Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0004116

Physical Location & Seq

Genomic Coordinates Reverse (-)

44165085 .. 44178535

Gene Structure 13451 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG340900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1185 bp

ATGAAACAAATTAAGCAACTGCCACCAGCCTTTCCTTACCCTCTTCCATTTCTTCGTTCTTACTCAACAGAATTGCAACCTCAGTTATCACCAAAGCTTGTTAAGATCATGGAGCAAAGGCTATCGCTTATCGAACAAAGGAATGCTTGTCTCCACAGTATCATAAACCAGCCCGATGCCACAGCAGAAGAGTATGCAAGGGCGAATAAGGAGCTTCGCAAAATTAGCTCATCCATGGACCTTATAAATCAGTTAAGAGCCATACACAAGGAGATTGATGGGTTGAGGTCACTCATGGCTGAATCTGCTCAAGATAAAGACATACTTGATATGGTGACCACTGAGTTGGATCAGGCCATCAACGAAGAGAAAAGACTGCACAATTTGTTGCTCAAGACTCTACTCCCCAAGGATGATGCCGATGAGAGGGATTGCATATTGGAGGTTAGAGCAGGAACTGGTGGGGAGGAGGCTTCTTTGTTTGCAATGGACATATTTAAAATGTATGAGAGATTCTCTCACAATAAAGGCTGGATGTTTGAAGTGTTGGATATTACCGAGTCTGATCTTAAAGGATATAAGGAAGCAAGTGCGGCAATCTCAGGGGCTGATGTTTATGGGAAACTTAAATTTGAGAGTGGTATTCACAGAGTACAGCGAGTTCCCGTGACAGAGAAGTCTGGACGCATTCATACTAGTGCTGTTTCTGTTGCTATCCTCCCCCAAGCTGATCAGGTAGATGTCCACCTGAGGAACGAAGATTTGAAAATTGATACCTATAGATCTGGTGGTTCTGGGGGTCAGCATGCAAATACTACAAACAGTGCTGTTAGAATAACTCATATTCCAACTGGGATGACCATAGCCATACAAGATGAACGATCCCAACATATGAACAAGGCCAAGGCACTTAAAGTACTGTGTGCAAAGCTATATGAGATGGAAAGGTCTAGACTACAGAACAATCGGTCAAAACTTCGATTAGAGCAGATTGGCAGTGGGGATCGATCAGAACGTATTCGTACATACAACTTTCCTCAAGGTCGTGTAACTGATCATCGTGTTGGCATTACTCATCATGCAATAAGTGATGTGATGCAGGGAGAGAATCTGGATGTGTTTGTTGATGCGCTTCTTTTGCAGCAGGAAATGGATGCAATCGCATCTTTCAGTTCTTCCCAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PCRF RF-1

Protein Analysis

394

Amino Acids

44.42

Weight (kDa)

6.37

Isoelectric Point (pI)

50.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PCRF	PF03462	45 - 237	1.9e-58	PCRF domain
RF-1	PF00472	245 - 354	1.7e-39	RF-1 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: OG0004116)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G47020 AT2G47020 AT2G47020 AT2G47020 AT2G47020
fragaria_vesca	FvH4_6g25260 FvH4_6g25260 FvH4_6g25260 FvH4_6g25260 FvH4_6g25260 FvH4_6g25260 FvH4_6g25260 FvH4_6g25260 FvH4_6g25260
malus_domestica	MD05G1002600.v1.1
prunus_persica	Prupe.7G036500_v2.0.a1 Prupe.7G036500_v2.0.a1 Prupe.7G036500_v2.0.a1 Prupe.7G036500_v2.0.a1 Prupe.7G036500_v2.0.a1 Prupe.7G036500_v2.0.a1 Prupe.7G036500_v2.0.a1
pyrus_communis	pycom05g00250
rosa_chinensis	RchiOBHm_Chr2g0125161
rosa_laevigata	RLG00000018851
rosa_multiflora	Rmu_sc0003505.1_g000032
rosa_roxburghii	Rroxscaffold_2G00118220 Rroxscaffold_2G00118690
rosa_rugosa	Rorug02G0256000
rosa_samantha	Rh2AG314300 Rh2BG322500 Rh2DG340900
rosa_wichuraiana	Rw2G025430

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	245
AasI	GACNNNNNNGTC	1 cut(s)	676
AciI	CCGC	1 cut(s)	593
AclWI	GGATC	3 cut(s)	357, 876, 1011
AcsI	RAATTY	1 cut(s)	629
AfaI	GTAC	3 cut(s)	654, 918, 1024
AfiI	CCNNNNNNNGG	1 cut(s)	426
AgsI	TTSAA	2 cut(s)	542, 766
AhlI	ACTAGT	1 cut(s)	695
AluBI	AGCT	5 cut(s)	97, 214, 228, 728, 931
AluI	AGCT	5 cut(s)	97, 214, 228, 728, 931
Alw26I	GTCTC	1 cut(s)	155
AlwI	GGATC	3 cut(s)	357, 876, 1011
AlwNI	CAGNNNCTG	2 cut(s)	458, 608
AoxI	GGCC	2 cut(s)	354, 900
ApeKI	GCWGC	1 cut(s)	1141
ApoI	RAATTY	1 cut(s)	629
Asp700I	GAANNNNTTC	1 cut(s)	1017
AspLEI	GCGC	1 cut(s)	1132
AspS9I	GGNCC	1 cut(s)	238
AsuHPI	GGTGA	2 cut(s)	81, 346
AvaII	GGWCC	1 cut(s)	238
AxyI	CCTNAGG	1 cut(s)	749
BbvI	GCAGC	1 cut(s)	1153
BccI	CCATC	3 cut(s)	272, 365, 934
BclI	TGATCA	2 cut(s)	730, 1054
BcoDI	GTCTC	1 cut(s)	155
BcuI	ACTAGT	1 cut(s)	695
BfaI	CTAG	2 cut(s)	696, 951
BfmI	CTRYAG	2 cut(s)	778, 956
BglII	AGATCT	1 cut(s)	782
BisI	GCNGC	2 cut(s)	594, 1142
BlsI	GCNGC	2 cut(s)	595, 1143
BmcAI	AGTACT	1 cut(s)	918
Bme18I	GGWCC	1 cut(s)	238
BmgT120I	GGNCC	1 cut(s)	238
BmrI	ACTGGG	1 cut(s)	861
BmsI	GCATC	6 cut(s)	166, 406, 1086, 1117, 1144, 1172
BmuI	ACTGGG	1 cut(s)	861
BplI	GAGNNNNNCTC	4 cut(s)	500, 532, 502, 534
BpuEI	CTTGAG	3 cut(s)	294, 377, 1023
Bsa29I	ATCGAT	1 cut(s)	1006
BsaJI	CCNNGG	3 cut(s)	234, 408, 903
Bsc4I	CCNNNNNNNGG	1 cut(s)	426
Bse1I	ACTGG	2 cut(s)	463, 856
Bse21I	CCTNAGG	1 cut(s)	749
Bse3DI	GCAATG	1 cut(s)	492
BseCI	ATCGAT	1 cut(s)	1006
BseDI	CCNNGG	3 cut(s)	234, 408, 903
BseGI	GGATG	6 cut(s)	230, 418, 540, 861, 1120, 1159
BseLI	CCNNNNNNNGG	1 cut(s)	426
BseMI	GCAATG	1 cut(s)	492
BseMII	CTCAG	4 cut(s)	95, 333, 615, 740
BseNI	ACTGG	2 cut(s)	463, 856
BseRI	GAGGAG	1 cut(s)	482
BseXI	GCAGC	1 cut(s)	1153
BsgI	GTGCAG	1 cut(s)	362
BshFI	GGCC	2 cut(s)	356, 902
BshVI	ATCGAT	1 cut(s)	1006
BslI	CCNNNNNNNGG	1 cut(s)	426
BsmAI	GTCTC	1 cut(s)	155
BsmI	GAATGC	2 cut(s)	148, 687
BsnI	GGCC	2 cut(s)	356, 902
Bsp143I	GATC	9 cut(s)	105, 349, 565, 730, 782, 881, 1003, 1007, 1054
Bsp19I	CCATGG	1 cut(s)	234
BspACI	CCGC	1 cut(s)	593
BspANI	GGCC	2 cut(s)	356, 902
BspCNI	CTCAG	4 cut(s)	94, 334, 614, 741
BspDI	ATCGAT	1 cut(s)	1006
BspPI	GGATC	3 cut(s)	357, 876, 1011
BsrDI	GCAATG	1 cut(s)	492
BsrI	ACTGG	2 cut(s)	463, 856
BssECI	CCNNGG	3 cut(s)	234, 408, 903
BssMI	GATC	9 cut(s)	105, 349, 565, 730, 782, 881, 1003, 1007, 1054
BssT1I	CCWWGG	3 cut(s)	234, 408, 903
Bst4CI	ACNGT	3 cut(s)	158, 824, 921
Bst6I	CTCTTC	3 cut(s)	48, 183, 360
BstC8I	GCNNGC	1 cut(s)	807
BstDEI	CTNAG	4 cut(s)	81, 342, 601, 749
BstDSI	CCRYGG	1 cut(s)	234
BstEII	GGTNACC	1 cut(s)	334
BstF5I	GGATG	6 cut(s)	230, 418, 540, 861, 1120, 1159
BstHHI	GCGC	1 cut(s)	1132
BstKTI	GATC	9 cut(s)	108, 352, 568, 733, 785, 884, 1006, 1010, 1057
BstMAI	GTCTC	1 cut(s)	155
BstMBI	GATC	9 cut(s)	105, 349, 565, 730, 782, 881, 1003, 1007, 1054
BstMWI	GCNNNNNNNGC	4 cut(s)	225, 305, 593, 1138
BstNSI	RCATGY	1 cut(s)	809
BstPI	GGTNACC	1 cut(s)	334
BstSFI	CTRYAG	2 cut(s)	778, 956
BstV1I	GCAGC	1 cut(s)	1153
BstX2I	RGATCY	1 cut(s)	782
BstXI	CCANNNNNNTGG	1 cut(s)	346
BstYI	RGATCY	1 cut(s)	782
Bsu15I	ATCGAT	1 cut(s)	1006
Bsu36I	CCTNAGG	1 cut(s)	749
BsuRI	GGCC	2 cut(s)	356, 902
BsuTUI	ATCGAT	1 cut(s)	1006
BtgI	CCRYGG	1 cut(s)	234
BtsCI	GGATG	6 cut(s)	230, 418, 540, 861, 1120, 1159
BtsI	GCAGTG	1 cut(s)	1003
BtsIMutI	CAGTG	3 cut(s)	339, 829, 1003
Cac8I	GCNNGC	1 cut(s)	807
CaiI	CAGNNNCTG	2 cut(s)	458, 608
CfoI	GCGC	1 cut(s)	1132
Cfr13I	GGNCC	1 cut(s)	238
ClaI	ATCGAT	1 cut(s)	1006
CseI	GACGC	1 cut(s)	693
Csp6I	GTAC	3 cut(s)	653, 917, 1023
CviAII	CATG	5 cut(s)	109, 235, 295, 806, 1079
CviQI	GTAC	3 cut(s)	653, 917, 1023
DdeI	CTNAG	4 cut(s)	81, 342, 601, 749
DpnI	GATC	9 cut(s)	107, 351, 567, 732, 784, 883, 1005, 1009, 1056
DpnII	GATC	9 cut(s)	105, 349, 565, 730, 782, 881, 1003, 1007, 1054
DraI	TTTAAA	1 cut(s)	499
DrdI	GACNNNNNNGTC	1 cut(s)	676
DseDI	GACNNNNNNGTC	1 cut(s)	676
Eam1104I	CTCTTC	3 cut(s)	48, 183, 360
EarI	CTCTTC	3 cut(s)	48, 183, 360
Eco130I	CCWWGG	3 cut(s)	234, 408, 903
Eco47I	GGWCC	1 cut(s)	238
Eco81I	CCTNAGG	1 cut(s)	749
Eco91I	GGTNACC	1 cut(s)	334
EcoO65I	GGTNACC	1 cut(s)	334
EcoT14I	CCWWGG	3 cut(s)	234, 408, 903
ErhI	CCWWGG	3 cut(s)	234, 408, 903
FaeI	CATG	5 cut(s)	112, 238, 298, 809, 1082
FalI	AAGNNNNNCTT	4 cut(s)	130, 162, 309, 341
FatI	CATG	5 cut(s)	108, 234, 294, 805, 1078
FauNDI	CATATG	1 cut(s)	891
FbaI	TGATCA	2 cut(s)	730, 1054
Fnu4HI	GCNGC	2 cut(s)	594, 1142
FokI	GGATG	6 cut(s)	217, 425, 547, 868, 1127, 1166
Fsp4HI	GCNGC	2 cut(s)	594, 1142
FspBI	CTAG	2 cut(s)	696, 951
GlaI	GCGC	1 cut(s)	1131
GluI	GCNGC	2 cut(s)	594, 1142
HaeIII	GGCC	2 cut(s)	356, 902
HgaI	GACGC	1 cut(s)	693
HhaI	GCGC	1 cut(s)	1132
Hin1II	CATG	5 cut(s)	112, 238, 298, 809, 1082
Hin6I	GCGC	1 cut(s)	1130
HinP1I	GCGC	1 cut(s)	1130
HindIII	AAGCTT	1 cut(s)	95
HinfI	GANTC	5 cut(s)	302, 397, 513, 560, 1108
HphI	GGTGA	2 cut(s)	81, 346
Hpy166II	GTNNAC	1 cut(s)	745
Hpy188I	TCNGA	2 cut(s)	565, 1012
Hpy188III	TCNNGA	5 cut(s)	311, 394, 681, 951, 1112
Hpy8I	GTNNAC	1 cut(s)	745
HpyCH4III	ACNGT	3 cut(s)	158, 824, 921
HpyCH4IV	ACGT	1 cut(s)	1015
HpyF10VI	GCNNNNNNNGC	4 cut(s)	225, 305, 593, 1138
HpyF3I	CTNAG	4 cut(s)	81, 342, 601, 749
HpySE526I	ACGT	1 cut(s)	1015
Hsp92II	CATG	5 cut(s)	112, 238, 298, 809, 1082
HspAI	GCGC	1 cut(s)	1130
Ksp22I	TGATCA	2 cut(s)	730, 1054
Kzo9I	GATC	9 cut(s)	105, 349, 565, 730, 782, 881, 1003, 1007, 1054
LmnI	GCTCC	2 cut(s)	112, 211
Lsp1109I	GCAGC	1 cut(s)	1153
LweI	GCATC	6 cut(s)	166, 406, 1086, 1117, 1144, 1172
MaeI	CTAG	2 cut(s)	696, 951
MaeII	ACGT	1 cut(s)	1015
MaeIII	GTNAC	4 cut(s)	288, 334, 667, 1048
MalI	GATC	9 cut(s)	107, 351, 567, 732, 784, 883, 1005, 1009, 1056
MboI	GATC	9 cut(s)	105, 349, 565, 730, 782, 881, 1003, 1007, 1054
MboII	GAAGA	6 cut(s)	35, 44, 200, 377, 770, 1167
MflI	RGATCY	1 cut(s)	782
MluCI	AATT	6 cut(s)	9, 71, 222, 382, 629, 768
MlyI	GAGTC	2 cut(s)	391, 569
MmeI	TCCRAC	3 cut(s)	327, 528, 872
MroXI	GAANNNNTTC	1 cut(s)	1017
MseI	TTAA	7 cut(s)	12, 102, 254, 498, 570, 627, 912
MslI	CAYNNNNRTG	1 cut(s)	696
Mva1269I	GAATGC	2 cut(s)	148, 687
MwoI	GCNNNNNNNGC	4 cut(s)	225, 305, 593, 1138
NcoI	CCATGG	1 cut(s)	234
NdeI	CATATG	1 cut(s)	891
NdeII	GATC	9 cut(s)	105, 349, 565, 730, 782, 881, 1003, 1007, 1054
NlaIII	CATG	5 cut(s)	112, 238, 298, 809, 1082
NmuCI	GTSAC	3 cut(s)	288, 334, 667
NspI	RCATGY	1 cut(s)	809
PaeI	GCATGC	1 cut(s)	809
PcsI	WCGNNNNNNNCGW	1 cut(s)	1012
PctI	GAATGC	2 cut(s)	148, 687
PdmI	GAANNNNTTC	1 cut(s)	1017
PfeI	GAWTC	3 cut(s)	302, 513, 1108
PkrI	GCNGC	2 cut(s)	595, 1143
PleI	GAGTC	2 cut(s)	391, 568
PpsI	GAGTC	2 cut(s)	391, 568
PsiI	TTATAA	1 cut(s)	245
PspEI	GGTNACC	1 cut(s)	334
PspPI	GGNCC	1 cut(s)	238
PsrI	GAACNNNNNNTAC	2 cut(s)	645, 677
PstNI	CAGNNNCTG	2 cut(s)	458, 608
PsuI	RGATCY	1 cut(s)	782
RsaI	GTAC	3 cut(s)	654, 918, 1024
RsaNI	GTAC	3 cut(s)	653, 917, 1023
RseI	CAYNNNNRTG	1 cut(s)	696
SaqAI	TTAA	7 cut(s)	12, 102, 254, 498, 570, 627, 912
SatI	GCNGC	2 cut(s)	594, 1142
Sau3AI	GATC	9 cut(s)	105, 349, 565, 730, 782, 881, 1003, 1007, 1054
Sau96I	GGNCC	1 cut(s)	238
ScaI	AGTACT	1 cut(s)	918
SchI	GAGTC	2 cut(s)	391, 569
SfaNI	GCATC	6 cut(s)	166, 406, 1086, 1117, 1144, 1172
SfcI	CTRYAG	2 cut(s)	778, 956
SinI	GGWCC	1 cut(s)	238
SmiMI	CAYNNNNRTG	1 cut(s)	696
SmlI	CTYRAG	3 cut(s)	309, 392, 1038
SmoI	CTYRAG	3 cut(s)	309, 392, 1038
SpeI	ACTAGT	1 cut(s)	695
SphI	GCATGC	1 cut(s)	809
Sse9I	AATT	6 cut(s)	9, 71, 222, 382, 629, 768
SsiI	CCGC	1 cut(s)	593
SspMI	CTAG	2 cut(s)	696, 951
StyI	CCWWGG	3 cut(s)	234, 408, 903
TaaI	ACNGT	3 cut(s)	158, 824, 921
TaiI	ACGT	1 cut(s)	1018
TaqI	TCGA	3 cut(s)	132, 979, 1006
TaqII	GACCGA	1 cut(s)	957
TasI	AATT	6 cut(s)	9, 71, 222, 382, 629, 768
TatI	WGTACW	2 cut(s)	652, 916
TauI	GCSGC	1 cut(s)	596
TfiI	GAWTC	3 cut(s)	302, 513, 1108
Tru1I	TTAA	7 cut(s)	12, 102, 254, 498, 570, 627, 912
Tru9I	TTAA	7 cut(s)	12, 102, 254, 498, 570, 627, 912
TscAI	CASTG	3 cut(s)	346, 829, 1003
TseFI	GTSAC	3 cut(s)	288, 334, 667
TseI	GCWGC	1 cut(s)	1141
Tsp45I	GTSAC	3 cut(s)	288, 334, 667
TspDTI	ATGAA	4 cut(s)	17, 680, 891, 908
TspRI	CASTG	3 cut(s)	346, 829, 1003
VpaK11BI	GGWCC	1 cut(s)	238
XapI	RAATTY	1 cut(s)	629
XbaI	TCTAGA	1 cut(s)	950
XceI	RCATGY	1 cut(s)	809
XmnI	GAANNNNTTC	1 cut(s)	1017
XspI	CTAG	2 cut(s)	696, 951
ZrmI	AGTACT	1 cut(s)	918

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