Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0003043

Physical Location & Seq

Genomic Coordinates Reverse (-)

55088567 .. 55091574

Gene Structure 3008 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG465100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 525 bp

ATGGCTTCAACACCTCGACGAACCGGTGGAGGCCTCTTCGAAGGGCTCTACAGGGTCATCATGCGCCGCAACTCCGTCTACGTCACCTTCGTCATCGCCGGCGCTTTCCTCGGTGAACGGGCTGTGGATTATGGAGTTCATCGGCTGTGGGAGTACAATAACGTTGGGAAACGATATGAAGACATTCCAACCCAGAACACGTCGTTGCAGAGGTTTCAAAATGTGGAGAAGAGAATCGTGAAGGTTTTGGAGCTGGCCGCAAGTGTGATGGACGAGCTTGCAAACCCTACTGGTCCCAGAAGGGAGTCCATCAACAACCATGTCCGCCAGTTCATGCAATTCATCAAAGATATTCAAATGGCATTGCGAGATGAAATCAAAAGTGCGTGTGATTACCGTCCATTTGAGAAGTGTGATTACAGTTCAAGAATAGCTAACGAGATCTGTTGCAAGAAACTGGAATATGTCATGTCACAGTTAGATGGAATGAAAGAAACAATAGATGATTATCATACTGCAGTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0016592 GO:0031974 GO:0031981 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0070013

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Med11

Protein Analysis

174

Amino Acids

20.16

Weight (kDa)

8.32

Isoelectric Point (pI)

36.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UCR_UQCRX_QCR9	PF05365	15 - 65	1.2e-20	Cytochrome b-c1 complex subunit 9
Med11	PF10280	67 - 168	2.7e-17	Mediator complex 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)

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0003043)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G01435 AT3G01435 AT3G01435 AT3G01435
fragaria_vesca	FvH4_2g07050 FvH4_2g07070
malus_domestica	MD10G1088300.v1.1
prunus_persica	Prupe.8G114900_v2.0.a1 Prupe.8G114900_v2.0.a1 Prupe.8G114900_v2.0.a1 Prupe.8G115200_v2.0.a1
pyrus_communis	pycom10g07060
rosa_chinensis	RchiOBHm_Chr6g0259451 RchiOBHm_Chr6g0259461 RchiOBHm_Chr7g0240711
rosa_laevigata	RLG00000000624 RLG00000014531 RLG00000014532 RLG00000014533
rosa_multiflora	Rmu_sc0006836.1_g000001 Rmu_sc0006836.1_g000005 Rmu_ssc0000050.1_g000040
rosa_roxburghii	Rroxscaffold_3G00219640 Rroxscaffold_7G00206730 Rroxscaffold_7G00206740
rosa_rugosa	Rorug05G0588800 Rorug05G0588900 Rorug07G0338400
rosa_samantha	Rh6AG104700 Rh6BG097800 Rh6CG093800 Rh6DG087700 Rh7AG493100 Rh7BG465100
rosa_wichuraiana	Rw6G009040 Rw6G009060 Rw6G009070 Rw7G041710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	78
AciI	CCGC	3 cut(s)	67, 258, 325
AclI	AACGTT	1 cut(s)	162
AcoI	YGGCCR	1 cut(s)	255
AfaI	GTAC	1 cut(s)	155
AflIII	ACRYGT	1 cut(s)	198
AgeI	ACCGGT	1 cut(s)	23
AgsI	TTSAA	4 cut(s)	9, 218, 356, 426
AjiI	CACGTC	1 cut(s)	201
AluBI	AGCT	3 cut(s)	253, 277, 434
AluI	AGCT	3 cut(s)	253, 277, 434
AoxI	GGCC	2 cut(s)	31, 255
AsiGI	ACCGGT	1 cut(s)	23
Asp700I	GAANNNNTTC	1 cut(s)	183
AspLEI	GCGC	2 cut(s)	66, 104
AspS9I	GGNCC	1 cut(s)	293
AsuHPI	GGTGA	2 cut(s)	76, 125
AsuII	TTCGAA	1 cut(s)	39
AvaII	GGWCC	1 cut(s)	293
BanII	GRGCYC	1 cut(s)	48
BarI	GAAGNNNNNNTAC	2 cut(s)	401, 433
BbsI	GAAGAC	1 cut(s)	186
BccI	CCATC	3 cut(s)	262, 317, 476
BfmI	CTRYAG	2 cut(s)	49, 516
BfoI	RGCGCY	1 cut(s)	105
BglII	AGATCT	1 cut(s)	441
BisI	GCNGC	2 cut(s)	67, 258
BlsI	GCNGC	2 cut(s)	68, 259
Bme18I	GGWCC	1 cut(s)	293
BmgBI	CACGTC	1 cut(s)	201
BmgT120I	GGNCC	1 cut(s)	293
BmiI	GGNNCC	1 cut(s)	295
BpiI	GAAGAC	1 cut(s)	186
Bpu14I	TTCGAA	1 cut(s)	39
BsaBI	GATNNNNATC	1 cut(s)	507
BsaJI	CCNNGG	1 cut(s)	109
BsaWI	WCCGGW	1 cut(s)	23
Bse118I	RCCGGY	2 cut(s)	23, 98
Bse1I	ACTGG	3 cut(s)	295, 328, 462
Bse3DI	GCAATG	1 cut(s)	362
Bse8I	GATNNNNATC	1 cut(s)	507
BseDI	CCNNGG	1 cut(s)	109
BseJI	GATNNNNATC	1 cut(s)	507
BseMI	GCAATG	1 cut(s)	362
BseNI	ACTGG	3 cut(s)	295, 328, 462
BshFI	GGCC	2 cut(s)	33, 257
BshTI	ACCGGT	1 cut(s)	23
BsiSI	CCGG	2 cut(s)	24, 99
BslFI	GGGAC	1 cut(s)	279
BsmFI	GGGAC	1 cut(s)	279
BsnI	GGCC	2 cut(s)	33, 257
Bsp119I	TTCGAA	1 cut(s)	39
Bsp1286I	GDGCHC	1 cut(s)	48
Bsp143I	GATC	1 cut(s)	441
BspACI	CCGC	3 cut(s)	67, 258, 325
BspANI	GGCC	2 cut(s)	33, 257
BspLI	GGNNCC	1 cut(s)	295
BspMAI	CTGCAG	1 cut(s)	520
BspT104I	TTCGAA	1 cut(s)	39
BsrDI	GCAATG	1 cut(s)	362
BsrFI	RCCGGY	2 cut(s)	23, 98
BsrI	ACTGG	3 cut(s)	295, 328, 462
BssAI	RCCGGY	2 cut(s)	23, 98
BssECI	CCNNGG	1 cut(s)	109
BssMI	GATC	1 cut(s)	441
Bst4CI	ACNGT	3 cut(s)	398, 422, 477
Bst6I	CTCTTC	2 cut(s)	41, 224
BstBI	TTCGAA	1 cut(s)	39
BstC8I	GCNNGC	3 cut(s)	100, 255, 279
BstH2I	RGCGCY	1 cut(s)	105
BstHHI	GCGC	2 cut(s)	66, 104
BstKTI	GATC	1 cut(s)	444
BstMBI	GATC	1 cut(s)	441
BstSFI	CTRYAG	2 cut(s)	49, 516
BstV2I	GAAGAC	1 cut(s)	186
BstX2I	RGATCY	1 cut(s)	441
BstYI	RGATCY	1 cut(s)	441
BsuRI	GGCC	2 cut(s)	33, 257
BtgZI	GCGATG	1 cut(s)	79
BtrI	CACGTC	1 cut(s)	201
Cac8I	GCNNGC	3 cut(s)	100, 255, 279
CfoI	GCGC	2 cut(s)	66, 104
Cfr10I	RCCGGY	2 cut(s)	23, 98
Cfr13I	GGNCC	1 cut(s)	293
Csp6I	GTAC	1 cut(s)	154
CspAI	ACCGGT	1 cut(s)	23
CviAII	CATG	4 cut(s)	61, 320, 334, 469
CviJI	RGCY	9 cut(s)	5, 33, 46, 122, 145, 253, 257, 277, 434
CviKI_1	RGCY	9 cut(s)	5, 33, 46, 122, 145, 253, 257, 277, 434
CviQI	GTAC	1 cut(s)	154
DpnI	GATC	1 cut(s)	443
DpnII	GATC	1 cut(s)	441
EaeI	YGGCCR	1 cut(s)	255
Eam1104I	CTCTTC	2 cut(s)	41, 224
EarI	CTCTTC	2 cut(s)	41, 224
EciI	GGCGGA	1 cut(s)	314
Eco147I	AGGCCT	1 cut(s)	33
Eco24I	GRGCYC	1 cut(s)	48
Eco47I	GGWCC	1 cut(s)	293
EcoT38I	GRGCYC	1 cut(s)	48
FaeI	CATG	4 cut(s)	64, 323, 337, 472
FaiI	YATR	8 cut(s)	62, 132, 177, 321, 335, 465, 470, 513
FaqI	GGGAC	1 cut(s)	279
FatI	CATG	4 cut(s)	60, 319, 333, 468
FblI	GTMKAC	1 cut(s)	78
Fnu4HI	GCNGC	2 cut(s)	67, 258
FriOI	GRGCYC	1 cut(s)	48
Fsp4HI	GCNGC	2 cut(s)	67, 258
GlaI	GCGC	2 cut(s)	65, 103
GluI	GCNGC	2 cut(s)	67, 258
HaeII	RGCGCY	1 cut(s)	105
HaeIII	GGCC	2 cut(s)	33, 257
HapII	CCGG	2 cut(s)	24, 99
HhaI	GCGC	2 cut(s)	66, 104
Hin1II	CATG	4 cut(s)	64, 323, 337, 472
Hin6I	GCGC	2 cut(s)	64, 102
HinP1I	GCGC	2 cut(s)	64, 102
HinfI	GANTC	2 cut(s)	234, 305
HpaII	CCGG	2 cut(s)	24, 99
HphI	GGTGA	2 cut(s)	76, 125
Hpy166II	GTNNAC	2 cut(s)	79, 116
Hpy188III	TCNNGA	2 cut(s)	238, 426
Hpy8I	GTNNAC	2 cut(s)	79, 116
Hpy99I	CGWCG	2 cut(s)	21, 205
HpyAV	CCTTC	4 cut(s)	35, 97, 235, 294
HpyCH4III	ACNGT	3 cut(s)	398, 422, 477
HpyCH4IV	ACGT	3 cut(s)	81, 162, 200
HpyCH4V	TGCA	5 cut(s)	208, 281, 337, 450, 518
HpySE526I	ACGT	3 cut(s)	81, 162, 200
Hsp92II	CATG	4 cut(s)	64, 323, 337, 472
HspAI	GCGC	2 cut(s)	64, 102
KroI	GCCGGC	1 cut(s)	98
KroNI	GCCGGC	1 cut(s)	100
Kzo9I	GATC	1 cut(s)	441
LmnI	GCTCC	1 cut(s)	250
LpnPI	CCDG	9 cut(s)	37, 37, 112, 206, 239, 276, 310, 341, 443
MaeII	ACGT	3 cut(s)	81, 162, 200
MaeIII	GTNAC	2 cut(s)	82, 471
MalI	GATC	1 cut(s)	443
MboI	GATC	1 cut(s)	441
MboII	GAAGA	3 cut(s)	28, 191, 241
MflI	RGATCY	1 cut(s)	441
MhlI	GDGCHC	1 cut(s)	48
MluCI	AATT	1 cut(s)	338
MlyI	GAGTC	1 cut(s)	314
MmeI	TCCRAC	1 cut(s)	212
MnlI	CCTC	5 cut(s)	23, 24, 44, 119, 204
MreI	CGCCGGCG	1 cut(s)	98
MroNI	GCCGGC	1 cut(s)	98
MroXI	GAANNNNTTC	1 cut(s)	183
MspI	CCGG	2 cut(s)	24, 99
NaeI	GCCGGC	1 cut(s)	100
NdeII	GATC	1 cut(s)	441
NgoMIV	GCCGGC	1 cut(s)	98
NlaIII	CATG	4 cut(s)	64, 323, 337, 472
NlaIV	GGNNCC	1 cut(s)	295
NmuCI	GTSAC	2 cut(s)	82, 471
NspV	TTCGAA	1 cut(s)	39
PceI	AGGCCT	1 cut(s)	33
PcsI	WCGNNNNNNNCGW	1 cut(s)	87
PdiI	GCCGGC	1 cut(s)	100
PdmI	GAANNNNTTC	1 cut(s)	183
PfeI	GAWTC	1 cut(s)	234
PinAI	ACCGGT	1 cut(s)	23
PkrI	GCNGC	2 cut(s)	68, 259
PleI	GAGTC	1 cut(s)	313
PpsI	GAGTC	1 cut(s)	313
Psp1406I	AACGTT	1 cut(s)	162
PspN4I	GGNNCC	1 cut(s)	295
PspPI	GGNCC	1 cut(s)	293
PstI	CTGCAG	1 cut(s)	520
PsuI	RGATCY	1 cut(s)	441
RsaI	GTAC	1 cut(s)	155
RsaNI	GTAC	1 cut(s)	154
SatI	GCNGC	2 cut(s)	67, 258
Sau3AI	GATC	1 cut(s)	441
Sau96I	GGNCC	1 cut(s)	293
SchI	GAGTC	1 cut(s)	314
SduI	GDGCHC	1 cut(s)	48
SfcI	CTRYAG	2 cut(s)	49, 516
SfuI	TTCGAA	1 cut(s)	39
SgrAI	CRCCGGYG	1 cut(s)	98
SinI	GGWCC	1 cut(s)	293
Sse9I	AATT	1 cut(s)	338
SseBI	AGGCCT	1 cut(s)	33
SsiI	CCGC	3 cut(s)	67, 258, 325
StuI	AGGCCT	1 cut(s)	33
TaaI	ACNGT	3 cut(s)	398, 422, 477
TaiI	ACGT	3 cut(s)	84, 165, 203
TaqI	TCGA	2 cut(s)	16, 39
TasI	AATT	1 cut(s)	338
TatI	WGTACW	1 cut(s)	153
TauI	GCSGC	2 cut(s)	69, 260
TfiI	GAWTC	1 cut(s)	234
TseFI	GTSAC	2 cut(s)	82, 471
Tsp45I	GTSAC	2 cut(s)	82, 471
TspDTI	ATGAA	6 cut(s)	128, 192, 322, 331, 387, 503
TspGWI	ACGGA	1 cut(s)	64
VpaK11BI	GGWCC	1 cut(s)	293
XmiI	GTMKAC	1 cut(s)	78
XmnI	GAANNNNTTC	1 cut(s)	183

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