Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0004646

Physical Location & Seq

Genomic Coordinates Reverse (-)

70621763 .. 70622976

Gene Structure 1214 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG438300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 333 bp

ATGCAGGAGCGGTTGCCTGAAGGATTGCCCTCTGATTGGCAGGCGATCAAAAAAACCCGAAAGAGTGGCAAATCTGCCGGGCAGGTTGATAAGCAACAACCAACAACTCCGCAAAGCTCCGTTCACCCATTAGACCTCTCTTGCTTCTCACAAATGACTGGCATTGAGTACGTGCTGACTCAAGTTAAGGAGCCAAACCTTTTCGTCATAACCAAGCAGAAGAGGGATGCTCCTGAGACATTACTCCTGTGGCGACTTACTACGTCTTGGATGGCTCGATCTACCAAGCACCGTCGCTTCGCAATGTGTTGGAAGCTAAAATGGGACGTGTAA

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

110

Amino Acids

12.79

Weight (kDa)

9.88

Isoelectric Point (pI)

57.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Med6	PF04934	32 - 80	2.7e-08	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)
Acc36I	ACCTGC	1 cut(s)	73
AccBSI	CCGCTC	1 cut(s)	10
AciI	CCGC	2 cut(s)	10, 110
AcuI	CTGAAG	1 cut(s)	39
AfaI	GTAC	1 cut(s)	170
AfiI	CCNNNNNNNGG	1 cut(s)	36
AflIII	ACRYGT	1 cut(s)	327
AjiI	CACGTC	1 cut(s)	328
AluBI	AGCT	2 cut(s)	117, 316
AluI	AGCT	2 cut(s)	117, 316
Alw26I	GTCTC	1 cut(s)	230
AsuC2I	CCSGG	1 cut(s)	79
AsuHPI	GGTGA	1 cut(s)	116
BccI	CCATC	1 cut(s)	265
BcnI	CCSGG	1 cut(s)	79
BcoDI	GTCTC	1 cut(s)	230
BfuAI	ACCTGC	1 cut(s)	73
Bme1390I	CCNGG	1 cut(s)	79
BmgBI	CACGTC	1 cut(s)	328
BmiI	GGNNCC	1 cut(s)	192
BmrFI	CCNGG	1 cut(s)	79
BmsI	GCATC	1 cut(s)	217
BplI	GAGNNNNNCTC	2 cut(s)	214, 246
BpuEI	CTTGAG	1 cut(s)	165
BpuMI	CCSGG	1 cut(s)	79
BsaAI	YACGTR	1 cut(s)	172
Bsc4I	CCNNNNNNNGG	1 cut(s)	36
Bse1I	ACTGG	1 cut(s)	163
Bse3DI	GCAATG	1 cut(s)	309
BseGI	GGATG	2 cut(s)	232, 276
BseLI	CCNNNNNNNGG	1 cut(s)	36
BseMI	GCAATG	1 cut(s)	309
BseMII	CTCAG	1 cut(s)	225
BseNI	ACTGG	1 cut(s)	163
BsiSI	CCGG	1 cut(s)	78
BslI	CCNNNNNNNGG	1 cut(s)	36
BsmAI	GTCTC	1 cut(s)	230
Bsp143I	GATC	2 cut(s)	45, 278
BspACI	CCGC	2 cut(s)	10, 110
BspCNI	CTCAG	1 cut(s)	226
BspLI	GGNNCC	1 cut(s)	192
BspMI	ACCTGC	1 cut(s)	73
BsrBI	CCGCTC	1 cut(s)	10
BsrDI	GCAATG	1 cut(s)	309
BsrI	ACTGG	1 cut(s)	163
BssMI	GATC	2 cut(s)	45, 278
Bst4CI	ACNGT	1 cut(s)	293
Bst6I	CTCTTC	1 cut(s)	215
BstBAI	YACGTR	1 cut(s)	172
BstC8I	GCNNGC	1 cut(s)	42
BstDEI	CTNAG	1 cut(s)	234
BstF5I	GGATG	2 cut(s)	232, 276
BstKTI	GATC	2 cut(s)	48, 281
BstMAI	GTCTC	1 cut(s)	230
BstMBI	GATC	2 cut(s)	45, 278
BstSCI	CCNGG	1 cut(s)	77
BtrI	CACGTC	1 cut(s)	328
BtsCI	GGATG	2 cut(s)	232, 276
BveI	ACCTGC	1 cut(s)	73
Cac8I	GCNNGC	1 cut(s)	42
Csp6I	GTAC	1 cut(s)	169
CviJI	RGCY	4 cut(s)	117, 193, 275, 316
CviKI_1	RGCY	4 cut(s)	117, 193, 275, 316
CviQI	GTAC	1 cut(s)	169
DdeI	CTNAG	1 cut(s)	234
DpnI	GATC	2 cut(s)	47, 280
DpnII	GATC	2 cut(s)	45, 278
Eam1104I	CTCTTC	1 cut(s)	215
EarI	CTCTTC	1 cut(s)	215
Eco57I	CTGAAG	1 cut(s)	39
FaiI	YATR	1 cut(s)	209
FokI	GGATG	2 cut(s)	239, 283
HapII	CCGG	1 cut(s)	78
HinfI	GANTC	1 cut(s)	178
HpaII	CCGG	1 cut(s)	78
HphI	GGTGA	1 cut(s)	116
Hpy166II	GTNNAC	1 cut(s)	124
Hpy188I	TCNGA	1 cut(s)	34
Hpy188III	TCNNGA	1 cut(s)	233
Hpy8I	GTNNAC	1 cut(s)	124
Hpy99I	CGWCG	1 cut(s)	297
HpyAV	CCTTC	1 cut(s)	14
HpyCH4III	ACNGT	1 cut(s)	293
HpyCH4IV	ACGT	3 cut(s)	171, 263, 327
HpyCH4V	TGCA	1 cut(s)	4
HpyF3I	CTNAG	1 cut(s)	234
HpySE526I	ACGT	3 cut(s)	171, 263, 327
Kzo9I	GATC	2 cut(s)	45, 278
LmnI	GCTCC	4 cut(s)	7, 122, 190, 235
LpnPI	CCDG	7 cut(s)	26, 30, 68, 91, 144, 246, 260
LweI	GCATC	1 cut(s)	217
MaeII	ACGT	3 cut(s)	171, 263, 327
MalI	GATC	2 cut(s)	47, 280
MbiI	CCGCTC	1 cut(s)	10
MboI	GATC	2 cut(s)	45, 278
MboII	GAAGA	1 cut(s)	232
MlyI	GAGTC	1 cut(s)	172
MmeI	TCCRAC	1 cut(s)	290
MnlI	CCTC	3 cut(s)	40, 146, 216
MseI	TTAA	1 cut(s)	186
MspI	CCGG	1 cut(s)	78
MspR9I	CCNGG	1 cut(s)	79
NciI	CCSGG	1 cut(s)	79
NdeII	GATC	2 cut(s)	45, 278
NlaIV	GGNNCC	1 cut(s)	192
PleI	GAGTC	1 cut(s)	172
PpsI	GAGTC	1 cut(s)	172
Ppu21I	YACGTR	1 cut(s)	172
PspN4I	GGNNCC	1 cut(s)	192
RsaI	GTAC	1 cut(s)	170
RsaNI	GTAC	1 cut(s)	169
SaqAI	TTAA	1 cut(s)	186
Sau3AI	GATC	2 cut(s)	45, 278
SchI	GAGTC	1 cut(s)	172
ScrFI	CCNGG	1 cut(s)	79
SetI	ASST	8 cut(s)	87, 119, 138, 174, 201, 266, 318, 330
SfaNI	GCATC	1 cut(s)	217
SmlI	CTYRAG	1 cut(s)	180
SmoI	CTYRAG	1 cut(s)	180
SsiI	CCGC	2 cut(s)	10, 110
StyD4I	CCNGG	1 cut(s)	77
TaaI	ACNGT	1 cut(s)	293
TaiI	ACGT	3 cut(s)	174, 266, 330
TaqI	TCGA	1 cut(s)	277
Tru1I	TTAA	1 cut(s)	186
Tru9I	TTAA	1 cut(s)	186
TspGWI	ACGGA	1 cut(s)	109

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