1 cut(s)	258
RsaI	GTAC	1 cut(s)	264
RsaNI	GTAC	1 cut(s)	263
RseI	CAYNNNNRTG	1 cut(s)	172
SatI	GCNGC	1 cut(s)	30
SchI	GAGTC	1 cut(s)	230
SetI	ASST	3 cut(s)	31, 38, 261
SfaNI	GCATC	3 cut(s)	40, 71, 187
SgeI	CNNG	9 cut(s)	32, 45, 56, 133, 168, 176, 216, 232, 237
SmiMI	CAYNNNNRTG	1 cut(s)	172
SsiI	CCGC	1 cut(s)	88
SspMI	CTAG	1 cut(s)	225
TaiI	ACGT	1 cut(s)	261
TfiI	GAWTC	2 cut(s)	8, 124
TseI	GCWGC	1 cut(s)	29
TspDTI	ATGAA	2 cut(s)	39, 137
TspGWI	ACGGA	1 cut(s)	55
XbaI	TCTAGA	1 cut(s)	224
XspI	CTAG	1 cut(s)	225
Zsp2I	ATGCAT	1 cut(s)	64

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