Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0015672

Physical Location & Seq

Genomic Coordinates Forward (+)

16801295 .. 16813855

Gene Structure 12561 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG188700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 255 bp

ATGTTGAAGCTGGCCGAGAGAATGGTTATAAGTTTTTGTGCCAGAGTGAGTGAGAGTGCATCTACCACTCATACATGGACGACGCTGTCTCGAACAGGGGCTGATGATGTTCGTGTGATGACCCAAAAGAGTGTGGATGATCCAGGAAGGCCTCAGGGCATTGTGCTCACTATTACGTCCTCAAACTGCGTACGGAATATTTCTTTCAATCAATCAAACATTGAAGAGTTACAAAACAAGATCAAAGACCAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000902 GO:0000904 GO:0003006 GO:0003674 GO:0003700 GO:0006355 GO:0007275 GO:0008150 GO:0009653 GO:0009791 GO:0009888 GO:0009889 GO:0009908 GO:0009987 GO:0010026 GO:0010090 GO:0010468 GO:0010556 GO:0016043 GO:0019219 GO:0019222 GO:0022414 GO:0030154 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032989 GO:0045595 GO:0045596 GO:0048367 GO:0048437 GO:0048468 GO:0048497 GO:0048519 GO:0048523 GO:0048608 GO:0048731 GO:0048856 GO:0048869 GO:0050789 GO:0050793 GO:0050794 GO:0051093 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0071840 GO:0080090 GO:0090558 GO:0090567 GO:0090626 GO:0090700 GO:0099402 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Homeobox START

Protein Analysis

84

Amino Acids

9.36

Weight (kDa)

7.82

Isoelectric Point (pI)

37.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PDF2_C	PF25797	1 - 64	1.2e-15	PDF2-like, C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0015672)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g43300
malus_domestica	MD17G1095100.v1.1
rosa_chinensis	RchiOBHm_Chr3g0470751
rosa_laevigata	RLG00000024245
rosa_multiflora	Rmu_sc0002790.1_g000010 Rmu_sc0006168.1_g000005 Rmu_sc0006168.1_g000012 Rmu_sc0006168.1_g000014
rosa_roxburghii	Rroxscaffold_6G00410600
rosa_samantha	Rh3AG162000 Rh3BG186900 Rh3BG187100 Rh3CG177100 Rh3CG177300 Rh3DG188600 Rh3DG188700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	29
AasI	GACNNNNNNGTC	1 cut(s)	85
AclWI	GGATC	1 cut(s)	134
AcoI	YGGCCR	1 cut(s)	12
AfaI	GTAC	1 cut(s)	192
AgsI	TTSAA	3 cut(s)	7, 208, 224
AjnI	CCWGG	1 cut(s)	142
AluBI	AGCT	1 cut(s)	10
AluI	AGCT	1 cut(s)	10
Alw21I	GWGCWC	1 cut(s)	168
Alw26I	GTCTC	1 cut(s)	93
AlwI	GGATC	1 cut(s)	134
AlwNI	CAGNNNCTG	1 cut(s)	101
AoxI	GGCC	2 cut(s)	12, 149
AxyI	CCTNAGG	1 cut(s)	153
Bbv12I	GWGCWC	1 cut(s)	168
BciT130I	CCWGG	1 cut(s)	144
BcoDI	GTCTC	1 cut(s)	93
Bme1390I	CCNGG	1 cut(s)	144
BmrFI	CCNGG	1 cut(s)	144
BmsI	GCATC	1 cut(s)	68
Bse21I	CCTNAGG	1 cut(s)	153
BseBI	CCWGG	1 cut(s)	144
BseGI	GGATG	1 cut(s)	142
BseMII	CTCAG	1 cut(s)	167
BshFI	GGCC	2 cut(s)	14, 151
BsiHKAI	GWGCWC	1 cut(s)	168
BsiWI	CGTACG	1 cut(s)	190
BsmAI	GTCTC	1 cut(s)	93
BsnI	GGCC	2 cut(s)	14, 151
Bsp1286I	GDGCHC	1 cut(s)	168
Bsp143I	GATC	2 cut(s)	139, 240
BspANI	GGCC	2 cut(s)	14, 151
BspCNI	CTCAG	1 cut(s)	166
BspPI	GGATC	1 cut(s)	134
BssMI	GATC	2 cut(s)	139, 240
Bst2UI	CCWGG	1 cut(s)	144
Bst6I	CTCTTC	1 cut(s)	219
BstC8I	GCNNGC	1 cut(s)	12
BstDEI	CTNAG	1 cut(s)	153
BstF5I	GGATG	1 cut(s)	142
BstKTI	GATC	2 cut(s)	142, 243
BstMAI	GTCTC	1 cut(s)	93
BstMBI	GATC	2 cut(s)	139, 240
BstNI	CCWGG	1 cut(s)	144
BstSCI	CCNGG	1 cut(s)	142
Bsu36I	CCTNAGG	1 cut(s)	153
BsuRI	GGCC	2 cut(s)	14, 151
BtsCI	GGATG	1 cut(s)	142
Cac8I	GCNNGC	1 cut(s)	12
CaiI	CAGNNNCTG	1 cut(s)	101
CseI	GACGC	1 cut(s)	91
Csp6I	GTAC	1 cut(s)	191
CviAII	CATG	1 cut(s)	75
CviJI	RGCY	4 cut(s)	10, 14, 101, 151
CviKI_1	RGCY	4 cut(s)	10, 14, 101, 151
CviQI	GTAC	1 cut(s)	191
DdeI	CTNAG	1 cut(s)	153
DpnI	GATC	2 cut(s)	141, 242
DpnII	GATC	2 cut(s)	139, 240
DrdI	GACNNNNNNGTC	1 cut(s)	85
DseDI	GACNNNNNNGTC	1 cut(s)	85
EaeI	YGGCCR	1 cut(s)	12
Eam1104I	CTCTTC	1 cut(s)	219
EarI	CTCTTC	1 cut(s)	219
Eco147I	AGGCCT	1 cut(s)	151
Eco81I	CCTNAGG	1 cut(s)	153
EcoRII	CCWGG	1 cut(s)	142
FaeI	CATG	1 cut(s)	78
FaiI	YATR	3 cut(s)	29, 72, 76
FatI	CATG	1 cut(s)	74
FokI	GGATG	1 cut(s)	149
HaeIII	GGCC	2 cut(s)	14, 151
HgaI	GACGC	1 cut(s)	91
Hin1II	CATG	1 cut(s)	78
Hpy188III	TCNNGA	1 cut(s)	90
Hpy99I	CGWCG	1 cut(s)	85
HpyAV	CCTTC	1 cut(s)	141
HpyCH4IV	ACGT	1 cut(s)	176
HpyCH4V	TGCA	1 cut(s)	59
HpyF3I	CTNAG	1 cut(s)	153
HpySE526I	ACGT	1 cut(s)	176
Hsp92II	CATG	1 cut(s)	78
Kzo9I	GATC	2 cut(s)	139, 240
LpnPI	CCDG	5 cut(s)	55, 81, 129, 140, 156
LweI	GCATC	1 cut(s)	68
MaeII	ACGT	1 cut(s)	176
MaeIII	GTNAC	1 cut(s)	228
MalI	GATC	2 cut(s)	141, 242
MboI	GATC	2 cut(s)	139, 240
MboII	GAAGA	1 cut(s)	236
MhlI	GDGCHC	1 cut(s)	168
MnlI	CCTC	2 cut(s)	162, 190
MspR9I	CCNGG	1 cut(s)	144
MvaI	CCWGG	1 cut(s)	144
NdeII	GATC	2 cut(s)	139, 240
NlaIII	CATG	1 cut(s)	78
NmeAIII	GCCGAG	1 cut(s)	40
PceI	AGGCCT	1 cut(s)	151
Pfl23II	CGTACG	1 cut(s)	190
PflFI	GACNNNGTC	1 cut(s)	85
PfoI	TCCNGGA	1 cut(s)	142
PsiI	TTATAA	1 cut(s)	29
Psp6I	CCWGG	1 cut(s)	142
PspGI	CCWGG	1 cut(s)	142
PspLI	CGTACG	1 cut(s)	190
PstNI	CAGNNNCTG	1 cut(s)	101
PsyI	GACNNNGTC	1 cut(s)	85
RsaI	GTAC	1 cut(s)	192
RsaNI	GTAC	1 cut(s)	191
Sau3AI	GATC	2 cut(s)	139, 240
ScrFI	CCNGG	1 cut(s)	144
SduI	GDGCHC	1 cut(s)	168
SetI	ASST	2 cut(s)	12, 179
SfaNI	GCATC	1 cut(s)	68
SseBI	AGGCCT	1 cut(s)	151
SspI	AATATT	1 cut(s)	199
StuI	AGGCCT	1 cut(s)	151
StyD4I	CCNGG	1 cut(s)	142
TaiI	ACGT	1 cut(s)	179
TaqI	TCGA	1 cut(s)	91
TspGWI	ACGGA	1 cut(s)	208
Tth111I	GACNNNGTC	1 cut(s)	85

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