Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0002122

Physical Location & Seq

Genomic Coordinates Forward (+)

34596565 .. 34598352

Gene Structure 1788 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG274800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 558 bp

ATGTTGGCCCCATTGGCACTGGAGCTTGAAGAAGAAAGACGGAATGAGCAAGAACAACTGATACGCGACCATGACCTCTGGGATGACACTGCAGAGTCCAATGAGGTTCTTACCAAATTGGCTGATAGTGTTAGAGTGGTTGATGCTCTCAGAGACTTGACATATAAGTTAGCAGAGATATATGCTATCAATTATGGGCTTTTTAGGAAGGCATATGATGCATCTCTGGATATGAGCAAGATTTTGAATAAATATGAGATTTCCAAGCTTCTTAAGGGACCATATGACATGGAGGGAGCATGTCTAATTATAAAAGCTGGTGGCACAGGCTACCCTGAGGTTTCTGTAAAACAACAACTAAGCATGTATACCAAATGGGCCAGAAAGCTAGGTTACAAAGGAAGGGTAGTAGAGATGCATTCTTCCACGAATGGTGGCATCAAGTCAGCAACTATTCAGTTTGCTTTTGGTTATCTATCAGGAGAGGCAGGTGTGCACTACATCATAAATTCTAAAAATGGATCTGCTGTGCATGAGGTCATTGAGGATTCAGTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003723 GO:0003729 GO:0003730 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006996 GO:0008150 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009657 GO:0009658 GO:0009894 GO:0009987 GO:0010468 GO:0010608 GO:0016043 GO:0019219 GO:0019222 GO:0031323 GO:0031329 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043487 GO:0043488 GO:0043565 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0061013 GO:0065007 GO:0065008 GO:0071840 GO:0080090 GO:0097159 GO:1901363 GO:1903311

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PCRF RF-1

Protein Analysis

185

Amino Acids

20.71

Weight (kDa)

5.44

Isoelectric Point (pI)

41.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PCRF	PF03462	12 - 167	8.1e-16	PCRF 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)

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Publication-ready

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Orthologous Genes (Group: OG0002122)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G57190
fragaria_vesca	FvH4_4g12020 FvH4_4g12020
prunus_persica	Prupe.7G049700_v2.0.a1 Prupe.7G049700_v2.0.a1 Prupe.7G049700_v2.0.a1
pyrus_communis	pycom12g07340
rosa_chinensis	RchiOBHm_Chr1g0343471 RchiOBHm_Chr2g0168541 RchiOBHm_Chr4g0409641 RchiOBHm_Chr5g0045081 RchiOBHm_Chr5g0071051 RchiOBHm_Chr6g0273161 RchiOBHm_Chr7g0240011
rosa_laevigata	RLG00000008537
rosa_multiflora	Rmu_sc0000652.1_g000001 Rmu_sc0002310.1_g000022 Rmu_sc0015305.1_g000010 Rmu_sc0015338.1_g000005 Rmu_sc0018973.1_g000001
rosa_roxburghii	Rroxscaffold_5G00354180
rosa_rugosa	Rorug04G0095700 Rorug04G0095800 Rorug05G0498600
rosa_samantha	Rh2BG617100 Rh2CG585200 Rh3DG274500 Rh4AG157300 Rh4BG156900 Rh4CG024300 Rh4CG167500 Rh4DG151200 Rh4DG161700 Rh5BG221000 Rh5BG274800 Rh5BG309900 Rh5CG332800 Rh5DG283000 Rh5DG320400
rosa_wichuraiana	Rw0G003500 Rw2G050080 Rw3G022130 Rw4G012870 Rw4G012980

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	311
AarI	CACCTGC	1 cut(s)	479
Acc36I	ACCTGC	1 cut(s)	479
AccI	GTMKAC	1 cut(s)	368
AccII	CGCG	1 cut(s)	66
AclWI	GGATC	1 cut(s)	529
AcsI	RAATTY	1 cut(s)	508
AflII	CTTAAG	1 cut(s)	272
AgsI	TTSAA	2 cut(s)	29, 247
AluBI	AGCT	4 cut(s)	25, 268, 317, 388
AluI	AGCT	4 cut(s)	25, 268, 317, 388
Alw21I	GWGCWC	1 cut(s)	498
Alw26I	GTCTC	1 cut(s)	147
Alw44I	GTGCAC	1 cut(s)	494
AlwI	GGATC	1 cut(s)	529
AoxI	GGCC	2 cut(s)	6, 378
ApaLI	GTGCAC	1 cut(s)	494
ApoI	RAATTY	1 cut(s)	508
AspS9I	GGNCC	3 cut(s)	7, 278, 378
AvaII	GGWCC	1 cut(s)	278
AxyI	CCTNAGG	1 cut(s)	336
BaeGI	GKGCMC	1 cut(s)	498
Bbv12I	GWGCWC	1 cut(s)	498
BcoDI	GTCTC	1 cut(s)	147
BfaI	CTAG	1 cut(s)	389
BfmI	CTRYAG	1 cut(s)	90
BfrI	CTTAAG	1 cut(s)	272
BfuAI	ACCTGC	1 cut(s)	479
BglI	GCCNNNNNGGC	1 cut(s)	14
Bme18I	GGWCC	1 cut(s)	278
BmgT120I	GGNCC	3 cut(s)	7, 278, 378
BmiI	GGNNCC	2 cut(s)	9, 279
BmsI	GCATC	5 cut(s)	133, 208, 230, 405, 447
BpmI	CTGGAG	1 cut(s)	41
Bse1I	ACTGG	1 cut(s)	24
Bse21I	CCTNAGG	1 cut(s)	336
BseGI	GGATG	1 cut(s)	88
BseMII	CTCAG	2 cut(s)	163, 327
BseNI	ACTGG	1 cut(s)	24
BseSI	GKGCMC	1 cut(s)	498
Bsh1236I	CGCG	1 cut(s)	66
BshFI	GGCC	2 cut(s)	8, 380
BsiHKAI	GWGCWC	1 cut(s)	498
BslFI	GGGAC	1 cut(s)	291
BsmAI	GTCTC	1 cut(s)	147
BsmFI	GGGAC	1 cut(s)	291
BsmI	GAATGC	1 cut(s)	418
BsnI	GGCC	2 cut(s)	8, 380
Bsp1286I	GDGCHC	1 cut(s)	498
Bsp143I	GATC	1 cut(s)	521
BspANI	GGCC	2 cut(s)	8, 380
BspCNI	CTCAG	2 cut(s)	162, 328
BspFNI	CGCG	1 cut(s)	66
BspLI	GGNNCC	2 cut(s)	9, 279
BspMAI	CTGCAG	1 cut(s)	94
BspMI	ACCTGC	1 cut(s)	479
BspPI	GGATC	1 cut(s)	529
BspTI	CTTAAG	1 cut(s)	272
BsrI	ACTGG	1 cut(s)	24
BssMI	GATC	1 cut(s)	521
BssNAI	GTATAC	1 cut(s)	369
Bst1107I	GTATAC	1 cut(s)	369
BstAFI	CTTAAG	1 cut(s)	272
BstAPI	GCANNNNNTGC	1 cut(s)	218
BstDEI	CTNAG	3 cut(s)	149, 336, 359
BstF5I	GGATG	1 cut(s)	88
BstFNI	CGCG	1 cut(s)	66
BstKTI	GATC	1 cut(s)	524
BstMAI	GTCTC	1 cut(s)	147
BstMBI	GATC	1 cut(s)	521
BstMWI	GCNNNNNNNGC	2 cut(s)	14, 218
BstNSI	RCATGY	2 cut(s)	303, 367
BstSFI	CTRYAG	1 cut(s)	90
BstSLI	GKGCMC	1 cut(s)	498
BstUI	CGCG	1 cut(s)	66
BstX2I	RGATCY	1 cut(s)	521
BstYI	RGATCY	1 cut(s)	521
BstZ17I	GTATAC	1 cut(s)	369
Bsu36I	CCTNAGG	1 cut(s)	336
BsuRI	GGCC	2 cut(s)	8, 380
BtsCI	GGATG	1 cut(s)	88
BtsI	GCAGTG	1 cut(s)	87
BtsIMutI	CAGTG	2 cut(s)	17, 87
BveI	ACCTGC	1 cut(s)	479
Cfr13I	GGNCC	3 cut(s)	7, 278, 378
CviAII	CATG	5 cut(s)	71, 289, 300, 364, 533
CviJI	RGCY	9 cut(s)	8, 25, 122, 199, 268, 317, 330, 380, 388
CviKI_1	RGCY	9 cut(s)	8, 25, 122, 199, 268, 317, 330, 380, 388
DdeI	CTNAG	3 cut(s)	149, 336, 359
DpnI	GATC	1 cut(s)	523
DpnII	GATC	1 cut(s)	521
Eco47I	GGWCC	1 cut(s)	278
Eco81I	CCTNAGG	1 cut(s)	336
EcoT22I	ATGCAT	2 cut(s)	223, 420
FaeI	CATG	5 cut(s)	74, 292, 303, 367, 536
FaqI	GGGAC	1 cut(s)	291
FatI	CATG	5 cut(s)	70, 288, 299, 363, 532
FauNDI	CATATG	2 cut(s)	214, 283
FblI	GTMKAC	1 cut(s)	368
FokI	GGATG	1 cut(s)	95
FspBI	CTAG	1 cut(s)	389
GsuI	CTGGAG	1 cut(s)	41
HaeIII	GGCC	2 cut(s)	8, 380
Hin1II	CATG	5 cut(s)	74, 292, 303, 367, 536
HindIII	AAGCTT	1 cut(s)	266
HinfI	GANTC	2 cut(s)	95, 548
Hpy166II	GTNNAC	2 cut(s)	369, 496
Hpy188I	TCNGA	2 cut(s)	152, 557
Hpy188III	TCNNGA	2 cut(s)	227, 480
Hpy8I	GTNNAC	2 cut(s)	369, 496
HpyAV	CCTTC	2 cut(s)	202, 396
HpyCH4V	TGCA	5 cut(s)	92, 221, 418, 496, 532
HpyF10VI	GCNNNNNNNGC	2 cut(s)	14, 218
HpyF3I	CTNAG	3 cut(s)	149, 336, 359
Hsp92II	CATG	5 cut(s)	74, 292, 303, 367, 536
Kzo9I	GATC	1 cut(s)	521
LmnI	GCTCC	2 cut(s)	22, 296
LpnPI	CCDG	9 cut(s)	5, 64, 212, 303, 312, 348, 394, 465, 474
LweI	GCATC	5 cut(s)	133, 208, 230, 405, 447
MaeI	CTAG	1 cut(s)	389
MaeIII	GTNAC	1 cut(s)	392
MalI	GATC	1 cut(s)	523
MboI	GATC	1 cut(s)	521
MboII	GAAGA	3 cut(s)	41, 44, 414
MflI	RGATCY	1 cut(s)	521
MhlI	GDGCHC	1 cut(s)	498
MluCI	AATT	4 cut(s)	116, 190, 306, 508
MlyI	GAGTC	1 cut(s)	104
MnlI	CCTC	7 cut(s)	86, 97, 286, 331, 478, 529, 538
Mph1103I	ATGCAT	2 cut(s)	223, 420
MseI	TTAA	1 cut(s)	273
MspCI	CTTAAG	1 cut(s)	272
Mva1269I	GAATGC	1 cut(s)	418
MvnI	CGCG	1 cut(s)	66
MwoI	GCNNNNNNNGC	2 cut(s)	14, 218
NdeI	CATATG	2 cut(s)	214, 283
NdeII	GATC	1 cut(s)	521
NlaIII	CATG	5 cut(s)	74, 292, 303, 367, 536
NlaIV	GGNNCC	2 cut(s)	9, 279
NsiI	ATGCAT	2 cut(s)	223, 420
NspI	RCATGY	2 cut(s)	303, 367
PaqCI	CACCTGC	1 cut(s)	479
PctI	GAATGC	1 cut(s)	418
PfeI	GAWTC	1 cut(s)	548
PleI	GAGTC	1 cut(s)	103
PpsI	GAGTC	1 cut(s)	103
PsiI	TTATAA	1 cut(s)	311
PspN4I	GGNNCC	2 cut(s)	9, 279
PspPI	GGNCC	3 cut(s)	7, 278, 378
PsrI	GAACNNNNNNTAC	2 cut(s)	45, 77
PstI	CTGCAG	1 cut(s)	94
PsuI	RGATCY	1 cut(s)	521
SaqAI	TTAA	1 cut(s)	273
Sau3AI	GATC	1 cut(s)	521
Sau96I	GGNCC	3 cut(s)	7, 278, 378
SchI	GAGTC	1 cut(s)	104
SduI	GDGCHC	1 cut(s)	498
SfaNI	GCATC	5 cut(s)	133, 208, 230, 405, 447
SfcI	CTRYAG	1 cut(s)	90
SinI	GGWCC	1 cut(s)	278
SmlI	CTYRAG	1 cut(s)	272
SmoI	CTYRAG	1 cut(s)	272
Sse9I	AATT	4 cut(s)	116, 190, 306, 508
SspMI	CTAG	1 cut(s)	389
TasI	AATT	4 cut(s)	116, 190, 306, 508
TfiI	GAWTC	1 cut(s)	548
Tru1I	TTAA	1 cut(s)	273
Tru9I	TTAA	1 cut(s)	273
TscAI	CASTG	2 cut(s)	24, 94
TspGWI	ACGGA	1 cut(s)	55
TspRI	CASTG	2 cut(s)	24, 94
Vha464I	CTTAAG	1 cut(s)	272
VneI	GTGCAC	1 cut(s)	494
VpaK11BI	GGWCC	1 cut(s)	278
XapI	RAATTY	1 cut(s)	508
XceI	RCATGY	2 cut(s)	303, 367
XmiI	GTMKAC	1 cut(s)	368
XspI	CTAG	1 cut(s)	389
Zsp2I	ATGCAT	2 cut(s)	223, 420

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