Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0004646

Physical Location & Seq

Genomic Coordinates Reverse (-)

72078518 .. 72084789

Gene Structure 6272 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG451200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 300 bp

ATGACTGGCATTGAGTACGTGCTGACTCAAGTTAAGGAGCCAAACCTTTTCGTCATAACCAAGCAGAAGAGGGATGCTCCTGAGACATTACTCCTGTGGCGACTTACTACGTCTTGGATGGCTCGATCTACCAAGCACCGTCGCTTCGCAATGTGTTGGAAGCTAAAATGGGACGTAGAGGGAAAGGATGACAGTAGTGAGCAAGCAAGCCGAGTGGATGATATTCTCAAATCCATGTGGAGTAGTCTACCACCGGCCCCGCCTCCGCCACCATTTGCGTGCAGAAGGCTACGTTCCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001128 GO:0003674 GO:0003712 GO:0003713 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006357 GO:0006366 GO:0006367 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0016043 GO:0016070 GO:0016591 GO:0016592 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0022607 GO:0030880 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034622 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0045935 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051123 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0055029 GO:0060255 GO:0061695 GO:0065003 GO:0065004 GO:0065007 GO:0070013 GO:0070847 GO:0070897 GO:0071704 GO:0071824 GO:0071840 GO:0080090 GO:0090304 GO:0090575 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1902680 GO:1903506 GO:1903508 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Med6

Protein Analysis

99

Amino Acids

11.56

Weight (kDa)

9.75

Isoelectric Point (pI)

83.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Med6	PF04934	1 - 29	3.9e-06	MED6 mediator sub complex component

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: OG0004646)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G21350 AT3G21350
fragaria_vesca	FvH4_6g32730
malus_domestica	MD14G1079700.v1.1
prunus_persica	Prupe.3G054900_v2.0.a1
pyrus_communis	pycom14g06830
rosa_chinensis	RchiOBHm_Chr2g0141751 RchiOBHm_Chr5g0064381
rosa_laevigata	RLG00000019933 RLG00000035719
rosa_roxburghii	Rroxscaffold_1G00016640 Rroxscaffold_1G00016650 Rroxscaffold_2G00103900
rosa_rugosa	Rorug02G0368600 Rorug02G0368800 Rorug05G0364200
rosa_samantha	Rh2AG420200 Rh2BG429600 Rh2BG430900 Rh2CG407400 Rh2DG439500 Rh2DG440600 Rh5AG422400 Rh5BG438300 Rh5CG460800 Rh5CG460900 Rh5CG461000 Rh5DG451200 Rh5DG451300 Rh5DG451400
rosa_wichuraiana	Rw2G034460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	247
AciI	CCGC	2 cut(s)	260, 266
AfaI	GTAC	1 cut(s)	17
AluBI	AGCT	1 cut(s)	163
AluI	AGCT	1 cut(s)	163
Alw26I	GTCTC	1 cut(s)	77
AoxI	GGCC	1 cut(s)	255
AspS9I	GGNCC	1 cut(s)	256
BccI	CCATC	1 cut(s)	112
BcoDI	GTCTC	1 cut(s)	77
BfaI	CTAG	1 cut(s)	298
BmgT120I	GGNCC	1 cut(s)	256
BmiI	GGNNCC	2 cut(s)	39, 258
BmsI	GCATC	1 cut(s)	64
BplI	GAGNNNNNCTC	2 cut(s)	61, 93
BpuEI	CTTGAG	1 cut(s)	12
BsaAI	YACGTR	1 cut(s)	19
Bse118I	RCCGGY	1 cut(s)	253
Bse1I	ACTGG	1 cut(s)	10
Bse3DI	GCAATG	1 cut(s)	156
BseGI	GGATG	4 cut(s)	79, 123, 193, 223
BseMI	GCAATG	1 cut(s)	156
BseMII	CTCAG	1 cut(s)	72
BseNI	ACTGG	1 cut(s)	10
BshFI	GGCC	1 cut(s)	257
BsiSI	CCGG	1 cut(s)	254
BslFI	GGGAC	1 cut(s)	185
BsmAI	GTCTC	1 cut(s)	77
BsmFI	GGGAC	1 cut(s)	185
BsnI	GGCC	1 cut(s)	257
Bsp143I	GATC	1 cut(s)	125
BspACI	CCGC	2 cut(s)	260, 266
BspANI	GGCC	1 cut(s)	257
BspCNI	CTCAG	1 cut(s)	73
BspLI	GGNNCC	2 cut(s)	39, 258
BsrDI	GCAATG	1 cut(s)	156
BsrFI	RCCGGY	1 cut(s)	253
BsrI	ACTGG	1 cut(s)	10
BssAI	RCCGGY	1 cut(s)	253
BssMI	GATC	1 cut(s)	125
Bst4CI	ACNGT	2 cut(s)	140, 194
Bst6I	CTCTTC	1 cut(s)	62
BstBAI	YACGTR	1 cut(s)	19
BstC8I	GCNNGC	3 cut(s)	204, 208, 280
BstDEI	CTNAG	1 cut(s)	81
BstF5I	GGATG	4 cut(s)	79, 123, 193, 223
BstKTI	GATC	1 cut(s)	128
BstMAI	GTCTC	1 cut(s)	77
BstMBI	GATC	1 cut(s)	125
BsuRI	GGCC	1 cut(s)	257
BtsCI	GGATG	4 cut(s)	79, 123, 193, 223
Cac8I	GCNNGC	3 cut(s)	204, 208, 280
Cfr10I	RCCGGY	1 cut(s)	253
Cfr13I	GGNCC	1 cut(s)	256
Csp6I	GTAC	1 cut(s)	16
CspCI	CAANNNNNGTGG	2 cut(s)	195, 230
CviAII	CATG	1 cut(s)	235
CviJI	RGCY	6 cut(s)	40, 122, 163, 210, 257, 289
CviKI_1	RGCY	6 cut(s)	40, 122, 163, 210, 257, 289
CviQI	GTAC	1 cut(s)	16
DdeI	CTNAG	1 cut(s)	81
DpnI	GATC	1 cut(s)	127
DpnII	GATC	1 cut(s)	125
Eam1104I	CTCTTC	1 cut(s)	62
EarI	CTCTTC	1 cut(s)	62
EciI	GGCGGA	1 cut(s)	255
FaeI	CATG	1 cut(s)	238
FaiI	YATR	2 cut(s)	56, 236
FaqI	GGGAC	1 cut(s)	185
FatI	CATG	1 cut(s)	234
FauI	CCCGC	1 cut(s)	267
FblI	GTMKAC	1 cut(s)	247
FokI	GGATG	4 cut(s)	86, 130, 200, 230
FspBI	CTAG	1 cut(s)	298
HaeIII	GGCC	1 cut(s)	257
HapII	CCGG	1 cut(s)	254
Hin1II	CATG	1 cut(s)	238
HinfI	GANTC	1 cut(s)	25
HpaII	CCGG	1 cut(s)	254
Hpy166II	GTNNAC	1 cut(s)	248
Hpy188III	TCNNGA	1 cut(s)	80
Hpy8I	GTNNAC	1 cut(s)	248
Hpy99I	CGWCG	1 cut(s)	144
HpyAV	CCTTC	1 cut(s)	279
HpyCH4III	ACNGT	2 cut(s)	140, 194
HpyCH4IV	ACGT	4 cut(s)	18, 110, 174, 292
HpyCH4V	TGCA	1 cut(s)	282
HpyF3I	CTNAG	1 cut(s)	81
HpySE526I	ACGT	4 cut(s)	18, 110, 174, 292
Hsp92II	CATG	1 cut(s)	238
Kzo9I	GATC	1 cut(s)	125
LmnI	GCTCC	2 cut(s)	37, 82
LpnPI	CCDG	3 cut(s)	93, 107, 267
LweI	GCATC	1 cut(s)	64
MaeI	CTAG	1 cut(s)	298
MaeII	ACGT	4 cut(s)	18, 110, 174, 292
MalI	GATC	1 cut(s)	127
MboI	GATC	1 cut(s)	125
MboII	GAAGA	1 cut(s)	79
MlyI	GAGTC	1 cut(s)	19
MmeI	TCCRAC	1 cut(s)	137
MnlI	CCTC	3 cut(s)	63, 172, 273
MseI	TTAA	1 cut(s)	33
MslI	CAYNNNNRTG	1 cut(s)	277
MspI	CCGG	1 cut(s)	254
NdeII	GATC	1 cut(s)	125
NlaIII	CATG	1 cut(s)	238
NlaIV	GGNNCC	2 cut(s)	39, 258
NmeAIII	GCCGAG	1 cut(s)	236
PleI	GAGTC	1 cut(s)	19
PpsI	GAGTC	1 cut(s)	19
Ppu21I	YACGTR	1 cut(s)	19
PspN4I	GGNNCC	2 cut(s)	39, 258
PspPI	GGNCC	1 cut(s)	256
RsaI	GTAC	1 cut(s)	17
RsaNI	GTAC	1 cut(s)	16
RseI	CAYNNNNRTG	1 cut(s)	277
SaqAI	TTAA	1 cut(s)	33
Sau3AI	GATC	1 cut(s)	125
Sau96I	GGNCC	1 cut(s)	256
SchI	GAGTC	1 cut(s)	19
SetI	ASST	6 cut(s)	21, 48, 113, 165, 177, 295
SfaNI	GCATC	1 cut(s)	64
SmiMI	CAYNNNNRTG	1 cut(s)	277
SmlI	CTYRAG	1 cut(s)	27
SmoI	CTYRAG	1 cut(s)	27
SsiI	CCGC	2 cut(s)	260, 266
SspMI	CTAG	1 cut(s)	298
TaaI	ACNGT	2 cut(s)	140, 194
TaiI	ACGT	4 cut(s)	21, 113, 177, 295
TaqI	TCGA	1 cut(s)	124
Tru1I	TTAA	1 cut(s)	33
Tru9I	TTAA	1 cut(s)	33
XmiI	GTMKAC	1 cut(s)	247
XspI	CTAG	1 cut(s)	298

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