Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0003302

Physical Location & Seq

Genomic Coordinates Forward (+)

730709 .. 733340

Gene Structure 2632 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG010300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 240 bp

ATGTTGCATAGGGAATCCCGACTCTGGAACATGCAAAGCTCAAAGCTAGGGTGGAGTCATTTTATGGGGAAAGGCCTCCAATCCTTAAGTATGAAAGATCTTCAGAATTTGGAGCAGCAACTTGATTTTGCTCTGAAGCACATGAGGTCTAGAAAGGTAATGCTGCTAGAGCATCACCACACCTCAATTTCAAGCCCCACAAATGAGAAAAATGTAGCAGACTATGAAGAAATCAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003700 GO:0006355 GO:0007275 GO:0008150 GO:0009888 GO:0009889 GO:0009909 GO:0009911 GO:0010073 GO:0010074 GO:0010077 GO:0010154 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0019827 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0048507 GO:0048518 GO:0048580 GO:0048582 GO:0048608 GO:0048731 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051094 GO:0051171 GO:0051239 GO:0051240 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0098727 GO:0140110 GO:1903506 GO:2000026 GO:2000112 GO:2000241 GO:2000243 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

K-box SRF-TF

Protein Analysis

79

Amino Acids

9.34

Weight (kDa)

8.17

Isoelectric Point (pI)

54.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
K-box	PF01486	19 - 59	1.6e-11	K-box region

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: OG0003302)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G60910 AT5G60910
fragaria_vesca	FvH4_5g13500 FvH4_5g13500
malus_domestica	MD06G1204400.v1.1 MD14G1215700.v1.1
prunus_persica	Prupe.5G208500_v2.0.a1
pyrus_communis	pycom06g18270 pycom14g17850
rosa_chinensis	RchiOBHm_Chr5g0001291 RchiOBHm_Chr7g0183571
rosa_laevigata	RLG00000005041
rosa_multiflora	Rmu_co8416243.1_g000001 Rmu_co8484491.1_g000001 Rmu_sc0001706.1_g000007 Rmu_sc0003610.1_g000016 Rmu_sc0004189.1_g000041 Rmu_sc0005581.1_g000009
rosa_roxburghii	Rroxscaffold_1G00075010 Rroxscaffold_3G00270400
rosa_rugosa	Rorug04G0389600 Rorug06G0458400 Rorug06G0458500.1
rosa_samantha	Rh5AG009700 Rh5BG012600 Rh5BG012800 Rh5CG010200 Rh5CG010800 Rh5CG061900 Rh5DG010200 Rh5DG010300 Rh7AG059600 Rh7BG059300 Rh7CG061300 Rh7DG059700
rosa_wichuraiana	Rw7G004890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcsI	RAATTY	1 cut(s)	106
AcuI	CTGAAG	2 cut(s)	86, 155
AfiI	CCNNNNNNNGG	1 cut(s)	24
AflII	CTTAAG	1 cut(s)	85
AgsI	TTSAA	1 cut(s)	192
AluBI	AGCT	2 cut(s)	39, 46
AluI	AGCT	2 cut(s)	39, 46
AoxI	GGCC	1 cut(s)	73
ApeKI	GCWGC	2 cut(s)	115, 163
ApoI	RAATTY	1 cut(s)	106
AsuHPI	GGTGA	1 cut(s)	167
BbvI	GCAGC	2 cut(s)	127, 150
BfaI	CTAG	3 cut(s)	47, 150, 167
BfrI	CTTAAG	1 cut(s)	85
BglII	AGATCT	1 cut(s)	97
BisI	GCNGC	2 cut(s)	116, 164
BlsI	GCNGC	2 cut(s)	117, 165
BmsI	GCATC	1 cut(s)	181
Bsc4I	CCNNNNNNNGG	1 cut(s)	24
BseLI	CCNNNNNNNGG	1 cut(s)	24
BseXI	GCAGC	2 cut(s)	127, 150
BshFI	GGCC	1 cut(s)	75
BslI	CCNNNNNNNGG	1 cut(s)	24
BsnI	GGCC	1 cut(s)	75
Bsp143I	GATC	1 cut(s)	97
BspANI	GGCC	1 cut(s)	75
BspTI	CTTAAG	1 cut(s)	85
BssMI	GATC	1 cut(s)	97
BstAFI	CTTAAG	1 cut(s)	85
BstKTI	GATC	1 cut(s)	100
BstMBI	GATC	1 cut(s)	97
BstMWI	GCNNNNNNNGC	1 cut(s)	169
BstNSI	RCATGY	1 cut(s)	34
BstV1I	GCAGC	2 cut(s)	127, 150
BstX2I	RGATCY	1 cut(s)	97
BstYI	RGATCY	1 cut(s)	97
BsuRI	GGCC	1 cut(s)	75
CviAII	CATG	2 cut(s)	31, 142
CviJI	RGCY	4 cut(s)	39, 46, 75, 195
CviKI_1	RGCY	4 cut(s)	39, 46, 75, 195
DpnI	GATC	1 cut(s)	99
DpnII	GATC	1 cut(s)	97
Eco147I	AGGCCT	1 cut(s)	75
Eco57I	CTGAAG	2 cut(s)	86, 155
FaeI	CATG	2 cut(s)	34, 145
FaiI	YATR	6 cut(s)	9, 32, 65, 92, 143, 225
FatI	CATG	2 cut(s)	30, 141
Fnu4HI	GCNGC	2 cut(s)	116, 164
Fsp4HI	GCNGC	2 cut(s)	116, 164
FspBI	CTAG	3 cut(s)	47, 150, 167
GluI	GCNGC	2 cut(s)	116, 164
HaeIII	GGCC	1 cut(s)	75
Hin1II	CATG	2 cut(s)	34, 145
HinfI	GANTC	3 cut(s)	14, 21, 55
HphI	GGTGA	1 cut(s)	167
Hpy188I	TCNGA	2 cut(s)	105, 135
Hpy188III	TCNNGA	3 cut(s)	18, 25, 150
HpyCH4V	TGCA	2 cut(s)	7, 34
HpyF10VI	GCNNNNNNNGC	1 cut(s)	169
Hsp92II	CATG	2 cut(s)	34, 145
Kzo9I	GATC	1 cut(s)	97
LmnI	GCTCC	1 cut(s)	112
LpnPI	CCDG	1 cut(s)	10
Lsp1109I	GCAGC	2 cut(s)	127, 150
LweI	GCATC	1 cut(s)	181
MaeI	CTAG	3 cut(s)	47, 150, 167
MalI	GATC	1 cut(s)	99
MboI	GATC	1 cut(s)	97
MboII	GAAGA	2 cut(s)	92, 239
MflI	RGATCY	1 cut(s)	97
MluCI	AATT	2 cut(s)	106, 186
MlyI	GAGTC	2 cut(s)	15, 64
MnlI	CCTC	3 cut(s)	86, 138, 193
MseI	TTAA	1 cut(s)	86
MspCI	CTTAAG	1 cut(s)	85
MwoI	GCNNNNNNNGC	1 cut(s)	169
NdeII	GATC	1 cut(s)	97
NlaIII	CATG	2 cut(s)	34, 145
NspI	RCATGY	1 cut(s)	34
PceI	AGGCCT	1 cut(s)	75
PfeI	GAWTC	1 cut(s)	14
PkrI	GCNGC	2 cut(s)	117, 165
PleI	GAGTC	2 cut(s)	15, 63
PpsI	GAGTC	2 cut(s)	15, 63
PsuI	RGATCY	1 cut(s)	97
SaqAI	TTAA	1 cut(s)	86
SatI	GCNGC	2 cut(s)	116, 164
Sau3AI	GATC	1 cut(s)	97
SchI	GAGTC	2 cut(s)	15, 64
SetI	ASST	5 cut(s)	41, 48, 149, 159, 185
SfaNI	GCATC	1 cut(s)	181
SgeI	CNNG	9 cut(s)	30, 37, 43, 59, 134, 154, 162, 179, 204
SmlI	CTYRAG	1 cut(s)	85
SmoI	CTYRAG	1 cut(s)	85
Sse9I	AATT	2 cut(s)	106, 186
SseBI	AGGCCT	1 cut(s)	75
SspMI	CTAG	3 cut(s)	47, 150, 167
StuI	AGGCCT	1 cut(s)	75
TasI	AATT	2 cut(s)	106, 186
TfiI	GAWTC	1 cut(s)	14
Tru1I	TTAA	1 cut(s)	86
Tru9I	TTAA	1 cut(s)	86
TseI	GCWGC	2 cut(s)	115, 163
TspDTI	ATGAA	2 cut(s)	107, 240
Vha464I	CTTAAG	1 cut(s)	85
XapI	RAATTY	1 cut(s)	106
XbaI	TCTAGA	1 cut(s)	149
XceI	RCATGY	1 cut(s)	34
XspI	CTAG	3 cut(s)	47, 150, 167

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