Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0000701

Physical Location & Seq

Genomic Coordinates Forward (+)

37895621 .. 37901740

Gene Structure 6120 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ57191

Sequence Viewer

CDS Protein Promoter (2k)

Length: 786 bp

ATGAGATCAAAGTACTACTTGGAGGTTTTCCAGATTTATGTGTTCTTCCCTGACGAACCAAAAATAGGGGTCAAGACGATCAAGAATTACATCAAACGCTTGGTTCAGGATGATACGGACAAAGCCATCATGCTTATTCAAGAAAATCTGACTCCGTTTGCAAAGCGCTTCATTAGTGAGATGAGATCAAAGTACTACTTGGAGGTTTTCCAGGTAACCTGGTCTATGTTCTTTGGGCTTTTCTACCCAGCCCATCCCGCATGGACAAGGTTGTGTTGTTCTGTGGCAGCTGCTGTGATTTGTGTGTCCTCCTCTCTTCCCGCACCGCTTCCTGCTCAGCCAGGAAATATGATTTATGTGTTTTTCCCTGACGAACCAAAAGTTGGGGCCAAGACAATGAAGAGTTACATGACACGCATGAATCAGGAGAATGTAATTAGAGCAATCTTAGTTGTTCAACAAAATCTGACTCCTTTTGCAAAGACCTCCATTAGTGAGATGGGTTCAAAGTACCACTTGGAGATTTTTCAGGAGGCAGAATCGTTGGTGAATATTAAAGAGCTTGTTCTAGTTCCTGAGCATCGGTTTCTTACAAATGAGGAAAAGAAGACTTGCTGGAGAGATGGTGTTCAGCTTCCTCTTATTCAGCTGATTGATCCAATTGCAAGATATTACGGGCTTAAGCGTGGACAAGTTGTGAAGATAATCCGGCCAAGTGAGACTGCAGGGCGATATGTCACCTACCGTTACATTATCCAAGTACAGCAGAAACCTGGATTGCATTAG

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

261

Amino Acids

30.31

Weight (kDa)

9.35

Isoelectric Point (pI)

37.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb5_C	PF01191	183 - 251	1.2e-22	RNA polymerase Rpb5, C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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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)	383
AciI	CCGC	3 cut(s)	258, 321, 326
AclWI	GGATC	1 cut(s)	650
AcoI	YGGCCR	1 cut(s)	710
AfaI	GTAC	4 cut(s)	14, 194, 512, 762
AfeI	AGCGCT	1 cut(s)	167
AfiI	CCNNNNNNNGG	2 cut(s)	65, 383
AflII	CTTAAG	1 cut(s)	680
AgsI	TTSAA	3 cut(s)	140, 458, 507
AjnI	CCWGG	4 cut(s)	210, 218, 340, 772
AjuI	GAANNNNNNNTTGG	2 cut(s)	366, 398
AluBI	AGCT	4 cut(s)	290, 562, 634, 649
AluI	AGCT	4 cut(s)	290, 562, 634, 649
Alw26I	GTCTC	1 cut(s)	713
AlwI	GGATC	1 cut(s)	650
AlwNI	CAGNNNCTG	1 cut(s)	293
Aor51HI	AGCGCT	1 cut(s)	167
AoxI	GGCC	2 cut(s)	387, 710
ApeKI	GCWGC	2 cut(s)	287, 290
AspLEI	GCGC	1 cut(s)	168
AspS9I	GGNCC	1 cut(s)	387
AsuHPI	GGTGA	2 cut(s)	559, 730
BbsI	GAAGAC	1 cut(s)	614
BbvI	GCAGC	2 cut(s)	277, 299
BccI	CCATC	4 cut(s)	134, 261, 493, 617
BciT130I	CCWGG	4 cut(s)	212, 220, 342, 774
BcoDI	GTCTC	1 cut(s)	713
BfaI	CTAG	1 cut(s)	569
BfmI	CTRYAG	1 cut(s)	723
BfoI	RGCGCY	1 cut(s)	169
BfrI	CTTAAG	1 cut(s)	680
BisI	GCNGC	2 cut(s)	288, 291
BlpI	GCTNAGC	1 cut(s)	336
BlsI	GCNGC	2 cut(s)	289, 292
BmcAI	AGTACT	2 cut(s)	14, 194
Bme1390I	CCNGG	4 cut(s)	212, 220, 342, 774
BmgT120I	GGNCC	1 cut(s)	387
BmiI	GGNNCC	1 cut(s)	388
BmrFI	CCNGG	4 cut(s)	212, 220, 342, 774
BmsI	GCATC	1 cut(s)	589
BpiI	GAAGAC	1 cut(s)	614
BpmI	CTGGAG	1 cut(s)	637
Bpu10I	CCTNAGC	1 cut(s)	576
Bpu1102I	GCTNAGC	1 cut(s)	336
BsaXI	ACNNNNNCTCC	2 cut(s)	610, 640
Bsc4I	CCNNNNNNNGG	2 cut(s)	65, 383
BseBI	CCWGG	4 cut(s)	212, 220, 342, 774
BseGI	GGATG	2 cut(s)	115, 253
BseLI	CCNNNNNNNGG	2 cut(s)	65, 383
BseMII	CTCAG	2 cut(s)	350, 567
BseRI	GAGGAG	1 cut(s)	301
BseXI	GCAGC	2 cut(s)	277, 299
BseYI	CCCAGC	1 cut(s)	247
BshFI	GGCC	2 cut(s)	389, 712
BsiSI	CCGG	1 cut(s)	709
BslI	CCNNNNNNNGG	2 cut(s)	65, 383
BsmAI	GTCTC	1 cut(s)	713
BsnI	GGCC	2 cut(s)	389, 712
Bsp143I	GATC	4 cut(s)	5, 78, 185, 655
Bsp1720I	GCTNAGC	1 cut(s)	336
BspACI	CCGC	3 cut(s)	258, 321, 326
BspANI	GGCC	2 cut(s)	389, 712
BspCNI	CTCAG	2 cut(s)	349, 568
BspLI	GGNNCC	1 cut(s)	388
BspMAI	CTGCAG	1 cut(s)	727
BspPI	GGATC	1 cut(s)	650
BspTI	CTTAAG	1 cut(s)	680
BssMI	GATC	4 cut(s)	5, 78, 185, 655
Bst2UI	CCWGG	4 cut(s)	212, 220, 342, 774
Bst4CI	ACNGT	1 cut(s)	746
Bst6I	CTCTTC	2 cut(s)	321, 395
BstAFI	CTTAAG	1 cut(s)	680
BstDEI	CTNAG	3 cut(s)	336, 448, 576
BstEII	GGTNACC	1 cut(s)	214
BstF5I	GGATG	2 cut(s)	115, 253
BstH2I	RGCGCY	1 cut(s)	169
BstHHI	GCGC	1 cut(s)	168
BstKTI	GATC	4 cut(s)	8, 81, 188, 658
BstMAI	GTCTC	1 cut(s)	713
BstMBI	GATC	4 cut(s)	5, 78, 185, 655
BstMWI	GCNNNNNNNGC	1 cut(s)	257
BstNI	CCWGG	4 cut(s)	212, 220, 342, 774
BstPI	GGTNACC	1 cut(s)	214
BstSCI	CCNGG	4 cut(s)	210, 218, 340, 772
BstSFI	CTRYAG	1 cut(s)	723
BstV1I	GCAGC	2 cut(s)	277, 299
BstV2I	GAAGAC	1 cut(s)	614
BsuRI	GGCC	2 cut(s)	389, 712
BtsCI	GGATG	2 cut(s)	115, 253
CaiI	CAGNNNCTG	1 cut(s)	293
CfoI	GCGC	1 cut(s)	168
Cfr13I	GGNCC	1 cut(s)	387
CsiI	ACCWGGT	1 cut(s)	218
Csp6I	GTAC	4 cut(s)	13, 193, 511, 761
CviAII	CATG	4 cut(s)	130, 261, 409, 418
CviQI	GTAC	4 cut(s)	13, 193, 511, 761
DdeI	CTNAG	3 cut(s)	336, 448, 576
DpnI	GATC	4 cut(s)	7, 80, 187, 657
DpnII	GATC	4 cut(s)	5, 78, 185, 655
EaeI	YGGCCR	1 cut(s)	710
Eam1104I	CTCTTC	2 cut(s)	321, 395
EarI	CTCTTC	2 cut(s)	321, 395
Eco47III	AGCGCT	1 cut(s)	167
Eco91I	GGTNACC	1 cut(s)	214
EcoO65I	GGTNACC	1 cut(s)	214
EcoRII	CCWGG	4 cut(s)	210, 218, 340, 772
FaeI	CATG	4 cut(s)	133, 264, 412, 421
FaiI	YATR	9 cut(s)	39, 131, 227, 262, 350, 357, 410, 419, 735
FalI	AAGNNNNNCTT	5 cut(s)	34, 182, 214, 500, 532
FatI	CATG	4 cut(s)	129, 260, 408, 417
FauI	CCCGC	2 cut(s)	265, 328
Fnu4HI	GCNGC	2 cut(s)	288, 291
FokI	GGATG	2 cut(s)	122, 240
Fsp4HI	GCNGC	2 cut(s)	288, 291
FspBI	CTAG	1 cut(s)	569
GlaI	GCGC	1 cut(s)	167
GluI	GCNGC	2 cut(s)	288, 291
GsaI	CCCAGC	1 cut(s)	251
GsuI	CTGGAG	1 cut(s)	637
HaeII	RGCGCY	1 cut(s)	169
HaeIII	GGCC	2 cut(s)	389, 712
HapII	CCGG	1 cut(s)	709
HhaI	GCGC	1 cut(s)	168
Hin1II	CATG	4 cut(s)	133, 264, 412, 421
Hin6I	GCGC	1 cut(s)	166
HinP1I	GCGC	1 cut(s)	166
HinfI	GANTC	4 cut(s)	151, 421, 469, 539
HpaII	CCGG	1 cut(s)	709
HphI	GGTGA	2 cut(s)	559, 730
Hpy166II	GTNNAC	1 cut(s)	689
Hpy188I	TCNGA	2 cut(s)	150, 468
Hpy188III	TCNNGA	8 cut(s)	31, 73, 82, 107, 140, 425, 530, 575
Hpy8I	GTNNAC	1 cut(s)	689
HpyCH4III	ACNGT	1 cut(s)	746
HpyCH4V	TGCA	5 cut(s)	161, 479, 665, 725, 781
HpyF10VI	GCNNNNNNNGC	1 cut(s)	257
HpyF3I	CTNAG	3 cut(s)	336, 448, 576
Hsp92II	CATG	4 cut(s)	133, 264, 412, 421
HspAI	GCGC	1 cut(s)	166
Kzo9I	GATC	4 cut(s)	5, 78, 185, 655
Lsp1109I	GCAGC	2 cut(s)	277, 299
LweI	GCATC	1 cut(s)	589
MabI	ACCWGGT	1 cut(s)	218
MaeI	CTAG	1 cut(s)	569
MaeIII	GTNAC	4 cut(s)	214, 404, 736, 746
MalI	GATC	4 cut(s)	7, 80, 187, 657
MboI	GATC	4 cut(s)	5, 78, 185, 655
MboII	GAAGA	5 cut(s)	37, 308, 412, 619, 712
MfeI	CAATTG	1 cut(s)	660
MluCI	AATT	3 cut(s)	85, 435, 660
MlyI	GAGTC	2 cut(s)	145, 463
MnlI	CCTC	8 cut(s)	16, 196, 319, 322, 496, 526, 592, 648
MseI	TTAA	2 cut(s)	555, 681
MspA1I	CMGCKG	2 cut(s)	290, 649
MspCI	CTTAAG	1 cut(s)	680
MspI	CCGG	1 cut(s)	709
MspR9I	CCNGG	4 cut(s)	212, 220, 342, 774
MunI	CAATTG	1 cut(s)	660
MvaI	CCWGG	4 cut(s)	212, 220, 342, 774
MwoI	GCNNNNNNNGC	1 cut(s)	257
NdeII	GATC	4 cut(s)	5, 78, 185, 655
NlaIII	CATG	4 cut(s)	133, 264, 412, 421
NlaIV	GGNNCC	1 cut(s)	388
NmuCI	GTSAC	1 cut(s)	736
PfeI	GAWTC	2 cut(s)	421, 539
PflMI	CCANNNNNTGG	1 cut(s)	383
PkrI	GCNGC	2 cut(s)	289, 292
PleI	GAGTC	2 cut(s)	145, 463
PpsI	GAGTC	2 cut(s)	145, 463
Psp6I	CCWGG	4 cut(s)	210, 218, 340, 772
PspEI	GGTNACC	1 cut(s)	214
PspFI	CCCAGC	1 cut(s)	247
PspGI	CCWGG	4 cut(s)	210, 218, 340, 772
PspN4I	GGNNCC	1 cut(s)	388
PspPI	GGNCC	1 cut(s)	387
PstI	CTGCAG	1 cut(s)	727
PstNI	CAGNNNCTG	1 cut(s)	293
PvuII	CAGCTG	2 cut(s)	290, 649
RsaI	GTAC	4 cut(s)	14, 194, 512, 762
RsaNI	GTAC	4 cut(s)	13, 193, 511, 761
SaqAI	TTAA	2 cut(s)	555, 681
SatI	GCNGC	2 cut(s)	288, 291
Sau3AI	GATC	4 cut(s)	5, 78, 185, 655
Sau96I	GGNCC	1 cut(s)	387
ScaI	AGTACT	2 cut(s)	14, 194
SchI	GAGTC	2 cut(s)	145, 463
ScrFI	CCNGG	4 cut(s)	212, 220, 342, 774
SexAI	ACCWGGT	1 cut(s)	218
SfaNI	GCATC	1 cut(s)	589
SfcI	CTRYAG	1 cut(s)	723
SmlI	CTYRAG	1 cut(s)	680
SmoI	CTYRAG	1 cut(s)	680
Sse9I	AATT	3 cut(s)	85, 435, 660
SsiI	CCGC	3 cut(s)	258, 321, 326
SspI	AATATT	1 cut(s)	553
SspMI	CTAG	1 cut(s)	569
StyD4I	CCNGG	4 cut(s)	210, 218, 340, 772
TaaI	ACNGT	1 cut(s)	746
TasI	AATT	3 cut(s)	85, 435, 660
TatI	WGTACW	3 cut(s)	12, 192, 760
TfiI	GAWTC	2 cut(s)	421, 539
Tru1I	TTAA	2 cut(s)	555, 681
Tru9I	TTAA	2 cut(s)	555, 681
TseFI	GTSAC	1 cut(s)	736
TseI	GCWGC	2 cut(s)	287, 290
Tsp45I	GTSAC	1 cut(s)	736
TspDTI	ATGAA	3 cut(s)	160, 413, 434
TspGWI	ACGGA	2 cut(s)	131, 144
Van91I	CCANNNNNTGG	1 cut(s)	383
Vha464I	CTTAAG	1 cut(s)	680
XcmI	CCANNNNNNNNNTGG	1 cut(s)	496
XspI	CTAG	1 cut(s)	569
ZrmI	AGTACT	2 cut(s)	14, 194

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