Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0019856

Physical Location & Seq

Genomic Coordinates Forward (+)

6136749 .. 6137667

Gene Structure 919 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ54884

Sequence Viewer

CDS Protein Promoter (2k)

Length: 414 bp

ATGGTTATATTTTTTGGCTTGTTATTGTGTCTTCTTTCCCTTGAATGGAGCTTTCTTTTATTAAGGAAATTGGCCAAACCCCGGCAGTTGCACAATTCACAGTGGGGAATGATGTGTCCTGCTGAGACACTTGAAGGGCAGGAAAGTATTGAAATTTTCCCTGCTGTTATTCCCCAAGCCACACAGATTTTTGTTAATGGCTGCTGGGTTGGCATACATTGTGATCCTGAAATTTTGGTGAGAACATTGAGGAAGCTAAGGTGGGTGGATGTCAATACTGAAGTTGGGGCCGTAAGAGATATCCATATGAAAGAATTGCAGATATATACCGATTATAGTCGTTGCAGTCATCCATTATTCATTGTGGACAAGCAAAGGCCGCTTATAAAGAACAAAGATATTCATGCATTGTAG

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:0005737 GO:0005829 GO:0005911 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009506 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016441 GO:0016458 GO:0016591 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019222 GO:0019438 GO:0030054 GO:0030880 GO:0031047 GO:0031050 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034654 GO:0035194 GO:0035195 GO:0035196 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043331 GO:0044237 GO:0044238 GO:0044249 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0055029 GO:0055044 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1901698 GO:1901699 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

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

Pfam Domains

Protein Families

RNA_pol_Rpb2_1 RNA_pol_Rpb2_2 RNA_pol_Rpb2_3 RNA_pol_Rpb2_4 RNA_pol_Rpb2_5 RNA_pol_Rpb2_6 RNA_pol_Rpb2_7

Protein Analysis

137

Amino Acids

15.9

Weight (kDa)

7.68

Isoelectric Point (pI)

43.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb2_3	PF04565	23 - 47	2.1e-07	RNA polymerase Rpb2, domain 3
RNA_pol_Rpb2_4	PF04566	63 - 123	9.4e-17	RNA polymerase Rpb2, domain 4

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)

Image

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Orthologous Genes (Group: OG0019856)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr1g0318561
rosa_samantha	Rh1AG035000 Rh1CG328800 Rh1DG036300 Rh2CG296100 Rh2CG301100 Rh2DG333200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	386
AciI	CCGC	1 cut(s)	380
AclWI	GGATC	1 cut(s)	218
AcoI	YGGCCR	1 cut(s)	72
AcsI	RAATTY	2 cut(s)	153, 231
AcuI	CTGAAG	1 cut(s)	300
AfiI	CCNNNNNNNGG	2 cut(s)	45, 81
AgsI	TTSAA	3 cut(s)	44, 134, 152
AluBI	AGCT	2 cut(s)	51, 256
AluI	AGCT	2 cut(s)	51, 256
Alw26I	GTCTC	1 cut(s)	119
AlwI	GGATC	1 cut(s)	218
AoxI	GGCC	3 cut(s)	72, 288, 377
ApeKI	GCWGC	1 cut(s)	201
ApoI	RAATTY	2 cut(s)	153, 231
AspS9I	GGNCC	1 cut(s)	288
AsuC2I	CCSGG	1 cut(s)	82
AsuHPI	GGTGA	1 cut(s)	250
BalI	TGGCCA	1 cut(s)	74
BbsI	GAAGAC	1 cut(s)	23
BbvI	GCAGC	1 cut(s)	188
BceAI	ACGGC	1 cut(s)	275
BcnI	CCSGG	1 cut(s)	82
BcoDI	GTCTC	1 cut(s)	119
BisI	GCNGC	2 cut(s)	202, 380
BlsI	GCNGC	2 cut(s)	203, 381
Bme1390I	CCNGG	1 cut(s)	82
BmgT120I	GGNCC	1 cut(s)	288
BmiI	GGNNCC	1 cut(s)	289
BmrFI	CCNGG	1 cut(s)	82
BpiI	GAAGAC	1 cut(s)	23
Bpu10I	CCTNAGC	1 cut(s)	257
BpuMI	CCSGG	1 cut(s)	82
BsaJI	CCNNGG	1 cut(s)	80
Bsc4I	CCNNNNNNNGG	2 cut(s)	45, 81
BseDI	CCNNGG	1 cut(s)	80
BseGI	GGATG	2 cut(s)	274, 349
BseLI	CCNNNNNNNGG	2 cut(s)	45, 81
BseMII	CTCAG	1 cut(s)	114
BseXI	GCAGC	1 cut(s)	188
BseYI	CCCAGC	1 cut(s)	204
BshFI	GGCC	3 cut(s)	74, 290, 379
BsiSI	CCGG	1 cut(s)	82
BslI	CCNNNNNNNGG	2 cut(s)	45, 81
BsmAI	GTCTC	1 cut(s)	119
BsnI	GGCC	3 cut(s)	74, 290, 379
Bsp143I	GATC	1 cut(s)	223
BspACI	CCGC	1 cut(s)	380
BspANI	GGCC	3 cut(s)	74, 290, 379
BspCNI	CTCAG	1 cut(s)	115
BspLI	GGNNCC	1 cut(s)	289
BspPI	GGATC	1 cut(s)	218
BssECI	CCNNGG	1 cut(s)	80
BssMI	GATC	1 cut(s)	223
Bst4CI	ACNGT	1 cut(s)	102
BstDEI	CTNAG	2 cut(s)	123, 257
BstF5I	GGATG	2 cut(s)	274, 349
BstKTI	GATC	1 cut(s)	226
BstMAI	GTCTC	1 cut(s)	119
BstMBI	GATC	1 cut(s)	223
BstMWI	GCNNNNNNNGC	2 cut(s)	210, 379
BstSCI	CCNGG	1 cut(s)	80
BstV1I	GCAGC	1 cut(s)	188
BstV2I	GAAGAC	1 cut(s)	23
BsuRI	GGCC	3 cut(s)	74, 290, 379
BtsCI	GGATG	2 cut(s)	274, 349
BtsIMutI	CAGTG	1 cut(s)	107
Cfr13I	GGNCC	1 cut(s)	288
CviAII	CATG	1 cut(s)	404
CviJI	RGCY	8 cut(s)	18, 51, 74, 179, 201, 256, 290, 379
CviKI_1	RGCY	8 cut(s)	18, 51, 74, 179, 201, 256, 290, 379
DdeI	CTNAG	2 cut(s)	123, 257
DpnI	GATC	1 cut(s)	225
DpnII	GATC	1 cut(s)	223
EaeI	YGGCCR	1 cut(s)	72
Eco32I	GATATC	1 cut(s)	301
Eco57I	CTGAAG	1 cut(s)	300
EcoRV	GATATC	1 cut(s)	301
EcoT22I	ATGCAT	1 cut(s)	409
FaeI	CATG	1 cut(s)	407
FaiI	YATR	9 cut(s)	8, 215, 306, 308, 325, 327, 336, 386, 405
FatI	CATG	1 cut(s)	403
FauNDI	CATATG	1 cut(s)	306
Fnu4HI	GCNGC	2 cut(s)	202, 380
FokI	GGATG	2 cut(s)	281, 336
Fsp4HI	GCNGC	2 cut(s)	202, 380
GluI	GCNGC	2 cut(s)	202, 380
GsaI	CCCAGC	1 cut(s)	208
HaeIII	GGCC	3 cut(s)	74, 290, 379
HapII	CCGG	1 cut(s)	82
Hin1II	CATG	1 cut(s)	407
HpaII	CCGG	1 cut(s)	82
HphI	GGTGA	1 cut(s)	250
Hpy166II	GTNNAC	1 cut(s)	367
Hpy188III	TCNNGA	1 cut(s)	227
Hpy8I	GTNNAC	1 cut(s)	367
HpyAV	CCTTC	1 cut(s)	128
HpyCH4III	ACNGT	1 cut(s)	102
HpyCH4V	TGCA	4 cut(s)	91, 319, 345, 407
HpyF10VI	GCNNNNNNNGC	2 cut(s)	210, 379
HpyF3I	CTNAG	2 cut(s)	123, 257
Hsp92II	CATG	1 cut(s)	407
Kzo9I	GATC	1 cut(s)	223
LmnI	GCTCC	1 cut(s)	48
LpnPI	CCDG	6 cut(s)	95, 125, 132, 174, 190, 240
Lsp1109I	GCAGC	1 cut(s)	188
MalI	GATC	1 cut(s)	225
MboI	GATC	1 cut(s)	223
MboII	GAAGA	1 cut(s)	23
MlsI	TGGCCA	1 cut(s)	74
MluCI	AATT	5 cut(s)	68, 94, 153, 231, 314
MluNI	TGGCCA	1 cut(s)	74
MnlI	CCTC	1 cut(s)	243
Mox20I	TGGCCA	1 cut(s)	74
Mph1103I	ATGCAT	1 cut(s)	409
MscI	TGGCCA	1 cut(s)	74
MseI	TTAA	2 cut(s)	62, 195
Msp20I	TGGCCA	1 cut(s)	74
MspI	CCGG	1 cut(s)	82
MspR9I	CCNGG	1 cut(s)	82
MwoI	GCNNNNNNNGC	2 cut(s)	210, 379
NciI	CCSGG	1 cut(s)	82
NdeI	CATATG	1 cut(s)	306
NdeII	GATC	1 cut(s)	223
NlaIII	CATG	1 cut(s)	407
NlaIV	GGNNCC	1 cut(s)	289
NsiI	ATGCAT	1 cut(s)	409
PkrI	GCNGC	2 cut(s)	203, 381
PsiI	TTATAA	1 cut(s)	386
PspFI	CCCAGC	1 cut(s)	204
PspN4I	GGNNCC	1 cut(s)	289
PspPI	GGNCC	1 cut(s)	288
SaqAI	TTAA	2 cut(s)	62, 195
SatI	GCNGC	2 cut(s)	202, 380
Sau3AI	GATC	1 cut(s)	223
Sau96I	GGNCC	1 cut(s)	288
ScrFI	CCNGG	1 cut(s)	82
SetI	ASST	3 cut(s)	53, 258, 263
Sse9I	AATT	5 cut(s)	68, 94, 153, 231, 314
SsiI	CCGC	1 cut(s)	380
StyD4I	CCNGG	1 cut(s)	80
TaaI	ACNGT	1 cut(s)	102
TasI	AATT	5 cut(s)	68, 94, 153, 231, 314
TauI	GCSGC	1 cut(s)	382
Tru1I	TTAA	2 cut(s)	62, 195
Tru9I	TTAA	2 cut(s)	62, 195
TscAI	CASTG	1 cut(s)	107
TseI	GCWGC	1 cut(s)	201
TspDTI	ATGAA	3 cut(s)	323, 349, 392
TspRI	CASTG	1 cut(s)	107
XapI	RAATTY	2 cut(s)	153, 231
Zsp2I	ATGCAT	1 cut(s)	409

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