Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7C

Orthogroup ID

OG0004335

Physical Location & Seq

Genomic Coordinates Forward (+)

34677932 .. 34678228

Gene Structure 297 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7CG321200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 297 bp

ATGGAGGGGAAATCGTACCAGAGGTTCCCTCGGGTGAAAATCCCTGAAATCAGGCACGATTACCTCAAGTTCAAGCTCCGCGACACCGACGGGAGAGTGGCCAACCGGCTCAGGCGCATGATGCTAGCCGAGGTCCCGACCGTCTCTATCGACCTCGTCGAGATCGGAATCAACTCCTCCGTCCTCAAAGACGAGTTCGTCGCCCACCGCCTCGGCCTCATCCCCTTGACCAACGATCGTGCCATGAGCTTGCGCTTCTCACGTGACTGCGATGCTTGCAACGGTGACGGCCAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000418 GO:0000419 GO:0000428 GO:0003002 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005730 GO:0005737 GO:0007275 GO:0007389 GO:0008150 GO:0009791 GO:0009888 GO:0010374 GO:0010375 GO:0016591 GO:0030880 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0048856 GO:0055029 GO:0061695 GO:0070013 GO:0090558 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_A_bac RNA_pol_L

Protein Analysis

98

Amino Acids

11.26

Weight (kDa)

9.13

Isoelectric Point (pI)

33.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_L	PF01193	23 - 52	6.4e-06	RNA polymerase Rpb3/Rpb11 dimerisation domain

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

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Publication-ready

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Orthologous Genes (Group: OG0004335)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G15400 AT2G15400 AT2G15430 AT2G15430 AT2G15430
fragaria_vesca	FvH4_2g05450
malus_domestica	MD05G1087400.v1.1 MD10G1096200.v1.1
prunus_persica	Prupe.8G132000_v2.0.a1 Prupe.8G132000_v2.0.a1 Prupe.8G132400_v2.0.a1
pyrus_communis	pycom05g08690
rosa_chinensis	RchiOBHm_Chr5g0063881 RchiOBHm_Chr6g0255731
rosa_laevigata	RLG00000014818 RLG00000027736
rosa_multiflora	Rmu_sc0009240.1_g000038 Rmu_ssc0000136.1_g000018
rosa_roxburghii	Rroxscaffold_7G00209720
rosa_rugosa	Rorug05G0560800 Rorug06G0006400
rosa_samantha	Rh1DG021100 Rh2DG345600 Rh2DG346900 Rh5CG269200 Rh6AG078900 Rh6BG072000 Rh6CG070100 Rh6DG067300 Rh7AG302700 Rh7CG321200
rosa_wichuraiana	Rw6G006800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	197
AccII	CGCG	1 cut(s)	81
AciI	CCGC	2 cut(s)	79, 208
AcoI	YGGCCR	2 cut(s)	99, 289
AcvI	CACGTG	1 cut(s)	263
AfaI	GTAC	1 cut(s)	17
AgsI	TTSAA	1 cut(s)	73
AluBI	AGCT	2 cut(s)	76, 249
AluI	AGCT	2 cut(s)	76, 249
Alw26I	GTCTC	1 cut(s)	148
Ama87I	CYCGRG	1 cut(s)	30
AoxI	GGCC	3 cut(s)	99, 214, 289
AspLEI	GCGC	2 cut(s)	117, 255
AspS9I	GGNCC	1 cut(s)	133
AsuHPI	GGTGA	2 cut(s)	46, 296
AsuNHI	GCTAGC	1 cut(s)	124
AvaI	CYCGRG	1 cut(s)	30
AvaII	GGWCC	1 cut(s)	133
BalI	TGGCCA	1 cut(s)	101
BbrPI	CACGTG	1 cut(s)	263
BcoDI	GTCTC	1 cut(s)	148
BfaI	CTAG	1 cut(s)	125
Bme18I	GGWCC	1 cut(s)	133
BmeT110I	CYCGRG	1 cut(s)	30
BmgT120I	GGNCC	1 cut(s)	133
BmiI	GGNNCC	2 cut(s)	26, 135
BmsI	GCATC	2 cut(s)	111, 262
BmtI	GCTAGC	1 cut(s)	128
BplI	GAGNNNNNCTC	2 cut(s)	13, 45
Bpu10I	CCTNAGC	1 cut(s)	110
BpuEI	CTTGAG	1 cut(s)	50
BsaAI	YACGTR	1 cut(s)	263
BsaBI	GATNNNNATC	1 cut(s)	167
BsaJI	CCNNGG	3 cut(s)	29, 129, 211
Bse118I	RCCGGY	1 cut(s)	105
Bse1I	ACTGG	1 cut(s)	292
Bse8I	GATNNNNATC	1 cut(s)	167
BseDI	CCNNGG	3 cut(s)	29, 129, 211
BseGI	GGATG	1 cut(s)	219
BseJI	GATNNNNATC	1 cut(s)	167
BseMII	CTCAG	1 cut(s)	124
BseNI	ACTGG	1 cut(s)	292
BseRI	GAGGAG	1 cut(s)	166
Bsh1236I	CGCG	1 cut(s)	81
Bsh1285I	CGRYCG	2 cut(s)	141, 238
BshFI	GGCC	3 cut(s)	101, 216, 291
BsiEI	CGRYCG	2 cut(s)	141, 238
BsiHKCI	CYCGRG	1 cut(s)	30
BsiSI	CCGG	1 cut(s)	106
BslFI	GGGAC	1 cut(s)	119
BsmAI	GTCTC	1 cut(s)	148
BsmBI	CGTCTC	1 cut(s)	148
BsmFI	GGGAC	1 cut(s)	119
BsnI	GGCC	3 cut(s)	101, 216, 291
BsoBI	CYCGRG	1 cut(s)	30
Bsp143I	GATC	2 cut(s)	162, 235
BspACI	CCGC	2 cut(s)	79, 208
BspANI	GGCC	3 cut(s)	101, 216, 291
BspCNI	CTCAG	1 cut(s)	123
BspFNI	CGCG	1 cut(s)	81
BspLI	GGNNCC	2 cut(s)	26, 135
BspOI	GCTAGC	1 cut(s)	128
BsrFI	RCCGGY	1 cut(s)	105
BsrI	ACTGG	1 cut(s)	292
BssAI	RCCGGY	1 cut(s)	105
BssECI	CCNNGG	3 cut(s)	29, 129, 211
BssMI	GATC	2 cut(s)	162, 235
Bst4CI	ACNGT	2 cut(s)	142, 284
BstBAI	YACGTR	1 cut(s)	263
BstC8I	GCNNGC	3 cut(s)	126, 251, 277
BstDEI	CTNAG	1 cut(s)	110
BstF5I	GGATG	1 cut(s)	219
BstFNI	CGCG	1 cut(s)	81
BstHHI	GCGC	2 cut(s)	117, 255
BstKTI	GATC	2 cut(s)	165, 238
BstMAI	GTCTC	1 cut(s)	148
BstMBI	GATC	2 cut(s)	162, 235
BstMCI	CGRYCG	2 cut(s)	141, 238
BstMWI	GCNNNNNNNGC	2 cut(s)	121, 276
BstUI	CGCG	1 cut(s)	81
BsuRI	GGCC	3 cut(s)	101, 216, 291
BtgZI	GCGATG	1 cut(s)	285
BtsCI	GGATG	1 cut(s)	219
Cac8I	GCNNGC	3 cut(s)	126, 251, 277
CfoI	GCGC	2 cut(s)	117, 255
Cfr10I	RCCGGY	1 cut(s)	105
Cfr13I	GGNCC	1 cut(s)	133
Csp6I	GTAC	1 cut(s)	16
CviAII	CATG	2 cut(s)	118, 244
CviJI	RGCY	7 cut(s)	76, 101, 109, 128, 216, 249, 291
CviKI_1	RGCY	7 cut(s)	76, 101, 109, 128, 216, 249, 291
CviQI	GTAC	1 cut(s)	16
DdeI	CTNAG	1 cut(s)	110
DpnI	GATC	2 cut(s)	164, 237
DpnII	GATC	2 cut(s)	162, 235
DrdI	GACNNNNNNGTC	1 cut(s)	197
DseDI	GACNNNNNNGTC	1 cut(s)	197
EaeI	YGGCCR	2 cut(s)	99, 289
Eco47I	GGWCC	1 cut(s)	133
Eco72I	CACGTG	1 cut(s)	263
Eco88I	CYCGRG	1 cut(s)	30
EcoO109I	RGGNCCY	1 cut(s)	133
Esp3I	CGTCTC	1 cut(s)	148
FaeI	CATG	2 cut(s)	121, 247
FaiI	YATR	2 cut(s)	119, 245
FaqI	GGGAC	1 cut(s)	119
FatI	CATG	2 cut(s)	117, 243
FokI	GGATG	1 cut(s)	206
FspBI	CTAG	1 cut(s)	125
GlaI	GCGC	2 cut(s)	116, 254
HaeIII	GGCC	3 cut(s)	101, 216, 291
HapII	CCGG	1 cut(s)	106
HhaI	GCGC	2 cut(s)	117, 255
Hin1II	CATG	2 cut(s)	121, 247
Hin6I	GCGC	2 cut(s)	115, 253
HinP1I	GCGC	2 cut(s)	115, 253
HinfI	GANTC	1 cut(s)	168
HpaII	CCGG	1 cut(s)	106
HphI	GGTGA	2 cut(s)	46, 296
Hpy188I	TCNGA	1 cut(s)	167
Hpy188III	TCNNGA	2 cut(s)	136, 160
Hpy99I	CGWCG	3 cut(s)	92, 161, 203
HpyCH4III	ACNGT	2 cut(s)	142, 284
HpyCH4IV	ACGT	1 cut(s)	262
HpyCH4V	TGCA	1 cut(s)	279
HpyF10VI	GCNNNNNNNGC	2 cut(s)	121, 276
HpyF3I	CTNAG	1 cut(s)	110
HpySE526I	ACGT	1 cut(s)	262
Hsp92II	CATG	2 cut(s)	121, 247
HspAI	GCGC	2 cut(s)	115, 253
Kzo9I	GATC	2 cut(s)	162, 235
LmnI	GCTCC	1 cut(s)	81
LpnPI	CCDG	5 cut(s)	32, 37, 57, 97, 119
LweI	GCATC	2 cut(s)	111, 262
MaeI	CTAG	1 cut(s)	125
MaeII	ACGT	1 cut(s)	262
MaeIII	GTNAC	2 cut(s)	263, 284
MalI	GATC	2 cut(s)	164, 237
MboI	GATC	2 cut(s)	162, 235
MlsI	TGGCCA	1 cut(s)	101
MluNI	TGGCCA	1 cut(s)	101
MnlI	CCTC	9 cut(s)	15, 39, 74, 124, 164, 187, 194, 221, 227
Mox20I	TGGCCA	1 cut(s)	101
MscI	TGGCCA	1 cut(s)	101
Msp20I	TGGCCA	1 cut(s)	101
MspI	CCGG	1 cut(s)	106
MvnI	CGCG	1 cut(s)	81
MwoI	GCNNNNNNNGC	2 cut(s)	121, 276
NdeII	GATC	2 cut(s)	162, 235
NheI	GCTAGC	1 cut(s)	124
NlaIII	CATG	2 cut(s)	121, 247
NlaIV	GGNNCC	2 cut(s)	26, 135
NmeAIII	GCCGAG	2 cut(s)	154, 192
NmuCI	GTSAC	2 cut(s)	263, 284
PcsI	WCGNNNNNNNCGW	1 cut(s)	156
PfeI	GAWTC	1 cut(s)	168
PflFI	GACNNNGTC	1 cut(s)	155
Ple19I	CGATCG	1 cut(s)	238
PmaCI	CACGTG	1 cut(s)	263
PmlI	CACGTG	1 cut(s)	263
Ppu21I	YACGTR	1 cut(s)	263
PpuMI	RGGWCCY	1 cut(s)	133
Psp5II	RGGWCCY	1 cut(s)	133
PspCI	CACGTG	1 cut(s)	263
PspN4I	GGNNCC	2 cut(s)	26, 135
PspPI	GGNCC	1 cut(s)	133
PspPPI	RGGWCCY	1 cut(s)	133
PsrI	GAACNNNNNNTAC	2 cut(s)	8, 40
PsyI	GACNNNGTC	1 cut(s)	155
PvuI	CGATCG	1 cut(s)	238
RsaI	GTAC	1 cut(s)	17
RsaNI	GTAC	1 cut(s)	16
Sau3AI	GATC	2 cut(s)	162, 235
Sau96I	GGNCC	1 cut(s)	133
SetI	ASST	7 cut(s)	26, 66, 78, 135, 156, 251, 265
SfaNI	GCATC	2 cut(s)	111, 262
SinI	GGWCC	1 cut(s)	133
SmlI	CTYRAG	1 cut(s)	65
SmoI	CTYRAG	1 cut(s)	65
SsiI	CCGC	2 cut(s)	79, 208
SspMI	CTAG	1 cut(s)	125
TaaI	ACNGT	2 cut(s)	142, 284
TaiI	ACGT	1 cut(s)	265
TaqI	TCGA	2 cut(s)	150, 159
TfiI	GAWTC	1 cut(s)	168
TseFI	GTSAC	2 cut(s)	263, 284
Tsp45I	GTSAC	2 cut(s)	263, 284
TspGWI	ACGGA	1 cut(s)	169
Tth111I	GACNNNGTC	1 cut(s)	155
VpaK11BI	GGWCC	1 cut(s)	133
XspI	CTAG	1 cut(s)	125

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