Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0003037

Physical Location & Seq

Genomic Coordinates Reverse (-)

7461674 .. 7464425

Gene Structure 2752 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ46951

Sequence Viewer

CDS Protein Promoter (2k)

Length: 864 bp

ATGAGCCAAGCGCCACAATCTGGTGCTCCTGCTCCCAGAAAGAGGAGGTTCACGCCAAAAGGATCTCGCCCGAAGGCTGAAGTTAAACCCGACCCGGAGGAGGAAGAGCAAGCTAGTCATGCTGAAAAGGAGAGGGAGCTGCTCAGACGTTTCCATGAACAATCTTTGAGGGTAAAGCCGAAAAACGAAAAGAAAGAGAAGCCTGTGGAAGTTGCATTTGGTTCTGGGGGTCAATCATCATCGACCAAAAGATCATATGGGGCTCCCAGGGGTGCTAATGGTGGTGGTTCTAACCCGGTCATTCAAGAGGAGAAAGAATACAAGTCACCATTTGATATCTACGGTCATTACCCTATATCTCTTCCTCTGAGGCAGCCATCTTATGAAGATCCTGCAATTCTTAACCAGCAAGAATTTGGGGATGGTTCAGAGGAATCAATTTATGATGAAAATGCAACACCAGCGGCAGATGATCTTGATCTAAAGGAGGAAAATAGAGCAACAAGTATGTTCTTTCTTCATCTACCACCGACCTTGCCTATTTTAAAGCAACCAGCAGGCCAACAGGTAACCAGTAGCTCAGGGGCACCAGGAGGAGCACATAATACAGAGAAGCCTTGTTCTTTGGGTGAGTTACCAGCTGGCTTCATGGGTAAGATGCTGGTGTACAGAAGTGGTGCTATCAAGCTGAAGCTAGGAGACACCCTCTATGATGTCTCTACAGGAATGAACTGTGATTTTGCCCAGGATGTTGTGGCTATTAATACCACAGAGAAGAAGTGTTGCACTATTGGGGAGCTCAATAAGCGAGCTGTTGTGACCCCAGATATTGACTCCGTTTTGAACAGTTTAGAGGATTTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001817 GO:0001819 GO:0002682 GO:0002684 GO:0003674 GO:0003682 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0005737 GO:0005829 GO:0008150 GO:0016604 GO:0016607 GO:0030880 GO:0031347 GO:0031349 GO:0031974 GO:0031981 GO:0032479 GO:0032481 GO:0032648 GO:0032728 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045088 GO:0045089 GO:0048518 GO:0048583 GO:0048584 GO:0050776 GO:0050778 GO:0050789 GO:0051239 GO:0051240 GO:0055029 GO:0061695 GO:0065007 GO:0070013 GO:0080134 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

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

Pfam Domains

Protein Families

RNA_pol_Rpc4

Protein Analysis

287

Amino Acids

31.3

Weight (kDa)

5.56

Isoelectric Point (pI)

66.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpc4	PF05132	169 - 277	2.3e-25	RNA polymerase III RPC4

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: OG0003037)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G09380 AT5G09380 AT5G09380
fragaria_vesca	FvH4_1g08400 FvH4_1g08400 FvH4_7g27240 FvH4_7g27240
malus_domestica	MD01G1181300.v1.1 MD02G1088300.v1.1 MD07G1251400.v1.1
prunus_persica	Prupe.2G275200_v2.0.a1 Prupe.7G201300_v2.0.a1
pyrus_communis	pycom02g07090 pycom07g22410
rosa_chinensis	RchiOBHm_Chr1g0374021 RchiOBHm_Chr2g0094511 RchiOBHm_Chr3g0487921
rosa_laevigata	RLG00000016497 RLG00000026785
rosa_multiflora	Rmu_sc0004359.1_g000044 Rmu_sc0006924.1_g000006 Rmu_sc0009793.1_g000002
rosa_roxburghii	Rroxscaffold_2G00147110 Rroxscaffold_4G00283820
rosa_rugosa	Rorug01G0380300 Rorug02G0044300.1
rosa_samantha	Rh1AG390800 Rh1BG354900 Rh1CG368000 Rh1DG385600 Rh2AG092600 Rh2BG092800 Rh2CG095300 Rh2DG091700 Rh3AG285100 Rh6AG149200
rosa_wichuraiana	Rw1G034440 Rw6G012910

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	586
AccB7I	CCANNNNNTGG	1 cut(s)	20
AciI	CCGC	1 cut(s)	464
AclWI	GGATC	2 cut(s)	70, 383
AcsI	RAATTY	1 cut(s)	413
AcuI	CTGAAG	2 cut(s)	99, 710
AfaI	GTAC	1 cut(s)	668
AfiI	CCNNNNNNNGG	3 cut(s)	20, 42, 100
AgsI	TTSAA	2 cut(s)	305, 844
AjnI	CCWGG	3 cut(s)	266, 589, 744
AjuI	GAANNNNNNNTTGG	2 cut(s)	201, 233
AluBI	AGCT	8 cut(s)	113, 139, 579, 641, 688, 694, 799, 812
AluI	AGCT	8 cut(s)	113, 139, 579, 641, 688, 694, 799, 812
Alw21I	GWGCWC	3 cut(s)	28, 601, 801
Alw26I	GTCTC	2 cut(s)	693, 721
AlwI	GGATC	2 cut(s)	70, 383
AoxI	GGCC	1 cut(s)	559
ApeKI	GCWGC	2 cut(s)	139, 373
ApoI	RAATTY	1 cut(s)	413
AseI	ATTAAT	1 cut(s)	762
AspLEI	GCGC	1 cut(s)	13
AsuC2I	CCSGG	2 cut(s)	95, 296
AsuHPI	GGTGA	2 cut(s)	318, 641
BaeGI	GKGCMC	1 cut(s)	589
BanI	GGYRCC	1 cut(s)	586
BanII	GRGCYC	2 cut(s)	265, 801
Bbv12I	GWGCWC	3 cut(s)	28, 601, 801
BbvI	GCAGC	2 cut(s)	126, 385
BccI	CCATC	2 cut(s)	385, 416
BciT130I	CCWGG	3 cut(s)	268, 591, 746
BcnI	CCSGG	2 cut(s)	95, 296
BcoDI	GTCTC	2 cut(s)	693, 721
BfaI	CTAG	2 cut(s)	114, 695
BfmI	CTRYAG	1 cut(s)	720
BfoI	RGCGCY	1 cut(s)	14
BisI	GCNGC	3 cut(s)	140, 374, 465
BlsI	GCNGC	3 cut(s)	141, 375, 466
Bme1390I	CCNGG	5 cut(s)	95, 268, 296, 591, 746
BmiI	GGNNCC	2 cut(s)	264, 588
BmrFI	CCNGG	5 cut(s)	95, 268, 296, 591, 746
BmsI	GCATC	1 cut(s)	648
BplI	GAGNNNNNCTC	2 cut(s)	690, 722
Bpu10I	CCTNAGC	1 cut(s)	580
BpuMI	CCSGG	2 cut(s)	95, 296
BsaBI	GATNNNNATC	1 cut(s)	477
BsaJI	CCNNGG	3 cut(s)	266, 267, 744
Bsc4I	CCNNNNNNNGG	3 cut(s)	20, 42, 100
Bse1I	ACTGG	1 cut(s)	573
Bse8I	GATNNNNATC	1 cut(s)	477
BseBI	CCWGG	3 cut(s)	268, 591, 746
BseDI	CCNNGG	3 cut(s)	266, 267, 744
BseGI	GGATG	2 cut(s)	427, 754
BseJI	GATNNNNATC	1 cut(s)	477
BseLI	CCNNNNNNNGG	3 cut(s)	20, 42, 100
BseMII	CTCAG	3 cut(s)	157, 359, 594
BseNI	ACTGG	1 cut(s)	573
BseRI	GAGGAG	4 cut(s)	58, 113, 323, 609
BseSI	GKGCMC	1 cut(s)	589
BseXI	GCAGC	2 cut(s)	126, 385
BshFI	GGCC	1 cut(s)	561
BshNI	GGYRCC	1 cut(s)	586
BsiHKAI	GWGCWC	3 cut(s)	28, 601, 801
BsiSI	CCGG	2 cut(s)	95, 296
BslI	CCNNNNNNNGG	3 cut(s)	20, 42, 100
BsmAI	GTCTC	2 cut(s)	693, 721
BsnI	GGCC	1 cut(s)	561
Bsp1286I	GDGCHC	5 cut(s)	28, 265, 589, 601, 801
Bsp1407I	TGTACA	1 cut(s)	666
Bsp143I	GATC	5 cut(s)	62, 251, 388, 472, 478
BspACI	CCGC	1 cut(s)	464
BspANI	GGCC	1 cut(s)	561
BspCNI	CTCAG	3 cut(s)	156, 360, 593
BspLI	GGNNCC	2 cut(s)	264, 588
BspPI	GGATC	2 cut(s)	70, 383
BspQI	GCTCTTC	1 cut(s)	99
BspT107I	GGYRCC	1 cut(s)	586
BsrGI	TGTACA	1 cut(s)	666
BsrI	ACTGG	1 cut(s)	573
BssECI	CCNNGG	3 cut(s)	266, 267, 744
BssMI	GATC	5 cut(s)	62, 251, 388, 472, 478
Bst2UI	CCWGG	3 cut(s)	268, 591, 746
Bst4CI	ACNGT	3 cut(s)	344, 734, 848
Bst6I	CTCTTC	2 cut(s)	99, 366
BstAUI	TGTACA	1 cut(s)	666
BstC8I	GCNNGC	4 cut(s)	111, 559, 643, 810
BstDEI	CTNAG	3 cut(s)	143, 368, 580
BstEII	GGTNACC	1 cut(s)	568
BstF5I	GGATG	2 cut(s)	427, 754
BstH2I	RGCGCY	1 cut(s)	14
BstHHI	GCGC	1 cut(s)	13
BstKTI	GATC	5 cut(s)	65, 254, 391, 475, 481
BstMAI	GTCTC	2 cut(s)	693, 721
BstMBI	GATC	5 cut(s)	62, 251, 388, 472, 478
BstMWI	GCNNNNNNNGC	3 cut(s)	119, 461, 805
BstNI	CCWGG	3 cut(s)	268, 591, 746
BstPI	GGTNACC	1 cut(s)	568
BstSCI	CCNGG	5 cut(s)	93, 266, 294, 589, 744
BstSFI	CTRYAG	1 cut(s)	720
BstSLI	GKGCMC	1 cut(s)	589
BstV1I	GCAGC	2 cut(s)	126, 385
BstX2I	RGATCY	2 cut(s)	62, 388
BstYI	RGATCY	2 cut(s)	62, 388
BsuRI	GGCC	1 cut(s)	561
BtsCI	GGATG	2 cut(s)	427, 754
Cac8I	GCNNGC	4 cut(s)	111, 559, 643, 810
CfoI	GCGC	1 cut(s)	13
Csp6I	GTAC	1 cut(s)	667
CspCI	CAANNNNNGTGG	2 cut(s)	516, 551
CviAII	CATG	3 cut(s)	119, 155, 649
CviQI	GTAC	1 cut(s)	667
DdeI	CTNAG	3 cut(s)	143, 368, 580
DpnI	GATC	5 cut(s)	64, 253, 390, 474, 480
DpnII	GATC	5 cut(s)	62, 251, 388, 472, 478
DraI	TTTAAA	1 cut(s)	546
Eam1104I	CTCTTC	2 cut(s)	99, 366
EarI	CTCTTC	2 cut(s)	99, 366
Ecl136II	GAGCTC	1 cut(s)	799
Eco24I	GRGCYC	2 cut(s)	265, 801
Eco32I	GATATC	1 cut(s)	337
Eco53kI	GAGCTC	1 cut(s)	799
Eco57I	CTGAAG	2 cut(s)	99, 710
Eco91I	GGTNACC	1 cut(s)	568
EcoICRI	GAGCTC	1 cut(s)	799
EcoO65I	GGTNACC	1 cut(s)	568
EcoRII	CCWGG	3 cut(s)	266, 589, 744
EcoRV	GATATC	1 cut(s)	337
EcoT38I	GRGCYC	2 cut(s)	265, 801
FaeI	CATG	3 cut(s)	122, 158, 652
FatI	CATG	3 cut(s)	118, 154, 648
FauNDI	CATATG	1 cut(s)	256
Fnu4HI	GCNGC	3 cut(s)	140, 374, 465
FokI	GGATG	2 cut(s)	434, 761
FriOI	GRGCYC	2 cut(s)	265, 801
Fsp4HI	GCNGC	3 cut(s)	140, 374, 465
FspBI	CTAG	2 cut(s)	114, 695
GlaI	GCGC	1 cut(s)	12
GluI	GCNGC	3 cut(s)	140, 374, 465
HaeII	RGCGCY	1 cut(s)	14
HaeIII	GGCC	1 cut(s)	561
HapII	CCGG	2 cut(s)	95, 296
HhaI	GCGC	1 cut(s)	13
Hin1II	CATG	3 cut(s)	122, 158, 652
Hin6I	GCGC	1 cut(s)	11
HinP1I	GCGC	1 cut(s)	11
HinfI	GANTC	2 cut(s)	434, 833
HpaII	CCGG	2 cut(s)	95, 296
HphI	GGTGA	2 cut(s)	318, 641
Hpy166II	GTNNAC	2 cut(s)	51, 667
Hpy188I	TCNGA	3 cut(s)	146, 369, 430
Hpy188III	TCNNGA	2 cut(s)	305, 476
Hpy8I	GTNNAC	2 cut(s)	51, 667
HpyAV	CCTTC	1 cut(s)	67
HpyCH4III	ACNGT	3 cut(s)	344, 734, 848
HpyCH4IV	ACGT	1 cut(s)	148
HpyCH4V	TGCA	4 cut(s)	215, 395, 455, 786
HpyF10VI	GCNNNNNNNGC	3 cut(s)	119, 461, 805
HpyF3I	CTNAG	3 cut(s)	143, 368, 580
HpySE526I	ACGT	1 cut(s)	148
Hsp92II	CATG	3 cut(s)	122, 158, 652
HspAI	GCGC	1 cut(s)	11
Kzo9I	GATC	5 cut(s)	62, 251, 388, 472, 478
LguI	GCTCTTC	1 cut(s)	99
LmnI	GCTCC	6 cut(s)	31, 37, 136, 268, 596, 796
Lsp1109I	GCAGC	2 cut(s)	126, 385
LweI	GCATC	1 cut(s)	648
MaeI	CTAG	2 cut(s)	114, 695
MaeII	ACGT	1 cut(s)	148
MaeIII	GTNAC	4 cut(s)	324, 568, 633, 817
MalI	GATC	5 cut(s)	64, 253, 390, 474, 480
MboI	GATC	5 cut(s)	62, 251, 388, 472, 478
MboII	GAAGA	5 cut(s)	116, 353, 398, 509, 787
MflI	RGATCY	2 cut(s)	62, 388
MhlI	GDGCHC	5 cut(s)	28, 265, 589, 601, 801
MluCI	AATT	3 cut(s)	396, 413, 438
MlyI	GAGTC	1 cut(s)	827
MseI	TTAA	4 cut(s)	84, 402, 545, 762
MspA1I	CMGCKG	2 cut(s)	464, 641
MspI	CCGG	2 cut(s)	95, 296
MspR9I	CCNGG	5 cut(s)	95, 268, 296, 591, 746
MvaI	CCWGG	3 cut(s)	268, 591, 746
MwoI	GCNNNNNNNGC	3 cut(s)	119, 461, 805
NciI	CCSGG	2 cut(s)	95, 296
NdeI	CATATG	1 cut(s)	256
NdeII	GATC	5 cut(s)	62, 251, 388, 472, 478
NlaIII	CATG	3 cut(s)	122, 158, 652
NlaIV	GGNNCC	2 cut(s)	264, 588
NmuCI	GTSAC	2 cut(s)	324, 817
PasI	CCCWGGG	1 cut(s)	267
PciSI	GCTCTTC	1 cut(s)	99
PfeI	GAWTC	1 cut(s)	434
PflMI	CCANNNNNTGG	1 cut(s)	20
PkrI	GCNGC	3 cut(s)	141, 375, 466
PleI	GAGTC	1 cut(s)	827
PpsI	GAGTC	1 cut(s)	827
PshBI	ATTAAT	1 cut(s)	762
Psp124BI	GAGCTC	1 cut(s)	801
Psp6I	CCWGG	3 cut(s)	266, 589, 744
PspEI	GGTNACC	1 cut(s)	568
PspGI	CCWGG	3 cut(s)	266, 589, 744
PspN4I	GGNNCC	2 cut(s)	264, 588
PsuI	RGATCY	2 cut(s)	62, 388
PvuII	CAGCTG	1 cut(s)	641
RsaI	GTAC	1 cut(s)	668
RsaNI	GTAC	1 cut(s)	667
SacI	GAGCTC	1 cut(s)	801
SapI	GCTCTTC	1 cut(s)	99
SaqAI	TTAA	4 cut(s)	84, 402, 545, 762
SatI	GCNGC	3 cut(s)	140, 374, 465
Sau3AI	GATC	5 cut(s)	62, 251, 388, 472, 478
SchI	GAGTC	1 cut(s)	827
ScrFI	CCNGG	5 cut(s)	95, 268, 296, 591, 746
SduI	GDGCHC	5 cut(s)	28, 265, 589, 601, 801
SfaNI	GCATC	1 cut(s)	648
SfcI	CTRYAG	1 cut(s)	720
Sse9I	AATT	3 cut(s)	396, 413, 438
SsiI	CCGC	1 cut(s)	464
SspMI	CTAG	2 cut(s)	114, 695
SstI	GAGCTC	1 cut(s)	801
StyD4I	CCNGG	5 cut(s)	93, 266, 294, 589, 744
TaaI	ACNGT	3 cut(s)	344, 734, 848
TaiI	ACGT	1 cut(s)	151
TaqI	TCGA	1 cut(s)	242
TasI	AATT	3 cut(s)	396, 413, 438
TatI	WGTACW	1 cut(s)	666
TauI	GCSGC	1 cut(s)	467
TfiI	GAWTC	1 cut(s)	434
Tru1I	TTAA	4 cut(s)	84, 402, 545, 762
Tru9I	TTAA	4 cut(s)	84, 402, 545, 762
TseFI	GTSAC	2 cut(s)	324, 817
TseI	GCWGC	2 cut(s)	139, 373
Tsp45I	GTSAC	2 cut(s)	324, 817
TspDTI	ATGAA	6 cut(s)	171, 399, 462, 509, 637, 743
TspGWI	ACGGA	1 cut(s)	826
Van91I	CCANNNNNTGG	1 cut(s)	20
VspI	ATTAAT	1 cut(s)	762
XapI	RAATTY	1 cut(s)	413
XcmI	CCANNNNNNNNNTGG	1 cut(s)	413
XspI	CTAG	2 cut(s)	114, 695

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