Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0000701

Physical Location & Seq

Genomic Coordinates Forward (+)

38117945 .. 38120892

Gene Structure 2948 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ57222

Sequence Viewer

CDS Protein Promoter (2k)

Length: 402 bp

ATGGGTTCAAAGTACCACTTCGAGATTTCCAGAATTATGAGGCTTTATAGAGCTCGAAAAACAGTGATGCAAATGTTGAAAGATCGGGACTACATAATTTCAGATTGGGATATCAACATTACATTGCCACAGTTTAAGAACAAATATGGAGAGAAAATGAAAAGGGAAGACCTTACTATGAATAGAAAGAAGCGAGGTCACGATTCTGATCAGATGTATGTGTTTTTCCCTGACGAACCAAAAGTTGGGGTCAAGACAATCAAGAATTACATCAAACGGTTGGTTCAGGAGGATACGGACAAAGGCATCGTGGAGGCAGAATTGTTGGTTCAAAAGCATGCTCGGGTTGCAGAGTATCGGGAGGTTAAAAATGAGGTAAAGAAGACTATGCTGGAGAGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000418 GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005666 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006366 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016591 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05016 ko05169 map00230 map00240 map01100 map03020 map04623 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb5_C RNA_pol_Rpb5_N

Protein Analysis

133

Amino Acids

16.09

Weight (kDa)

9.67

Isoelectric Point (pI)

25.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb5_N	PF03871	12 - 93	1.3e-29	RNA polymerase Rpb5, N-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0000701)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22320
fragaria_vesca	FvH4_5g21560 FvH4_7g09301 FvH4_7g09301
malus_domestica	MD02G1080800.v1.1 MD02G1093900.v1.1 MD15G1208600.v1.1
prunus_persica	Prupe.2G121300_v2.0.a1 Prupe.2G121300_v2.0.a1 Prupe.2G121400_v2.0.a1 Prupe.2G121400_v2.0.a1
pyrus_communis	pycom02g06410 pycom02g07430 pycom15g18470
rosa_chinensis	RchiOBHm_Chr1g0332791 RchiOBHm_Chr1g0344101 RchiOBHm_Chr1g0344151 RchiOBHm_Chr1g0344171 RchiOBHm_Chr1g0345361 RchiOBHm_Chr1g0345421 RchiOBHm_Chr1g0345561 RchiOBHm_Chr1g0345591 RchiOBHm_Chr1g0345671 RchiOBHm_Chr1g0345701 RchiOBHm_Chr1g0345711 RchiOBHm_Chr1g0345721 RchiOBHm_Chr1g0345801 RchiOBHm_Chr1g0345851 RchiOBHm_Chr1g0345901 RchiOBHm_Chr1g0345921 RchiOBHm_Chr1g0345931 RchiOBHm_Chr1g0345951 RchiOBHm_Chr1g0345961 RchiOBHm_Chr7g0208981
rosa_laevigata	RLG00000003175 RLG00000029644
rosa_multiflora	Rmu_co8382943.1_g000001 Rmu_sc0000532.1_g000035 Rmu_sc0001292.1_g000003 Rmu_sc0001349.1_g000004 Rmu_sc0001692.1_g000006 Rmu_sc0001692.1_g000027 Rmu_sc0002329.1_g000024 Rmu_sc0002329.1_g000032 Rmu_sc0004239.1_g000023 Rmu_sc0008115.1_g000011
rosa_roxburghii	Rroxscaffold_3G00238160 Rroxscaffold_3G00249920 Rroxscaffold_4G00310020 Rroxscaffold_4G00317980 Rroxscaffold_5G00344600
rosa_rugosa	Rorug01G0103700 Rorug01G0103800 Rorug01G0103900 Rorug01G0171800 Rorug07G0107800
rosa_samantha	Rh1BG097500 Rh1BG161500 Rh1CG122000 Rh1CG173900 Rh1CG180700 Rh1CG181100 Rh1DG133900 Rh1DG191900 Rh7AG242600 Rh7BG237400 Rh7DG249500
rosa_wichuraiana	Rw1G010510 Rw1G016120 Rw1G016200 Rw1G016220 Rw1G016430 Rw1G016490 Rw7G020550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	245
AfaI	GTAC	1 cut(s)	14
AfiI	CCNNNNNNNGG	1 cut(s)	245
AgsI	TTSAA	3 cut(s)	9, 79, 332
AjuI	GAANNNNNNNTTGG	2 cut(s)	228, 260
AluBI	AGCT	1 cut(s)	53
AluI	AGCT	1 cut(s)	53
Alw21I	GWGCWC	1 cut(s)	55
Ama87I	CYCGRG	1 cut(s)	342
AvaI	CYCGRG	1 cut(s)	342
BanII	GRGCYC	1 cut(s)	55
BbsI	GAAGAC	2 cut(s)	174, 389
Bbv12I	GWGCWC	1 cut(s)	55
BciVI	GTATCC	1 cut(s)	286
BclI	TGATCA	1 cut(s)	208
BfuI	GTATCC	1 cut(s)	286
BmeT110I	CYCGRG	1 cut(s)	342
BmsI	GCATC	2 cut(s)	57, 315
BpiI	GAAGAC	2 cut(s)	174, 389
BsaBI	GATNNNNATC	1 cut(s)	207
Bsc4I	CCNNNNNNNGG	1 cut(s)	245
Bse3DI	GCAATG	1 cut(s)	122
Bse8I	GATNNNNATC	1 cut(s)	207
BseJI	GATNNNNATC	1 cut(s)	207
BseLI	CCNNNNNNNGG	1 cut(s)	245
BseMI	GCAATG	1 cut(s)	122
BsiHKAI	GWGCWC	1 cut(s)	55
BsiHKCI	CYCGRG	1 cut(s)	342
BslFI	GGGAC	1 cut(s)	101
BslI	CCNNNNNNNGG	1 cut(s)	245
BsmFI	GGGAC	1 cut(s)	101
BsoBI	CYCGRG	1 cut(s)	342
Bsp1286I	GDGCHC	1 cut(s)	55
Bsp143I	GATC	2 cut(s)	82, 208
BsrDI	GCAATG	1 cut(s)	122
BssMI	GATC	2 cut(s)	82, 208
Bst4CI	ACNGT	3 cut(s)	64, 132, 279
BstC8I	GCNNGC	1 cut(s)	339
BstKTI	GATC	2 cut(s)	85, 211
BstMBI	GATC	2 cut(s)	82, 208
BstMWI	GCNNNNNNNGC	1 cut(s)	347
BstNSI	RCATGY	1 cut(s)	341
BstV2I	GAAGAC	2 cut(s)	174, 389
BsuI	GTATCC	1 cut(s)	286
BtsIMutI	CAGTG	1 cut(s)	69
Cac8I	GCNNGC	1 cut(s)	339
Csp6I	GTAC	1 cut(s)	13
CviAII	CATG	1 cut(s)	338
CviJI	RGCY	2 cut(s)	43, 53
CviKI_1	RGCY	2 cut(s)	43, 53
CviQI	GTAC	1 cut(s)	13
DpnI	GATC	2 cut(s)	84, 210
DpnII	GATC	2 cut(s)	82, 208
Ecl136II	GAGCTC	1 cut(s)	53
Eco24I	GRGCYC	1 cut(s)	55
Eco32I	GATATC	1 cut(s)	112
Eco53kI	GAGCTC	1 cut(s)	53
Eco88I	CYCGRG	1 cut(s)	342
EcoICRI	GAGCTC	1 cut(s)	53
EcoRV	GATATC	1 cut(s)	112
EcoT38I	GRGCYC	1 cut(s)	55
FaeI	CATG	1 cut(s)	341
FaiI	YATR	8 cut(s)	38, 48, 95, 147, 179, 219, 339, 389
FalI	AAGNNNNNCTT	1 cut(s)	34
FaqI	GGGAC	1 cut(s)	101
FatI	CATG	1 cut(s)	337
FbaI	TGATCA	1 cut(s)	208
FriOI	GRGCYC	1 cut(s)	55
Hin1II	CATG	1 cut(s)	341
HinfI	GANTC	1 cut(s)	203
Hpy188I	TCNGA	3 cut(s)	103, 208, 213
Hpy188III	TCNNGA	8 cut(s)	22, 30, 86, 200, 253, 262, 287, 359
HpyCH4III	ACNGT	3 cut(s)	64, 132, 279
HpyCH4V	TGCA	2 cut(s)	70, 350
HpyF10VI	GCNNNNNNNGC	1 cut(s)	347
Hsp92II	CATG	1 cut(s)	341
Ksp22I	TGATCA	1 cut(s)	208
Kzo9I	GATC	2 cut(s)	82, 208
LpnPI	CCDG	4 cut(s)	43, 243, 272, 377
LweI	GCATC	2 cut(s)	57, 315
MaeIII	GTNAC	1 cut(s)	197
MalI	GATC	2 cut(s)	84, 210
MboI	GATC	2 cut(s)	82, 208
MboII	GAAGA	2 cut(s)	179, 394
MhlI	GDGCHC	1 cut(s)	55
MluCI	AATT	4 cut(s)	33, 96, 265, 320
MnlI	CCTC	7 cut(s)	33, 188, 283, 307, 355, 367, 390
MseI	TTAA	2 cut(s)	135, 366
MwoI	GCNNNNNNNGC	1 cut(s)	347
NdeII	GATC	2 cut(s)	82, 208
NlaIII	CATG	1 cut(s)	341
NmuCI	GTSAC	1 cut(s)	197
NspI	RCATGY	1 cut(s)	341
PaeI	GCATGC	1 cut(s)	341
PfeI	GAWTC	1 cut(s)	203
PflMI	CCANNNNNTGG	1 cut(s)	245
Psp124BI	GAGCTC	1 cut(s)	55
RsaI	GTAC	1 cut(s)	14
RsaNI	GTAC	1 cut(s)	13
SacI	GAGCTC	1 cut(s)	55
SaqAI	TTAA	2 cut(s)	135, 366
Sau3AI	GATC	2 cut(s)	82, 208
SduI	GDGCHC	1 cut(s)	55
SetI	ASST	6 cut(s)	55, 174, 199, 366, 378, 401
SfaNI	GCATC	2 cut(s)	57, 315
SphI	GCATGC	1 cut(s)	341
Sse9I	AATT	4 cut(s)	33, 96, 265, 320
SstI	GAGCTC	1 cut(s)	55
TaaI	ACNGT	3 cut(s)	64, 132, 279
TaqI	TCGA	2 cut(s)	21, 55
TasI	AATT	4 cut(s)	33, 96, 265, 320
TfiI	GAWTC	1 cut(s)	203
Tru1I	TTAA	2 cut(s)	135, 366
Tru9I	TTAA	2 cut(s)	135, 366
TscAI	CASTG	1 cut(s)	69
TseFI	GTSAC	1 cut(s)	197
Tsp45I	GTSAC	1 cut(s)	197
TspDTI	ATGAA	2 cut(s)	173, 194
TspGWI	ACGGA	1 cut(s)	311
TspRI	CASTG	1 cut(s)	69
Van91I	CCANNNNNTGG	1 cut(s)	245
XceI	RCATGY	1 cut(s)	341

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