Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0002122

Physical Location & Seq

Genomic Coordinates Forward (+)

30159060 .. 30162151

Gene Structure 3092 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG151200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 882 bp

ATGGCCGCCGAGTCCGCATTTGTCAGAAATGGCGGGAGCAGCAGCACCAGCGCCACCACTGCTGCCTTATTCAGCAGCTCAGCGTGGAAACATTCCAAGAGAAAGACCCAGCAGTCTCTACACACTCACTGCGCCCATGACAAGAACAGGTTCTACAAACAACTGGGATTATTTTCATTGAAAAAGAAGATTGAAGATGCAGTTCTCCGAGCTGAGATGTTGGCCCCATTGGCACTGGAGCTTGAAGAAGAGAGACGGAATGAGCAGGAACAACTGATGCGTGACTATGACCTATGGGATGACACTGCTGAGTCCAATGAGGTTCTTGCTAAATTGGCTGATAGTGTTAGAGTGGTTGACGCTCTCAGAGACTTGACATATAAGGCTGAAGAAGCAAAACTTATTACACAGTTAGCAGAGATAGATGCTATCAATTATGGGCTTTTTAGGCAAGCATATGATGCATCTCTGGATATGAGCAAGATTTTGAATAAATATGAGATTTCCAAGCTTCTTAAGGGACCATATGACATGGAGGGAGCATGTCTAATTATAAAAGCTGGTGGCACAGGCTACCCTGAGGTTTGGGTAAAACAACTACTAAGCATGTATACCAAATGGGCCAGAAAGCTAGGTTACAAAGGGAGGGTAGTAGAGATGCATTCTTCCACGAATGGTGGCATCAAGTCAGCAACTATTGAGTTTGAACATGAGTTTGCTTTTGGTTATCTATCAGGAGAGGCAGGTGTGCACTACATCATAAATTCTGAAAACGGATCTGCTGTGCACAAGGTACAACTCTGTCTTGTTGATATCAATCCAATATTAAAGTTTTCAGAATTGCTCGTATTTTCTTTTCCTAAAAAAAGATGTCACTGGTGA

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

293

Amino Acids

33.04

Weight (kDa)

7.12

Isoelectric Point (pI)

44.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PCRF	PF03462	84 - 253	1.3e-23	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)

Image

Tree File

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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)	554
AarI	CACCTGC	1 cut(s)	734
AasI	GACNNNNNNGTC	1 cut(s)	112
Acc36I	ACCTGC	1 cut(s)	734
AccI	GTMKAC	1 cut(s)	611
AciI	CCGC	3 cut(s)	6, 15, 33
AclWI	GGATC	1 cut(s)	784
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	1 cut(s)	763
AcuI	CTGAAG	1 cut(s)	408
AfaI	GTAC	1 cut(s)	795
AflII	CTTAAG	1 cut(s)	515
AgsI	TTSAA	5 cut(s)	181, 194, 245, 490, 707
AluBI	AGCT	6 cut(s)	78, 212, 241, 511, 560, 631
AluI	AGCT	6 cut(s)	78, 212, 241, 511, 560, 631
Alw21I	GWGCWC	2 cut(s)	753, 789
Alw26I	GTCTC	3 cut(s)	120, 247, 363
Alw44I	GTGCAC	2 cut(s)	749, 785
AlwI	GGATC	1 cut(s)	784
AoxI	GGCC	3 cut(s)	3, 222, 621
ApaLI	GTGCAC	2 cut(s)	749, 785
ApeKI	GCWGC	4 cut(s)	39, 42, 62, 75
ApoI	RAATTY	1 cut(s)	763
Asp700I	GAANNNNTTC	1 cut(s)	149
AspLEI	GCGC	2 cut(s)	53, 134
AspS9I	GGNCC	3 cut(s)	223, 521, 621
AvaII	GGWCC	1 cut(s)	521
AxyI	CCTNAGG	1 cut(s)	579
BaeGI	GKGCMC	2 cut(s)	753, 789
Bbv12I	GWGCWC	2 cut(s)	753, 789
BbvI	GCAGC	4 cut(s)	49, 51, 54, 87
BcoDI	GTCTC	3 cut(s)	120, 247, 363
BfaI	CTAG	1 cut(s)	632
BfoI	RGCGCY	1 cut(s)	54
BfrI	CTTAAG	1 cut(s)	515
BfuAI	ACCTGC	1 cut(s)	734
BglI	GCCNNNNNGGC	1 cut(s)	230
BisI	GCNGC	5 cut(s)	6, 40, 43, 63, 76
BlpI	GCTNAGC	1 cut(s)	79
BlsI	GCNGC	5 cut(s)	7, 41, 44, 64, 77
Bme18I	GGWCC	1 cut(s)	521
BmgT120I	GGNCC	3 cut(s)	223, 521, 621
BmiI	GGNNCC	2 cut(s)	225, 522
BmrI	ACTGGG	1 cut(s)	173
BmsI	GCATC	7 cut(s)	187, 267, 415, 451, 473, 648, 690
BmuI	ACTGGG	1 cut(s)	173
BpmI	CTGGAG	1 cut(s)	257
Bpu1102I	GCTNAGC	1 cut(s)	79
BsaBI	GATNNNNATC	1 cut(s)	816
Bse1I	ACTGG	3 cut(s)	168, 240, 881
Bse21I	CCTNAGG	1 cut(s)	579
Bse8I	GATNNNNATC	1 cut(s)	816
BseGI	GGATG	1 cut(s)	304
BseJI	GATNNNNATC	1 cut(s)	816
BseMII	CTCAG	5 cut(s)	93, 204, 300, 379, 570
BseNI	ACTGG	3 cut(s)	168, 240, 881
BseSI	GKGCMC	2 cut(s)	753, 789
BseXI	GCAGC	4 cut(s)	49, 51, 54, 87
BseYI	CCCAGC	1 cut(s)	108
BshFI	GGCC	3 cut(s)	5, 224, 623
BsiHKAI	GWGCWC	2 cut(s)	753, 789
BslFI	GGGAC	1 cut(s)	534
BsmAI	GTCTC	3 cut(s)	120, 247, 363
BsmBI	CGTCTC	1 cut(s)	247
BsmFI	GGGAC	1 cut(s)	534
BsmI	GAATGC	1 cut(s)	661
BsnI	GGCC	3 cut(s)	5, 224, 623
Bsp1286I	GDGCHC	2 cut(s)	753, 789
Bsp143I	GATC	1 cut(s)	776
Bsp1720I	GCTNAGC	1 cut(s)	79
BspACI	CCGC	3 cut(s)	6, 15, 33
BspANI	GGCC	3 cut(s)	5, 224, 623
BspCNI	CTCAG	5 cut(s)	92, 205, 301, 378, 571
BspLI	GGNNCC	2 cut(s)	225, 522
BspMI	ACCTGC	1 cut(s)	734
BspPI	GGATC	1 cut(s)	784
BspTI	CTTAAG	1 cut(s)	515
BsrI	ACTGG	3 cut(s)	168, 240, 881
BssMI	GATC	1 cut(s)	776
BssNAI	GTATAC	1 cut(s)	612
Bst1107I	GTATAC	1 cut(s)	612
Bst4CI	ACNGT	1 cut(s)	411
Bst6I	CTCTTC	1 cut(s)	243
BstAFI	CTTAAG	1 cut(s)	515
BstAPI	GCANNNNNTGC	1 cut(s)	461
BstC8I	GCNNGC	1 cut(s)	453
BstDEI	CTNAG	6 cut(s)	79, 213, 309, 365, 579, 602
BstF5I	GGATG	1 cut(s)	304
BstH2I	RGCGCY	1 cut(s)	54
BstHHI	GCGC	2 cut(s)	53, 134
BstKTI	GATC	1 cut(s)	779
BstMAI	GTCTC	3 cut(s)	120, 247, 363
BstMBI	GATC	1 cut(s)	776
BstMWI	GCNNNNNNNGC	9 cut(s)	14, 39, 48, 59, 230, 335, 392, 448, 461
BstNSI	RCATGY	2 cut(s)	546, 610
BstSLI	GKGCMC	2 cut(s)	753, 789
BstV1I	GCAGC	4 cut(s)	49, 51, 54, 87
BstX2I	RGATCY	1 cut(s)	776
BstYI	RGATCY	1 cut(s)	776
BstZ17I	GTATAC	1 cut(s)	612
Bsu36I	CCTNAGG	1 cut(s)	579
BsuRI	GGCC	3 cut(s)	5, 224, 623
BtsCI	GGATG	1 cut(s)	304
BtsI	GCAGTG	3 cut(s)	57, 127, 303
BtsIMutI	CAGTG	5 cut(s)	57, 127, 233, 303, 874
BveI	ACCTGC	1 cut(s)	734
Cac8I	GCNNGC	1 cut(s)	453
CfoI	GCGC	2 cut(s)	53, 134
Cfr13I	GGNCC	3 cut(s)	223, 521, 621
CseI	GACGC	1 cut(s)	368
Csp6I	GTAC	1 cut(s)	794
CviAII	CATG	5 cut(s)	137, 532, 543, 607, 710
CviQI	GTAC	1 cut(s)	794
DdeI	CTNAG	6 cut(s)	79, 213, 309, 365, 579, 602
DpnI	GATC	1 cut(s)	778
DpnII	GATC	1 cut(s)	776
DrdI	GACNNNNNNGTC	1 cut(s)	112
DseDI	GACNNNNNNGTC	1 cut(s)	112
EaeI	YGGCCR	1 cut(s)	3
Eam1104I	CTCTTC	1 cut(s)	243
EarI	CTCTTC	1 cut(s)	243
Eco32I	GATATC	1 cut(s)	814
Eco47I	GGWCC	1 cut(s)	521
Eco57I	CTGAAG	1 cut(s)	408
Eco81I	CCTNAGG	1 cut(s)	579
EcoRV	GATATC	1 cut(s)	814
EcoT22I	ATGCAT	2 cut(s)	466, 663
Esp3I	CGTCTC	1 cut(s)	247
FaeI	CATG	5 cut(s)	140, 535, 546, 610, 713
FalI	AAGNNNNNCTT	2 cut(s)	384, 416
FaqI	GGGAC	1 cut(s)	534
FatI	CATG	5 cut(s)	136, 531, 542, 606, 709
FauI	CCCGC	1 cut(s)	26
FauNDI	CATATG	2 cut(s)	457, 526
FblI	GTMKAC	1 cut(s)	611
Fnu4HI	GCNGC	5 cut(s)	6, 40, 43, 63, 76
FokI	GGATG	1 cut(s)	311
Fsp4HI	GCNGC	5 cut(s)	6, 40, 43, 63, 76
FspBI	CTAG	1 cut(s)	632
GlaI	GCGC	2 cut(s)	52, 133
GluI	GCNGC	5 cut(s)	6, 40, 43, 63, 76
GsaI	CCCAGC	1 cut(s)	112
GsuI	CTGGAG	1 cut(s)	257
HaeII	RGCGCY	1 cut(s)	54
HaeIII	GGCC	3 cut(s)	5, 224, 623
HgaI	GACGC	1 cut(s)	368
HhaI	GCGC	2 cut(s)	53, 134
Hin1II	CATG	5 cut(s)	140, 535, 546, 610, 713
Hin6I	GCGC	2 cut(s)	51, 132
HinP1I	GCGC	2 cut(s)	51, 132
HincII	GTYRAC	1 cut(s)	358
HindII	GTYRAC	1 cut(s)	358
HindIII	AAGCTT	1 cut(s)	509
HinfI	GANTC	2 cut(s)	11, 311
Hpy166II	GTNNAC	4 cut(s)	358, 612, 751, 787
Hpy188I	TCNGA	5 cut(s)	26, 209, 368, 769, 838
Hpy188III	TCNNGA	2 cut(s)	470, 735
Hpy8I	GTNNAC	4 cut(s)	358, 612, 751, 787
HpyCH4III	ACNGT	1 cut(s)	411
HpyCH4V	TGCA	5 cut(s)	200, 464, 661, 751, 787
HpyF10VI	GCNNNNNNNGC	9 cut(s)	14, 39, 48, 59, 230, 335, 392, 448, 461
HpyF3I	CTNAG	6 cut(s)	79, 213, 309, 365, 579, 602
Hsp92II	CATG	5 cut(s)	140, 535, 546, 610, 713
HspAI	GCGC	2 cut(s)	51, 132
Kzo9I	GATC	1 cut(s)	776
LmnI	GCTCC	3 cut(s)	36, 238, 539
Lsp1109I	GCAGC	4 cut(s)	49, 51, 54, 87
LweI	GCATC	7 cut(s)	187, 267, 415, 451, 473, 648, 690
MaeI	CTAG	1 cut(s)	632
MaeIII	GTNAC	3 cut(s)	281, 635, 872
MalI	GATC	1 cut(s)	778
MboI	GATC	1 cut(s)	776
MboII	GAAGA	6 cut(s)	199, 206, 257, 260, 401, 657
MflI	RGATCY	1 cut(s)	776
MhlI	GDGCHC	2 cut(s)	753, 789
MluCI	AATT	5 cut(s)	332, 433, 549, 763, 839
MlyI	GAGTC	2 cut(s)	20, 320
MnlI	CCTC	5 cut(s)	313, 529, 574, 639, 733
Mph1103I	ATGCAT	2 cut(s)	466, 663
MroXI	GAANNNNTTC	1 cut(s)	149
MseI	TTAA	2 cut(s)	516, 827
MspCI	CTTAAG	1 cut(s)	515
Mva1269I	GAATGC	1 cut(s)	661
MwoI	GCNNNNNNNGC	9 cut(s)	14, 39, 48, 59, 230, 335, 392, 448, 461
NdeI	CATATG	2 cut(s)	457, 526
NdeII	GATC	1 cut(s)	776
NlaIII	CATG	5 cut(s)	140, 535, 546, 610, 713
NlaIV	GGNNCC	2 cut(s)	225, 522
NmeAIII	GCCGAG	1 cut(s)	34
NmuCI	GTSAC	2 cut(s)	281, 872
NsiI	ATGCAT	2 cut(s)	466, 663
NspI	RCATGY	2 cut(s)	546, 610
PaqCI	CACCTGC	1 cut(s)	734
PctI	GAATGC	1 cut(s)	661
PdmI	GAANNNNTTC	1 cut(s)	149
PkrI	GCNGC	5 cut(s)	7, 41, 44, 64, 77
PleI	GAGTC	2 cut(s)	19, 319
PpsI	GAGTC	2 cut(s)	19, 319
PsiI	TTATAA	1 cut(s)	554
PspFI	CCCAGC	1 cut(s)	108
PspN4I	GGNNCC	2 cut(s)	225, 522
PspPI	GGNCC	3 cut(s)	223, 521, 621
PsrI	GAACNNNNNNTAC	2 cut(s)	137, 169
PsuI	RGATCY	1 cut(s)	776
RsaI	GTAC	1 cut(s)	795
RsaNI	GTAC	1 cut(s)	794
SaqAI	TTAA	2 cut(s)	516, 827
SatI	GCNGC	5 cut(s)	6, 40, 43, 63, 76
Sau3AI	GATC	1 cut(s)	776
Sau96I	GGNCC	3 cut(s)	223, 521, 621
SchI	GAGTC	2 cut(s)	20, 320
SduI	GDGCHC	2 cut(s)	753, 789
SfaNI	GCATC	7 cut(s)	187, 267, 415, 451, 473, 648, 690
SinI	GGWCC	1 cut(s)	521
SmlI	CTYRAG	1 cut(s)	515
SmoI	CTYRAG	1 cut(s)	515
Sse9I	AATT	5 cut(s)	332, 433, 549, 763, 839
SsiI	CCGC	3 cut(s)	6, 15, 33
SspI	AATATT	1 cut(s)	825
SspMI	CTAG	1 cut(s)	632
TaaI	ACNGT	1 cut(s)	411
TasI	AATT	5 cut(s)	332, 433, 549, 763, 839
TauI	GCSGC	1 cut(s)	8
Tru1I	TTAA	2 cut(s)	516, 827
Tru9I	TTAA	2 cut(s)	516, 827
TscAI	CASTG	5 cut(s)	64, 134, 240, 310, 881
TseFI	GTSAC	2 cut(s)	281, 872
TseI	GCWGC	4 cut(s)	39, 42, 62, 75
Tsp45I	GTSAC	2 cut(s)	281, 872
TspDTI	ATGAA	1 cut(s)	165
TspGWI	ACGGA	2 cut(s)	271, 789
TspRI	CASTG	5 cut(s)	64, 134, 240, 310, 881
Vha464I	CTTAAG	1 cut(s)	515
VneI	GTGCAC	2 cut(s)	749, 785
VpaK11BI	GGWCC	1 cut(s)	521
XapI	RAATTY	1 cut(s)	763
XceI	RCATGY	2 cut(s)	546, 610
XmiI	GTMKAC	1 cut(s)	611
XmnI	GAANNNNTTC	1 cut(s)	149
XspI	CTAG	1 cut(s)	632
Zsp2I	ATGCAT	2 cut(s)	466, 663

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