Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0005765

Physical Location & Seq

Genomic Coordinates Reverse (-)

30984508 .. 30987190

Gene Structure 2683 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 522 bp

ATGTTAAAGGTTAAAGGGTTTAATTACCATGGTGCAGAGGTATTGTACAGTGGCGTCTATGGAACAGAACTCACGTGTGAAATTTTTATTGGTCCTGTTTACTATCAACGATTACGGCATATGGTTTCAGACAAATTTCAGGTTCGCTCTACGGGAATGGTAGATCAAGTCACACGCCAGCCTATCAAAGGACGAAAACGAGGTGGCGGTATACGTTTTGGTGAAATGGAGAGAGACTCCTTGCTTGCACATGGGGCAGCATATTTGTTGCATGATGGACTTCATATATGTTCTGATTATCACGTTGCTGACGTATGTTCCCTTTGTGGATCCATCCTAACAACCTCATCAGTCCAACCACAAATACGGGTTCGTGAAATGCGGGGCTTGCCCCCTATGAGAGCTCCCAAGAAGGTGACTTGCCATGCATGTAAGTCGAGTAAAGGGATGGAAACGGTTGCAATGCCTTATGTCTTTAGACATTTTATGAGGATGGTTTCATCAAATGACATTTTTTTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005736 GO:0005737 GO:0005829 GO:0006139 GO:0006351 GO:0006360 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009553 GO:0009561 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032774 GO:0032991 GO:0034062 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:0044444 GO:0044446 GO:0044452 GO:0044464 GO:0046483 GO:0048229 GO:0048856 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

RNA_pol_Rpa2_4 RNA_pol_Rpb2_1 RNA_pol_Rpb2_2 RNA_pol_Rpb2_3 RNA_pol_Rpb2_6 RNA_pol_Rpb2_7

Protein Analysis

173

Amino Acids

19.53

Weight (kDa)

9.43

Isoelectric Point (pI)

30.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb2_6	PF00562	2 - 67	1.3e-26	RNA polymerase Rpb2, domain 6
RNA_pol_Rpb2_7	PF04560	69 - 165	9.7e-18	RNA polymerase Rpb2, domain 7

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0005765)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G29940
fragaria_vesca	FvH4_5g25870 FvH4_5g25870 FvH4_7g07420 FvH4_7g07420 FvH4_7g07420 FvH4_7g07420 FvH4_7g07420 FvH4_7g07420 FvH4_7g07420
malus_domestica	MD08G1237100.v1.1 MD15G1428900.v1.1
prunus_persica	Prupe.1G574600_v2.0.a1 Prupe.1G574600_v2.0.a1 Prupe.7G107000_v2.0.a1 Prupe.7G184700_v2.0.a1 Prupe.7G223000_v2.0.a1
pyrus_communis	pycom08g20550
rosa_chinensis	RchiOBHm_Chr1g0339571 RchiOBHm_Chr1g0339591
rosa_laevigata	RLG00000029239
rosa_multiflora	Rmu_sc0015580.1_g000004
rosa_roxburghii	Rroxscaffold_4G00313560 Rroxscaffold_4G00313600
rosa_rugosa	Rorug01G0140100.1
rosa_samantha	Rh1AG158100 Rh1CG147600
rosa_wichuraiana	Rw1G013100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	211
AciI	CCGC	2 cut(s)	207, 382
AclWI	GGATC	2 cut(s)	324, 337
AcsI	RAATTY	2 cut(s)	81, 134
AcvI	CACGTG	1 cut(s)	75
AcyI	GRCGYC	1 cut(s)	54
AfaI	GTAC	1 cut(s)	47
AfiI	CCNNNNNNNGG	1 cut(s)	188
AflIII	ACRYGT	1 cut(s)	74
AjuI	GAANNNNNNNTTGG	2 cut(s)	72, 104
AluBI	AGCT	1 cut(s)	404
AluI	AGCT	1 cut(s)	404
Alw21I	GWGCWC	1 cut(s)	406
Alw26I	GTCTC	1 cut(s)	228
AlwI	GGATC	2 cut(s)	324, 337
ApeKI	GCWGC	1 cut(s)	257
ApoI	RAATTY	2 cut(s)	81, 134
AspS9I	GGNCC	1 cut(s)	92
AsuHPI	GGTGA	2 cut(s)	233, 427
AvaII	GGWCC	1 cut(s)	92
BamHI	GGATCC	1 cut(s)	329
BanII	GRGCYC	1 cut(s)	406
BbrPI	CACGTG	1 cut(s)	75
Bbv12I	GWGCWC	1 cut(s)	406
BbvI	GCAGC	1 cut(s)	269
BccI	CCATC	4 cut(s)	269, 341, 442, 487
BceAI	ACGGC	1 cut(s)	131
BcgI	CGANNNNNNTGC	2 cut(s)	417, 451
BcoDI	GTCTC	1 cut(s)	228
BisI	GCNGC	1 cut(s)	258
BlsI	GCNGC	1 cut(s)	259
Bme18I	GGWCC	1 cut(s)	92
BmgT120I	GGNCC	1 cut(s)	92
BmiI	GGNNCC	1 cut(s)	331
BplI	GAGNNNNNCTC	2 cut(s)	221, 253
BsaAI	YACGTR	1 cut(s)	75
BsaHI	GRCGYC	1 cut(s)	54
BsaJI	CCNNGG	1 cut(s)	28
Bsc4I	CCNNNNNNNGG	1 cut(s)	188
Bse3DI	GCAATG	1 cut(s)	468
BseDI	CCNNGG	1 cut(s)	28
BseGI	GGATG	3 cut(s)	333, 453, 498
BseLI	CCNNNNNNNGG	1 cut(s)	188
BseMI	GCAATG	1 cut(s)	468
BseXI	GCAGC	1 cut(s)	269
BsgI	GTGCAG	1 cut(s)	54
BsiHKAI	GWGCWC	1 cut(s)	406
BslI	CCNNNNNNNGG	1 cut(s)	188
BsmAI	GTCTC	1 cut(s)	228
Bsp1286I	GDGCHC	1 cut(s)	406
Bsp1407I	TGTACA	1 cut(s)	45
Bsp143I	GATC	2 cut(s)	163, 329
Bsp19I	CCATGG	1 cut(s)	28
BspACI	CCGC	2 cut(s)	207, 382
BspLI	GGNNCC	1 cut(s)	331
BspPI	GGATC	2 cut(s)	324, 337
BsrDI	GCAATG	1 cut(s)	468
BsrGI	TGTACA	1 cut(s)	45
BssECI	CCNNGG	1 cut(s)	28
BssMI	GATC	2 cut(s)	163, 329
BssNAI	GTATAC	1 cut(s)	212
BssNI	GRCGYC	1 cut(s)	54
BssT1I	CCWWGG	1 cut(s)	28
Bst1107I	GTATAC	1 cut(s)	212
Bst4CI	ACNGT	2 cut(s)	50, 457
BstACI	GRCGYC	1 cut(s)	54
BstAUI	TGTACA	1 cut(s)	45
BstBAI	YACGTR	1 cut(s)	75
BstC8I	GCNNGC	3 cut(s)	179, 246, 389
BstDSI	CCRYGG	1 cut(s)	28
BstENI	CCTNNNNNAGG	1 cut(s)	186
BstF5I	GGATG	3 cut(s)	333, 453, 498
BstKTI	GATC	2 cut(s)	166, 332
BstMAI	GTCTC	1 cut(s)	228
BstMBI	GATC	2 cut(s)	163, 329
BstMWI	GCNNNNNNNGC	2 cut(s)	254, 388
BstNSI	RCATGY	1 cut(s)	432
BstV1I	GCAGC	1 cut(s)	269
BstX2I	RGATCY	1 cut(s)	329
BstYI	RGATCY	1 cut(s)	329
BstZ17I	GTATAC	1 cut(s)	212
BtgI	CCRYGG	1 cut(s)	28
BtsCI	GGATG	3 cut(s)	333, 453, 498
BtsIMutI	CAGTG	1 cut(s)	55
Cac8I	GCNNGC	3 cut(s)	179, 246, 389
Cfr13I	GGNCC	1 cut(s)	92
CseI	GACGC	1 cut(s)	43
Csp6I	GTAC	1 cut(s)	46
CviAII	CATG	5 cut(s)	29, 251, 272, 425, 429
CviJI	RGCY	3 cut(s)	181, 387, 404
CviKI_1	RGCY	3 cut(s)	181, 387, 404
CviQI	GTAC	1 cut(s)	46
DpnI	GATC	2 cut(s)	165, 331
DpnII	GATC	2 cut(s)	163, 329
Ecl136II	GAGCTC	1 cut(s)	404
Eco130I	CCWWGG	1 cut(s)	28
Eco24I	GRGCYC	1 cut(s)	406
Eco47I	GGWCC	1 cut(s)	92
Eco53kI	GAGCTC	1 cut(s)	404
Eco72I	CACGTG	1 cut(s)	75
EcoICRI	GAGCTC	1 cut(s)	404
EcoNI	CCTNNNNNAGG	1 cut(s)	186
EcoT14I	CCWWGG	1 cut(s)	28
EcoT22I	ATGCAT	1 cut(s)	430
EcoT38I	GRGCYC	1 cut(s)	406
ErhI	CCWWGG	1 cut(s)	28
FaeI	CATG	5 cut(s)	32, 254, 275, 428, 432
FatI	CATG	5 cut(s)	28, 250, 271, 424, 428
FauI	CCCGC	1 cut(s)	375
FauNDI	CATATG	1 cut(s)	120
FblI	GTMKAC	1 cut(s)	211
Fnu4HI	GCNGC	1 cut(s)	258
FokI	GGATG	3 cut(s)	320, 460, 505
FriOI	GRGCYC	1 cut(s)	406
Fsp4HI	GCNGC	1 cut(s)	258
GluI	GCNGC	1 cut(s)	258
HgaI	GACGC	1 cut(s)	43
Hin1I	GRCGYC	1 cut(s)	54
Hin1II	CATG	5 cut(s)	32, 254, 275, 428, 432
HinfI	GANTC	1 cut(s)	236
HphI	GGTGA	2 cut(s)	233, 427
Hpy166II	GTNNAC	2 cut(s)	100, 212
Hpy188I	TCNGA	2 cut(s)	130, 295
Hpy188III	TCNNGA	1 cut(s)	374
Hpy8I	GTNNAC	2 cut(s)	100, 212
HpyAV	CCTTC	1 cut(s)	406
HpyCH4III	ACNGT	2 cut(s)	50, 457
HpyCH4IV	ACGT	4 cut(s)	74, 214, 303, 312
HpyCH4V	TGCA	5 cut(s)	35, 248, 271, 428, 461
HpyF10VI	GCNNNNNNNGC	2 cut(s)	254, 388
HpySE526I	ACGT	4 cut(s)	74, 214, 303, 312
Hsp92I	GRCGYC	1 cut(s)	54
Hsp92II	CATG	5 cut(s)	32, 254, 275, 428, 432
Kzo9I	GATC	2 cut(s)	163, 329
LmnI	GCTCC	1 cut(s)	409
LpnPI	CCDG	3 cut(s)	108, 125, 191
Lsp1109I	GCAGC	1 cut(s)	269
MaeII	ACGT	4 cut(s)	74, 214, 303, 312
MaeIII	GTNAC	2 cut(s)	169, 415
MalI	GATC	2 cut(s)	165, 331
MboI	GATC	2 cut(s)	163, 329
MflI	RGATCY	1 cut(s)	329
MhlI	GDGCHC	1 cut(s)	406
MluCI	AATT	3 cut(s)	22, 81, 134
MlyI	GAGTC	1 cut(s)	230
MmeI	TCCRAC	1 cut(s)	379
MnlI	CCTC	4 cut(s)	31, 194, 355, 483
Mph1103I	ATGCAT	1 cut(s)	430
MseI	TTAA	4 cut(s)	5, 12, 21, 520
MwoI	GCNNNNNNNGC	2 cut(s)	254, 388
NcoI	CCATGG	1 cut(s)	28
NdeI	CATATG	1 cut(s)	120
NdeII	GATC	2 cut(s)	163, 329
NlaIII	CATG	5 cut(s)	32, 254, 275, 428, 432
NlaIV	GGNNCC	1 cut(s)	331
NmuCI	GTSAC	2 cut(s)	169, 415
NsiI	ATGCAT	1 cut(s)	430
NspI	RCATGY	1 cut(s)	432
PcsI	WCGNNNNNNNCGW	1 cut(s)	309
PkrI	GCNGC	1 cut(s)	259
PleI	GAGTC	1 cut(s)	230
PmaCI	CACGTG	1 cut(s)	75
PmlI	CACGTG	1 cut(s)	75
PpsI	GAGTC	1 cut(s)	230
Ppu21I	YACGTR	1 cut(s)	75
Psp124BI	GAGCTC	1 cut(s)	406
PspCI	CACGTG	1 cut(s)	75
PspN4I	GGNNCC	1 cut(s)	331
PspPI	GGNCC	1 cut(s)	92
PsuI	RGATCY	1 cut(s)	329
RsaI	GTAC	1 cut(s)	47
RsaNI	GTAC	1 cut(s)	46
SacI	GAGCTC	1 cut(s)	406
SaqAI	TTAA	4 cut(s)	5, 12, 21, 520
SatI	GCNGC	1 cut(s)	258
Sau3AI	GATC	2 cut(s)	163, 329
Sau96I	GGNCC	1 cut(s)	92
SchI	GAGTC	1 cut(s)	230
SduI	GDGCHC	1 cut(s)	406
SinI	GGWCC	1 cut(s)	92
Sse9I	AATT	3 cut(s)	22, 81, 134
SsiI	CCGC	2 cut(s)	207, 382
SstI	GAGCTC	1 cut(s)	406
StyI	CCWWGG	1 cut(s)	28
TaaI	ACNGT	2 cut(s)	50, 457
TaiI	ACGT	4 cut(s)	77, 217, 306, 315
TaqI	TCGA	1 cut(s)	437
TasI	AATT	3 cut(s)	22, 81, 134
TatI	WGTACW	1 cut(s)	45
Tru1I	TTAA	4 cut(s)	5, 12, 21, 520
Tru9I	TTAA	4 cut(s)	5, 12, 21, 520
TscAI	CASTG	1 cut(s)	55
TseFI	GTSAC	2 cut(s)	169, 415
TseI	GCWGC	1 cut(s)	257
Tsp45I	GTSAC	2 cut(s)	169, 415
TspDTI	ATGAA	2 cut(s)	272, 489
TspRI	CASTG	1 cut(s)	55
VpaK11BI	GGWCC	1 cut(s)	92
XagI	CCTNNNNNAGG	1 cut(s)	186
XapI	RAATTY	2 cut(s)	81, 134
XceI	RCATGY	1 cut(s)	432
XmiI	GTMKAC	1 cut(s)	211
Zsp2I	ATGCAT	1 cut(s)	430

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