Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0002122

Physical Location & Seq

Genomic Coordinates Forward (+)

28297713 .. 28302456

Gene Structure 4744 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG156900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1245 bp

ATGGCCGCCGAGTCCGCATTTGTCAGAAATGGCGGGAGCAGCAGCAGCGCCACCACTGCTGCCTTATTCAGCAGCTCAACGTGGAAACATTCCAAGAGAAAGACCCAGCAGTCTCTACACACTCACTGCGCCCATGACAAGAACAGGTTCTACAAACAACTGGGATTATTTTCATTGAAAAAGAAGATTGAAGATGCTGTTCTCCGAGCTGAGATGTTGGCCCCATTGGCACTGGAGCTTGAAGAAGAAAGACGGAATGAGCAGGAACAACTGATACGCCACTGTGACCTCTGGGATGACACTGCTGAGTCCAATGAGGTTCTTGCCAAATTGGCTGATAGTGTTAGAGTGGTTGACGCTCTCAGAGACTTGACATATAAGGCTGAAGAAGCAAAACTTATTACACAGTTAGCAGAGATAGATGCTATCAATTATGGGCTTTTTAGGCAAGCATATGATGCATCTCTGGATATGAGCAAGATTTTGAATAAATATGAGATTTCCAAGCTTCTTAAGGGACCATATGACATGGAGGGAGCATGTCTAATTATAAAAGCTGGTGGCACAGGCTACCCTGAGGTTTGGGTAAAACAACTACTAAGCATGTATACCAAATGGGCCAGAAAGCTAGGTTACAAAGGAAGGGTAGTAGAGATGCATTCTTCCACGAATGGTGGCATCAAGTCAGCAACTATTGAGTTTGAACATGAGTTTGCTTTTGGTTATCTATCAGGAGAGGCAGGTGTGCACTACTTCATAAATTCTAAAAATGGATCTGCTGTGCACGAGGCGGCTAGCTCAGCAAGTGTGGATGTTGTTCCTCTATTTCTTGGACGAGCTTATGACTTACAAATTGACGAGGAAGATTTAGTTATTGTATTGCCATCAAAGCTTGAAGAAAAGCAGAGCCAAAATGGTCCTTTAGTTTACATTCACCATAAACCCACAGGCATAAGTGTCCAATCATCAGGTGAGAGGAGCCACTTTGCAAATAAGATGAAAGCCATGAACCGATTGAAAGCCAAGCTTCTCATCCTTGCATTGGAACAAGGAGTTAACAAGCCTAGTGATATTAAGAAAGATGAGATTGTCAATGTGTGGCAAAAGGAGACTCGAAGATACATGTCTCATCCACATAAGTTAGTCAAGGATTTAAAAACGGGTATCCAACTACCTGACCTTATTTCTGTTTTGGGTGGAAATCTTGAACCTCTTATTGCTGCTCATATTAATATAAGACAGTAA

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

414

Amino Acids

46.31

Weight (kDa)

8.19

Isoelectric Point (pI)

48.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PCRF	PF03462	83 - 250	2.6e-22	PCRF domain
RF-1	PF00472	309 - 385	3.6e-11	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: 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

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	551
AarI	CACCTGC	1 cut(s)	731
AasI	GACNNNNNNGTC	1 cut(s)	109
Acc36I	ACCTGC	1 cut(s)	731
AccI	GTMKAC	1 cut(s)	608
AciI	CCGC	4 cut(s)	6, 15, 33, 791
AclWI	GGATC	1 cut(s)	781
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	1 cut(s)	760
AcuI	CTGAAG	1 cut(s)	405
AfiI	CCNNNNNNNGG	1 cut(s)	1042
AflII	CTTAAG	1 cut(s)	512
AflIII	ACRYGT	1 cut(s)	1122
AgsI	TTSAA	8 cut(s)	178, 191, 242, 487, 704, 896, 1018, 1208
Alw21I	GWGCWC	2 cut(s)	750, 786
Alw26I	GTCTC	4 cut(s)	117, 360, 1103, 1131
Alw44I	GTGCAC	2 cut(s)	746, 782
AlwI	GGATC	1 cut(s)	781
AoxI	GGCC	3 cut(s)	3, 219, 618
ApaLI	GTGCAC	2 cut(s)	746, 782
ApeKI	GCWGC	6 cut(s)	39, 42, 45, 59, 72, 1220
ApoI	RAATTY	1 cut(s)	760
AseI	ATTAAT	1 cut(s)	1230
Asp700I	GAANNNNTTC	1 cut(s)	146
AspLEI	GCGC	2 cut(s)	50, 131
AspS9I	GGNCC	4 cut(s)	220, 518, 618, 917
AsuHPI	GGTGA	2 cut(s)	926, 983
AsuNHI	GCTAGC	1 cut(s)	794
AvaII	GGWCC	2 cut(s)	518, 917
AxyI	CCTNAGG	1 cut(s)	576
BaeGI	GKGCMC	2 cut(s)	750, 786
BauI	CACGAG	1 cut(s)	785
Bbv12I	GWGCWC	2 cut(s)	750, 786
BbvI	GCAGC	6 cut(s)	46, 51, 54, 57, 84, 1207
BccI	CCATC	1 cut(s)	892
BciVI	GTATCC	1 cut(s)	1175
BcoDI	GTCTC	4 cut(s)	117, 360, 1103, 1131
BfaI	CTAG	3 cut(s)	629, 795, 1065
BfoI	RGCGCY	1 cut(s)	51
BfrI	CTTAAG	1 cut(s)	512
BfuAI	ACCTGC	1 cut(s)	731
BfuI	GTATCC	1 cut(s)	1175
BglI	GCCNNNNNGGC	2 cut(s)	227, 332
BisI	GCNGC	8 cut(s)	6, 40, 43, 46, 60, 73, 792, 1221
BlpI	GCTNAGC	1 cut(s)	799
BlsI	GCNGC	8 cut(s)	7, 41, 44, 47, 61, 74, 793, 1222
Bme18I	GGWCC	2 cut(s)	518, 917
BmgT120I	GGNCC	4 cut(s)	220, 518, 618, 917
BmiI	GGNNCC	3 cut(s)	222, 519, 980
BmrI	ACTGGG	1 cut(s)	170
BmsI	GCATC	6 cut(s)	184, 412, 448, 470, 645, 687
BmtI	GCTAGC	1 cut(s)	798
BmuI	ACTGGG	1 cut(s)	170
BpmI	CTGGAG	1 cut(s)	254
Bpu1102I	GCTNAGC	1 cut(s)	799
Bsc4I	CCNNNNNNNGG	1 cut(s)	1042
Bse1I	ACTGG	2 cut(s)	165, 237
Bse21I	CCTNAGG	1 cut(s)	576
BseGI	GGATG	4 cut(s)	301, 817, 1032, 1129
BseLI	CCNNNNNNNGG	1 cut(s)	1042
BseMII	CTCAG	5 cut(s)	201, 297, 376, 567, 813
BseNI	ACTGG	2 cut(s)	165, 237
BseRI	GAGGAG	1 cut(s)	991
BseSI	GKGCMC	2 cut(s)	750, 786
BseXI	GCAGC	6 cut(s)	46, 51, 54, 57, 84, 1207
BseYI	CCCAGC	1 cut(s)	105
BshFI	GGCC	3 cut(s)	5, 221, 620
BsiHKAI	GWGCWC	2 cut(s)	750, 786
BslFI	GGGAC	1 cut(s)	531
BslI	CCNNNNNNNGG	1 cut(s)	1042
BsmAI	GTCTC	4 cut(s)	117, 360, 1103, 1131
BsmFI	GGGAC	1 cut(s)	531
BsmI	GAATGC	1 cut(s)	658
BsnI	GGCC	3 cut(s)	5, 221, 620
Bsp1286I	GDGCHC	2 cut(s)	750, 786
Bsp143I	GATC	1 cut(s)	773
Bsp1720I	GCTNAGC	1 cut(s)	799
BspACI	CCGC	4 cut(s)	6, 15, 33, 791
BspANI	GGCC	3 cut(s)	5, 221, 620
BspCNI	CTCAG	5 cut(s)	202, 298, 375, 568, 812
BspLI	GGNNCC	3 cut(s)	222, 519, 980
BspMI	ACCTGC	1 cut(s)	731
BspOI	GCTAGC	1 cut(s)	798
BspPI	GGATC	1 cut(s)	781
BspTI	CTTAAG	1 cut(s)	512
BsrI	ACTGG	2 cut(s)	165, 237
BssMI	GATC	1 cut(s)	773
BssNAI	GTATAC	1 cut(s)	609
BssSI	CACGAG	1 cut(s)	785
Bst1107I	GTATAC	1 cut(s)	609
Bst2BI	CACGAG	1 cut(s)	785
Bst4CI	ACNGT	3 cut(s)	284, 408, 1242
BstAFI	CTTAAG	1 cut(s)	512
BstAPI	GCANNNNNTGC	1 cut(s)	458
BstC8I	GCNNGC	2 cut(s)	450, 796
BstDEI	CTNAG	6 cut(s)	210, 306, 362, 576, 599, 799
BstF5I	GGATG	4 cut(s)	301, 817, 1032, 1129
BstH2I	RGCGCY	1 cut(s)	51
BstHHI	GCGC	2 cut(s)	50, 131
BstKTI	GATC	1 cut(s)	776
BstMAI	GTCTC	4 cut(s)	117, 360, 1103, 1131
BstMBI	GATC	1 cut(s)	773
BstNSI	RCATGY	3 cut(s)	543, 607, 1126
BstSLI	GKGCMC	2 cut(s)	750, 786
BstV1I	GCAGC	6 cut(s)	46, 51, 54, 57, 84, 1207
BstX2I	RGATCY	1 cut(s)	773
BstYI	RGATCY	1 cut(s)	773
BstZ17I	GTATAC	1 cut(s)	609
Bsu36I	CCTNAGG	1 cut(s)	576
BsuI	GTATCC	1 cut(s)	1175
BsuRI	GGCC	3 cut(s)	5, 221, 620
BtsCI	GGATG	4 cut(s)	301, 817, 1032, 1129
BtsI	GCAGTG	3 cut(s)	54, 124, 300
BtsIMutI	CAGTG	5 cut(s)	54, 124, 230, 280, 300
BveI	ACCTGC	1 cut(s)	731
Cac8I	GCNNGC	2 cut(s)	450, 796
CfoI	GCGC	2 cut(s)	50, 131
Cfr13I	GGNCC	4 cut(s)	220, 518, 618, 917
CseI	GACGC	1 cut(s)	365
CviAII	CATG	7 cut(s)	134, 529, 540, 604, 707, 1006, 1123
DdeI	CTNAG	6 cut(s)	210, 306, 362, 576, 599, 799
DpnI	GATC	1 cut(s)	775
DpnII	GATC	1 cut(s)	773
DraI	TTTAAA	1 cut(s)	1155
DrdI	GACNNNNNNGTC	1 cut(s)	109
DseDI	GACNNNNNNGTC	1 cut(s)	109
EaeI	YGGCCR	1 cut(s)	3
Eco47I	GGWCC	2 cut(s)	518, 917
Eco57I	CTGAAG	1 cut(s)	405
Eco81I	CCTNAGG	1 cut(s)	576
EcoT22I	ATGCAT	2 cut(s)	463, 660
FaeI	CATG	7 cut(s)	137, 532, 543, 607, 710, 1009, 1126
FalI	AAGNNNNNCTT	4 cut(s)	381, 413, 1011, 1043
FaqI	GGGAC	1 cut(s)	531
FatI	CATG	7 cut(s)	133, 528, 539, 603, 706, 1005, 1122
FauI	CCCGC	1 cut(s)	26
FauNDI	CATATG	2 cut(s)	454, 523
FblI	GTMKAC	1 cut(s)	608
Fnu4HI	GCNGC	8 cut(s)	6, 40, 43, 46, 60, 73, 792, 1221
FokI	GGATG	4 cut(s)	308, 824, 1019, 1116
Fsp4HI	GCNGC	8 cut(s)	6, 40, 43, 46, 60, 73, 792, 1221
FspBI	CTAG	3 cut(s)	629, 795, 1065
GlaI	GCGC	2 cut(s)	49, 130
GluI	GCNGC	8 cut(s)	6, 40, 43, 46, 60, 73, 792, 1221
GsaI	CCCAGC	1 cut(s)	109
GsuI	CTGGAG	1 cut(s)	254
HaeII	RGCGCY	1 cut(s)	51
HaeIII	GGCC	3 cut(s)	5, 221, 620
HgaI	GACGC	1 cut(s)	365
HhaI	GCGC	2 cut(s)	50, 131
Hin1II	CATG	7 cut(s)	137, 532, 543, 607, 710, 1009, 1126
Hin6I	GCGC	2 cut(s)	48, 129
HinP1I	GCGC	2 cut(s)	48, 129
HincII	GTYRAC	2 cut(s)	355, 1057
HindII	GTYRAC	2 cut(s)	355, 1057
HindIII	AAGCTT	3 cut(s)	506, 890, 1025
HinfI	GANTC	3 cut(s)	11, 308, 1111
HpaI	GTTAAC	1 cut(s)	1057
HphI	GGTGA	2 cut(s)	926, 983
Hpy166II	GTNNAC	6 cut(s)	355, 609, 748, 784, 928, 1057
Hpy188I	TCNGA	3 cut(s)	26, 206, 365
Hpy188III	TCNNGA	3 cut(s)	467, 732, 1205
Hpy8I	GTNNAC	6 cut(s)	355, 609, 748, 784, 928, 1057
HpyAV	CCTTC	1 cut(s)	636
HpyCH4III	ACNGT	3 cut(s)	284, 408, 1242
HpyCH4IV	ACGT	1 cut(s)	80
HpyCH4V	TGCA	6 cut(s)	461, 658, 748, 784, 989, 1040
HpyF3I	CTNAG	6 cut(s)	210, 306, 362, 576, 599, 799
HpySE526I	ACGT	1 cut(s)	80
Hsp92II	CATG	7 cut(s)	137, 532, 543, 607, 710, 1009, 1126
HspAI	GCGC	2 cut(s)	48, 129
KspAI	GTTAAC	1 cut(s)	1057
Kzo9I	GATC	1 cut(s)	773
LmnI	GCTCC	4 cut(s)	36, 235, 536, 978
Lsp1109I	GCAGC	6 cut(s)	46, 51, 54, 57, 84, 1207
LweI	GCATC	6 cut(s)	184, 412, 448, 470, 645, 687
MaeI	CTAG	3 cut(s)	629, 795, 1065
MaeII	ACGT	1 cut(s)	80
MaeIII	GTNAC	2 cut(s)	284, 632
MalI	GATC	1 cut(s)	775
MboI	GATC	1 cut(s)	773
MboII	GAAGA	9 cut(s)	196, 203, 254, 257, 398, 654, 875, 908, 1128
MflI	RGATCY	1 cut(s)	773
MhlI	GDGCHC	2 cut(s)	750, 786
MluCI	AATT	5 cut(s)	329, 430, 546, 760, 852
MlyI	GAGTC	3 cut(s)	20, 317, 1105
MmeI	TCCRAC	1 cut(s)	1192
Mph1103I	ATGCAT	2 cut(s)	463, 660
MroXI	GAANNNNTTC	1 cut(s)	146
MseI	TTAA	5 cut(s)	513, 1056, 1074, 1154, 1230
MspCI	CTTAAG	1 cut(s)	512
Mva1269I	GAATGC	1 cut(s)	658
NdeI	CATATG	2 cut(s)	454, 523
NdeII	GATC	1 cut(s)	773
NheI	GCTAGC	1 cut(s)	794
NlaIII	CATG	7 cut(s)	137, 532, 543, 607, 710, 1009, 1126
NlaIV	GGNNCC	3 cut(s)	222, 519, 980
NmeAIII	GCCGAG	1 cut(s)	34
NmuCI	GTSAC	1 cut(s)	284
NsiI	ATGCAT	2 cut(s)	463, 660
NspI	RCATGY	3 cut(s)	543, 607, 1126
PaqCI	CACCTGC	1 cut(s)	731
PciI	ACATGT	1 cut(s)	1122
PctI	GAATGC	1 cut(s)	658
PdmI	GAANNNNTTC	1 cut(s)	146
PkrI	GCNGC	8 cut(s)	7, 41, 44, 47, 61, 74, 793, 1222
PleI	GAGTC	3 cut(s)	19, 316, 1105
PpsI	GAGTC	3 cut(s)	19, 316, 1105
PscI	ACATGT	1 cut(s)	1122
PshBI	ATTAAT	1 cut(s)	1230
PsiI	TTATAA	1 cut(s)	551
PspFI	CCCAGC	1 cut(s)	105
PspN4I	GGNNCC	3 cut(s)	222, 519, 980
PspPI	GGNCC	4 cut(s)	220, 518, 618, 917
PsrI	GAACNNNNNNTAC	4 cut(s)	134, 166, 258, 290
PsuI	RGATCY	1 cut(s)	773
SaqAI	TTAA	5 cut(s)	513, 1056, 1074, 1154, 1230
SatI	GCNGC	8 cut(s)	6, 40, 43, 46, 60, 73, 792, 1221
Sau3AI	GATC	1 cut(s)	773
Sau96I	GGNCC	4 cut(s)	220, 518, 618, 917
SchI	GAGTC	3 cut(s)	20, 317, 1105
SduI	GDGCHC	2 cut(s)	750, 786
SfaNI	GCATC	6 cut(s)	184, 412, 448, 470, 645, 687
SinI	GGWCC	2 cut(s)	518, 917
SmlI	CTYRAG	1 cut(s)	512
SmoI	CTYRAG	1 cut(s)	512
Sse9I	AATT	5 cut(s)	329, 430, 546, 760, 852
SsiI	CCGC	4 cut(s)	6, 15, 33, 791
SspMI	CTAG	3 cut(s)	629, 795, 1065
TaaI	ACNGT	3 cut(s)	284, 408, 1242
TaiI	ACGT	1 cut(s)	83
TaqI	TCGA	1 cut(s)	1114
TasI	AATT	5 cut(s)	329, 430, 546, 760, 852
TauI	GCSGC	2 cut(s)	8, 794
Tru1I	TTAA	5 cut(s)	513, 1056, 1074, 1154, 1230
Tru9I	TTAA	5 cut(s)	513, 1056, 1074, 1154, 1230
TscAI	CASTG	5 cut(s)	61, 131, 237, 287, 307
TseFI	GTSAC	1 cut(s)	284
TseI	GCWGC	6 cut(s)	39, 42, 45, 59, 72, 1220
Tsp45I	GTSAC	1 cut(s)	284
TspDTI	ATGAA	4 cut(s)	162, 745, 1013, 1022
TspGWI	ACGGA	1 cut(s)	268
TspRI	CASTG	5 cut(s)	61, 131, 237, 287, 307
Vha464I	CTTAAG	1 cut(s)	512
VneI	GTGCAC	2 cut(s)	746, 782
VpaK11BI	GGWCC	2 cut(s)	518, 917
VspI	ATTAAT	1 cut(s)	1230
XapI	RAATTY	1 cut(s)	760
XceI	RCATGY	3 cut(s)	543, 607, 1126
XmiI	GTMKAC	1 cut(s)	608
XmnI	GAANNNNTTC	1 cut(s)	146
XspI	CTAG	3 cut(s)	629, 795, 1065
Zsp2I	ATGCAT	2 cut(s)	463, 660

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