Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0021354

Physical Location & Seq

Genomic Coordinates Reverse (-)

52720531 .. 52721449

Gene Structure 919 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG296200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 384 bp

ATGTCACTAACTACCAGTTCTGAATGGATACACTGGCTTATGTTCTGTACTACCCTCAGAAGCCGCTTGCCACTACATGAGCCATCGAGCATCTTCACTTCAGGCAACTTCTTGCTAGAATTGTTAGCTTGTTTCCAACACCTATTGCAAGGACATGTTGTTCGTATTATTCCACTGTGTTGCATAAAAAAGATGGGGACCCATGTCAAAGAAGATTTTGGACGTCTAGACAGAGCAAATACGATGGGTATGTGGCCTGGTTCTTATGATAAATTGGATAATGATCTGCACATCCTGTTATATTACAAGACTACTGGGAGAAGCGGAGGATTTGGGTTTGCGACTATGTCTAGTGATCATGAAGTAGAAGCAGCTGCTCGATAG

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

127

Amino Acids

14.41

Weight (kDa)

7.04

Isoelectric Point (pI)

51.9

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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0021354)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0110311
rosa_samantha	Rh1AG296200 Rh2AG497900 Rh2CG484000 Rh6AG081300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	226
AciI	CCGC	2 cut(s)	64, 324
AcuI	CTGAAG	1 cut(s)	84
AcyI	GRCGYC	1 cut(s)	223
AfaI	GTAC	1 cut(s)	49
AflIII	ACRYGT	1 cut(s)	154
AjnI	CCWGG	1 cut(s)	256
AloI	GAACNNNNNNTCC	2 cut(s)	144, 176
AluBI	AGCT	2 cut(s)	128, 374
AluI	AGCT	2 cut(s)	128, 374
AoxI	GGCC	1 cut(s)	254
ApeKI	GCWGC	2 cut(s)	371, 374
ArsI	GACNNNNNNTTYG	2 cut(s)	144, 176
AspS9I	GGNCC	1 cut(s)	198
AvaII	GGWCC	1 cut(s)	198
BbvI	GCAGC	1 cut(s)	361
BccI	CCATC	3 cut(s)	91, 187, 238
BciT130I	CCWGG	1 cut(s)	258
BciVI	GTATCC	1 cut(s)	21
BclI	TGATCA	1 cut(s)	355
BfaI	CTAG	3 cut(s)	116, 227, 351
BfuI	GTATCC	1 cut(s)	21
BisI	GCNGC	3 cut(s)	64, 372, 375
BlsI	GCNGC	3 cut(s)	65, 373, 376
Bme1390I	CCNGG	1 cut(s)	258
Bme18I	GGWCC	1 cut(s)	198
BmgT120I	GGNCC	1 cut(s)	198
BmiI	GGNNCC	2 cut(s)	199, 200
BmrFI	CCNGG	1 cut(s)	258
BmrI	ACTGGG	1 cut(s)	324
BmsI	GCATC	1 cut(s)	99
BmuI	ACTGGG	1 cut(s)	324
BoxI	GACNNNNGTC	1 cut(s)	203
BsaBI	GATNNNNATC	1 cut(s)	282
BsaHI	GRCGYC	1 cut(s)	223
Bse1I	ACTGG	3 cut(s)	15, 38, 319
Bse8I	GATNNNNATC	1 cut(s)	282
BseBI	CCWGG	1 cut(s)	258
BseGI	GGATG	1 cut(s)	291
BseJI	GATNNNNATC	1 cut(s)	282
BseMII	CTCAG	1 cut(s)	70
BseNI	ACTGG	3 cut(s)	15, 38, 319
BseXI	GCAGC	1 cut(s)	361
BsgI	GTGCAG	1 cut(s)	272
BshFI	GGCC	1 cut(s)	256
BslFI	GGGAC	1 cut(s)	211
BsmFI	GGGAC	1 cut(s)	211
BsnI	GGCC	1 cut(s)	256
Bsp143I	GATC	2 cut(s)	283, 355
BspACI	CCGC	2 cut(s)	64, 324
BspANI	GGCC	1 cut(s)	256
BspCNI	CTCAG	1 cut(s)	69
BspHI	TCATGA	1 cut(s)	358
BspLI	GGNNCC	2 cut(s)	199, 200
BsrI	ACTGG	3 cut(s)	15, 38, 319
BssMI	GATC	2 cut(s)	283, 355
BssNI	GRCGYC	1 cut(s)	223
Bst2UI	CCWGG	1 cut(s)	258
Bst4CI	ACNGT	1 cut(s)	177
BstACI	GRCGYC	1 cut(s)	223
BstC8I	GCNNGC	1 cut(s)	68
BstDEI	CTNAG	1 cut(s)	56
BstF5I	GGATG	1 cut(s)	291
BstKTI	GATC	2 cut(s)	286, 358
BstMBI	GATC	2 cut(s)	283, 355
BstNI	CCWGG	1 cut(s)	258
BstNSI	RCATGY	1 cut(s)	158
BstPAI	GACNNNNGTC	1 cut(s)	203
BstSCI	CCNGG	1 cut(s)	256
BstV1I	GCAGC	1 cut(s)	361
BsuI	GTATCC	1 cut(s)	21
BsuRI	GGCC	1 cut(s)	256
BtsCI	GGATG	1 cut(s)	291
BtsIMutI	CAGTG	2 cut(s)	31, 173
Cac8I	GCNNGC	1 cut(s)	68
CciI	TCATGA	1 cut(s)	358
Cfr13I	GGNCC	1 cut(s)	198
Csp6I	GTAC	1 cut(s)	48
CviAII	CATG	4 cut(s)	77, 155, 203, 359
CviJI	RGCY	6 cut(s)	37, 63, 82, 128, 256, 374
CviKI_1	RGCY	6 cut(s)	37, 63, 82, 128, 256, 374
CviQI	GTAC	1 cut(s)	48
DdeI	CTNAG	1 cut(s)	56
DpnI	GATC	2 cut(s)	285, 357
DpnII	GATC	2 cut(s)	283, 355
Eco47I	GGWCC	1 cut(s)	198
Eco57I	CTGAAG	1 cut(s)	84
EcoO109I	RGGNCCY	1 cut(s)	198
EcoRII	CCWGG	1 cut(s)	256
FaeI	CATG	4 cut(s)	80, 158, 206, 362
FaqI	GGGAC	1 cut(s)	211
FatI	CATG	4 cut(s)	76, 154, 202, 358
FbaI	TGATCA	1 cut(s)	355
Fnu4HI	GCNGC	3 cut(s)	64, 372, 375
FokI	GGATG	1 cut(s)	278
Fsp4HI	GCNGC	3 cut(s)	64, 372, 375
FspBI	CTAG	3 cut(s)	116, 227, 351
GluI	GCNGC	3 cut(s)	64, 372, 375
HaeIII	GGCC	1 cut(s)	256
Hin1I	GRCGYC	1 cut(s)	223
Hin1II	CATG	4 cut(s)	80, 158, 206, 362
Hpy188I	TCNGA	2 cut(s)	22, 59
Hpy188III	TCNNGA	2 cut(s)	227, 359
HpyCH4III	ACNGT	1 cut(s)	177
HpyCH4IV	ACGT	1 cut(s)	223
HpyCH4V	TGCA	3 cut(s)	148, 183, 289
HpyF3I	CTNAG	1 cut(s)	56
HpySE526I	ACGT	1 cut(s)	223
Hsp92I	GRCGYC	1 cut(s)	223
Hsp92II	CATG	4 cut(s)	80, 158, 206, 362
KflI	GGGWCCC	1 cut(s)	198
Ksp22I	TGATCA	1 cut(s)	355
Kzo9I	GATC	2 cut(s)	283, 355
LpnPI	CCDG	7 cut(s)	19, 28, 87, 243, 270, 300, 308
Lsp1109I	GCAGC	1 cut(s)	361
LweI	GCATC	1 cut(s)	99
MaeI	CTAG	3 cut(s)	116, 227, 351
MaeII	ACGT	1 cut(s)	223
MaeIII	GTNAC	1 cut(s)	3
MalI	GATC	2 cut(s)	285, 357
MboI	GATC	2 cut(s)	283, 355
MboII	GAAGA	2 cut(s)	85, 224
MluCI	AATT	2 cut(s)	119, 272
MmeI	TCCRAC	1 cut(s)	160
MnlI	CCTC	2 cut(s)	65, 320
MspA1I	CMGCKG	1 cut(s)	374
MspR9I	CCNGG	1 cut(s)	258
MvaI	CCWGG	1 cut(s)	258
NdeII	GATC	2 cut(s)	283, 355
NlaIII	CATG	4 cut(s)	80, 158, 206, 362
NlaIV	GGNNCC	2 cut(s)	199, 200
NmuCI	GTSAC	1 cut(s)	3
NspI	RCATGY	1 cut(s)	158
PagI	TCATGA	1 cut(s)	358
PciI	ACATGT	1 cut(s)	154
PflFI	GACNNNGTC	1 cut(s)	346
PkrI	GCNGC	3 cut(s)	65, 373, 376
PpuMI	RGGWCCY	1 cut(s)	198
PscI	ACATGT	1 cut(s)	154
PshAI	GACNNNNGTC	1 cut(s)	203
Psp5II	RGGWCCY	1 cut(s)	198
Psp6I	CCWGG	1 cut(s)	256
PspGI	CCWGG	1 cut(s)	256
PspN4I	GGNNCC	2 cut(s)	199, 200
PspPI	GGNCC	1 cut(s)	198
PspPPI	RGGWCCY	1 cut(s)	198
PsyI	GACNNNGTC	1 cut(s)	346
PvuII	CAGCTG	1 cut(s)	374
RsaI	GTAC	1 cut(s)	49
RsaNI	GTAC	1 cut(s)	48
SatI	GCNGC	3 cut(s)	64, 372, 375
Sau3AI	GATC	2 cut(s)	283, 355
Sau96I	GGNCC	1 cut(s)	198
ScrFI	CCNGG	1 cut(s)	258
SetI	ASST	4 cut(s)	130, 144, 226, 376
SfaNI	GCATC	1 cut(s)	99
SinI	GGWCC	1 cut(s)	198
Sse9I	AATT	2 cut(s)	119, 272
SsiI	CCGC	2 cut(s)	64, 324
SspMI	CTAG	3 cut(s)	116, 227, 351
StyD4I	CCNGG	1 cut(s)	256
TaaI	ACNGT	1 cut(s)	177
TaiI	ACGT	1 cut(s)	226
TaqI	TCGA	2 cut(s)	86, 379
TasI	AATT	2 cut(s)	119, 272
TatI	WGTACW	1 cut(s)	47
TauI	GCSGC	1 cut(s)	66
TscAI	CASTG	2 cut(s)	38, 180
TseFI	GTSAC	1 cut(s)	3
TseI	GCWGC	2 cut(s)	371, 374
Tsp45I	GTSAC	1 cut(s)	3
TspDTI	ATGAA	1 cut(s)	375
TspRI	CASTG	2 cut(s)	38, 180
Tth111I	GACNNNGTC	1 cut(s)	346
VpaK11BI	GGWCC	1 cut(s)	198
XbaI	TCTAGA	1 cut(s)	226
XceI	RCATGY	1 cut(s)	158
XspI	CTAG	3 cut(s)	116, 227, 351
ZraI	GACGTC	1 cut(s)	224

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