Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0003037

Physical Location & Seq

Genomic Coordinates Reverse (-)

7256650 .. 7258699

Gene Structure 2050 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG092800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 483 bp

ATGAGCCAAGCGCCACAATCTGGTGCTCCTGCTCCCAGAAAGAGGAGGTTCACGCCAAAAGGATCTCGCCCGAAGGCTGAAGTTAAACCCGACCCGGAGGAGGAAGAGCAAGCTAGTCATGCTGAAAAGGAGAGGGAGCTGCTCAGACGTTTCCATGAACAATCTTTGAGGGTAAAGCCGAAAAACGAAAAGACAGAGAAGCCTGTGGAAGTTGCATTTGGTTCTGGGGGTCAATCATCATCGACCATAAGATCATATGGGGCTCCCAGGGGTGCTAATGGTGGTGGTTTTAACCCGGTCATTCAAGAGGAGAAAGAATACAAGTCACCATTTGTCTCTACAGGAATGAACTGTGATTTTGCCCAGGATGTTGTGGCTATTAATACCACAGAGAAGAAGTGTTGCACTATTGGGGAGCTCAATAAGCGAGCTGTTGTGACCCCAGATATTGACTCCGTTTTGAACAGTTTAGAGGATTTATGA

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

160

Amino Acids

17.57

Weight (kDa)

7.69

Isoelectric Point (pI)

72.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpc4	PF05132	112 - 150	6e-08	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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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

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	20
AclWI	GGATC	1 cut(s)	70
AcuI	CTGAAG	1 cut(s)	99
AfiI	CCNNNNNNNGG	3 cut(s)	20, 42, 100
AgsI	TTSAA	2 cut(s)	305, 463
AjnI	CCWGG	2 cut(s)	266, 363
AjuI	GAANNNNNNNTTGG	2 cut(s)	201, 233
AluBI	AGCT	4 cut(s)	113, 139, 418, 431
AluI	AGCT	4 cut(s)	113, 139, 418, 431
Alw21I	GWGCWC	2 cut(s)	28, 420
Alw26I	GTCTC	1 cut(s)	340
AlwI	GGATC	1 cut(s)	70
ApeKI	GCWGC	1 cut(s)	139
AseI	ATTAAT	1 cut(s)	381
AspLEI	GCGC	1 cut(s)	13
AsuC2I	CCSGG	2 cut(s)	95, 296
AsuHPI	GGTGA	1 cut(s)	318
BanII	GRGCYC	2 cut(s)	265, 420
Bbv12I	GWGCWC	2 cut(s)	28, 420
BbvI	GCAGC	1 cut(s)	126
BciT130I	CCWGG	2 cut(s)	268, 365
BcnI	CCSGG	2 cut(s)	95, 296
BcoDI	GTCTC	1 cut(s)	340
BfaI	CTAG	1 cut(s)	114
BfmI	CTRYAG	1 cut(s)	339
BfoI	RGCGCY	1 cut(s)	14
BisI	GCNGC	1 cut(s)	140
BlsI	GCNGC	1 cut(s)	141
Bme1390I	CCNGG	4 cut(s)	95, 268, 296, 365
BmiI	GGNNCC	1 cut(s)	264
BmrFI	CCNGG	4 cut(s)	95, 268, 296, 365
BpuMI	CCSGG	2 cut(s)	95, 296
BsaJI	CCNNGG	3 cut(s)	266, 267, 363
Bsc4I	CCNNNNNNNGG	3 cut(s)	20, 42, 100
BseBI	CCWGG	2 cut(s)	268, 365
BseDI	CCNNGG	3 cut(s)	266, 267, 363
BseGI	GGATG	1 cut(s)	373
BseLI	CCNNNNNNNGG	3 cut(s)	20, 42, 100
BseMII	CTCAG	1 cut(s)	157
BseRI	GAGGAG	3 cut(s)	58, 113, 323
BseXI	GCAGC	1 cut(s)	126
BsiHKAI	GWGCWC	2 cut(s)	28, 420
BsiSI	CCGG	2 cut(s)	95, 296
BslI	CCNNNNNNNGG	3 cut(s)	20, 42, 100
BsmAI	GTCTC	1 cut(s)	340
Bsp1286I	GDGCHC	3 cut(s)	28, 265, 420
Bsp143I	GATC	2 cut(s)	62, 251
BspCNI	CTCAG	1 cut(s)	156
BspLI	GGNNCC	1 cut(s)	264
BspPI	GGATC	1 cut(s)	70
BspQI	GCTCTTC	1 cut(s)	99
BssECI	CCNNGG	3 cut(s)	266, 267, 363
BssMI	GATC	2 cut(s)	62, 251
Bst2UI	CCWGG	2 cut(s)	268, 365
Bst4CI	ACNGT	2 cut(s)	353, 467
Bst6I	CTCTTC	1 cut(s)	99
BstC8I	GCNNGC	2 cut(s)	111, 429
BstDEI	CTNAG	1 cut(s)	143
BstF5I	GGATG	1 cut(s)	373
BstH2I	RGCGCY	1 cut(s)	14
BstHHI	GCGC	1 cut(s)	13
BstKTI	GATC	2 cut(s)	65, 254
BstMAI	GTCTC	1 cut(s)	340
BstMBI	GATC	2 cut(s)	62, 251
BstMWI	GCNNNNNNNGC	2 cut(s)	119, 424
BstNI	CCWGG	2 cut(s)	268, 365
BstSCI	CCNGG	4 cut(s)	93, 266, 294, 363
BstSFI	CTRYAG	1 cut(s)	339
BstV1I	GCAGC	1 cut(s)	126
BstX2I	RGATCY	1 cut(s)	62
BstYI	RGATCY	1 cut(s)	62
BtsCI	GGATG	1 cut(s)	373
Cac8I	GCNNGC	2 cut(s)	111, 429
CfoI	GCGC	1 cut(s)	13
CviAII	CATG	2 cut(s)	119, 155
DdeI	CTNAG	1 cut(s)	143
DpnI	GATC	2 cut(s)	64, 253
DpnII	GATC	2 cut(s)	62, 251
Eam1104I	CTCTTC	1 cut(s)	99
EarI	CTCTTC	1 cut(s)	99
Ecl136II	GAGCTC	1 cut(s)	418
Eco24I	GRGCYC	2 cut(s)	265, 420
Eco53kI	GAGCTC	1 cut(s)	418
Eco57I	CTGAAG	1 cut(s)	99
EcoICRI	GAGCTC	1 cut(s)	418
EcoRII	CCWGG	2 cut(s)	266, 363
EcoT38I	GRGCYC	2 cut(s)	265, 420
FaeI	CATG	2 cut(s)	122, 158
FaiI	YATR	6 cut(s)	120, 156, 248, 256, 258, 481
FatI	CATG	2 cut(s)	118, 154
FauNDI	CATATG	1 cut(s)	256
Fnu4HI	GCNGC	1 cut(s)	140
FokI	GGATG	1 cut(s)	380
FriOI	GRGCYC	2 cut(s)	265, 420
Fsp4HI	GCNGC	1 cut(s)	140
FspBI	CTAG	1 cut(s)	114
GlaI	GCGC	1 cut(s)	12
GluI	GCNGC	1 cut(s)	140
HaeII	RGCGCY	1 cut(s)	14
HapII	CCGG	2 cut(s)	95, 296
HhaI	GCGC	1 cut(s)	13
Hin1II	CATG	2 cut(s)	122, 158
Hin6I	GCGC	1 cut(s)	11
HinP1I	GCGC	1 cut(s)	11
HinfI	GANTC	1 cut(s)	452
HpaII	CCGG	2 cut(s)	95, 296
HphI	GGTGA	1 cut(s)	318
Hpy166II	GTNNAC	1 cut(s)	51
Hpy188I	TCNGA	1 cut(s)	146
Hpy188III	TCNNGA	1 cut(s)	305
Hpy8I	GTNNAC	1 cut(s)	51
HpyAV	CCTTC	1 cut(s)	67
HpyCH4III	ACNGT	2 cut(s)	353, 467
HpyCH4IV	ACGT	1 cut(s)	148
HpyCH4V	TGCA	2 cut(s)	215, 405
HpyF10VI	GCNNNNNNNGC	2 cut(s)	119, 424
HpyF3I	CTNAG	1 cut(s)	143
HpySE526I	ACGT	1 cut(s)	148
Hsp92II	CATG	2 cut(s)	122, 158
HspAI	GCGC	1 cut(s)	11
Kzo9I	GATC	2 cut(s)	62, 251
LguI	GCTCTTC	1 cut(s)	99
LmnI	GCTCC	5 cut(s)	31, 37, 136, 268, 415
Lsp1109I	GCAGC	1 cut(s)	126
MaeI	CTAG	1 cut(s)	114
MaeII	ACGT	1 cut(s)	148
MaeIII	GTNAC	2 cut(s)	324, 436
MalI	GATC	2 cut(s)	64, 253
MboI	GATC	2 cut(s)	62, 251
MboII	GAAGA	2 cut(s)	116, 406
MflI	RGATCY	1 cut(s)	62
MhlI	GDGCHC	3 cut(s)	28, 265, 420
MlyI	GAGTC	1 cut(s)	446
MnlI	CCTC	8 cut(s)	36, 39, 91, 94, 126, 162, 301, 466
MseI	TTAA	3 cut(s)	84, 291, 381
MspI	CCGG	2 cut(s)	95, 296
MspR9I	CCNGG	4 cut(s)	95, 268, 296, 365
MvaI	CCWGG	2 cut(s)	268, 365
MwoI	GCNNNNNNNGC	2 cut(s)	119, 424
NciI	CCSGG	2 cut(s)	95, 296
NdeI	CATATG	1 cut(s)	256
NdeII	GATC	2 cut(s)	62, 251
NlaIII	CATG	2 cut(s)	122, 158
NlaIV	GGNNCC	1 cut(s)	264
NmuCI	GTSAC	2 cut(s)	324, 436
PasI	CCCWGGG	1 cut(s)	267
PciSI	GCTCTTC	1 cut(s)	99
PflMI	CCANNNNNTGG	1 cut(s)	20
PkrI	GCNGC	1 cut(s)	141
PleI	GAGTC	1 cut(s)	446
PpsI	GAGTC	1 cut(s)	446
PshBI	ATTAAT	1 cut(s)	381
Psp124BI	GAGCTC	1 cut(s)	420
Psp6I	CCWGG	2 cut(s)	266, 363
PspGI	CCWGG	2 cut(s)	266, 363
PspN4I	GGNNCC	1 cut(s)	264
PsuI	RGATCY	1 cut(s)	62
SacI	GAGCTC	1 cut(s)	420
SapI	GCTCTTC	1 cut(s)	99
SaqAI	TTAA	3 cut(s)	84, 291, 381
SatI	GCNGC	1 cut(s)	140
Sau3AI	GATC	2 cut(s)	62, 251
SchI	GAGTC	1 cut(s)	446
ScrFI	CCNGG	4 cut(s)	95, 268, 296, 365
SduI	GDGCHC	3 cut(s)	28, 265, 420
SetI	ASST	6 cut(s)	50, 115, 141, 151, 420, 433
SfcI	CTRYAG	1 cut(s)	339
SspMI	CTAG	1 cut(s)	114
SstI	GAGCTC	1 cut(s)	420
StyD4I	CCNGG	4 cut(s)	93, 266, 294, 363
TaaI	ACNGT	2 cut(s)	353, 467
TaiI	ACGT	1 cut(s)	151
TaqI	TCGA	1 cut(s)	242
Tru1I	TTAA	3 cut(s)	84, 291, 381
Tru9I	TTAA	3 cut(s)	84, 291, 381
TseFI	GTSAC	2 cut(s)	324, 436
TseI	GCWGC	1 cut(s)	139
Tsp45I	GTSAC	2 cut(s)	324, 436
TspDTI	ATGAA	2 cut(s)	171, 362
TspGWI	ACGGA	1 cut(s)	445
Van91I	CCANNNNNTGG	1 cut(s)	20
VspI	ATTAAT	1 cut(s)	381
XspI	CTAG	1 cut(s)	114

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