Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0002122

Physical Location & Seq

Genomic Coordinates Reverse (-)

40583161 .. 40586103

Gene Structure 2943 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG309900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 849 bp

ATGACAACCTCCGAATTTTGCCAATCTCACACTCCAGCCGAGAAAGGTTTCAAAGCTGTCACTTTTGACATGAGAGGAGTTGGGAGGTCAACTGGGAAGGCTTCTCTTGCTGGGTTTGTAGAAATCAAGGATGTGATTGCTGGCTGCAAATTGTTGCTAAGAAGGTGTTCATGGTATTCAACGTGGAAACATTCCAAGAGAAAGACCCAGCAGTCTCTACAGACTCACAGCGCCCATGACAAGAACAGGTTCTACAAACAACTGGGATTATTTTCATTGAAAAAGAAGATTGAAGATGCTGTTCTCCGAGCTGAGATGTTGGCCCCATTGGCACTGGAGCTTGAAGAAGAAAGACGGAATGAGCAAGAACAACTGATACGCGACTATGACCTCTGGGATGACACTACTGAGTCCAATGAGGCTGAAGAAGCAAAACTTATTACACAGTTAGCAGAGATAGATGCTATCAATTATAGGCTTTTTAGGAAAGCATATGATGCATCTCTGGATATGAGCAAGACTTTGAATAAATATGAGATTTCCAAGCTTCTTAAGGGACCATATGACATGGAGGGAGCATGTCTAATTATAAAAGCTGGTGGCACAGGCTACCTTGAGGTTTCGGTAAAACAACAACTAAGCATGTATACCAAATGGGCTAGAAAGCTAGGTTACAAAGGAAGGGTAGTAGAGATGCATTCTTCCACAAATGGTGGCATCAAGTCAGCAACTATTGAGTTTGAACATGAGTTTGCTTTTGGTTATCTATCAGGAGAGGCAGGTGCGCACCACATCATAAATTCTAAAAACGGATCTGCTGTGCACGAGGTCATTGAGGATTCAGTCTGA

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

282

Amino Acids

31.86

Weight (kDa)

7.68

Isoelectric Point (pI)

43.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PCRF	PF03462	117 - 265	2.5e-15	PCRF domain

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: 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)	590
AarI	CACCTGC	1 cut(s)	770
AasI	GACNNNNNNGTC	1 cut(s)	211
Acc16I	TGCGCA	1 cut(s)	786
Acc36I	ACCTGC	1 cut(s)	770
AccI	GTMKAC	1 cut(s)	647
AccII	CGCG	1 cut(s)	381
AclWI	GGATC	1 cut(s)	820
AcsI	RAATTY	2 cut(s)	14, 799
AcuI	CTGAAG	1 cut(s)	444
AflII	CTTAAG	1 cut(s)	551
AgsI	TTSAA	7 cut(s)	52, 180, 280, 293, 344, 526, 743
AluBI	AGCT	6 cut(s)	56, 311, 340, 547, 596, 667
AluI	AGCT	6 cut(s)	56, 311, 340, 547, 596, 667
Alw21I	GWGCWC	1 cut(s)	825
Alw26I	GTCTC	1 cut(s)	219
Alw44I	GTGCAC	1 cut(s)	821
AlwI	GGATC	1 cut(s)	820
AoxI	GGCC	1 cut(s)	321
ApaLI	GTGCAC	1 cut(s)	821
ApeKI	GCWGC	1 cut(s)	144
ApoI	RAATTY	2 cut(s)	14, 799
Asp700I	GAANNNNTTC	3 cut(s)	47, 166, 248
AspLEI	GCGC	2 cut(s)	233, 787
AspS9I	GGNCC	2 cut(s)	322, 557
AvaII	GGWCC	1 cut(s)	557
BaeGI	GKGCMC	1 cut(s)	825
BauI	CACGAG	1 cut(s)	824
Bbv12I	GWGCWC	1 cut(s)	825
BbvI	GCAGC	1 cut(s)	131
BcoDI	GTCTC	1 cut(s)	219
BfaI	CTAG	2 cut(s)	660, 668
BfmI	CTRYAG	1 cut(s)	218
BfoI	RGCGCY	1 cut(s)	234
BfrI	CTTAAG	1 cut(s)	551
BfuAI	ACCTGC	1 cut(s)	770
BglI	GCCNNNNNGGC	1 cut(s)	329
BisI	GCNGC	1 cut(s)	145
BlsI	GCNGC	1 cut(s)	146
Bme18I	GGWCC	1 cut(s)	557
BmgT120I	GGNCC	2 cut(s)	322, 557
BmiI	GGNNCC	2 cut(s)	324, 558
BmrI	ACTGGG	2 cut(s)	102, 272
BmsI	GCATC	6 cut(s)	286, 451, 487, 509, 684, 726
BmuI	ACTGGG	2 cut(s)	102, 272
BpmI	CTGGAG	2 cut(s)	18, 356
BpuEI	CTTGAG	1 cut(s)	635
Bse1I	ACTGG	3 cut(s)	97, 267, 339
BseGI	GGATG	2 cut(s)	136, 403
BseMII	CTCAG	2 cut(s)	303, 399
BseNI	ACTGG	3 cut(s)	97, 267, 339
BseRI	GAGGAG	1 cut(s)	90
BseSI	GKGCMC	1 cut(s)	825
BseXI	GCAGC	1 cut(s)	131
BseYI	CCCAGC	2 cut(s)	110, 207
Bsh1236I	CGCG	1 cut(s)	381
BshFI	GGCC	1 cut(s)	323
BsiHKAI	GWGCWC	1 cut(s)	825
BslFI	GGGAC	1 cut(s)	570
BsmAI	GTCTC	1 cut(s)	219
BsmFI	GGGAC	1 cut(s)	570
BsmI	GAATGC	1 cut(s)	697
BsnI	GGCC	1 cut(s)	323
Bsp1286I	GDGCHC	1 cut(s)	825
Bsp143I	GATC	1 cut(s)	812
BspANI	GGCC	1 cut(s)	323
BspCNI	CTCAG	2 cut(s)	304, 400
BspFNI	CGCG	1 cut(s)	381
BspLI	GGNNCC	2 cut(s)	324, 558
BspMI	ACCTGC	1 cut(s)	770
BspPI	GGATC	1 cut(s)	820
BspTI	CTTAAG	1 cut(s)	551
BsrI	ACTGG	3 cut(s)	97, 267, 339
BssMI	GATC	1 cut(s)	812
BssNAI	GTATAC	1 cut(s)	648
BssSI	CACGAG	1 cut(s)	824
Bst1107I	GTATAC	1 cut(s)	648
Bst2BI	CACGAG	1 cut(s)	824
Bst4CI	ACNGT	1 cut(s)	447
BstAFI	CTTAAG	1 cut(s)	551
BstAPI	GCANNNNNTGC	1 cut(s)	497
BstC8I	GCNNGC	1 cut(s)	142
BstDEI	CTNAG	4 cut(s)	158, 312, 408, 638
BstF5I	GGATG	2 cut(s)	136, 403
BstFNI	CGCG	1 cut(s)	381
BstH2I	RGCGCY	1 cut(s)	234
BstHHI	GCGC	2 cut(s)	233, 787
BstKTI	GATC	1 cut(s)	815
BstMAI	GTCTC	1 cut(s)	219
BstMBI	GATC	1 cut(s)	812
BstMWI	GCNNNNNNNGC	4 cut(s)	107, 329, 428, 497
BstNSI	RCATGY	2 cut(s)	582, 646
BstSFI	CTRYAG	1 cut(s)	218
BstSLI	GKGCMC	1 cut(s)	825
BstUI	CGCG	1 cut(s)	381
BstV1I	GCAGC	1 cut(s)	131
BstX2I	RGATCY	1 cut(s)	812
BstYI	RGATCY	1 cut(s)	812
BstZ17I	GTATAC	1 cut(s)	648
BsuRI	GGCC	1 cut(s)	323
BtsCI	GGATG	2 cut(s)	136, 403
BtsIMutI	CAGTG	1 cut(s)	332
BveI	ACCTGC	1 cut(s)	770
Cac8I	GCNNGC	1 cut(s)	142
CfoI	GCGC	2 cut(s)	233, 787
Cfr13I	GGNCC	2 cut(s)	322, 557
CviAII	CATG	7 cut(s)	70, 171, 236, 568, 579, 643, 746
DdeI	CTNAG	4 cut(s)	158, 312, 408, 638
DpnI	GATC	1 cut(s)	814
DpnII	GATC	1 cut(s)	812
DrdI	GACNNNNNNGTC	1 cut(s)	211
DseDI	GACNNNNNNGTC	1 cut(s)	211
Eco47I	GGWCC	1 cut(s)	557
Eco57I	CTGAAG	1 cut(s)	444
EcoT22I	ATGCAT	2 cut(s)	502, 699
FaeI	CATG	7 cut(s)	73, 174, 239, 571, 582, 646, 749
FalI	AAGNNNNNCTT	2 cut(s)	420, 452
FaqI	GGGAC	1 cut(s)	570
FatI	CATG	7 cut(s)	69, 170, 235, 567, 578, 642, 745
FauNDI	CATATG	2 cut(s)	493, 562
FblI	GTMKAC	1 cut(s)	647
Fnu4HI	GCNGC	1 cut(s)	145
FokI	GGATG	2 cut(s)	143, 410
Fsp4HI	GCNGC	1 cut(s)	145
FspAI	RTGCGCAY	1 cut(s)	786
FspBI	CTAG	2 cut(s)	660, 668
FspI	TGCGCA	1 cut(s)	786
GlaI	GCGC	2 cut(s)	232, 786
GluI	GCNGC	1 cut(s)	145
GsaI	CCCAGC	2 cut(s)	114, 211
GsuI	CTGGAG	2 cut(s)	18, 356
HaeII	RGCGCY	1 cut(s)	234
HaeIII	GGCC	1 cut(s)	323
HhaI	GCGC	2 cut(s)	233, 787
Hin1II	CATG	7 cut(s)	73, 174, 239, 571, 582, 646, 749
Hin6I	GCGC	2 cut(s)	231, 785
HinP1I	GCGC	2 cut(s)	231, 785
HincII	GTYRAC	1 cut(s)	90
HindII	GTYRAC	1 cut(s)	90
HindIII	AAGCTT	1 cut(s)	545
HinfI	GANTC	3 cut(s)	223, 410, 839
Hpy166II	GTNNAC	3 cut(s)	90, 648, 823
Hpy188I	TCNGA	3 cut(s)	13, 308, 848
Hpy188III	TCNNGA	2 cut(s)	506, 771
Hpy8I	GTNNAC	3 cut(s)	90, 648, 823
HpyAV	CCTTC	3 cut(s)	91, 156, 675
HpyCH4III	ACNGT	1 cut(s)	447
HpyCH4IV	ACGT	1 cut(s)	182
HpyCH4V	TGCA	4 cut(s)	147, 500, 697, 823
HpyF10VI	GCNNNNNNNGC	4 cut(s)	107, 329, 428, 497
HpyF3I	CTNAG	4 cut(s)	158, 312, 408, 638
HpySE526I	ACGT	1 cut(s)	182
Hsp92II	CATG	7 cut(s)	73, 174, 239, 571, 582, 646, 749
HspAI	GCGC	2 cut(s)	231, 785
Kzo9I	GATC	1 cut(s)	812
LmnI	GCTCC	2 cut(s)	337, 575
Lsp1109I	GCAGC	1 cut(s)	131
LweI	GCATC	6 cut(s)	286, 451, 487, 509, 684, 726
MaeI	CTAG	2 cut(s)	660, 668
MaeII	ACGT	1 cut(s)	182
MaeIII	GTNAC	2 cut(s)	58, 671
MalI	GATC	1 cut(s)	814
MboI	GATC	1 cut(s)	812
MboII	GAAGA	6 cut(s)	298, 305, 356, 359, 437, 693
MflI	RGATCY	1 cut(s)	812
MhlI	GDGCHC	1 cut(s)	825
MluCI	AATT	5 cut(s)	14, 149, 469, 585, 799
MlyI	GAGTC	2 cut(s)	217, 419
Mph1103I	ATGCAT	2 cut(s)	502, 699
MroXI	GAANNNNTTC	3 cut(s)	47, 166, 248
MseI	TTAA	1 cut(s)	552
MspCI	CTTAAG	1 cut(s)	551
Mva1269I	GAATGC	1 cut(s)	697
MvnI	CGCG	1 cut(s)	381
MwoI	GCNNNNNNNGC	4 cut(s)	107, 329, 428, 497
NdeI	CATATG	2 cut(s)	493, 562
NdeII	GATC	1 cut(s)	812
NlaIII	CATG	7 cut(s)	73, 174, 239, 571, 582, 646, 749
NlaIV	GGNNCC	2 cut(s)	324, 558
NmeAIII	GCCGAG	1 cut(s)	64
NmuCI	GTSAC	1 cut(s)	58
NsbI	TGCGCA	1 cut(s)	786
NsiI	ATGCAT	2 cut(s)	502, 699
NspI	RCATGY	2 cut(s)	582, 646
PaqCI	CACCTGC	1 cut(s)	770
PctI	GAATGC	1 cut(s)	697
PdmI	GAANNNNTTC	3 cut(s)	47, 166, 248
PfeI	GAWTC	1 cut(s)	839
PkrI	GCNGC	1 cut(s)	146
PleI	GAGTC	2 cut(s)	217, 418
PpsI	GAGTC	2 cut(s)	217, 418
PsiI	TTATAA	1 cut(s)	590
PspFI	CCCAGC	2 cut(s)	110, 207
PspN4I	GGNNCC	2 cut(s)	324, 558
PspPI	GGNCC	2 cut(s)	322, 557
PsrI	GAACNNNNNNTAC	4 cut(s)	236, 268, 360, 392
PsuI	RGATCY	1 cut(s)	812
SaqAI	TTAA	1 cut(s)	552
SatI	GCNGC	1 cut(s)	145
Sau3AI	GATC	1 cut(s)	812
Sau96I	GGNCC	2 cut(s)	322, 557
SchI	GAGTC	2 cut(s)	217, 419
SduI	GDGCHC	1 cut(s)	825
SfaNI	GCATC	6 cut(s)	286, 451, 487, 509, 684, 726
SfcI	CTRYAG	1 cut(s)	218
SinI	GGWCC	1 cut(s)	557
SmlI	CTYRAG	2 cut(s)	551, 614
SmoI	CTYRAG	2 cut(s)	551, 614
Sse9I	AATT	5 cut(s)	14, 149, 469, 585, 799
SspMI	CTAG	2 cut(s)	660, 668
TaaI	ACNGT	1 cut(s)	447
TaiI	ACGT	1 cut(s)	185
TasI	AATT	5 cut(s)	14, 149, 469, 585, 799
TfiI	GAWTC	1 cut(s)	839
Tru1I	TTAA	1 cut(s)	552
Tru9I	TTAA	1 cut(s)	552
TscAI	CASTG	1 cut(s)	339
TseFI	GTSAC	1 cut(s)	58
TseI	GCWGC	1 cut(s)	144
Tsp45I	GTSAC	1 cut(s)	58
TspDTI	ATGAA	2 cut(s)	159, 264
TspGWI	ACGGA	2 cut(s)	370, 825
TspRI	CASTG	1 cut(s)	339
Vha464I	CTTAAG	1 cut(s)	551
VneI	GTGCAC	1 cut(s)	821
VpaK11BI	GGWCC	1 cut(s)	557
XapI	RAATTY	2 cut(s)	14, 799
XceI	RCATGY	2 cut(s)	582, 646
XmiI	GTMKAC	1 cut(s)	647
XmnI	GAANNNNTTC	3 cut(s)	47, 166, 248
XspI	CTAG	2 cut(s)	660, 668
Zsp2I	ATGCAT	2 cut(s)	502, 699

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