Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0000328

Physical Location & Seq

Genomic Coordinates Forward (+)

6871031 .. 6872421

Gene Structure 1391 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG042000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 261 bp

ATGGATAACAATGATGATCTTGCTGGAGATGCCATTGAAAGTGATGACAAGGAAGAACAGTATGAAATTATATTGATTGGTTTTGGCCAACCCTTTACCAAATCTAATTTTTGGATGACCAGCATCAGTGCCCCTGTGATGGTTGAGGTGGAGGGTGAGGCTGACCCACTTGAGATTGCTATGAAAGAGCTTCGTAAAAGGAAGATACCCTTTACCATCCGCCACTACCTACCTGATAGAAGCCCTGATGACAGATTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005666 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006360 GO:0006366 GO:0006383 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016591 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 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:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05016 ko05169 map00230 map00240 map01100 map03020 map04623 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb6

Protein Analysis

86

Amino Acids

9.9

Weight (kDa)

4.39

Isoelectric Point (pI)

58.25

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000328)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g13832 FvH4_3g26701 FvH4_4g14350 FvH4_7g17370
malus_domestica	MD12G1077900.v1.1 MD14G1070200.v1.1
prunus_persica	Prupe.2G073100_v2.0.a1 Prupe.2G186800_v2.0.a1 Prupe.2G186800_v2.0.a1 Prupe.2G186800_v2.0.a1
rosa_chinensis	RchiOBHm_Chr1g0365191 RchiOBHm_Chr2g0105141 RchiOBHm_Chr2g0120431 RchiOBHm_Chr2g0139381 RchiOBHm_Chr3g0494421 RchiOBHm_Chr6g0248181 RchiOBHm_Chr7g0235571
rosa_laevigata	RLG00000005158 RLG00000008937 RLG00000013742 RLG00000015899 RLG00000019885 RLG00000024515 RLG00000024516 RLG00000028740 RLG00000030656 RLG00000030662 RLG00000032758 RLG00000035668 RLG00000036717 RLG00000036718
rosa_multiflora	Rmu_sc0000252.1_g000016 Rmu_sc0001386.1_g000020 Rmu_sc0002271.1_g000010 Rmu_sc0003833.1_g000002 Rmu_sc0004718.1_g000004 Rmu_sc0006031.1_g000006 Rmu_sc0006598.1_g000013 Rmu_sc0007472.1_g000023 Rmu_sc0009313.1_g000012
rosa_roxburghii	Rroxscaffold_2G00103830 Rroxscaffold_2G00109880 Rroxscaffold_3G00225910 Rroxscaffold_3G00271600 Rroxscaffold_3G00274560 Rroxscaffold_4G00299580 Rroxscaffold_5G00352530 Rroxscaffold_5G00379280 Rroxscaffold_7G00177320
rosa_rugosa	Rorug01G0027200 Rorug01G0032100 Rorug02G0050600 Rorug02G0054800 Rorug04G0083300 Rorug05G0115200 Rorug07G0006800
rosa_samantha	Rh1CG086700 Rh1DG093300 Rh1DG217000 Rh2AG120200 Rh2AG227900 Rh2AG254000 Rh2AG434200 Rh2AG469200 Rh2BG159500 Rh2CG419900 Rh2CG455200 Rh2DG320100 Rh2DG603500 Rh3CG319900 Rh3DG300800 Rh3DG319200 Rh4AG199400 Rh4BG329100 Rh4BG329200 Rh4CG110800 Rh4DG042000 Rh4DG129400 Rh4DG187700 Rh4DG231900 Rh5AG038800 Rh5AG107300 Rh5AG303600 Rh5AG386500 Rh5AG454200 Rh5CG041800 Rh5CG534800 Rh5DG076400 Rh5DG109800 Rh5DG123600 Rh6AG164400 Rh6BG035100 Rh6BG036000 Rh6BG041000 Rh6BG215500 Rh6CG173900 Rh6CG174000 Rh6DG020300 Rh6DG166300 Rh6DG320000 Rh6DG509700 Rh7AG059500 Rh7AG291700 Rh7BG404300 Rh7DG402000
rosa_wichuraiana	Rw1G000890 Rw1G020020 Rw3G005730 Rw4G011330 Rw4G026960 Rw5G014010 Rw6G002230 Rw7G038480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	220
AcoI	YGGCCR	1 cut(s)	85
AfiI	CCNNNNNNNGG	1 cut(s)	139
AgsI	TTSAA	1 cut(s)	38
AluBI	AGCT	1 cut(s)	190
AluI	AGCT	1 cut(s)	190
AoxI	GGCC	1 cut(s)	85
AsuHPI	GGTGA	1 cut(s)	167
BaeGI	GKGCMC	1 cut(s)	133
BalI	TGGCCA	1 cut(s)	87
BccI	CCATC	2 cut(s)	133, 224
BmsI	GCATC	2 cut(s)	19, 132
BpmI	CTGGAG	1 cut(s)	45
BpuEI	CTTGAG	1 cut(s)	191
Bsc4I	CCNNNNNNNGG	1 cut(s)	139
BseGI	GGATG	2 cut(s)	120, 216
BseLI	CCNNNNNNNGG	1 cut(s)	139
BseSI	GKGCMC	1 cut(s)	133
BshFI	GGCC	1 cut(s)	87
BslI	CCNNNNNNNGG	1 cut(s)	139
BsnI	GGCC	1 cut(s)	87
Bsp1286I	GDGCHC	1 cut(s)	133
Bsp143I	GATC	1 cut(s)	16
BspACI	CCGC	1 cut(s)	220
BspANI	GGCC	1 cut(s)	87
BssMI	GATC	1 cut(s)	16
Bst4CI	ACNGT	1 cut(s)	60
BstF5I	GGATG	2 cut(s)	120, 216
BstKTI	GATC	1 cut(s)	19
BstMBI	GATC	1 cut(s)	16
BstMWI	GCNNNNNNNGC	1 cut(s)	29
BstSLI	GKGCMC	1 cut(s)	133
BsuRI	GGCC	1 cut(s)	87
BtsCI	GGATG	2 cut(s)	120, 216
BtsIMutI	CAGTG	1 cut(s)	133
CviJI	RGCY	4 cut(s)	87, 161, 190, 243
CviKI_1	RGCY	4 cut(s)	87, 161, 190, 243
DpnI	GATC	1 cut(s)	18
DpnII	GATC	1 cut(s)	16
EaeI	YGGCCR	1 cut(s)	85
EciI	GGCGGA	1 cut(s)	209
FaiI	YATR	3 cut(s)	63, 71, 182
FalI	AAGNNNNNCTT	2 cut(s)	194, 226
FokI	GGATG	2 cut(s)	127, 203
GsuI	CTGGAG	1 cut(s)	45
HaeIII	GGCC	1 cut(s)	87
HphI	GGTGA	1 cut(s)	167
HpyCH4III	ACNGT	1 cut(s)	60
HpyF10VI	GCNNNNNNNGC	1 cut(s)	29
Kzo9I	GATC	1 cut(s)	16
LpnPI	CCDG	4 cut(s)	9, 133, 147, 246
LweI	GCATC	2 cut(s)	19, 132
MalI	GATC	1 cut(s)	18
MboI	GATC	1 cut(s)	16
MboII	GAAGA	2 cut(s)	65, 214
MhlI	GDGCHC	1 cut(s)	133
MlsI	TGGCCA	1 cut(s)	87
MluCI	AATT	2 cut(s)	66, 106
MluNI	TGGCCA	1 cut(s)	87
MnlI	CCTC	3 cut(s)	139, 145, 151
Mox20I	TGGCCA	1 cut(s)	87
MscI	TGGCCA	1 cut(s)	87
Msp20I	TGGCCA	1 cut(s)	87
MwoI	GCNNNNNNNGC	1 cut(s)	29
NdeII	GATC	1 cut(s)	16
Sau3AI	GATC	1 cut(s)	16
SduI	GDGCHC	1 cut(s)	133
SetI	ASST	4 cut(s)	150, 192, 231, 235
SfaNI	GCATC	2 cut(s)	19, 132
SgeI	CNNG	8 cut(s)	32, 36, 61, 132, 146, 182, 245, 257
SmlI	CTYRAG	1 cut(s)	170
SmoI	CTYRAG	1 cut(s)	170
Sse9I	AATT	2 cut(s)	66, 106
SsiI	CCGC	1 cut(s)	220
TaaI	ACNGT	1 cut(s)	60
TasI	AATT	2 cut(s)	66, 106
TscAI	CASTG	1 cut(s)	133
TspDTI	ATGAA	2 cut(s)	78, 197
TspRI	CASTG	1 cut(s)	133

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