Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0002122

Physical Location & Seq

Genomic Coordinates Reverse (-)

41341141 .. 41351240

Gene Structure 10100 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG320400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1059 bp

ATGAGAGCTGTGGATTTGGGATTGAAGGCAAAATGTCAAATTGGGGCTAAGAAGGTTTCTGGAGTTGTGAAGCTGCTGCCGATGGGGCTCTTGGTTCATGCACTTGACCCTTCACTGCTCTTCTCAAATGACAACCTCCGAATTTTGCCAATCTCACACTCCAGCCGAGAAAGAATTTGTCTGCTAATAGAATTTTTTTTGTGGGTTCTTCTGCAGTTGCTAAGAAGGTGTTCATGGTATTCAACGTGGAAACATTCCAAGAGAAAGACCCAGCAGTCTCTACAGACTCACAGCGCCCATGACAAGAACAGGTTCTACAAACAACTGGGATTATTTTCATTGAAAAAGAAGATTGAAGATGCTGTTCTCCGAGCTGAGATGTTGGCCCCATTGGCACTGGAGCTTGAAGAAGAAAGACGGAATGAGCAAGAACAACTGATACGCGACTATGACCTCTGGGATGACACTACTGAGTCCAATGAGGCTGAAGAAGCAAAACTTATTACACAGTTAGCAGAGATAGATGCTATCAATTATAGGCTTTTTAGGAAAGCATATGATGCATCTCTGGATATGAGCAAGACTTTGAATAAATATGAGATTTCCAAGCTTCTTAAGGGACCATATGACATGGAGGGAGCATGTCTAATTATAAAAGCTGGTGGCACAGGCTACCTTGAGGTTTCGGTAAAACAACAACTAAGCATGTATACCAAATGGGCTAGAAAGCTAGGTTACAAAGGAAGGGTAGTAGAGATGCATTCTTCCACAAATGGTGGCATCAAGTCAGCAACTATTGAGTTTGAACATGAGTTTGCTTTTGGTTATCTATCAGGAGAGGCAGGTGCGCACCACATCATAAATTCTAAAAACGGATCTGCTGTGCACGAGTTTCAAATTGCTTTGGCTTGCTCAGTTTCTGCGGTGAGATTGATGAGAATAGAGATGGGAGGTGCTTTTGCTGATCTTCTCAATGAGAAAGGGAAGGGCTCTGGTGAAAACAAGATGAGATATGTTGAAAGAACTCCCGGGTTTTGCACACGAGATAGAAGATCGTGA

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

352

Amino Acids

39.96

Weight (kDa)

9.1

Isoelectric Point (pI)

43.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PCRF	PF03462	139 - 286	3.6e-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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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)	653
AarI	CACCTGC	1 cut(s)	833
AasI	GACNNNNNNGTC	1 cut(s)	274
Acc16I	TGCGCA	1 cut(s)	849
Acc36I	ACCTGC	1 cut(s)	833
AccI	GTMKAC	1 cut(s)	710
AccII	CGCG	1 cut(s)	444
AciI	CCGC	1 cut(s)	923
AclWI	GGATC	1 cut(s)	883
AcsI	RAATTY	4 cut(s)	141, 174, 191, 862
AcuI	CTGAAG	1 cut(s)	507
AflII	CTTAAG	1 cut(s)	614
AgsI	TTSAA	9 cut(s)	25, 243, 343, 356, 407, 589, 806, 896, 1019
AluBI	AGCT	7 cut(s)	8, 73, 374, 403, 610, 659, 730
AluI	AGCT	7 cut(s)	8, 73, 374, 403, 610, 659, 730
Alw21I	GWGCWC	1 cut(s)	888
Alw26I	GTCTC	1 cut(s)	282
Alw44I	GTGCAC	1 cut(s)	884
AlwI	GGATC	1 cut(s)	883
AlwNI	CAGNNNCTG	1 cut(s)	920
Ama87I	CYCGRG	1 cut(s)	1028
AoxI	GGCC	1 cut(s)	384
ApaLI	GTGCAC	1 cut(s)	884
ApeKI	GCWGC	2 cut(s)	73, 76
ApoI	RAATTY	4 cut(s)	141, 174, 191, 862
Asp700I	GAANNNNTTC	2 cut(s)	229, 311
AspLEI	GCGC	2 cut(s)	296, 850
AspS9I	GGNCC	2 cut(s)	385, 620
AsuC2I	CCSGG	2 cut(s)	1029, 1030
AsuHPI	GGTGA	2 cut(s)	937, 1007
AvaI	CYCGRG	1 cut(s)	1028
AvaII	GGWCC	1 cut(s)	620
BaeGI	GKGCMC	1 cut(s)	888
BanII	GRGCYC	2 cut(s)	90, 992
BauI	CACGAG	2 cut(s)	887, 1041
Bbv12I	GWGCWC	1 cut(s)	888
BbvI	GCAGC	2 cut(s)	60, 63
BccI	CCATC	2 cut(s)	76, 940
BcnI	CCSGG	2 cut(s)	1029, 1030
BcoDI	GTCTC	1 cut(s)	282
BfaI	CTAG	2 cut(s)	723, 731
BfmI	CTRYAG	2 cut(s)	212, 281
BfoI	RGCGCY	1 cut(s)	297
BfrI	CTTAAG	1 cut(s)	614
BfuAI	ACCTGC	1 cut(s)	833
BglI	GCCNNNNNGGC	2 cut(s)	85, 392
BisI	GCNGC	2 cut(s)	74, 77
BlsI	GCNGC	2 cut(s)	75, 78
Bme1390I	CCNGG	2 cut(s)	1029, 1030
Bme18I	GGWCC	1 cut(s)	620
BmeT110I	CYCGRG	1 cut(s)	1028
BmgT120I	GGNCC	2 cut(s)	385, 620
BmiI	GGNNCC	2 cut(s)	387, 621
BmrFI	CCNGG	2 cut(s)	1029, 1030
BmrI	ACTGGG	1 cut(s)	335
BmsI	GCATC	6 cut(s)	349, 514, 550, 572, 747, 789
BmuI	ACTGGG	1 cut(s)	335
BpmI	CTGGAG	3 cut(s)	81, 145, 419
BpuEI	CTTGAG	1 cut(s)	698
BpuMI	CCSGG	2 cut(s)	1029, 1030
BsaJI	CCNNGG	1 cut(s)	1028
Bse1I	ACTGG	2 cut(s)	330, 402
BseDI	CCNNGG	1 cut(s)	1028
BseGI	GGATG	1 cut(s)	466
BseMII	CTCAG	3 cut(s)	366, 462, 927
BseNI	ACTGG	2 cut(s)	330, 402
BseSI	GKGCMC	1 cut(s)	888
BseXI	GCAGC	2 cut(s)	60, 63
BseYI	CCCAGC	1 cut(s)	270
Bsh1236I	CGCG	1 cut(s)	444
BshFI	GGCC	1 cut(s)	386
BsiHKAI	GWGCWC	1 cut(s)	888
BsiHKCI	CYCGRG	1 cut(s)	1028
BsiSI	CCGG	1 cut(s)	1029
BslFI	GGGAC	1 cut(s)	633
BsmAI	GTCTC	1 cut(s)	282
BsmFI	GGGAC	1 cut(s)	633
BsmI	GAATGC	1 cut(s)	760
BsnI	GGCC	1 cut(s)	386
BsoBI	CYCGRG	1 cut(s)	1028
Bsp1286I	GDGCHC	3 cut(s)	90, 888, 992
Bsp143I	GATC	3 cut(s)	875, 964, 1052
BspACI	CCGC	1 cut(s)	923
BspANI	GGCC	1 cut(s)	386
BspCNI	CTCAG	3 cut(s)	367, 463, 926
BspFNI	CGCG	1 cut(s)	444
BspLI	GGNNCC	2 cut(s)	387, 621
BspMAI	CTGCAG	1 cut(s)	216
BspMI	ACCTGC	1 cut(s)	833
BspPI	GGATC	1 cut(s)	883
BspQI	GCTCTTC	1 cut(s)	125
BspTI	CTTAAG	1 cut(s)	614
BsrI	ACTGG	2 cut(s)	330, 402
BssECI	CCNNGG	1 cut(s)	1028
BssMI	GATC	3 cut(s)	875, 964, 1052
BssNAI	GTATAC	1 cut(s)	711
BssSI	CACGAG	2 cut(s)	887, 1041
Bst1107I	GTATAC	1 cut(s)	711
Bst2BI	CACGAG	2 cut(s)	887, 1041
Bst4CI	ACNGT	1 cut(s)	510
Bst6I	CTCTTC	1 cut(s)	125
BstAFI	CTTAAG	1 cut(s)	614
BstAPI	GCANNNNNTGC	1 cut(s)	560
BstC8I	GCNNGC	1 cut(s)	910
BstDEI	CTNAG	6 cut(s)	48, 221, 375, 471, 701, 913
BstF5I	GGATG	1 cut(s)	466
BstFNI	CGCG	1 cut(s)	444
BstH2I	RGCGCY	1 cut(s)	297
BstHHI	GCGC	2 cut(s)	296, 850
BstKTI	GATC	3 cut(s)	878, 967, 1055
BstMAI	GTCTC	1 cut(s)	282
BstMBI	GATC	3 cut(s)	875, 964, 1052
BstMWI	GCNNNNNNNGC	4 cut(s)	85, 392, 491, 560
BstNSI	RCATGY	2 cut(s)	645, 709
BstSCI	CCNGG	2 cut(s)	1027, 1028
BstSFI	CTRYAG	2 cut(s)	212, 281
BstSLI	GKGCMC	1 cut(s)	888
BstUI	CGCG	1 cut(s)	444
BstV1I	GCAGC	2 cut(s)	60, 63
BstX2I	RGATCY	1 cut(s)	875
BstYI	RGATCY	1 cut(s)	875
BstZ17I	GTATAC	1 cut(s)	711
BsuRI	GGCC	1 cut(s)	386
BtsCI	GGATG	1 cut(s)	466
BtsI	GCAGTG	1 cut(s)	113
BtsIMutI	CAGTG	2 cut(s)	113, 395
BveI	ACCTGC	1 cut(s)	833
Cac8I	GCNNGC	1 cut(s)	910
CaiI	CAGNNNCTG	1 cut(s)	920
CfoI	GCGC	2 cut(s)	296, 850
Cfr13I	GGNCC	2 cut(s)	385, 620
Cfr9I	CCCGGG	1 cut(s)	1028
CviAII	CATG	7 cut(s)	98, 234, 299, 631, 642, 706, 809
DdeI	CTNAG	6 cut(s)	48, 221, 375, 471, 701, 913
DpnI	GATC	3 cut(s)	877, 966, 1054
DpnII	GATC	3 cut(s)	875, 964, 1052
DrdI	GACNNNNNNGTC	1 cut(s)	274
DseDI	GACNNNNNNGTC	1 cut(s)	274
Eam1104I	CTCTTC	1 cut(s)	125
EarI	CTCTTC	1 cut(s)	125
Eco24I	GRGCYC	2 cut(s)	90, 992
Eco47I	GGWCC	1 cut(s)	620
Eco57I	CTGAAG	1 cut(s)	507
Eco88I	CYCGRG	1 cut(s)	1028
EcoT22I	ATGCAT	2 cut(s)	565, 762
EcoT38I	GRGCYC	2 cut(s)	90, 992
FaeI	CATG	7 cut(s)	101, 237, 302, 634, 645, 709, 812
FalI	AAGNNNNNCTT	2 cut(s)	483, 515
FaqI	GGGAC	1 cut(s)	633
FatI	CATG	7 cut(s)	97, 233, 298, 630, 641, 705, 808
FauNDI	CATATG	2 cut(s)	556, 625
FblI	GTMKAC	1 cut(s)	710
Fnu4HI	GCNGC	2 cut(s)	74, 77
FokI	GGATG	1 cut(s)	473
FriOI	GRGCYC	2 cut(s)	90, 992
Fsp4HI	GCNGC	2 cut(s)	74, 77
FspAI	RTGCGCAY	1 cut(s)	849
FspBI	CTAG	2 cut(s)	723, 731
FspI	TGCGCA	1 cut(s)	849
GlaI	GCGC	2 cut(s)	295, 849
GluI	GCNGC	2 cut(s)	74, 77
GsaI	CCCAGC	1 cut(s)	274
GsuI	CTGGAG	3 cut(s)	81, 145, 419
HaeII	RGCGCY	1 cut(s)	297
HaeIII	GGCC	1 cut(s)	386
HapII	CCGG	1 cut(s)	1029
HhaI	GCGC	2 cut(s)	296, 850
Hin1II	CATG	7 cut(s)	101, 237, 302, 634, 645, 709, 812
Hin6I	GCGC	2 cut(s)	294, 848
HinP1I	GCGC	2 cut(s)	294, 848
HindIII	AAGCTT	1 cut(s)	608
HinfI	GANTC	2 cut(s)	286, 473
HpaII	CCGG	1 cut(s)	1029
HphI	GGTGA	2 cut(s)	937, 1007
Hpy166II	GTNNAC	2 cut(s)	711, 886
Hpy188I	TCNGA	2 cut(s)	140, 371
Hpy188III	TCNNGA	4 cut(s)	60, 569, 834, 1056
Hpy8I	GTNNAC	2 cut(s)	711, 886
HpyAV	CCTTC	6 cut(s)	19, 46, 120, 219, 738, 979
HpyCH4III	ACNGT	1 cut(s)	510
HpyCH4IV	ACGT	1 cut(s)	245
HpyCH4V	TGCA	6 cut(s)	101, 214, 563, 760, 886, 1038
HpyF10VI	GCNNNNNNNGC	4 cut(s)	85, 392, 491, 560
HpyF3I	CTNAG	6 cut(s)	48, 221, 375, 471, 701, 913
HpySE526I	ACGT	1 cut(s)	245
Hsp92II	CATG	7 cut(s)	101, 237, 302, 634, 645, 709, 812
HspAI	GCGC	2 cut(s)	294, 848
Kzo9I	GATC	3 cut(s)	875, 964, 1052
LguI	GCTCTTC	1 cut(s)	125
LmnI	GCTCC	2 cut(s)	400, 638
Lsp1109I	GCAGC	2 cut(s)	60, 63
LweI	GCATC	6 cut(s)	349, 514, 550, 572, 747, 789
MaeI	CTAG	2 cut(s)	723, 731
MaeII	ACGT	1 cut(s)	245
MaeIII	GTNAC	1 cut(s)	734
MalI	GATC	3 cut(s)	877, 966, 1054
MboI	GATC	3 cut(s)	875, 964, 1052
MboII	GAAGA	9 cut(s)	112, 200, 361, 368, 419, 422, 500, 756, 959
MflI	RGATCY	1 cut(s)	875
MhlI	GDGCHC	3 cut(s)	90, 888, 992
MluCI	AATT	8 cut(s)	39, 141, 174, 191, 532, 648, 862, 897
MlyI	GAGTC	2 cut(s)	280, 482
MnlI	CCTC	7 cut(s)	146, 464, 475, 628, 673, 832, 944
Mph1103I	ATGCAT	2 cut(s)	565, 762
MroXI	GAANNNNTTC	2 cut(s)	229, 311
MseI	TTAA	1 cut(s)	615
MspCI	CTTAAG	1 cut(s)	614
MspI	CCGG	1 cut(s)	1029
MspR9I	CCNGG	2 cut(s)	1029, 1030
Mva1269I	GAATGC	1 cut(s)	760
MvnI	CGCG	1 cut(s)	444
MwoI	GCNNNNNNNGC	4 cut(s)	85, 392, 491, 560
NciI	CCSGG	2 cut(s)	1029, 1030
NdeI	CATATG	2 cut(s)	556, 625
NdeII	GATC	3 cut(s)	875, 964, 1052
NlaIII	CATG	7 cut(s)	101, 237, 302, 634, 645, 709, 812
NlaIV	GGNNCC	2 cut(s)	387, 621
NmeAIII	GCCGAG	1 cut(s)	191
NsbI	TGCGCA	1 cut(s)	849
NsiI	ATGCAT	2 cut(s)	565, 762
NspI	RCATGY	2 cut(s)	645, 709
PaqCI	CACCTGC	1 cut(s)	833
PciSI	GCTCTTC	1 cut(s)	125
PctI	GAATGC	1 cut(s)	760
PdmI	GAANNNNTTC	2 cut(s)	229, 311
PkrI	GCNGC	2 cut(s)	75, 78
PleI	GAGTC	2 cut(s)	280, 481
PpsI	GAGTC	2 cut(s)	280, 481
PsiI	TTATAA	1 cut(s)	653
PspFI	CCCAGC	1 cut(s)	270
PspN4I	GGNNCC	2 cut(s)	387, 621
PspPI	GGNCC	2 cut(s)	385, 620
PsrI	GAACNNNNNNTAC	4 cut(s)	299, 331, 423, 455
PstI	CTGCAG	1 cut(s)	216
PstNI	CAGNNNCTG	1 cut(s)	920
PsuI	RGATCY	1 cut(s)	875
SapI	GCTCTTC	1 cut(s)	125
SaqAI	TTAA	1 cut(s)	615
SatI	GCNGC	2 cut(s)	74, 77
Sau3AI	GATC	3 cut(s)	875, 964, 1052
Sau96I	GGNCC	2 cut(s)	385, 620
SchI	GAGTC	2 cut(s)	280, 482
ScrFI	CCNGG	2 cut(s)	1029, 1030
SduI	GDGCHC	3 cut(s)	90, 888, 992
SfaNI	GCATC	6 cut(s)	349, 514, 550, 572, 747, 789
SfcI	CTRYAG	2 cut(s)	212, 281
SinI	GGWCC	1 cut(s)	620
SmaI	CCCGGG	1 cut(s)	1030
SmlI	CTYRAG	2 cut(s)	614, 677
SmoI	CTYRAG	2 cut(s)	614, 677
Sse9I	AATT	8 cut(s)	39, 141, 174, 191, 532, 648, 862, 897
SsiI	CCGC	1 cut(s)	923
SspMI	CTAG	2 cut(s)	723, 731
StyD4I	CCNGG	2 cut(s)	1027, 1028
TaaI	ACNGT	1 cut(s)	510
TaiI	ACGT	1 cut(s)	248
TasI	AATT	8 cut(s)	39, 141, 174, 191, 532, 648, 862, 897
Tru1I	TTAA	1 cut(s)	615
Tru9I	TTAA	1 cut(s)	615
TscAI	CASTG	2 cut(s)	120, 402
TseI	GCWGC	2 cut(s)	73, 76
TspDTI	ATGAA	3 cut(s)	86, 222, 327
TspGWI	ACGGA	2 cut(s)	433, 888
TspMI	CCCGGG	1 cut(s)	1028
TspRI	CASTG	2 cut(s)	120, 402
Vha464I	CTTAAG	1 cut(s)	614
VneI	GTGCAC	1 cut(s)	884
VpaK11BI	GGWCC	1 cut(s)	620
XapI	RAATTY	4 cut(s)	141, 174, 191, 862
XceI	RCATGY	2 cut(s)	645, 709
XmaI	CCCGGG	1 cut(s)	1028
XmiI	GTMKAC	1 cut(s)	710
XmnI	GAANNNNTTC	2 cut(s)	229, 311
XspI	CTAG	2 cut(s)	723, 731
Zsp2I	ATGCAT	2 cut(s)	565, 762

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