Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0000427.1

Orthogroup ID

OG0003607

Physical Location & Seq

Genomic Coordinates Forward (+)

21078 .. 24125

Gene Structure 3048 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rmu_sc0000427.1_g000005.1.cds

Sequence Viewer

CDS Protein Promoter (2k)

Length: 561 bp

atggagatgctgagcgaccgaggctacagcgtcgccgactcggacctcactcgctcgctcactgagttccgtaccgcgtccggccaaaaccctgacctcgaccgcctcaccatctgcgcctctctccgctccaattccaagaacaagattatggtcatcttctgtggaactgatgaaatcagaaaagcgagtgttcgtgccatttatgctaacctcctgaacaaagatataagctctctcatgcttgtcctgcaaagtaaaatgaactcctatgctcgaaaagaactggaaaactatccttacaaagttgaaactttccacatctctgaactgctggtcaatgttacaaagcatgttttacagccaaagtatgagatactttctgctgaagaaaagaaacatctgctaaggaagtacaagttggaagacaagaagctccctctcatgctggaaaccgatgcatttgcacgctactatggattggagaagggacaggtggtaaagattacttaccatggtggagctgttggtgccctcaaaacttaccgttgcattgtctga

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000419 GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0030880 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0055029 GO:0061695 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05016 ko05169 map00230 map00240 map01100 map03020 map04623 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb5_C RNA_pol_Rpb5_N

Protein Analysis

186

Amino Acids

21.26

Weight (kDa)

9.22

Isoelectric Point (pI)

34.82

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

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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: OG0003607)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G54490
fragaria_vesca	FvH4_7g02710 FvH4_7g02710 FvH4_7g02710
malus_domestica	MD07G1036700.v1.1
prunus_persica	Prupe.2G032100_v2.0.a1
rosa_chinensis	RchiOBHm_Chr1g0321871 RchiOBHm_Chr1g0321951 RchiOBHm_Chr3g0472601
rosa_laevigata	RLG00000030400 RLG00000030402
rosa_multiflora	Rmu_sc0000427.1_g000005 Rmu_sc0002872.1_g000006 Rmu_sc0003510.1_g000023 Rmu_sc0015497.1_g000006
rosa_roxburghii	Rroxscaffold_4G00327410 Rroxscaffold_4G00327450
rosa_rugosa	Rorug01G0034400
rosa_samantha	Rh1AG047300 Rh1BG045400 Rh1CG051100 Rh1CG051500 Rh1DG055400 Rh1DG055800 Rh2CG536300 Rh3AG178800 Rh3BG204700 Rh3CG202100 Rh3CG224200 Rh5AG112100 Rh6AG330000
rosa_wichuraiana	Rw1G004250 Rw1G004290 Rw1G004310 Rw5G021040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	530
AccBSI	CCGCTC	1 cut(s)	129
AccII	CGCG	1 cut(s)	77
AciI	CCGC	3 cut(s)	75, 103, 127
AcoI	YGGCCR	1 cut(s)	82
AcuI	CTGAAG	1 cut(s)	408
AfaI	GTAC	2 cut(s)	73, 416
AgsI	TTSAA	1 cut(s)	311
AjuI	GAANNNNNNNTTGG	2 cut(s)	404, 436
AluBI	AGCT	3 cut(s)	234, 436, 524
AluI	AGCT	3 cut(s)	234, 436, 524
AoxI	GGCC	1 cut(s)	82
AspLEI	GCGC	1 cut(s)	119
AspS9I	GGNCC	1 cut(s)	43
AsuHPI	GGTGA	1 cut(s)	100
AvaII	GGWCC	1 cut(s)	43
BaeGI	GKGCMC	1 cut(s)	535
BanI	GGYRCC	1 cut(s)	530
BbsI	GAAGAC	1 cut(s)	432
BccI	CCATC	1 cut(s)	119
BcgI	CGANNNNNNTGC	2 cut(s)	446, 480
BfmI	CTRYAG	1 cut(s)	25
BlpI	GCTNAGC	1 cut(s)	11
Bme18I	GGWCC	1 cut(s)	43
BmgT120I	GGNCC	1 cut(s)	43
BmiI	GGNNCC	1 cut(s)	532
BmsI	GCATC	1 cut(s)	448
BpiI	GAAGAC	1 cut(s)	432
Bpu10I	CCTNAGC	1 cut(s)	407
Bpu1102I	GCTNAGC	1 cut(s)	11
BsaJI	CCNNGG	2 cut(s)	19, 514
Bse1I	ACTGG	1 cut(s)	291
BseDI	CCNNGG	2 cut(s)	19, 514
BseMII	CTCAG	1 cut(s)	54
BseNI	ACTGG	1 cut(s)	291
BseSI	GKGCMC	1 cut(s)	535
Bsh1236I	CGCG	1 cut(s)	77
Bsh1285I	CGRYCG	2 cut(s)	19, 103
BshFI	GGCC	1 cut(s)	84
BshNI	GGYRCC	1 cut(s)	530
BsiEI	CGRYCG	2 cut(s)	19, 103
BsiSI	CCGG	1 cut(s)	81
BslFI	GGGAC	1 cut(s)	504
BsmFI	GGGAC	1 cut(s)	504
BsnI	GGCC	1 cut(s)	84
Bsp1286I	GDGCHC	1 cut(s)	535
Bsp1720I	GCTNAGC	1 cut(s)	11
Bsp19I	CCATGG	1 cut(s)	514
BspACI	CCGC	3 cut(s)	75, 103, 127
BspANI	GGCC	1 cut(s)	84
BspCNI	CTCAG	1 cut(s)	55
BspFNI	CGCG	1 cut(s)	77
BspLI	GGNNCC	1 cut(s)	532
BspT107I	GGYRCC	1 cut(s)	530
BsrBI	CCGCTC	1 cut(s)	129
BsrI	ACTGG	1 cut(s)	291
BssECI	CCNNGG	2 cut(s)	19, 514
BssT1I	CCWWGG	1 cut(s)	514
Bst4CI	ACNGT	1 cut(s)	548
BstC8I	GCNNGC	2 cut(s)	56, 469
BstDEI	CTNAG	3 cut(s)	11, 63, 407
BstDSI	CCRYGG	1 cut(s)	514
BstFNI	CGCG	1 cut(s)	77
BstHHI	GCGC	1 cut(s)	119
BstMCI	CGRYCG	2 cut(s)	19, 103
BstMWI	GCNNNNNNNGC	4 cut(s)	21, 206, 250, 530
BstNSI	RCATGY	1 cut(s)	356
BstSFI	CTRYAG	1 cut(s)	25
BstSLI	GKGCMC	1 cut(s)	535
BstUI	CGCG	1 cut(s)	77
BstV2I	GAAGAC	1 cut(s)	432
BsuRI	GGCC	1 cut(s)	84
BtgI	CCRYGG	1 cut(s)	514
BtsIMutI	CAGTG	1 cut(s)	60
Cac8I	GCNNGC	2 cut(s)	56, 469
CfoI	GCGC	1 cut(s)	119
Cfr13I	GGNCC	1 cut(s)	43
CseI	GACGC	2 cut(s)	19, 66
Csp6I	GTAC	2 cut(s)	72, 415
CviAII	CATG	4 cut(s)	241, 353, 445, 515
CviJI	RGCY	6 cut(s)	24, 84, 234, 364, 436, 524
CviKI_1	RGCY	6 cut(s)	24, 84, 234, 364, 436, 524
CviQI	GTAC	2 cut(s)	72, 415
DdeI	CTNAG	3 cut(s)	11, 63, 407
EaeI	YGGCCR	1 cut(s)	82
Eco130I	CCWWGG	1 cut(s)	514
Eco47I	GGWCC	1 cut(s)	43
Eco57I	CTGAAG	1 cut(s)	408
EcoT14I	CCWWGG	1 cut(s)	514
EcoT22I	ATGCAT	1 cut(s)	463
ErhI	CCWWGG	1 cut(s)	514
FaeI	CATG	4 cut(s)	244, 356, 448, 518
FaqI	GGGAC	1 cut(s)	504
FatI	CATG	4 cut(s)	240, 352, 444, 514
GlaI	GCGC	1 cut(s)	118
HaeIII	GGCC	1 cut(s)	84
HapII	CCGG	1 cut(s)	81
HgaI	GACGC	2 cut(s)	19, 66
HhaI	GCGC	1 cut(s)	119
Hin1II	CATG	4 cut(s)	244, 356, 448, 518
Hin6I	GCGC	1 cut(s)	117
HinP1I	GCGC	1 cut(s)	117
HinfI	GANTC	1 cut(s)	38
HpaII	CCGG	1 cut(s)	81
HphI	GGTGA	1 cut(s)	100
Hpy188I	TCNGA	4 cut(s)	43, 182, 328, 560
Hpy188III	TCNNGA	1 cut(s)	217
Hpy99I	CGWCG	1 cut(s)	35
HpyAV	CCTTC	1 cut(s)	481
HpyCH4III	ACNGT	1 cut(s)	548
HpyCH4V	TGCA	4 cut(s)	253, 461, 467, 552
HpyF10VI	GCNNNNNNNGC	4 cut(s)	21, 206, 250, 530
HpyF3I	CTNAG	3 cut(s)	11, 63, 407
Hsp92II	CATG	4 cut(s)	244, 356, 448, 518
HspAI	GCGC	1 cut(s)	117
LmnI	GCTCC	3 cut(s)	134, 441, 521
LpnPI	CCDG	8 cut(s)	94, 105, 230, 263, 272, 320, 434, 479
LweI	GCATC	1 cut(s)	448
MaeIII	GTNAC	1 cut(s)	343
MbiI	CCGCTC	1 cut(s)	129
MboII	GAAGA	3 cut(s)	151, 401, 437
MhlI	GDGCHC	1 cut(s)	535
MluCI	AATT	1 cut(s)	133
MlyI	GAGTC	1 cut(s)	32
MmeI	TCCRAC	1 cut(s)	402
MnlI	CCTC	8 cut(s)	14, 56, 107, 116, 130, 224, 450, 545
Mph1103I	ATGCAT	1 cut(s)	463
MspI	CCGG	1 cut(s)	81
MvnI	CGCG	1 cut(s)	77
MwoI	GCNNNNNNNGC	4 cut(s)	21, 206, 250, 530
NcoI	CCATGG	1 cut(s)	514
NlaIII	CATG	4 cut(s)	244, 356, 448, 518
NlaIV	GGNNCC	1 cut(s)	532
NsiI	ATGCAT	1 cut(s)	463
NspI	RCATGY	1 cut(s)	356
PleI	GAGTC	1 cut(s)	32
PpsI	GAGTC	1 cut(s)	32
PspN4I	GGNNCC	1 cut(s)	532
PspPI	GGNCC	1 cut(s)	43
RsaI	GTAC	2 cut(s)	73, 416
RsaNI	GTAC	2 cut(s)	72, 415
Sau96I	GGNCC	1 cut(s)	43
SchI	GAGTC	1 cut(s)	32
SduI	GDGCHC	1 cut(s)	535
SetI	ASST	7 cut(s)	48, 99, 216, 236, 438, 498, 526
SfaNI	GCATC	1 cut(s)	448
SfcI	CTRYAG	1 cut(s)	25
SinI	GGWCC	1 cut(s)	43
Sse9I	AATT	1 cut(s)	133
SsiI	CCGC	3 cut(s)	75, 103, 127
StyI	CCWWGG	1 cut(s)	514
TaaI	ACNGT	1 cut(s)	548
TaqI	TCGA	2 cut(s)	99, 277
TaqII	GACCGA	1 cut(s)	33
TasI	AATT	1 cut(s)	133
TatI	WGTACW	1 cut(s)	414
TscAI	CASTG	1 cut(s)	67
TspDTI	ATGAA	2 cut(s)	189, 278
TspGWI	ACGGA	1 cut(s)	59
TspRI	CASTG	1 cut(s)	67
VpaK11BI	GGWCC	1 cut(s)	43
XceI	RCATGY	1 cut(s)	356
Zsp2I	ATGCAT	1 cut(s)	463

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