Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0013126

Physical Location & Seq

Genomic Coordinates Reverse (-)

375788 .. 380629

Gene Structure 4842 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG002500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 807 bp

ATGTCTTACAATCATGTCTATCCCAGATGTTGCACACTCTCTCCAGAACCCAACAAGCCAAACAACAAACCTTCAGGTTCGGGTTCAGGTGAATTCAAGCTCTACCAATTTTTCGTCTTTTGTGTCCCAATCTTCTTCACTTTCATCCTCCTCTTTGTCTTCTACTTGTTCTATCTCCGCCCTCGACGTGTCAATTGGTCCTCTATTCGAATGAGGACGGCTCCACAAAATGATGACATTGATGACATTGCCACAGTTGAACTGGGCTTGCAAAAAGAACACAGAGAGATGCTACCCATTGTTGTATATAACGAAAGCTTCTCTGTCAGAGATACACAATGCGCAGTATGCCTGGGGGATTATCAAGCAGATGATAGGCTTCAACAAATACCAGCCTGTGGCCACACGTTTCACATTGCTTGCATTGATAGCTGGCTATCCATGCACACCACCTGTCCACTCTGCCGCTTATCCCTCCTTTCGTCTCATAAATCCCAAAATGAATCACCTGATGTAACTCTAGAATTGAGTCATGCGTCTTCTATTGCAGAGAATGATGCACCATCTCTTGCACCGACACCTCAAGCTTGTGAAGAAACAGAAGCTTCACTGTTCTCTGGGTTAAGGAATGAGGAACCAAGAACTATCCAAAACAGTTCTGAAGAAGATGCAAGAGGTTGTCAATGTGCAGATCACACCAGAGAATTAAGGGATGCCAGAATTGAAAATGAAGTGCATGAGCATACTGGTGGATCTTCTGGTAAGTTTGACTATCACATGTCCACTGGATATTGCTATAATTTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004842 GO:0006464 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0032446 GO:0036211 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0070647 GO:0071704 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-RING_2

Protein Analysis

268

Amino Acids

30.38

Weight (kDa)

5.24

Isoelectric Point (pI)

57.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RING_2	PF13639	113 - 156	9.9e-14	Ring finger domain
zf-RING_11	PF17123	113 - 142	1.1e-07	RING-like zinc finger
zf-C3HC4_2	PF13923	113 - 155	5.3e-07	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	114 - 155	1.5e-07	Zinc finger, C3HC4 type (RING finger)
zf-rbx1	PF12678	126 - 156	3.1e-08	RING-H2 zinc finger 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)

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Publication-ready

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Orthologous Genes (Group: OG0013126)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G33480 AT4G10150 AT4G10160
fragaria_vesca	FvH4_2g00300
malus_domestica	MD05G1006000.v1.1
prunus_persica	Prupe.8G002900_v2.0.a1
pyrus_communis	pycom05g00120
rosa_chinensis	RchiOBHm_Chr6g0249581
rosa_laevigata	RLG00000015560
rosa_multiflora	Rmu_sc0006936.1_g000008 Rmu_sc0013555.1_g000005
rosa_roxburghii	Rroxscaffold_7G00217530
rosa_rugosa	Rorug05G0493800
rosa_samantha	Rh6AG003600 Rh6BG006600 Rh6CG002700 Rh6DG002500
rosa_wichuraiana	Rw6G000400

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	343
AccB7I	CCANNNNNTGG	1 cut(s)	398
AciI	CCGC	2 cut(s)	178, 466
AclWI	GGATC	1 cut(s)	760
AcoI	YGGCCR	1 cut(s)	400
AcsI	RAATTY	1 cut(s)	92
AcuI	CTGAAG	2 cut(s)	57, 681
AfiI	CCNNNNNNNGG	1 cut(s)	398
AflIII	ACRYGT	3 cut(s)	187, 405, 777
AgsI	TTSAA	4 cut(s)	97, 260, 383, 725
AjiI	CACGTC	1 cut(s)	188
AjnI	CCWGG	1 cut(s)	351
AluBI	AGCT	5 cut(s)	100, 318, 432, 587, 605
AluI	AGCT	5 cut(s)	100, 318, 432, 587, 605
Alw26I	GTCTC	1 cut(s)	489
AlwI	GGATC	1 cut(s)	760
AoxI	GGCC	1 cut(s)	400
ApoI	RAATTY	1 cut(s)	92
AspLEI	GCGC	1 cut(s)	344
AspS9I	GGNCC	1 cut(s)	198
AsuHPI	GGTGA	2 cut(s)	101, 498
AsuII	TTCGAA	1 cut(s)	208
AvaII	GGWCC	1 cut(s)	198
BalI	TGGCCA	1 cut(s)	402
BbsI	GAAGAC	2 cut(s)	151, 531
BccI	CCATC	1 cut(s)	571
BceAI	ACGGC	1 cut(s)	234
BciT130I	CCWGG	1 cut(s)	353
BcoDI	GTCTC	1 cut(s)	489
BfaI	CTAG	1 cut(s)	521
BisI	GCNGC	1 cut(s)	466
BlsI	GCNGC	1 cut(s)	467
Bme1390I	CCNGG	1 cut(s)	353
Bme18I	GGWCC	1 cut(s)	198
BmgBI	CACGTC	1 cut(s)	188
BmgT120I	GGNCC	1 cut(s)	198
BmiI	GGNNCC	2 cut(s)	222, 636
BmrFI	CCNGG	1 cut(s)	353
BmrI	ACTGGG	1 cut(s)	272
BmsI	GCATC	4 cut(s)	279, 547, 658, 703
BmuI	ACTGGG	1 cut(s)	272
BpiI	GAAGAC	2 cut(s)	151, 531
BplI	GAGNNNNNCTC	2 cut(s)	205, 237
BpmI	CTGGAG	1 cut(s)	27
Bpu14I	TTCGAA	1 cut(s)	208
BpuEI	CTTGAG	1 cut(s)	567
BsaJI	CCNNGG	1 cut(s)	352
BsaXI	ACNNNNNCTCC	2 cut(s)	25, 55
Bsc4I	CCNNNNNNNGG	1 cut(s)	398
Bse1I	ACTGG	3 cut(s)	267, 751, 790
Bse3DI	GCAATG	2 cut(s)	246, 414
BseBI	CCWGG	1 cut(s)	353
BseDI	CCNNGG	1 cut(s)	352
BseGI	GGATG	2 cut(s)	144, 718
BseLI	CCNNNNNNNGG	1 cut(s)	398
BseMI	GCAATG	2 cut(s)	246, 414
BseNI	ACTGG	3 cut(s)	267, 751, 790
BseRI	GAGGAG	1 cut(s)	140
BsgI	GTGCAG	1 cut(s)	708
BshFI	GGCC	1 cut(s)	402
BslFI	GGGAC	1 cut(s)	110
BslI	CCNNNNNNNGG	1 cut(s)	398
BsmAI	GTCTC	1 cut(s)	489
BsmBI	CGTCTC	1 cut(s)	489
BsmFI	GGGAC	1 cut(s)	110
BsnI	GGCC	1 cut(s)	402
Bsp119I	TTCGAA	1 cut(s)	208
Bsp143I	GATC	2 cut(s)	691, 752
BspACI	CCGC	2 cut(s)	178, 466
BspANI	GGCC	1 cut(s)	402
BspLI	GGNNCC	2 cut(s)	222, 636
BspPI	GGATC	1 cut(s)	760
BspT104I	TTCGAA	1 cut(s)	208
BsrDI	GCAATG	2 cut(s)	246, 414
BsrI	ACTGG	3 cut(s)	267, 751, 790
BssECI	CCNNGG	1 cut(s)	352
BssMI	GATC	2 cut(s)	691, 752
Bst2UI	CCWGG	1 cut(s)	353
Bst4CI	ACNGT	3 cut(s)	256, 612, 656
BstBI	TTCGAA	1 cut(s)	208
BstC8I	GCNNGC	3 cut(s)	269, 421, 434
BstF5I	GGATG	2 cut(s)	144, 718
BstHHI	GCGC	1 cut(s)	344
BstKTI	GATC	2 cut(s)	694, 755
BstMAI	GTCTC	1 cut(s)	489
BstMBI	GATC	2 cut(s)	691, 752
BstMWI	GCNNNNNNNGC	3 cut(s)	348, 429, 442
BstNI	CCWGG	1 cut(s)	353
BstNSI	RCATGY	1 cut(s)	781
BstSCI	CCNGG	1 cut(s)	351
BstV2I	GAAGAC	2 cut(s)	151, 531
BstX2I	RGATCY	1 cut(s)	752
BstYI	RGATCY	1 cut(s)	752
BsuRI	GGCC	1 cut(s)	402
BtrI	CACGTC	1 cut(s)	188
BtsCI	GGATG	2 cut(s)	144, 718
BtsIMutI	CAGTG	2 cut(s)	608, 783
Cac8I	GCNNGC	3 cut(s)	269, 421, 434
CfoI	GCGC	1 cut(s)	344
Cfr13I	GGNCC	1 cut(s)	198
CseI	GACGC	1 cut(s)	525
CviAII	CATG	5 cut(s)	14, 442, 533, 737, 778
DpnI	GATC	2 cut(s)	693, 754
DpnII	GATC	2 cut(s)	691, 752
EaeI	YGGCCR	1 cut(s)	400
EciI	GGCGGA	1 cut(s)	167
Eco47I	GGWCC	1 cut(s)	198
Eco57I	CTGAAG	2 cut(s)	57, 681
EcoRI	GAATTC	1 cut(s)	92
EcoRII	CCWGG	1 cut(s)	351
Esp3I	CGTCTC	1 cut(s)	489
FaeI	CATG	5 cut(s)	17, 445, 536, 740, 781
FaqI	GGGAC	1 cut(s)	110
FatI	CATG	5 cut(s)	13, 441, 532, 736, 777
Fnu4HI	GCNGC	1 cut(s)	466
FokI	GGATG	2 cut(s)	131, 725
Fsp4HI	GCNGC	1 cut(s)	466
FspBI	CTAG	1 cut(s)	521
FspI	TGCGCA	1 cut(s)	343
GlaI	GCGC	1 cut(s)	343
GluI	GCNGC	1 cut(s)	466
GsuI	CTGGAG	1 cut(s)	27
HaeIII	GGCC	1 cut(s)	402
HgaI	GACGC	1 cut(s)	525
HhaI	GCGC	1 cut(s)	344
Hin1II	CATG	5 cut(s)	17, 445, 536, 740, 781
Hin6I	GCGC	1 cut(s)	342
HinP1I	GCGC	1 cut(s)	342
HindIII	AAGCTT	3 cut(s)	316, 585, 603
HinfI	GANTC	2 cut(s)	503, 529
HphI	GGTGA	2 cut(s)	101, 498
Hpy166II	GTNNAC	2 cut(s)	458, 783
Hpy188I	TCNGA	2 cut(s)	329, 661
Hpy188III	TCNNGA	2 cut(s)	44, 521
Hpy8I	GTNNAC	2 cut(s)	458, 783
Hpy99I	CGWCG	1 cut(s)	189
HpyAV	CCTTC	1 cut(s)	81
HpyCH4III	ACNGT	3 cut(s)	256, 612, 656
HpyCH4IV	ACGT	2 cut(s)	187, 407
HpyF10VI	GCNNNNNNNGC	3 cut(s)	348, 429, 442
HpySE526I	ACGT	2 cut(s)	187, 407
Hsp92II	CATG	5 cut(s)	17, 445, 536, 740, 781
HspAI	GCGC	1 cut(s)	342
Kzo9I	GATC	2 cut(s)	691, 752
LmnI	GCTCC	1 cut(s)	226
LweI	GCATC	4 cut(s)	279, 547, 658, 703
MaeI	CTAG	1 cut(s)	521
MaeII	ACGT	2 cut(s)	187, 407
MaeIII	GTNAC	1 cut(s)	514
MalI	GATC	2 cut(s)	693, 754
MboI	GATC	2 cut(s)	691, 752
MboII	GAAGA	8 cut(s)	124, 127, 151, 531, 605, 674, 677, 747
MfeI	CAATTG	1 cut(s)	193
MflI	RGATCY	1 cut(s)	752
MlsI	TGGCCA	1 cut(s)	402
MluCI	AATT	7 cut(s)	92, 107, 193, 524, 704, 720, 799
MluNI	TGGCCA	1 cut(s)	402
MlyI	GAGTC	1 cut(s)	538
MnlI	CCTC	9 cut(s)	158, 161, 192, 207, 211, 485, 591, 625, 668
Mox20I	TGGCCA	1 cut(s)	402
MscI	TGGCCA	1 cut(s)	402
MseI	TTAA	2 cut(s)	623, 707
MslI	CAYNNNNRTG	1 cut(s)	747
Msp20I	TGGCCA	1 cut(s)	402
MspR9I	CCNGG	1 cut(s)	353
MunI	CAATTG	1 cut(s)	193
MvaI	CCWGG	1 cut(s)	353
MwoI	GCNNNNNNNGC	3 cut(s)	348, 429, 442
NdeII	GATC	2 cut(s)	691, 752
NlaIII	CATG	5 cut(s)	17, 445, 536, 740, 781
NlaIV	GGNNCC	2 cut(s)	222, 636
NsbI	TGCGCA	1 cut(s)	343
NspI	RCATGY	1 cut(s)	781
NspV	TTCGAA	1 cut(s)	208
PciI	ACATGT	1 cut(s)	777
PfeI	GAWTC	1 cut(s)	503
PflMI	CCANNNNNTGG	1 cut(s)	398
PkrI	GCNGC	1 cut(s)	467
PleI	GAGTC	1 cut(s)	537
PpsI	GAGTC	1 cut(s)	537
PscI	ACATGT	1 cut(s)	777
Psp6I	CCWGG	1 cut(s)	351
PspGI	CCWGG	1 cut(s)	351
PspN4I	GGNNCC	2 cut(s)	222, 636
PspPI	GGNCC	1 cut(s)	198
PsuI	RGATCY	1 cut(s)	752
RseI	CAYNNNNRTG	1 cut(s)	747
SaqAI	TTAA	2 cut(s)	623, 707
SatI	GCNGC	1 cut(s)	466
Sau3AI	GATC	2 cut(s)	691, 752
Sau96I	GGNCC	1 cut(s)	198
SchI	GAGTC	1 cut(s)	538
ScrFI	CCNGG	1 cut(s)	353
SfaNI	GCATC	4 cut(s)	279, 547, 658, 703
SfuI	TTCGAA	1 cut(s)	208
SinI	GGWCC	1 cut(s)	198
SmiMI	CAYNNNNRTG	1 cut(s)	747
SmlI	CTYRAG	1 cut(s)	582
SmoI	CTYRAG	1 cut(s)	582
Sse9I	AATT	7 cut(s)	92, 107, 193, 524, 704, 720, 799
SsiI	CCGC	2 cut(s)	178, 466
SspMI	CTAG	1 cut(s)	521
StyD4I	CCNGG	1 cut(s)	351
TaaI	ACNGT	3 cut(s)	256, 612, 656
TaiI	ACGT	2 cut(s)	190, 410
TaqI	TCGA	2 cut(s)	184, 208
TasI	AATT	7 cut(s)	92, 107, 193, 524, 704, 720, 799
TauI	GCSGC	1 cut(s)	468
TfiI	GAWTC	1 cut(s)	503
Tru1I	TTAA	2 cut(s)	623, 707
Tru9I	TTAA	2 cut(s)	623, 707
TscAI	CASTG	2 cut(s)	615, 790
TspDTI	ATGAA	3 cut(s)	133, 516, 744
TspRI	CASTG	2 cut(s)	615, 790
Van91I	CCANNNNNTGG	1 cut(s)	398
VpaK11BI	GGWCC	1 cut(s)	198
XapI	RAATTY	1 cut(s)	92
XbaI	TCTAGA	1 cut(s)	520
XceI	RCATGY	1 cut(s)	781
XcmI	CCANNNNNNNNNTGG	1 cut(s)	259
XspI	CTAG	1 cut(s)	521

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