Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_ssc0000098.1

Orthogroup ID

OG0003142

Physical Location & Seq

Genomic Coordinates Forward (+)

12069 .. 16800

Gene Structure 4732 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rmu_ssc0000098.1_g000004.1.cds

Sequence Viewer

CDS Protein Promoter (2k)

Length: 498 bp

ctgtctctcacatcgatatcatctttgaatccacgtgacaaggccttcatttctggtcaaaagatggttgatcgtctttttgaggatatctttcaaatactacagttaaacccagatggaaaaaagtttgataaggttactcgaattgaagcaaaaagtgagacatgcgagatgttcatgcacctagatgtgaatacagaggtgtatcccatgaaggaaggtgagaagttctcaatggctctaacttctacactcaacttggatggaacacctgacactggctatttcactccgggaaatcgcaagacgttggctgatgaatatgagtatgtcatgcaagggaagctttttaaaatctcagaaggttctaaacgggatcctaaagcggaggtaaatgcttcatttgctgggctgttgatgatgctcaagggggaatcctctcaattcaagaactttgaactggatcaaaggctgtttctcctcatcaggaagctatag

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003676 GO:0003677 GO:0003697 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005666 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006366 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016591 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0032993 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097159 GO:0097659 GO:1901360 GO:1901362 GO:1901363 GO:1901576 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_Rpb8

Protein Analysis

165

Amino Acids

18.83

Weight (kDa)

5.96

Isoelectric Point (pI)

15.9

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)

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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: OG0003142)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G54250 AT3G59600
fragaria_vesca	FvH4_7g05580 FvH4_7g05580 FvH4_7g05580 FvH4_7g05580 FvH4_7g05580 FvH4_7g05580 FvH4_7g05580
malus_domestica	MD03G1174900.v1.1 MD04G1053300.v1.1 MD05G1057600.v1.1 MD11G1193000.v1.1
prunus_persica	Prupe.4G249600_v2.0.a1 Prupe.4G249600_v2.0.a1
pyrus_communis	pycom03g13240 pycom11g16850
rosa_chinensis	RchiOBHm_Chr1g0332731 RchiOBHm_Chr5g0052071 RchiOBHm_Chr6g0273601
rosa_laevigata	RLG00000034845
rosa_multiflora	Rmu_sc0001587.1_g000001 Rmu_sc0032204.1_g000001 Rmu_ssc0000098.1_g000004
rosa_roxburghii	Rroxscaffold_1G00027860 Rroxscaffold_4G00318050
rosa_rugosa	Rorug01G0104600 Rorug05G0275000 Rorug05G0275100
rosa_samantha	Rh1AG127600 Rh1BG097000 Rh1CG121400 Rh5BG358000 Rh5CG383500 Rh5DG373400 Rh6CG194200
rosa_wichuraiana	Rw5G032800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	386
AclWI	GGATC	3 cut(s)	371, 384, 471
AcvI	CACGTG	1 cut(s)	35
AfiI	CCNNNNNNNGG	1 cut(s)	278
AgsI	TTSAA	5 cut(s)	28, 95, 149, 448, 458
AluBI	AGCT	2 cut(s)	346, 493
AluI	AGCT	2 cut(s)	346, 493
Alw26I	GTCTC	2 cut(s)	9, 155
AlwI	GGATC	3 cut(s)	371, 384, 471
AoxI	GGCC	1 cut(s)	42
AsuC2I	CCSGG	1 cut(s)	294
AsuHPI	GGTGA	1 cut(s)	233
BamHI	GGATCC	1 cut(s)	376
BbrPI	CACGTG	1 cut(s)	35
BccI	CCATC	3 cut(s)	58, 110, 257
BciVI	GTATCC	1 cut(s)	216
BcnI	CCSGG	1 cut(s)	294
BcoDI	GTCTC	2 cut(s)	9, 155
BfaI	CTAG	1 cut(s)	185
BfmI	CTRYAG	2 cut(s)	101, 494
BfuI	GTATCC	1 cut(s)	216
Bme1390I	CCNGG	1 cut(s)	294
BmiI	GGNNCC	1 cut(s)	378
BmrFI	CCNGG	1 cut(s)	294
BmsI	GCATC	1 cut(s)	411
BplI	GAGNNNNNCTC	2 cut(s)	215, 247
BpuEI	CTTGAG	1 cut(s)	410
BpuMI	CCSGG	1 cut(s)	294
Bsa29I	ATCGAT	1 cut(s)	14
BsaAI	YACGTR	1 cut(s)	35
Bsc4I	CCNNNNNNNGG	1 cut(s)	278
Bse1I	ACTGG	2 cut(s)	283, 465
BseCI	ATCGAT	1 cut(s)	14
BseGI	GGATG	1 cut(s)	268
BseLI	CCNNNNNNNGG	1 cut(s)	278
BseMII	CTCAG	1 cut(s)	372
BseNI	ACTGG	2 cut(s)	283, 465
BseRI	GAGGAG	1 cut(s)	470
BseYI	CCCAGC	1 cut(s)	407
BshFI	GGCC	1 cut(s)	44
BshVI	ATCGAT	1 cut(s)	14
BsiSI	CCGG	1 cut(s)	293
BslI	CCNNNNNNNGG	1 cut(s)	278
BsmAI	GTCTC	2 cut(s)	9, 155
BsnI	GGCC	1 cut(s)	44
Bsp143I	GATC	3 cut(s)	70, 376, 463
BspACI	CCGC	1 cut(s)	386
BspANI	GGCC	1 cut(s)	44
BspCNI	CTCAG	1 cut(s)	371
BspDI	ATCGAT	1 cut(s)	14
BspLI	GGNNCC	1 cut(s)	378
BspPI	GGATC	3 cut(s)	371, 384, 471
BsrI	ACTGG	2 cut(s)	283, 465
BssMI	GATC	3 cut(s)	70, 376, 463
Bst4CI	ACNGT	1 cut(s)	105
BstBAI	YACGTR	1 cut(s)	35
BstDEI	CTNAG	1 cut(s)	358
BstF5I	GGATG	1 cut(s)	268
BstKTI	GATC	3 cut(s)	73, 379, 466
BstMAI	GTCTC	2 cut(s)	9, 155
BstMBI	GATC	3 cut(s)	70, 376, 463
BstMWI	GCNNNNNNNGC	2 cut(s)	343, 404
BstNSI	RCATGY	1 cut(s)	168
BstSCI	CCNGG	1 cut(s)	292
BstSFI	CTRYAG	2 cut(s)	101, 494
BstX2I	RGATCY	1 cut(s)	376
BstYI	RGATCY	1 cut(s)	376
Bsu15I	ATCGAT	1 cut(s)	14
BsuI	GTATCC	1 cut(s)	216
BsuRI	GGCC	1 cut(s)	44
BsuTUI	ATCGAT	1 cut(s)	14
BtsCI	GGATG	1 cut(s)	268
BtsIMutI	CAGTG	1 cut(s)	276
ClaI	ATCGAT	1 cut(s)	14
CviAII	CATG	4 cut(s)	165, 178, 211, 334
CviJI	RGCY	8 cut(s)	44, 239, 282, 314, 346, 412, 472, 493
CviKI_1	RGCY	8 cut(s)	44, 239, 282, 314, 346, 412, 472, 493
DdeI	CTNAG	1 cut(s)	358
DpnI	GATC	3 cut(s)	72, 378, 465
DpnII	GATC	3 cut(s)	70, 376, 463
DraI	TTTAAA	1 cut(s)	352
Eco147I	AGGCCT	1 cut(s)	44
Eco32I	GATATC	2 cut(s)	18, 88
Eco72I	CACGTG	1 cut(s)	35
EcoRV	GATATC	2 cut(s)	18, 88
FaeI	CATG	4 cut(s)	168, 181, 214, 337
FaiI	YATR	7 cut(s)	166, 179, 212, 324, 330, 335, 496
FalI	AAGNNNNNCTT	2 cut(s)	330, 362
FatI	CATG	4 cut(s)	164, 177, 210, 333
FokI	GGATG	1 cut(s)	275
FspBI	CTAG	1 cut(s)	185
GsaI	CCCAGC	1 cut(s)	411
HaeIII	GGCC	1 cut(s)	44
HapII	CCGG	1 cut(s)	293
Hin1II	CATG	4 cut(s)	168, 181, 214, 337
HindIII	AAGCTT	1 cut(s)	344
HinfI	GANTC	2 cut(s)	28, 434
HpaII	CCGG	1 cut(s)	293
HphI	GGTGA	1 cut(s)	233
Hpy188I	TCNGA	1 cut(s)	361
Hpy188III	TCNNGA	2 cut(s)	448, 487
HpyAV	CCTTC	4 cut(s)	55, 208, 212, 356
HpyCH4III	ACNGT	1 cut(s)	105
HpyCH4IV	ACGT	2 cut(s)	34, 308
HpyCH4V	TGCA	2 cut(s)	181, 337
HpyF10VI	GCNNNNNNNGC	2 cut(s)	343, 404
HpyF3I	CTNAG	1 cut(s)	358
HpySE526I	ACGT	2 cut(s)	34, 308
Hsp92II	CATG	4 cut(s)	168, 181, 214, 337
Kzo9I	GATC	3 cut(s)	70, 376, 463
LpnPI	CCDG	8 cut(s)	39, 126, 264, 285, 306, 393, 446, 472
LweI	GCATC	1 cut(s)	411
MaeI	CTAG	1 cut(s)	185
MaeII	ACGT	2 cut(s)	34, 308
MaeIII	GTNAC	2 cut(s)	35, 136
MalI	GATC	3 cut(s)	72, 378, 465
MboI	GATC	3 cut(s)	70, 376, 463
MflI	RGATCY	1 cut(s)	376
MluCI	AATT	2 cut(s)	144, 443
MnlI	CCTC	5 cut(s)	76, 193, 382, 448, 491
MseI	TTAA	2 cut(s)	107, 351
MslI	CAYNNNNRTG	1 cut(s)	186
MspI	CCGG	1 cut(s)	293
MspR9I	CCNGG	1 cut(s)	294
MwoI	GCNNNNNNNGC	2 cut(s)	343, 404
NciI	CCSGG	1 cut(s)	294
NdeII	GATC	3 cut(s)	70, 376, 463
NlaIII	CATG	4 cut(s)	168, 181, 214, 337
NlaIV	GGNNCC	1 cut(s)	378
NmuCI	GTSAC	1 cut(s)	35
NspI	RCATGY	1 cut(s)	168
PceI	AGGCCT	1 cut(s)	44
PfeI	GAWTC	2 cut(s)	28, 434
PfoI	TCCNGGA	1 cut(s)	292
PmaCI	CACGTG	1 cut(s)	35
PmlI	CACGTG	1 cut(s)	35
Ppu21I	YACGTR	1 cut(s)	35
PspCI	CACGTG	1 cut(s)	35
PspFI	CCCAGC	1 cut(s)	407
PspN4I	GGNNCC	1 cut(s)	378
PsuI	RGATCY	1 cut(s)	376
RseI	CAYNNNNRTG	1 cut(s)	186
SaqAI	TTAA	2 cut(s)	107, 351
Sau3AI	GATC	3 cut(s)	70, 376, 463
ScrFI	CCNGG	1 cut(s)	294
SfaNI	GCATC	1 cut(s)	411
SfcI	CTRYAG	2 cut(s)	101, 494
SmiMI	CAYNNNNRTG	1 cut(s)	186
SmlI	CTYRAG	1 cut(s)	425
SmoI	CTYRAG	1 cut(s)	425
Sse9I	AATT	2 cut(s)	144, 443
SseBI	AGGCCT	1 cut(s)	44
SsiI	CCGC	1 cut(s)	386
SspMI	CTAG	1 cut(s)	185
StuI	AGGCCT	1 cut(s)	44
StyD4I	CCNGG	1 cut(s)	292
TaaI	ACNGT	1 cut(s)	105
TaiI	ACGT	2 cut(s)	37, 311
TaqI	TCGA	2 cut(s)	14, 142
TasI	AATT	2 cut(s)	144, 443
TfiI	GAWTC	2 cut(s)	28, 434
Tru1I	TTAA	2 cut(s)	107, 351
Tru9I	TTAA	2 cut(s)	107, 351
TscAI	CASTG	1 cut(s)	283
TseFI	GTSAC	1 cut(s)	35
Tsp45I	GTSAC	1 cut(s)	35
TspDTI	ATGAA	5 cut(s)	37, 166, 227, 333, 390
TspRI	CASTG	1 cut(s)	283
XceI	RCATGY	1 cut(s)	168
XspI	CTAG	1 cut(s)	185

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