Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0000701

Physical Location & Seq

Genomic Coordinates Forward (+)

38012951 .. 38016639

Gene Structure 3689 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ57211

Sequence Viewer

CDS Protein Promoter (2k)

Length: 492 bp

ATGAAAAGGGAGGACCTTACTATCAATAGAAGGAAGAGAGGTGACGAGTCTGATCAGATTTATGTGTTTTTCCCTGACGAACCAAAAGTTGGGTTCAAGACAATGAAGAGTTACATTACACACATGAATCAGGAGAATGTGATTACAGCAATCTTAGTTGCTCAACAAAATCTGACTCCTTTTGCAAAGACCTCCATTAGTGAGATGGGTTCAAAGTACCACTTGGAGATTTTCCAGGAGGCAGAATTGTTGGTAAATATTAGAGAGCATGTTCTAGTTCCTGAGCATCGGGTTCTTACAAATGTGGAAAAAAAGACTTTGCTGGAGAGGTATACTGTGAAAGAAACACAGCTTCCTCGTATTCAGCTGATTGATCCAATTGCAAGATATTACGGGCTTAAGCGTGGACAAGTTGTGAAGATAATCCAGCCGAGTGAGACTGCAGGACGATATATCACCTACCGTTATGTTATCCAAGTACTTTTATTGTAA

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

163

Amino Acids

19.14

Weight (kDa)

9.37

Isoelectric Point (pI)

30.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb5_N	PF03871	2 - 42	7e-10	RNA polymerase Rpb5, N-terminal domain
RNA_pol_Rpb5_C	PF01191	85 - 157	6.2e-33	RNA polymerase Rpb5, C-terminal 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: 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)	89
AccI	GTMKAC	1 cut(s)	332
AclWI	GGATC	1 cut(s)	368
AfaI	GTAC	2 cut(s)	218, 480
AfiI	CCNNNNNNNGG	1 cut(s)	89
AflII	CTTAAG	1 cut(s)	398
AgsI	TTSAA	2 cut(s)	97, 213
AjnI	CCWGG	1 cut(s)	234
AjuI	GAANNNNNNNTTGG	2 cut(s)	72, 104
AluBI	AGCT	2 cut(s)	352, 367
AluI	AGCT	2 cut(s)	352, 367
Alw26I	GTCTC	1 cut(s)	431
AlwI	GGATC	1 cut(s)	368
AspS9I	GGNCC	1 cut(s)	13
AsuHPI	GGTGA	2 cut(s)	53, 448
AvaII	GGWCC	1 cut(s)	13
BccI	CCATC	1 cut(s)	199
BciT130I	CCWGG	1 cut(s)	236
BclI	TGATCA	1 cut(s)	52
BcoDI	GTCTC	1 cut(s)	431
BfaI	CTAG	1 cut(s)	275
BfmI	CTRYAG	1 cut(s)	441
BfrI	CTTAAG	1 cut(s)	398
BmcAI	AGTACT	1 cut(s)	480
Bme1390I	CCNGG	1 cut(s)	236
Bme18I	GGWCC	1 cut(s)	13
BmgT120I	GGNCC	1 cut(s)	13
BmrFI	CCNGG	1 cut(s)	236
BmsI	GCATC	1 cut(s)	295
BpmI	CTGGAG	1 cut(s)	344
Bpu10I	CCTNAGC	1 cut(s)	282
Bsc4I	CCNNNNNNNGG	1 cut(s)	89
BseBI	CCWGG	1 cut(s)	236
BseLI	CCNNNNNNNGG	1 cut(s)	89
BseMII	CTCAG	1 cut(s)	273
BslI	CCNNNNNNNGG	1 cut(s)	89
BsmAI	GTCTC	1 cut(s)	431
Bsp143I	GATC	2 cut(s)	52, 373
BspCNI	CTCAG	1 cut(s)	274
BspMAI	CTGCAG	1 cut(s)	445
BspPI	GGATC	1 cut(s)	368
BspTI	CTTAAG	1 cut(s)	398
BssMI	GATC	2 cut(s)	52, 373
BssNAI	GTATAC	1 cut(s)	333
Bst1107I	GTATAC	1 cut(s)	333
Bst2UI	CCWGG	1 cut(s)	236
Bst4CI	ACNGT	2 cut(s)	337, 464
Bst6I	CTCTTC	2 cut(s)	29, 101
BstAFI	CTTAAG	1 cut(s)	398
BstDEI	CTNAG	2 cut(s)	154, 282
BstKTI	GATC	2 cut(s)	55, 376
BstMAI	GTCTC	1 cut(s)	431
BstMBI	GATC	2 cut(s)	52, 373
BstNI	CCWGG	1 cut(s)	236
BstNSI	RCATGY	1 cut(s)	272
BstSCI	CCNGG	1 cut(s)	234
BstSFI	CTRYAG	1 cut(s)	441
BstZ17I	GTATAC	1 cut(s)	333
Cfr13I	GGNCC	1 cut(s)	13
Csp6I	GTAC	2 cut(s)	217, 479
CviAII	CATG	2 cut(s)	124, 269
CviJI	RGCY	4 cut(s)	352, 367, 397, 430
CviKI_1	RGCY	4 cut(s)	352, 367, 397, 430
CviQI	GTAC	2 cut(s)	217, 479
DdeI	CTNAG	2 cut(s)	154, 282
DpnI	GATC	2 cut(s)	54, 375
DpnII	GATC	2 cut(s)	52, 373
Eam1104I	CTCTTC	2 cut(s)	29, 101
EarI	CTCTTC	2 cut(s)	29, 101
Eco47I	GGWCC	1 cut(s)	13
EcoO109I	RGGNCCY	1 cut(s)	13
EcoRII	CCWGG	1 cut(s)	234
FaeI	CATG	2 cut(s)	127, 272
FaiI	YATR	6 cut(s)	63, 125, 270, 333, 453, 468
FalI	AAGNNNNNCTT	2 cut(s)	206, 238
FatI	CATG	2 cut(s)	123, 268
FbaI	TGATCA	1 cut(s)	52
FblI	GTMKAC	1 cut(s)	332
FspBI	CTAG	1 cut(s)	275
GsuI	CTGGAG	1 cut(s)	344
Hin1II	CATG	2 cut(s)	127, 272
HinfI	GANTC	3 cut(s)	47, 127, 175
HphI	GGTGA	2 cut(s)	53, 448
Hpy166II	GTNNAC	2 cut(s)	333, 407
Hpy188I	TCNGA	3 cut(s)	52, 57, 174
Hpy188III	TCNNGA	3 cut(s)	97, 131, 281
Hpy8I	GTNNAC	2 cut(s)	333, 407
HpyAV	CCTTC	1 cut(s)	24
HpyCH4III	ACNGT	2 cut(s)	337, 464
HpyCH4V	TGCA	3 cut(s)	185, 383, 443
HpyF3I	CTNAG	2 cut(s)	154, 282
Hsp92II	CATG	2 cut(s)	127, 272
Ksp22I	TGATCA	1 cut(s)	52
Kzo9I	GATC	2 cut(s)	52, 373
LpnPI	CCDG	8 cut(s)	87, 116, 221, 248, 294, 308, 429, 440
LweI	GCATC	1 cut(s)	295
MaeI	CTAG	1 cut(s)	275
MaeIII	GTNAC	2 cut(s)	41, 110
MalI	GATC	2 cut(s)	54, 375
MboI	GATC	2 cut(s)	52, 373
MboII	GAAGA	3 cut(s)	46, 118, 430
MfeI	CAATTG	1 cut(s)	378
MluCI	AATT	2 cut(s)	245, 378
MlyI	GAGTC	2 cut(s)	56, 169
MnlI	CCTC	6 cut(s)	4, 32, 202, 232, 321, 366
MseI	TTAA	1 cut(s)	399
MspA1I	CMGCKG	1 cut(s)	367
MspCI	CTTAAG	1 cut(s)	398
MspR9I	CCNGG	1 cut(s)	236
MunI	CAATTG	1 cut(s)	378
MvaI	CCWGG	1 cut(s)	236
NdeII	GATC	2 cut(s)	52, 373
NlaIII	CATG	2 cut(s)	127, 272
NmeAIII	GCCGAG	1 cut(s)	456
NmuCI	GTSAC	1 cut(s)	41
NspI	RCATGY	1 cut(s)	272
PfeI	GAWTC	1 cut(s)	127
PflMI	CCANNNNNTGG	1 cut(s)	89
PfoI	TCCNGGA	1 cut(s)	234
PleI	GAGTC	2 cut(s)	55, 169
PpsI	GAGTC	2 cut(s)	55, 169
PpuMI	RGGWCCY	1 cut(s)	13
Psp5II	RGGWCCY	1 cut(s)	13
Psp6I	CCWGG	1 cut(s)	234
PspGI	CCWGG	1 cut(s)	234
PspPI	GGNCC	1 cut(s)	13
PspPPI	RGGWCCY	1 cut(s)	13
PstI	CTGCAG	1 cut(s)	445
PvuII	CAGCTG	1 cut(s)	367
RsaI	GTAC	2 cut(s)	218, 480
RsaNI	GTAC	2 cut(s)	217, 479
SaqAI	TTAA	1 cut(s)	399
Sau3AI	GATC	2 cut(s)	52, 373
Sau96I	GGNCC	1 cut(s)	13
ScaI	AGTACT	1 cut(s)	480
SchI	GAGTC	2 cut(s)	56, 169
ScrFI	CCNGG	1 cut(s)	236
SetI	ASST	7 cut(s)	18, 43, 194, 332, 354, 369, 461
SfaNI	GCATC	1 cut(s)	295
SfcI	CTRYAG	1 cut(s)	441
SinI	GGWCC	1 cut(s)	13
SmlI	CTYRAG	1 cut(s)	398
SmoI	CTYRAG	1 cut(s)	398
Sse9I	AATT	2 cut(s)	245, 378
SspI	AATATT	1 cut(s)	259
SspMI	CTAG	1 cut(s)	275
StyD4I	CCNGG	1 cut(s)	234
TaaI	ACNGT	2 cut(s)	337, 464
TasI	AATT	2 cut(s)	245, 378
TatI	WGTACW	1 cut(s)	478
TfiI	GAWTC	1 cut(s)	127
Tru1I	TTAA	1 cut(s)	399
Tru9I	TTAA	1 cut(s)	399
TseFI	GTSAC	1 cut(s)	41
Tsp45I	GTSAC	1 cut(s)	41
TspDTI	ATGAA	3 cut(s)	17, 119, 140
Van91I	CCANNNNNTGG	1 cut(s)	89
Vha464I	CTTAAG	1 cut(s)	398
VpaK11BI	GGWCC	1 cut(s)	13
XceI	RCATGY	1 cut(s)	272
XcmI	CCANNNNNNNNNTGG	1 cut(s)	202
XmiI	GTMKAC	1 cut(s)	332
XspI	CTAG	1 cut(s)	275
ZrmI	AGTACT	1 cut(s)	480

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