Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0003823

Physical Location & Seq

Genomic Coordinates Forward (+)

70542402 .. 70542890

Gene Structure 489 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000020962

Sequence Viewer

CDS Protein Promoter (2k)

Length: 489 bp

ATGAGAGGGTCATCAAAATGGCCTTCAGCCCTTAAACGTAAGCGCCAAGACTATAATTCTCAGTCAGACTCTCTGACAGAGCATGAGCGCAGAATCTATGATGCCATCCGCAGCAAGAAAGATATAGGCAAAAACAAACAAGCCATTAAGCGAGAAACAAACCTCACTATGGTTCTGATAAACAAGTCCCTCAAAACACTTGAAGGCAAGAAAAAGATAAAAGAGGTTAAAGGGATCCAATCCAGGGCAAGGGGGGGATTGTACATGGCTGCAGAGTTTGAGCCCCCGAACGAGATAACTGGCGGCGCGTGGTATGAGAACGGGAACTTGAATAGCGAGTCTGTAAACGATATGAAAAGGAAGTGCGTGAGGTTCATAAAAGAGCACGAAGTTGCTACGTTGAAAGAGATTTTAGCAGAAGTCGGAAGTACAAGGATTTTAGATGCTAAATTAGACCCCAAGGACATGAAGGAGCTTCTGGAGGCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001817 GO:0001819 GO:0002682 GO:0002684 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0008150 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: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:0097159 GO:1901363 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_Rpc34

Protein Analysis

163

Amino Acids

18.51

Weight (kDa)

9.66

Isoelectric Point (pI)

45.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpc34	PF05158	18 - 139	5.6e-28	RNA polymerase Rpc34 subunit

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0003823)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G23710
fragaria_vesca	FvH4_6g29950 FvH4_6g29950 FvH4_6g41460
malus_domestica	MD08G1239800.v1.1 MD15G1431400.v1.1
prunus_persica	Prupe.1G576300_v2.0.a1 Prupe.5G067300_v2.0.a1
pyrus_communis	pycom08g20810 pycom15g38120
rosa_chinensis	RchiOBHm_Chr2g0135951 RchiOBHm_Chr6g0271261 RchiOBHm_Chr6g0271271
rosa_laevigata	RLG00000019491 RLG00000020962
rosa_multiflora	Rmu_sc0004866.1_g000010 Rmu_ssc0000343.1_g000019
rosa_roxburghii	Rroxscaffold_2G00108750 Rroxscaffold_7G00200610
rosa_rugosa	Rorug02G0327000 Rorug02G0457600 Rorug06G0035800 Rorug06G0036000
rosa_samantha	Rh2BG385300 Rh2CG364400 Rh2DG401600 Rh6AG179300 Rh6BG182300 Rh6CG179200 Rh6DG170900
rosa_wichuraiana	Rw2G030860 Rw2G031070 Rw2G043270 Rw6G015420

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	308
AciI	CCGC	2 cut(s)	109, 303
AclWI	GGATC	2 cut(s)	229, 242
AcuI	CTGAAG	1 cut(s)	9
AfaI	GTAC	2 cut(s)	263, 430
AfiI	CCNNNNNNNGG	3 cut(s)	169, 244, 249
AgsI	TTSAA	3 cut(s)	203, 331, 403
AjnI	CCWGG	1 cut(s)	242
AluBI	AGCT	1 cut(s)	475
AluI	AGCT	1 cut(s)	475
Alw21I	GWGCWC	1 cut(s)	387
AlwI	GGATC	2 cut(s)	229, 242
AoxI	GGCC	1 cut(s)	20
ApeKI	GCWGC	2 cut(s)	111, 269
AspLEI	GCGC	3 cut(s)	45, 90, 308
BamHI	GGATCC	1 cut(s)	234
BanII	GRGCYC	1 cut(s)	285
Bbv12I	GWGCWC	1 cut(s)	387
BbvI	GCAGC	2 cut(s)	123, 256
BccI	CCATC	1 cut(s)	113
BciT130I	CCWGG	1 cut(s)	244
BfmI	CTRYAG	1 cut(s)	270
BfoI	RGCGCY	1 cut(s)	46
BisI	GCNGC	3 cut(s)	112, 270, 304
BlsI	GCNGC	3 cut(s)	113, 271, 305
Bme1390I	CCNGG	1 cut(s)	244
BmiI	GGNNCC	1 cut(s)	236
BmrFI	CCNGG	1 cut(s)	244
BmsI	GCATC	2 cut(s)	91, 433
BsaJI	CCNNGG	2 cut(s)	243, 459
Bsc4I	CCNNNNNNNGG	3 cut(s)	169, 244, 249
Bse1I	ACTGG	1 cut(s)	304
BseBI	CCWGG	1 cut(s)	244
BseDI	CCNNGG	2 cut(s)	243, 459
BseGI	GGATG	1 cut(s)	105
BseLI	CCNNNNNNNGG	3 cut(s)	169, 244, 249
BseMII	CTCAG	1 cut(s)	74
BseNI	ACTGG	1 cut(s)	304
BseXI	GCAGC	2 cut(s)	123, 256
Bsh1236I	CGCG	1 cut(s)	308
BshFI	GGCC	1 cut(s)	22
BsiHKAI	GWGCWC	1 cut(s)	387
BslFI	GGGAC	1 cut(s)	172
BslI	CCNNNNNNNGG	3 cut(s)	169, 244, 249
BsmFI	GGGAC	1 cut(s)	172
BsnI	GGCC	1 cut(s)	22
Bsp1286I	GDGCHC	2 cut(s)	285, 387
Bsp1407I	TGTACA	1 cut(s)	261
Bsp143I	GATC	1 cut(s)	234
BspACI	CCGC	2 cut(s)	109, 303
BspANI	GGCC	1 cut(s)	22
BspCNI	CTCAG	1 cut(s)	73
BspFNI	CGCG	1 cut(s)	308
BspLI	GGNNCC	1 cut(s)	236
BspMAI	CTGCAG	1 cut(s)	274
BspPI	GGATC	2 cut(s)	229, 242
BsrGI	TGTACA	1 cut(s)	261
BsrI	ACTGG	1 cut(s)	304
BssECI	CCNNGG	2 cut(s)	243, 459
BssMI	GATC	1 cut(s)	234
BssT1I	CCWWGG	1 cut(s)	459
Bst2UI	CCWGG	1 cut(s)	244
BstAUI	TGTACA	1 cut(s)	261
BstDEI	CTNAG	2 cut(s)	60, 486
BstF5I	GGATG	1 cut(s)	105
BstFNI	CGCG	1 cut(s)	308
BstH2I	RGCGCY	1 cut(s)	46
BstHHI	GCGC	3 cut(s)	45, 90, 308
BstKTI	GATC	1 cut(s)	237
BstMBI	GATC	1 cut(s)	234
BstNI	CCWGG	1 cut(s)	244
BstSCI	CCNGG	1 cut(s)	242
BstSFI	CTRYAG	1 cut(s)	270
BstUI	CGCG	1 cut(s)	308
BstV1I	GCAGC	2 cut(s)	123, 256
BstX2I	RGATCY	1 cut(s)	234
BstYI	RGATCY	1 cut(s)	234
BsuRI	GGCC	1 cut(s)	22
BtsCI	GGATG	1 cut(s)	105
CfoI	GCGC	3 cut(s)	45, 90, 308
Csp6I	GTAC	2 cut(s)	262, 429
CviAII	CATG	3 cut(s)	83, 265, 466
CviJI	RGCY	7 cut(s)	22, 29, 143, 269, 283, 475, 485
CviKI_1	RGCY	7 cut(s)	22, 29, 143, 269, 283, 475, 485
CviQI	GTAC	2 cut(s)	262, 429
DdeI	CTNAG	2 cut(s)	60, 486
DpnI	GATC	1 cut(s)	236
DpnII	GATC	1 cut(s)	234
Eco130I	CCWWGG	1 cut(s)	459
Eco24I	GRGCYC	1 cut(s)	285
Eco57I	CTGAAG	1 cut(s)	9
EcoRII	CCWGG	1 cut(s)	242
EcoT14I	CCWWGG	1 cut(s)	459
EcoT38I	GRGCYC	1 cut(s)	285
ErhI	CCWWGG	1 cut(s)	459
FaeI	CATG	3 cut(s)	86, 268, 469
FaqI	GGGAC	1 cut(s)	172
FatI	CATG	3 cut(s)	82, 264, 465
Fnu4HI	GCNGC	3 cut(s)	112, 270, 304
FokI	GGATG	1 cut(s)	92
FriOI	GRGCYC	1 cut(s)	285
Fsp4HI	GCNGC	3 cut(s)	112, 270, 304
GlaI	GCGC	3 cut(s)	44, 89, 307
GluI	GCNGC	3 cut(s)	112, 270, 304
HaeII	RGCGCY	1 cut(s)	46
HaeIII	GGCC	1 cut(s)	22
HhaI	GCGC	3 cut(s)	45, 90, 308
Hin1II	CATG	3 cut(s)	86, 268, 469
Hin6I	GCGC	3 cut(s)	43, 88, 306
HinP1I	GCGC	3 cut(s)	43, 88, 306
HinfI	GANTC	3 cut(s)	68, 93, 338
Hpy166II	GTNNAC	1 cut(s)	346
Hpy188I	TCNGA	4 cut(s)	67, 75, 177, 425
Hpy188III	TCNNGA	1 cut(s)	479
Hpy8I	GTNNAC	1 cut(s)	346
HpyAV	CCTTC	3 cut(s)	33, 197, 463
HpyCH4IV	ACGT	2 cut(s)	37, 398
HpyCH4V	TGCA	1 cut(s)	272
HpyF3I	CTNAG	2 cut(s)	60, 486
HpySE526I	ACGT	2 cut(s)	37, 398
Hsp92II	CATG	3 cut(s)	86, 268, 469
HspAI	GCGC	3 cut(s)	43, 88, 306
Kzo9I	GATC	1 cut(s)	234
LmnI	GCTCC	1 cut(s)	472
LpnPI	CCDG	4 cut(s)	229, 256, 285, 464
Lsp1109I	GCAGC	2 cut(s)	123, 256
LweI	GCATC	2 cut(s)	91, 433
MaeII	ACGT	2 cut(s)	37, 398
MalI	GATC	1 cut(s)	236
MboI	GATC	1 cut(s)	234
MflI	RGATCY	1 cut(s)	234
MhlI	GDGCHC	2 cut(s)	285, 387
MluCI	AATT	2 cut(s)	55, 449
MlyI	GAGTC	2 cut(s)	62, 347
MmeI	TCCRAC	1 cut(s)	403
MnlI	CCTC	5 cut(s)	173, 200, 217, 363, 475
MseI	TTAA	3 cut(s)	33, 147, 228
MslI	CAYNNNNRTG	1 cut(s)	16
MspR9I	CCNGG	1 cut(s)	244
MvaI	CCWGG	1 cut(s)	244
MvnI	CGCG	1 cut(s)	308
NdeII	GATC	1 cut(s)	234
NlaIII	CATG	3 cut(s)	86, 268, 469
NlaIV	GGNNCC	1 cut(s)	236
PfeI	GAWTC	1 cut(s)	93
PkrI	GCNGC	3 cut(s)	113, 271, 305
PleI	GAGTC	2 cut(s)	62, 346
PpsI	GAGTC	2 cut(s)	62, 346
Psp6I	CCWGG	1 cut(s)	242
PspGI	CCWGG	1 cut(s)	242
PspN4I	GGNNCC	1 cut(s)	236
PstI	CTGCAG	1 cut(s)	274
PsuI	RGATCY	1 cut(s)	234
RsaI	GTAC	2 cut(s)	263, 430
RsaNI	GTAC	2 cut(s)	262, 429
RseI	CAYNNNNRTG	1 cut(s)	16
SaqAI	TTAA	3 cut(s)	33, 147, 228
SatI	GCNGC	3 cut(s)	112, 270, 304
Sau3AI	GATC	1 cut(s)	234
SchI	GAGTC	2 cut(s)	62, 347
ScrFI	CCNGG	1 cut(s)	244
SduI	GDGCHC	2 cut(s)	285, 387
SetI	ASST	6 cut(s)	40, 165, 228, 374, 401, 477
SfaNI	GCATC	2 cut(s)	91, 433
SfcI	CTRYAG	1 cut(s)	270
SmiMI	CAYNNNNRTG	1 cut(s)	16
Sse9I	AATT	2 cut(s)	55, 449
SsiI	CCGC	2 cut(s)	109, 303
StyD4I	CCNGG	1 cut(s)	242
StyI	CCWWGG	1 cut(s)	459
TaiI	ACGT	2 cut(s)	40, 401
TasI	AATT	2 cut(s)	55, 449
TatI	WGTACW	2 cut(s)	261, 428
TauI	GCSGC	1 cut(s)	306
TfiI	GAWTC	1 cut(s)	93
Tru1I	TTAA	3 cut(s)	33, 147, 228
Tru9I	TTAA	3 cut(s)	33, 147, 228
TseI	GCWGC	2 cut(s)	111, 269
TspDTI	ATGAA	3 cut(s)	364, 368, 482

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