Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0003142

Physical Location & Seq

Genomic Coordinates Forward (+)

24468502 .. 24471115

Gene Structure 2614 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ56161

Sequence Viewer

CDS Protein Promoter (2k)

Length: 540 bp

ATGATCGTAAATAGCCACAAGGCTATAAAGGGTTTTGGGTTTTTGCATTTGCGGCCATATTTTCAATCCTCACTCTCTCTCTCTCTCTCTCTCTCTCTCGGGATGGTCGTTGATCGTCTTTTCGAGGATATATTTCAGGTGTTGCGACTGAACCCAGATGGAAAAAAGTTTGATAAAGTTGCCCGAGTTGAAGCAAAGAGTGAGGCTTGCGAGATGTTCATGCACCTTGATGTGAATTCAGAGGTGTACCCCATCAAAGAAGGCGAGAAGTTCTCCATGGCTCTTACTTCTACACTCAATTTGGATGGAACACCTGACACTGGCTATTTCACCCCGGGCAATCGCAAGACTTTGGCTGATGAATATGAATATGTCCTGCAAGGGAAGCTTTACAAAATTTCAGAAGGCTCTAAACGTGATCCTAAAGCGGAGGTAAATGCTTCATTTGGTGGGCTTTTAATGATGCTGAAGGGGGAATCCGCTCAATTCAAGAACTTTGAACTTGATCAGAGGTTGTTTCTCCTCATTAGGAAGTTGTGA

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

179

Amino Acids

20.29

Weight (kDa)

7.79

Isoelectric Point (pI)

19.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb8	PF03870	42 - 178	1.1e-48	RNA polymerase Rpb8

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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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)
AccBSI	CCGCTC	1 cut(s)	482
AciI	CCGC	3 cut(s)	52, 428, 480
AclWI	GGATC	1 cut(s)	413
AcoI	YGGCCR	1 cut(s)	53
AcsI	RAATTY	2 cut(s)	235, 396
AcuI	CTGAAG	1 cut(s)	488
AfaI	GTAC	1 cut(s)	248
AfiI	CCNNNNNNNGG	1 cut(s)	320
AgsI	TTSAA	4 cut(s)	65, 191, 490, 500
AluBI	AGCT	1 cut(s)	388
AluI	AGCT	1 cut(s)	388
AlwI	GGATC	1 cut(s)	413
Ama87I	CYCGRG	3 cut(s)	98, 183, 334
AoxI	GGCC	1 cut(s)	53
ApoI	RAATTY	2 cut(s)	235, 396
AsuC2I	CCSGG	2 cut(s)	335, 336
AsuHPI	GGTGA	1 cut(s)	322
AvaI	CYCGRG	3 cut(s)	98, 183, 334
BccI	CCATC	4 cut(s)	97, 152, 260, 299
BclI	TGATCA	1 cut(s)	505
BcnI	CCSGG	2 cut(s)	335, 336
BisI	GCNGC	1 cut(s)	53
BlsI	GCNGC	1 cut(s)	54
Bme1390I	CCNGG	2 cut(s)	335, 336
BmeT110I	CYCGRG	3 cut(s)	98, 183, 334
BmrFI	CCNGG	2 cut(s)	335, 336
BmsI	GCATC	1 cut(s)	453
BplI	GAGNNNNNCTC	2 cut(s)	257, 289
BpuMI	CCSGG	2 cut(s)	335, 336
BsaJI	CCNNGG	3 cut(s)	276, 333, 334
Bsc4I	CCNNNNNNNGG	1 cut(s)	320
Bse1I	ACTGG	1 cut(s)	325
BseDI	CCNNGG	3 cut(s)	276, 333, 334
BseGI	GGATG	2 cut(s)	108, 310
BseLI	CCNNNNNNNGG	1 cut(s)	320
BseNI	ACTGG	1 cut(s)	325
BseRI	GAGGAG	1 cut(s)	512
BshFI	GGCC	1 cut(s)	55
BsiHKCI	CYCGRG	3 cut(s)	98, 183, 334
BsiSI	CCGG	1 cut(s)	335
BslI	CCNNNNNNNGG	1 cut(s)	320
BsnI	GGCC	1 cut(s)	55
BsoBI	CYCGRG	3 cut(s)	98, 183, 334
Bsp143I	GATC	4 cut(s)	3, 112, 418, 505
Bsp19I	CCATGG	1 cut(s)	276
BspACI	CCGC	3 cut(s)	52, 428, 480
BspANI	GGCC	1 cut(s)	55
BspPI	GGATC	1 cut(s)	413
BsrBI	CCGCTC	1 cut(s)	482
BsrI	ACTGG	1 cut(s)	325
BssECI	CCNNGG	3 cut(s)	276, 333, 334
BssMI	GATC	4 cut(s)	3, 112, 418, 505
BssT1I	CCWWGG	1 cut(s)	276
BstC8I	GCNNGC	1 cut(s)	208
BstDSI	CCRYGG	1 cut(s)	276
BstF5I	GGATG	2 cut(s)	108, 310
BstKTI	GATC	4 cut(s)	6, 115, 421, 508
BstMBI	GATC	4 cut(s)	3, 112, 418, 505
BstMWI	GCNNNNNNNGC	2 cut(s)	52, 385
BstSCI	CCNGG	2 cut(s)	333, 334
BsuRI	GGCC	1 cut(s)	55
BtgI	CCRYGG	1 cut(s)	276
BtsCI	GGATG	2 cut(s)	108, 310
BtsIMutI	CAGTG	1 cut(s)	318
Cac8I	GCNNGC	1 cut(s)	208
Cfr9I	CCCGGG	1 cut(s)	334
Csp6I	GTAC	1 cut(s)	247
CviAII	CATG	2 cut(s)	220, 277
CviQI	GTAC	1 cut(s)	247
DpnI	GATC	4 cut(s)	5, 114, 420, 507
DpnII	GATC	4 cut(s)	3, 112, 418, 505
EaeI	YGGCCR	1 cut(s)	53
Eco130I	CCWWGG	1 cut(s)	276
Eco57I	CTGAAG	1 cut(s)	488
Eco88I	CYCGRG	3 cut(s)	98, 183, 334
EcoRI	GAATTC	1 cut(s)	235
EcoT14I	CCWWGG	1 cut(s)	276
ErhI	CCWWGG	1 cut(s)	276
FaeI	CATG	2 cut(s)	223, 280
FaiI	YATR	7 cut(s)	26, 58, 131, 221, 278, 366, 372
FalI	AAGNNNNNCTT	2 cut(s)	372, 404
FatI	CATG	2 cut(s)	219, 276
FbaI	TGATCA	1 cut(s)	505
Fnu4HI	GCNGC	1 cut(s)	53
FokI	GGATG	2 cut(s)	115, 317
Fsp4HI	GCNGC	1 cut(s)	53
GluI	GCNGC	1 cut(s)	53
HaeIII	GGCC	1 cut(s)	55
HapII	CCGG	1 cut(s)	335
Hin1II	CATG	2 cut(s)	223, 280
HindIII	AAGCTT	1 cut(s)	386
HinfI	GANTC	1 cut(s)	476
HpaII	CCGG	1 cut(s)	335
HphI	GGTGA	1 cut(s)	322
Hpy166II	GTNNAC	1 cut(s)	247
Hpy188I	TCNGA	3 cut(s)	241, 403, 510
Hpy188III	TCNNGA	2 cut(s)	100, 490
Hpy8I	GTNNAC	1 cut(s)	247
HpyAV	CCTTC	3 cut(s)	254, 398, 463
HpyCH4IV	ACGT	1 cut(s)	415
HpyCH4V	TGCA	3 cut(s)	46, 223, 379
HpyF10VI	GCNNNNNNNGC	2 cut(s)	52, 385
HpySE526I	ACGT	1 cut(s)	415
Hsp92II	CATG	2 cut(s)	223, 280
Ksp22I	TGATCA	1 cut(s)	505
Kzo9I	GATC	4 cut(s)	3, 112, 418, 505
LpnPI	CCDG	6 cut(s)	122, 168, 306, 327, 348, 389
LweI	GCATC	1 cut(s)	453
MaeII	ACGT	1 cut(s)	415
MalI	GATC	4 cut(s)	5, 114, 420, 507
MbiI	CCGCTC	1 cut(s)	482
MboI	GATC	4 cut(s)	3, 112, 418, 505
MluCI	AATT	4 cut(s)	235, 298, 396, 485
MnlI	CCTC	7 cut(s)	79, 118, 196, 235, 424, 504, 533
MseI	TTAA	1 cut(s)	458
MslI	CAYNNNNRTG	1 cut(s)	228
MspI	CCGG	1 cut(s)	335
MspR9I	CCNGG	2 cut(s)	335, 336
MwoI	GCNNNNNNNGC	2 cut(s)	52, 385
NciI	CCSGG	2 cut(s)	335, 336
NcoI	CCATGG	1 cut(s)	276
NdeII	GATC	4 cut(s)	3, 112, 418, 505
NlaIII	CATG	2 cut(s)	223, 280
PcsI	WCGNNNNNNNCGW	1 cut(s)	105
PfeI	GAWTC	1 cut(s)	476
PkrI	GCNGC	1 cut(s)	54
RsaI	GTAC	1 cut(s)	248
RsaNI	GTAC	1 cut(s)	247
RseI	CAYNNNNRTG	1 cut(s)	228
SaqAI	TTAA	1 cut(s)	458
SatI	GCNGC	1 cut(s)	53
Sau3AI	GATC	4 cut(s)	3, 112, 418, 505
ScrFI	CCNGG	2 cut(s)	335, 336
SetI	ASST	8 cut(s)	141, 228, 246, 316, 390, 418, 435, 515
SfaNI	GCATC	1 cut(s)	453
SmaI	CCCGGG	1 cut(s)	336
SmiMI	CAYNNNNRTG	1 cut(s)	228
Sse9I	AATT	4 cut(s)	235, 298, 396, 485
SsiI	CCGC	3 cut(s)	52, 428, 480
StyD4I	CCNGG	2 cut(s)	333, 334
StyI	CCWWGG	1 cut(s)	276
TaiI	ACGT	1 cut(s)	418
TaqI	TCGA	1 cut(s)	123
TasI	AATT	4 cut(s)	235, 298, 396, 485
TauI	GCSGC	1 cut(s)	55
TfiI	GAWTC	1 cut(s)	476
Tru1I	TTAA	1 cut(s)	458
Tru9I	TTAA	1 cut(s)	458
TscAI	CASTG	1 cut(s)	325
TspDTI	ATGAA	4 cut(s)	208, 375, 381, 432
TspMI	CCCGGG	1 cut(s)	334
TspRI	CASTG	1 cut(s)	325
XapI	RAATTY	2 cut(s)	235, 396
XmaI	CCCGGG	1 cut(s)	334

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