Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0004622

Physical Location & Seq

Genomic Coordinates Reverse (-)

37180588 .. 37193049

Gene Structure 12462 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG354800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 216 bp

ATGGGTTTCATCTTTTATCGGTCTGGGCGTGGATGTATTTCTGTACAAACGTCGGATGCTGGATATCTTACACGCAAACTTATTGAAATAGTTCAACACATTGTTGTACCTAGAACAGATTATGGCACCGTCCGAGGTATTTCTGTGAGTCCTGGAAATGGGATGATGTCGGAAAGAATTTTTATCCAAACATTGATTGGCCGTGTATTTGAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009536 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

RNA_pol_Rpb1_4 RNA_pol_Rpb1_5

Protein Analysis

71

Amino Acids

7.93

Weight (kDa)

9.62

Isoelectric Point (pI)

35.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb1_5	PF04998	14 - 50	3.5e-06	RNA polymerase Rpb1, domain 5

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0004622)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATCG00170
malus_domestica	MD01G1014400.v1.1
pyrus_communis	pycom12397g00020 pycom12397g00340
rosa_chinensis	RchiOBHm_Chr4g0421201
rosa_laevigata	RLG00000000048 RLG00000000088 RLG00000000117 RLG00000000174 RLG00000000232 RLG00000000233 RLG00000000247 RLG00000000283 RLG00000000313 RLG00000000317 RLG00000000339
rosa_multiflora	Rmu_sc0001741.1_g000011
rosa_roxburghii	Rroxscaffold_2G00119090 Rroxscaffold_2G00119100
rosa_rugosa	RorugMtG0001800
rosa_samantha	Rh2AG294100 Rh2AG294200 Rh2DG057700 Rh2DG318000 Rh2DG318100 Rh4CG233400 Rh4CG244200 Rh7BG354800 Rh7CG382200
rosa_wichuraiana	Rw4G006960 Rw4G006970

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	125
AcoI	YGGCCR	1 cut(s)	199
AcsI	RAATTY	1 cut(s)	177
AfaI	GTAC	2 cut(s)	45, 108
AfiI	CCNNNNNNNGG	1 cut(s)	158
AgsI	TTSAA	3 cut(s)	86, 95, 212
AjnI	CCWGG	1 cut(s)	151
AoxI	GGCC	1 cut(s)	199
ApoI	RAATTY	1 cut(s)	177
Asp700I	GAANNNNTTC	1 cut(s)	90
BanI	GGYRCC	1 cut(s)	125
BceAI	ACGGC	1 cut(s)	186
BciT130I	CCWGG	1 cut(s)	153
BfaI	CTAG	1 cut(s)	111
Bme1390I	CCNGG	1 cut(s)	153
BmiI	GGNNCC	1 cut(s)	127
BmrFI	CCNGG	1 cut(s)	153
BmsI	GCATC	1 cut(s)	46
BsaJI	CCNNGG	1 cut(s)	133
Bsc4I	CCNNNNNNNGG	1 cut(s)	158
BseBI	CCWGG	1 cut(s)	153
BseDI	CCNNGG	1 cut(s)	133
BseGI	GGATG	3 cut(s)	38, 61, 168
BseLI	CCNNNNNNNGG	1 cut(s)	158
BshFI	GGCC	1 cut(s)	201
BshNI	GGYRCC	1 cut(s)	125
BslI	CCNNNNNNNGG	1 cut(s)	158
BsnI	GGCC	1 cut(s)	201
Bsp1407I	TGTACA	1 cut(s)	43
BspANI	GGCC	1 cut(s)	201
BspLI	GGNNCC	1 cut(s)	127
BspT107I	GGYRCC	1 cut(s)	125
BsrGI	TGTACA	1 cut(s)	43
BssECI	CCNNGG	1 cut(s)	133
Bst2UI	CCWGG	1 cut(s)	153
Bst4CI	ACNGT	1 cut(s)	130
BstAUI	TGTACA	1 cut(s)	43
BstF5I	GGATG	3 cut(s)	38, 61, 168
BstNI	CCWGG	1 cut(s)	153
BstSCI	CCNGG	1 cut(s)	151
BsuRI	GGCC	1 cut(s)	201
BtsCI	GGATG	3 cut(s)	38, 61, 168
Csp6I	GTAC	2 cut(s)	44, 107
CviJI	RGCY	1 cut(s)	201
CviKI_1	RGCY	1 cut(s)	201
CviQI	GTAC	2 cut(s)	44, 107
EaeI	YGGCCR	1 cut(s)	199
Eco32I	GATATC	1 cut(s)	65
EcoRII	CCWGG	1 cut(s)	151
EcoRV	GATATC	1 cut(s)	65
FaiI	YATR	1 cut(s)	123
FokI	GGATG	3 cut(s)	45, 68, 175
FspBI	CTAG	1 cut(s)	111
HaeIII	GGCC	1 cut(s)	201
HinfI	GANTC	1 cut(s)	148
Hpy188I	TCNGA	3 cut(s)	55, 134, 172
Hpy99I	CGWCG	1 cut(s)	55
HpyCH4III	ACNGT	1 cut(s)	130
HpyCH4IV	ACGT	1 cut(s)	50
HpySE526I	ACGT	1 cut(s)	50
LpnPI	CCDG	4 cut(s)	9, 45, 138, 165
LweI	GCATC	1 cut(s)	46
MaeI	CTAG	1 cut(s)	111
MaeII	ACGT	1 cut(s)	50
MluCI	AATT	1 cut(s)	177
MlyI	GAGTC	1 cut(s)	157
MmeI	TCCRAC	2 cut(s)	33, 150
MnlI	CCTC	1 cut(s)	128
MroXI	GAANNNNTTC	1 cut(s)	90
MspR9I	CCNGG	1 cut(s)	153
MvaI	CCWGG	1 cut(s)	153
NlaIV	GGNNCC	1 cut(s)	127
PcsI	WCGNNNNNNNCGW	1 cut(s)	25
PdmI	GAANNNNTTC	1 cut(s)	90
PfoI	TCCNGGA	1 cut(s)	151
PleI	GAGTC	1 cut(s)	156
PpsI	GAGTC	1 cut(s)	156
Psp6I	CCWGG	1 cut(s)	151
PspGI	CCWGG	1 cut(s)	151
PspN4I	GGNNCC	1 cut(s)	127
RsaI	GTAC	2 cut(s)	45, 108
RsaNI	GTAC	2 cut(s)	44, 107
SchI	GAGTC	1 cut(s)	157
ScrFI	CCNGG	1 cut(s)	153
SetI	ASST	3 cut(s)	53, 112, 139
SfaNI	GCATC	1 cut(s)	46
SgeI	CNNG	8 cut(s)	36, 41, 72, 84, 123, 146, 164, 165
Sse9I	AATT	1 cut(s)	177
SspMI	CTAG	1 cut(s)	111
StyD4I	CCNGG	1 cut(s)	151
TaaI	ACNGT	1 cut(s)	130
TaiI	ACGT	1 cut(s)	53
TaqII	GACCGA	1 cut(s)	9
TasI	AATT	1 cut(s)	177
TatI	WGTACW	1 cut(s)	43
XapI	RAATTY	1 cut(s)	177
XcmI	CCANNNNNNNNNTGG	1 cut(s)	194
XmnI	GAANNNNTTC	1 cut(s)	90
XspI	CTAG	1 cut(s)	111

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