Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0012428

Physical Location & Seq

Genomic Coordinates Forward (+)

38315750 .. 38319033

Gene Structure 3284 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ24788

Sequence Viewer

CDS Protein Promoter (2k)

Length: 426 bp

ATGGCTGATGATGATTACAATGAGATGGATATTGGATATGAGGATGAGCCCGTGGAGCCAGAGATTGAAGAAGGGGCAGAGGAGGATGTGGATAACAATGATGATCTTGCTGGAGATGCCATTGAAACTGATGACAAGGAAGAACAAGTACCAGTGGAACGGCCTCGCAAAACATCAAAATTTATGACCAAATATGAACGGGCTAGAATCTTGGGTACCCGTGCTGTACAAATTAGCATGAATGCCCCTGTGATGGTTGAGTTGGAGGGTGAGACTGACCCGCTTGAGATTGCTATGAAGGAGCTTCGTGAGCGGAAGATACCCTTTACCATCCGCCGCTACTTGCCTGATGGAAGTTATGAAGATTGGGGAGTTGATGAACTGATTGTGGAAGATTCCTGGAAGAGGCAGGTGGGAGGTAACTGA

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:0005654 GO:0005665 GO:0005666 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006360 GO:0006366 GO:0006383 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016591 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 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:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0046483 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 ko04623 ko05016 ko05169 map00230 map00240 map01100 map03020 map04623 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb6

Protein Analysis

141

Amino Acids

16.24

Weight (kDa)

4.15

Isoelectric Point (pI)

47.63

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb6	PF01192	58 - 109	6.3e-12	RNA polymerase Rpb6

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0012428)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G04630 AT5G51940
fragaria_vesca	FvH4_2g14180
malus_domestica	MD09G1242800.v1.1 MD12G1011200.v1.1 MD17G1234800.v1.1
prunus_persica	Prupe.3G134400_v2.0.a1 Prupe.7G013200_v2.0.a1
pyrus_communis	pycom09g16110 pycom12g00870 pycom17g23820
rosa_chinensis	RchiOBHm_Chr6g0276321
rosa_laevigata	RLG00000013404
rosa_multiflora	Rmu_sc0003665.1_g000006
rosa_roxburghii	Rroxscaffold_7G00192390
rosa_rugosa	Rorug06G0099900 Rorug06G0100000
rosa_samantha	Rh6DG207900
rosa_wichuraiana	Rw6G018430

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	400
Acc36I	ACCTGC	1 cut(s)	400
Acc65I	GGTACC	1 cut(s)	215
AccB1I	GGYRCC	1 cut(s)	215
AccBSI	CCGCTC	1 cut(s)	313
AciI	CCGC	4 cut(s)	281, 313, 334, 337
AcsI	RAATTY	1 cut(s)	179
AfaI	GTAC	3 cut(s)	150, 217, 228
AfiI	CCNNNNNNNGG	2 cut(s)	253, 405
AgsI	TTSAA	2 cut(s)	68, 125
AjnI	CCWGG	1 cut(s)	398
AluBI	AGCT	1 cut(s)	304
AluI	AGCT	1 cut(s)	304
Alw26I	GTCTC	1 cut(s)	266
AoxI	GGCC	1 cut(s)	161
ApoI	RAATTY	1 cut(s)	179
Asp718I	GGTACC	1 cut(s)	215
AsuHPI	GGTGA	1 cut(s)	281
BanI	GGYRCC	1 cut(s)	215
BanII	GRGCYC	1 cut(s)	51
BarI	GAAGNNNNNNTAC	2 cut(s)	132, 164
BccI	CCATC	4 cut(s)	19, 247, 338, 344
BceAI	ACGGC	1 cut(s)	176
BciT130I	CCWGG	1 cut(s)	400
BcoDI	GTCTC	1 cut(s)	266
BfaI	CTAG	1 cut(s)	204
BfuAI	ACCTGC	1 cut(s)	400
BisI	GCNGC	1 cut(s)	337
BlsI	GCNGC	1 cut(s)	338
Bme1390I	CCNGG	1 cut(s)	400
BmiI	GGNNCC	2 cut(s)	57, 217
BmrFI	CCNGG	1 cut(s)	400
BmsI	GCATC	1 cut(s)	106
BpmI	CTGGAG	1 cut(s)	132
BpuEI	CTTGAG	1 cut(s)	305
BsaJI	CCNNGG	1 cut(s)	51
Bsc4I	CCNNNNNNNGG	2 cut(s)	253, 405
Bse1I	ACTGG	1 cut(s)	152
BseBI	CCWGG	1 cut(s)	400
BseDI	CCNNGG	1 cut(s)	51
BseGI	GGATG	3 cut(s)	49, 91, 330
BseLI	CCNNNNNNNGG	2 cut(s)	253, 405
BseNI	ACTGG	1 cut(s)	152
BseRI	GAGGAG	1 cut(s)	95
BshFI	GGCC	1 cut(s)	163
BshNI	GGYRCC	1 cut(s)	215
BslI	CCNNNNNNNGG	2 cut(s)	253, 405
BsmAI	GTCTC	1 cut(s)	266
BsmI	GAATGC	1 cut(s)	247
BsnI	GGCC	1 cut(s)	163
Bsp1286I	GDGCHC	1 cut(s)	51
Bsp1407I	TGTACA	1 cut(s)	226
Bsp143I	GATC	1 cut(s)	103
BspACI	CCGC	4 cut(s)	281, 313, 334, 337
BspANI	GGCC	1 cut(s)	163
BspLI	GGNNCC	2 cut(s)	57, 217
BspMI	ACCTGC	1 cut(s)	400
BspT107I	GGYRCC	1 cut(s)	215
BsrBI	CCGCTC	1 cut(s)	313
BsrGI	TGTACA	1 cut(s)	226
BsrI	ACTGG	1 cut(s)	152
BssECI	CCNNGG	1 cut(s)	51
BssMI	GATC	1 cut(s)	103
Bst2UI	CCWGG	1 cut(s)	400
Bst6I	CTCTTC	1 cut(s)	398
BstAUI	TGTACA	1 cut(s)	226
BstDSI	CCRYGG	1 cut(s)	51
BstENI	CCTNNNNNAGG	1 cut(s)	403
BstF5I	GGATG	3 cut(s)	49, 91, 330
BstKTI	GATC	1 cut(s)	106
BstMAI	GTCTC	1 cut(s)	266
BstMBI	GATC	1 cut(s)	103
BstMWI	GCNNNNNNNGC	3 cut(s)	55, 116, 310
BstNI	CCWGG	1 cut(s)	400
BstSCI	CCNGG	1 cut(s)	398
BsuRI	GGCC	1 cut(s)	163
BtgI	CCRYGG	1 cut(s)	51
BtsCI	GGATG	3 cut(s)	49, 91, 330
BtsIMutI	CAGTG	1 cut(s)	159
BveI	ACCTGC	1 cut(s)	400
Csp6I	GTAC	3 cut(s)	149, 216, 227
CviAII	CATG	1 cut(s)	238
CviJI	RGCY	6 cut(s)	5, 49, 58, 163, 203, 304
CviKI_1	RGCY	6 cut(s)	5, 49, 58, 163, 203, 304
CviQI	GTAC	3 cut(s)	149, 216, 227
DpnI	GATC	1 cut(s)	105
DpnII	GATC	1 cut(s)	103
Eam1104I	CTCTTC	1 cut(s)	398
EarI	CTCTTC	1 cut(s)	398
EciI	GGCGGA	1 cut(s)	323
Eco24I	GRGCYC	1 cut(s)	51
EcoNI	CCTNNNNNAGG	1 cut(s)	403
EcoRII	CCWGG	1 cut(s)	398
EcoT38I	GRGCYC	1 cut(s)	51
FaeI	CATG	1 cut(s)	241
FaiI	YATR	6 cut(s)	39, 185, 195, 239, 296, 360
FalI	AAGNNNNNCTT	2 cut(s)	308, 340
FatI	CATG	1 cut(s)	237
FauI	CCCGC	1 cut(s)	288
Fnu4HI	GCNGC	1 cut(s)	337
FokI	GGATG	3 cut(s)	56, 98, 317
FriOI	GRGCYC	1 cut(s)	51
Fsp4HI	GCNGC	1 cut(s)	337
FspBI	CTAG	1 cut(s)	204
GluI	GCNGC	1 cut(s)	337
GsuI	CTGGAG	1 cut(s)	132
HaeIII	GGCC	1 cut(s)	163
Hin1II	CATG	1 cut(s)	241
HinfI	GANTC	2 cut(s)	207, 395
HphI	GGTGA	1 cut(s)	281
Hpy188III	TCNNGA	1 cut(s)	308
HpyAV	CCTTC	2 cut(s)	65, 292
HpyF10VI	GCNNNNNNNGC	3 cut(s)	55, 116, 310
Hsp92II	CATG	1 cut(s)	241
KpnI	GGTACC	1 cut(s)	219
Kzo9I	GATC	1 cut(s)	103
LmnI	GCTCC	2 cut(s)	55, 301
LpnPI	CCDG	8 cut(s)	72, 96, 165, 261, 360, 385, 395, 412
LweI	GCATC	1 cut(s)	106
MaeI	CTAG	1 cut(s)	204
MaeIII	GTNAC	1 cut(s)	419
MalI	GATC	1 cut(s)	105
MbiI	CCGCTC	1 cut(s)	313
MboI	GATC	1 cut(s)	103
MboII	GAAGA	6 cut(s)	80, 152, 328, 374, 404, 415
MhlI	GDGCHC	1 cut(s)	51
MluCI	AATT	2 cut(s)	179, 231
MmeI	TCCRAC	1 cut(s)	243
MnlI	CCTC	7 cut(s)	34, 73, 76, 174, 259, 399, 410
MspR9I	CCNGG	1 cut(s)	400
Mva1269I	GAATGC	1 cut(s)	247
MvaI	CCWGG	1 cut(s)	400
MwoI	GCNNNNNNNGC	3 cut(s)	55, 116, 310
NdeII	GATC	1 cut(s)	103
NlaIII	CATG	1 cut(s)	241
NlaIV	GGNNCC	2 cut(s)	57, 217
PaqCI	CACCTGC	1 cut(s)	400
PctI	GAATGC	1 cut(s)	247
PfeI	GAWTC	2 cut(s)	207, 395
PfoI	TCCNGGA	1 cut(s)	398
PkrI	GCNGC	1 cut(s)	338
Psp6I	CCWGG	1 cut(s)	398
PspGI	CCWGG	1 cut(s)	398
PspN4I	GGNNCC	2 cut(s)	57, 217
RsaI	GTAC	3 cut(s)	150, 217, 228
RsaNI	GTAC	3 cut(s)	149, 216, 227
SatI	GCNGC	1 cut(s)	337
Sau3AI	GATC	1 cut(s)	103
ScrFI	CCNGG	1 cut(s)	400
SduI	GDGCHC	1 cut(s)	51
SetI	ASST	3 cut(s)	306, 414, 421
SfaNI	GCATC	1 cut(s)	106
SmlI	CTYRAG	1 cut(s)	284
SmoI	CTYRAG	1 cut(s)	284
Sse9I	AATT	2 cut(s)	179, 231
SsiI	CCGC	4 cut(s)	281, 313, 334, 337
SspMI	CTAG	1 cut(s)	204
StyD4I	CCNGG	1 cut(s)	398
TasI	AATT	2 cut(s)	179, 231
TatI	WGTACW	1 cut(s)	226
TauI	GCSGC	1 cut(s)	339
TfiI	GAWTC	2 cut(s)	207, 395
TscAI	CASTG	1 cut(s)	159
TspDTI	ATGAA	5 cut(s)	210, 254, 311, 375, 393
TspRI	CASTG	1 cut(s)	159
XagI	CCTNNNNNAGG	1 cut(s)	403
XapI	RAATTY	1 cut(s)	179
XspI	CTAG	1 cut(s)	204

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