Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0019856

Physical Location & Seq

Genomic Coordinates Forward (+)

35145265 .. 35146842

Gene Structure 1578 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG301100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 402 bp

ATGATGTGTCCCGCTGAGACACTTGAAGGGCAGCAAAGCATTGATGGTCTACATAACTGTGGGATCAGCTGCATATCCAATCTTAGAATTTTTAGAAGAACGAGGATTTTTTTCCCTACTGTTATTCCCCAAGCCACACAGATTTTTGTTAATGGCTGCTGGGTAATTGGCATACATCGTGATCCTGAAATGTTGGTGAGAACATTAAGGAAGCTAAGGCGGGATCTTGTACAAGCAAGGCTCAATCCTGAGGAGGCAAATTCTGACACTTATGCTCATTGCAAAATTCACTCGTCACTTATATTGAGTGTTTGTGCTTCAATTATACCATTTCCTGATCATAATCAGGATACACTGGCTTATGTTCTGTACTACCCTCAGAAGCTGCTTGTCACTACATGA

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

133

Amino Acids

15.17

Weight (kDa)

8.27

Isoelectric Point (pI)

49.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb2_4	PF04566	48 - 75	9.3e-07	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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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)
AccI	GTMKAC	1 cut(s)	49
AciI	CCGC	2 cut(s)	12, 220
AclWI	GGATC	3 cut(s)	71, 176, 231
AcsI	RAATTY	3 cut(s)	87, 259, 285
AfaI	GTAC	2 cut(s)	231, 371
AgsI	TTSAA	2 cut(s)	26, 321
AluBI	AGCT	3 cut(s)	69, 214, 385
AluI	AGCT	3 cut(s)	69, 214, 385
Alw26I	GTCTC	1 cut(s)	11
AlwI	GGATC	3 cut(s)	71, 176, 231
AlwNI	CAGNNNCTG	1 cut(s)	385
ApeKI	GCWGC	4 cut(s)	31, 69, 156, 385
ApoI	RAATTY	3 cut(s)	87, 259, 285
AsuHPI	GGTGA	1 cut(s)	208
AxyI	CCTNAGG	1 cut(s)	249
BbvI	GCAGC	4 cut(s)	43, 56, 143, 372
BccI	CCATC	1 cut(s)	38
BciVI	GTATCC	1 cut(s)	343
BclI	TGATCA	1 cut(s)	337
BcoDI	GTCTC	1 cut(s)	11
BfuI	GTATCC	1 cut(s)	343
BisI	GCNGC	4 cut(s)	32, 70, 157, 386
BlsI	GCNGC	4 cut(s)	33, 71, 158, 387
Bpu10I	CCTNAGC	1 cut(s)	215
BsaBI	GATNNNNATC	1 cut(s)	342
Bse1I	ACTGG	1 cut(s)	360
Bse21I	CCTNAGG	1 cut(s)	249
Bse3DI	GCAATG	1 cut(s)	277
Bse8I	GATNNNNATC	1 cut(s)	342
BseJI	GATNNNNATC	1 cut(s)	342
BseMI	GCAATG	1 cut(s)	277
BseMII	CTCAG	3 cut(s)	6, 240, 392
BseNI	ACTGG	1 cut(s)	360
BseRI	GAGGAG	1 cut(s)	266
BseXI	GCAGC	4 cut(s)	43, 56, 143, 372
BseYI	CCCAGC	1 cut(s)	159
BsmAI	GTCTC	1 cut(s)	11
Bsp1407I	TGTACA	1 cut(s)	229
Bsp143I	GATC	4 cut(s)	63, 181, 223, 337
BspACI	CCGC	2 cut(s)	12, 220
BspCNI	CTCAG	3 cut(s)	7, 241, 391
BspPI	GGATC	3 cut(s)	71, 176, 231
BsrDI	GCAATG	1 cut(s)	277
BsrGI	TGTACA	1 cut(s)	229
BsrI	ACTGG	1 cut(s)	360
BssMI	GATC	4 cut(s)	63, 181, 223, 337
Bst4CI	ACNGT	2 cut(s)	59, 121
BstAUI	TGTACA	1 cut(s)	229
BstDEI	CTNAG	5 cut(s)	15, 83, 215, 249, 378
BstKTI	GATC	4 cut(s)	66, 184, 226, 340
BstMAI	GTCTC	1 cut(s)	11
BstMBI	GATC	4 cut(s)	63, 181, 223, 337
BstV1I	GCAGC	4 cut(s)	43, 56, 143, 372
BstX2I	RGATCY	1 cut(s)	223
BstYI	RGATCY	1 cut(s)	223
Bsu36I	CCTNAGG	1 cut(s)	249
BsuI	GTATCC	1 cut(s)	343
BtsIMutI	CAGTG	1 cut(s)	353
CaiI	CAGNNNCTG	1 cut(s)	385
Csp6I	GTAC	2 cut(s)	230, 370
CviAII	CATG	1 cut(s)	399
CviJI	RGCY	7 cut(s)	69, 134, 156, 214, 241, 359, 385
CviKI_1	RGCY	7 cut(s)	69, 134, 156, 214, 241, 359, 385
CviQI	GTAC	2 cut(s)	230, 370
DdeI	CTNAG	5 cut(s)	15, 83, 215, 249, 378
DpnI	GATC	4 cut(s)	65, 183, 225, 339
DpnII	GATC	4 cut(s)	63, 181, 223, 337
Eco81I	CCTNAGG	1 cut(s)	249
FaeI	CATG	1 cut(s)	402
FaiI	YATR	9 cut(s)	54, 74, 173, 273, 302, 326, 342, 363, 400
FatI	CATG	1 cut(s)	398
FauI	CCCGC	2 cut(s)	19, 213
FbaI	TGATCA	1 cut(s)	337
FblI	GTMKAC	1 cut(s)	49
Fnu4HI	GCNGC	4 cut(s)	32, 70, 157, 386
Fsp4HI	GCNGC	4 cut(s)	32, 70, 157, 386
GluI	GCNGC	4 cut(s)	32, 70, 157, 386
GsaI	CCCAGC	1 cut(s)	163
Hin1II	CATG	1 cut(s)	402
HphI	GGTGA	1 cut(s)	208
Hpy166II	GTNNAC	1 cut(s)	50
Hpy188I	TCNGA	2 cut(s)	265, 381
Hpy188III	TCNNGA	5 cut(s)	179, 185, 248, 335, 347
Hpy8I	GTNNAC	1 cut(s)	50
HpyAV	CCTTC	1 cut(s)	20
HpyCH4III	ACNGT	2 cut(s)	59, 121
HpyCH4V	TGCA	2 cut(s)	72, 282
HpyF3I	CTNAG	5 cut(s)	15, 83, 215, 249, 378
Hsp92II	CATG	1 cut(s)	402
Ksp22I	TGATCA	1 cut(s)	337
Kzo9I	GATC	4 cut(s)	63, 181, 223, 337
LpnPI	CCDG	6 cut(s)	145, 198, 261, 332, 341, 348
Lsp1109I	GCAGC	4 cut(s)	43, 56, 143, 372
MaeIII	GTNAC	2 cut(s)	294, 391
MalI	GATC	4 cut(s)	65, 183, 225, 339
MboI	GATC	4 cut(s)	63, 181, 223, 337
MboII	GAAGA	1 cut(s)	108
MflI	RGATCY	1 cut(s)	223
MluCI	AATT	5 cut(s)	87, 165, 259, 285, 321
MnlI	CCTC	4 cut(s)	96, 244, 247, 387
MseI	TTAA	2 cut(s)	150, 206
MslI	CAYNNNNRTG	1 cut(s)	57
MspA1I	CMGCKG	2 cut(s)	14, 69
NdeII	GATC	4 cut(s)	63, 181, 223, 337
NlaIII	CATG	1 cut(s)	402
NmuCI	GTSAC	2 cut(s)	294, 391
PkrI	GCNGC	4 cut(s)	33, 71, 158, 387
PspFI	CCCAGC	1 cut(s)	159
PstNI	CAGNNNCTG	1 cut(s)	385
PsuI	RGATCY	1 cut(s)	223
PvuII	CAGCTG	1 cut(s)	69
RsaI	GTAC	2 cut(s)	231, 371
RsaNI	GTAC	2 cut(s)	230, 370
RseI	CAYNNNNRTG	1 cut(s)	57
SaqAI	TTAA	2 cut(s)	150, 206
SatI	GCNGC	4 cut(s)	32, 70, 157, 386
Sau3AI	GATC	4 cut(s)	63, 181, 223, 337
SetI	ASST	3 cut(s)	71, 216, 387
SmiMI	CAYNNNNRTG	1 cut(s)	57
Sse9I	AATT	5 cut(s)	87, 165, 259, 285, 321
SsiI	CCGC	2 cut(s)	12, 220
TaaI	ACNGT	2 cut(s)	59, 121
TasI	AATT	5 cut(s)	87, 165, 259, 285, 321
TatI	WGTACW	2 cut(s)	229, 369
Tru1I	TTAA	2 cut(s)	150, 206
Tru9I	TTAA	2 cut(s)	150, 206
TscAI	CASTG	1 cut(s)	360
TseFI	GTSAC	2 cut(s)	294, 391
TseI	GCWGC	4 cut(s)	31, 69, 156, 385
Tsp45I	GTSAC	2 cut(s)	294, 391
TspRI	CASTG	1 cut(s)	360
XapI	RAATTY	3 cut(s)	87, 259, 285
XmiI	GTMKAC	1 cut(s)	49

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