Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0019856

Physical Location & Seq

Genomic Coordinates Forward (+)

60283950 .. 60285210

Gene Structure 1261 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG328800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 348 bp

ATGGAGGAAATGTTGATATTAAGAACAGGGGATAATTTTAGCATTATTGTTTACATTTGTTCTTTGAAGGAAATTTTCAATGTTGTTATTCCCCAAGCCACACAGATTTTTGTTAATGGCTGTTGGGTTGGCATACATTGTTATCCTGAAATGTTGGTGAGAACATTAAGGAAGCTAAGGCGGGTGGATGTCAATATTGAAGTTGGGGCCGTAAGAGATATCCATCTGAAAGAATTGCGGATATATACCGATTATAGTCGTTGCAGTCGTCCATTATTCATTGTGGACAAGCAAAGGCTGCTTATAAAGAAGAAAGATATTCATGCATTGCAGCAGAGGATGAGCTAG

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

115

Amino Acids

13.58

Weight (kDa)

9.38

Isoelectric Point (pI)

43.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb2_4	PF04566	36 - 96	2.7e-19	RNA polymerase Rpb2, domain 4

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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)	305
AciI	CCGC	2 cut(s)	181, 238
AcsI	RAATTY	1 cut(s)	72
AgsI	TTSAA	3 cut(s)	67, 79, 200
AluBI	AGCT	2 cut(s)	175, 345
AluI	AGCT	2 cut(s)	175, 345
AoxI	GGCC	1 cut(s)	207
ApeKI	GCWGC	2 cut(s)	298, 331
ApoI	RAATTY	1 cut(s)	72
AspS9I	GGNCC	1 cut(s)	207
AsuHPI	GGTGA	1 cut(s)	169
BbvI	GCAGC	2 cut(s)	285, 343
BccI	CCATC	1 cut(s)	231
BceAI	ACGGC	1 cut(s)	194
BfaI	CTAG	1 cut(s)	346
BisI	GCNGC	2 cut(s)	299, 332
BlsI	GCNGC	2 cut(s)	300, 333
BmgT120I	GGNCC	1 cut(s)	207
BmiI	GGNNCC	1 cut(s)	208
Bpu10I	CCTNAGC	1 cut(s)	176
BsaBI	GATNNNNATC	1 cut(s)	222
BsaXI	ACNNNNNCTCC	1 cut(s)	26
Bse3DI	GCAATG	1 cut(s)	326
Bse8I	GATNNNNATC	1 cut(s)	222
BseGI	GGATG	2 cut(s)	193, 345
BseJI	GATNNNNATC	1 cut(s)	222
BseMI	GCAATG	1 cut(s)	326
BseXI	GCAGC	2 cut(s)	285, 343
BshFI	GGCC	1 cut(s)	209
BsnI	GGCC	1 cut(s)	209
BspACI	CCGC	2 cut(s)	181, 238
BspANI	GGCC	1 cut(s)	209
BspLI	GGNNCC	1 cut(s)	208
BsrDI	GCAATG	1 cut(s)	326
BstAPI	GCANNNNNTGC	1 cut(s)	298
BstDEI	CTNAG	1 cut(s)	176
BstF5I	GGATG	2 cut(s)	193, 345
BstMWI	GCNNNNNNNGC	1 cut(s)	298
BstV1I	GCAGC	2 cut(s)	285, 343
BsuRI	GGCC	1 cut(s)	209
BtsCI	GGATG	2 cut(s)	193, 345
Cfr13I	GGNCC	1 cut(s)	207
CviAII	CATG	1 cut(s)	323
CviJI	RGCY	6 cut(s)	98, 120, 175, 209, 298, 345
CviKI_1	RGCY	6 cut(s)	98, 120, 175, 209, 298, 345
DdeI	CTNAG	1 cut(s)	176
Eco32I	GATATC	1 cut(s)	220
EcoRV	GATATC	1 cut(s)	220
EcoT22I	ATGCAT	1 cut(s)	328
FaeI	CATG	1 cut(s)	326
FaiI	YATR	6 cut(s)	134, 244, 246, 255, 305, 324
FatI	CATG	1 cut(s)	322
FauI	CCCGC	1 cut(s)	174
Fnu4HI	GCNGC	2 cut(s)	299, 332
FokI	GGATG	1 cut(s)	200
Fsp4HI	GCNGC	2 cut(s)	299, 332
FspBI	CTAG	1 cut(s)	346
GluI	GCNGC	2 cut(s)	299, 332
HaeIII	GGCC	1 cut(s)	209
Hin1II	CATG	1 cut(s)	326
HphI	GGTGA	1 cut(s)	169
Hpy166II	GTNNAC	2 cut(s)	52, 286
Hpy188I	TCNGA	1 cut(s)	228
Hpy188III	TCNNGA	1 cut(s)	146
Hpy8I	GTNNAC	2 cut(s)	52, 286
HpyAV	CCTTC	1 cut(s)	61
HpyCH4V	TGCA	3 cut(s)	264, 326, 331
HpyF10VI	GCNNNNNNNGC	1 cut(s)	298
HpyF3I	CTNAG	1 cut(s)	176
Hsp92II	CATG	1 cut(s)	326
LpnPI	CCDG	2 cut(s)	12, 159
Lsp1109I	GCAGC	2 cut(s)	285, 343
MaeI	CTAG	1 cut(s)	346
MboII	GAAGA	1 cut(s)	322
MluCI	AATT	3 cut(s)	34, 72, 233
MnlI	CCTC	1 cut(s)	330
Mph1103I	ATGCAT	1 cut(s)	328
MseI	TTAA	3 cut(s)	20, 114, 167
MwoI	GCNNNNNNNGC	1 cut(s)	298
NlaIII	CATG	1 cut(s)	326
NlaIV	GGNNCC	1 cut(s)	208
NsiI	ATGCAT	1 cut(s)	328
PcsI	WCGNNNNNNNCGW	1 cut(s)	265
PkrI	GCNGC	2 cut(s)	300, 333
PsiI	TTATAA	1 cut(s)	305
PspN4I	GGNNCC	1 cut(s)	208
PspPI	GGNCC	1 cut(s)	207
SaqAI	TTAA	3 cut(s)	20, 114, 167
SatI	GCNGC	2 cut(s)	299, 332
Sau96I	GGNCC	1 cut(s)	207
SetI	ASST	2 cut(s)	177, 347
SgeI	CNNG	6 cut(s)	39, 107, 158, 194, 301, 335
Sse9I	AATT	3 cut(s)	34, 72, 233
SsiI	CCGC	2 cut(s)	181, 238
SspI	AATATT	1 cut(s)	196
SspMI	CTAG	1 cut(s)	346
TasI	AATT	3 cut(s)	34, 72, 233
Tru1I	TTAA	3 cut(s)	20, 114, 167
Tru9I	TTAA	3 cut(s)	20, 114, 167
TseI	GCWGC	2 cut(s)	298, 331
TspDTI	ATGAA	2 cut(s)	268, 311
XapI	RAATTY	1 cut(s)	72
XspI	CTAG	1 cut(s)	346
Zsp2I	ATGCAT	1 cut(s)	328

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