Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0002680

Physical Location & Seq

Genomic Coordinates Forward (+)

9908129 .. 9911797

Gene Structure 3669 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG047000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1122 bp

ATGGGATCGTGTTTCTCCCAGAAACTCGAAGTCGATAACCGTTTTCCTCTGCGTTTTTACTTTCGGATGGCTGATATAATTCTCAGACAGGCTGACATATATCGGGAAGAGAGAGATATTTTTTACCTGTACATTACGCTCCTAAGGTTTGCAAGTTTGGTCTCCGAGACAATACCGGATCATCAAGACTATATAAAGGCTGATCAAAGAGAAAGTCAGAAGGAAGTGAAAAAGAAATTGTTGAATGCTCTTGCTGAGCTAGAGGAGTTAAAACCAGCAGTTAAACAGAAGATCAATGAGATAAACAGAGGAAATGCATATCAAAACAGCAGGCATGATCACCAAACTGGGGAAAGTATACCTCGTAGATCTGATAAAAAGAAAGTAGAAAGTGTGGGGACTTGTAGCTCCAGTACTGGTGGAGAGAATTTATCCCCACACCCAACACCAGAGTTTCCCTTTGGTCTCCCTGGTAACAAGAGATTAAAGAAAGAGACACGAACAAAAATTTTACTTGAAAAGGCACATGATTGGAAGCTTACCACTCCATGCAAGCCAATACCACAGGCGCGTCCTGCAATTAACCAGCCAACTGCACCACGAGTTGAAGAAGATTTAGAGCTGGTCAAGGCTATTGATGCCTCCATCCAGTCTGCTTTGCAGGAGAGGCCGCCTTTGTCTGATGCACTCCGAATCCATGAAACAAATGCATCAAGTAGTTCGAGTACCTCCATGGATAGTGGAGACTTGTCACAGTGTGAAAGTGTCCTAGGAGGGGGTTCAGATTCACATGCAGAGATCCATGTAATCTCTACCATTCAAACATCTACTACCTCAGAATCAATCCCATCATCTCCAACCCCATCAGCTCCACCAGTTTCAGATGATTGTCTAAATGATCCTTTTCAGTGTCGATCTACTGATTCCAATCCTATCCAGGAAGGTGAAAATGCTTCTTCTTCATGCGTGATATGTATGGATGCTCCCGTTGAAGGAGCTTTTATCCCATGTGGGCATATGGCTGGATGCATGGCTTGTTTGAATGACATTAAAGATAAGAACTGGGATTGCCCTGTCTGCCGCGTTAAGGTCGATCTGGTCATAAAGCTCTATGTTGTATGA

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

Ank Methyltransf_29 zf-C3HC4_3

Protein Analysis

373

Amino Acids

41.33

Weight (kDa)

5.68

Isoelectric Point (pI)

52.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
USP8_dimer	PF08969	6 - 96	5.8e-12	USP8 dimerisation domain
zf-C3HC4_3	PF13920	320 - 365	6.3e-14	Zinc finger, C3HC4 type (RING finger)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0002680)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G23280 AT3G23280 AT4G14365
fragaria_vesca	FvH4_4g03720 FvH4_4g03720 FvH4_4g03730
malus_domestica	MD05G1075400.v1.1 MD13G1214800.v1.1 MD16G1219900.v1.1
prunus_persica	Prupe.1G040200_v2.0.a1 Prupe.1G040200_v2.0.a1
pyrus_communis	pycom13g18820 pycom16g18320
rosa_chinensis	RchiOBHm_Chr4g0393331 RchiOBHm_Chr4g0393371
rosa_laevigata	RLG00000009750 RLG00000009758 RLG00000009759 RLG00000009763
rosa_multiflora	Rmu_sc0008931.1_g000009
rosa_roxburghii	Rroxscaffold_3G00224380 Rroxscaffold_5G00338320 Rroxscaffold_5G00338340 Rroxscaffold_5G00338360 Rroxscaffold_5G00338390
rosa_rugosa	Rorug04G0001300 Rorug04G0001500 Rorug04G0001800
rosa_samantha	Rh4AG046800 Rh4AG047000 Rh4AG047300 Rh4AG047400 Rh4BG042400 Rh4BG042600 Rh4CG049900 Rh4CG050000 Rh4DG044200 Rh5AG327600
rosa_wichuraiana	Rw4G003700 Rw4G003720

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	358
AccII	CGCG	2 cut(s)	571, 1083
AciI	CCGC	2 cut(s)	671, 1081
AclWI	GGATC	4 cut(s)	13, 186, 793, 893
AcsI	RAATTY	2 cut(s)	427, 507
AdeI	CACNNNGTG	1 cut(s)	758
AfaI	GTAC	3 cut(s)	131, 415, 727
AfiI	CCNNNNNNNGG	4 cut(s)	349, 775, 992, 1087
AgsI	TTSAA	6 cut(s)	244, 518, 608, 821, 992, 1042
AjnI	CCWGG	2 cut(s)	469, 936
AluBI	AGCT	7 cut(s)	259, 408, 538, 622, 869, 998, 1108
AluI	AGCT	7 cut(s)	259, 408, 538, 622, 869, 998, 1108
Alw26I	GTCTC	5 cut(s)	161, 166, 470, 488, 738
AlwI	GGATC	4 cut(s)	13, 186, 793, 893
AoxI	GGCC	1 cut(s)	668
ApoI	RAATTY	2 cut(s)	427, 507
ArsI	GACNNNNNNTTYG	2 cut(s)	199, 231
AspA2I	CCTAGG	1 cut(s)	769
AspLEI	GCGC	1 cut(s)	571
AsuHPI	GGTGA	2 cut(s)	332, 956
AvrII	CCTAGG	1 cut(s)	769
AxyI	CCTNAGG	1 cut(s)	143
BauI	CACGAG	1 cut(s)	600
BccI	CCATC	4 cut(s)	61, 653, 856, 871
BciT130I	CCWGG	2 cut(s)	471, 938
BclI	TGATCA	2 cut(s)	202, 337
BcoDI	GTCTC	5 cut(s)	161, 166, 470, 488, 738
BfaI	CTAG	2 cut(s)	260, 770
BglII	AGATCT	1 cut(s)	368
BisI	GCNGC	2 cut(s)	671, 1081
BlnI	CCTAGG	1 cut(s)	769
BlpI	GCTNAGC	1 cut(s)	255
BlsI	GCNGC	2 cut(s)	672, 1082
BmcAI	AGTACT	1 cut(s)	415
Bme1390I	CCNGG	2 cut(s)	471, 938
BmrFI	CCNGG	2 cut(s)	471, 938
BmrI	ACTGGG	2 cut(s)	357, 1072
BmsI	GCATC	5 cut(s)	628, 673, 719, 970, 1016
BmuI	ACTGGG	2 cut(s)	357, 1072
BpmI	CTGGAG	1 cut(s)	394
Bpu1102I	GCTNAGC	1 cut(s)	255
BsaBI	GATNNNNATC	1 cut(s)	927
BsaI	GGTCTC	2 cut(s)	166, 470
BsaJI	CCNNGG	3 cut(s)	469, 732, 769
BsaWI	WCCGGW	1 cut(s)	175
Bsc4I	CCNNNNNNNGG	4 cut(s)	349, 775, 992, 1087
Bse1I	ACTGG	6 cut(s)	352, 411, 421, 649, 875, 1067
Bse21I	CCTNAGG	1 cut(s)	143
Bse8I	GATNNNNATC	1 cut(s)	927
BseBI	CCWGG	2 cut(s)	471, 938
BseDI	CCNNGG	3 cut(s)	469, 732, 769
BseGI	GGATG	4 cut(s)	72, 645, 985, 1031
BseJI	GATNNNNATC	1 cut(s)	927
BseLI	CCNNNNNNNGG	4 cut(s)	349, 775, 992, 1087
BseMII	CTCAG	3 cut(s)	97, 246, 849
BseNI	ACTGG	6 cut(s)	352, 411, 421, 649, 875, 1067
BseRI	GAGGAG	1 cut(s)	278
BsgI	GTGCAG	1 cut(s)	579
Bsh1236I	CGCG	2 cut(s)	571, 1083
BshFI	GGCC	1 cut(s)	670
BsiSI	CCGG	1 cut(s)	176
BslFI	GGGAC	1 cut(s)	412
BslI	CCNNNNNNNGG	4 cut(s)	349, 775, 992, 1087
BsmAI	GTCTC	5 cut(s)	161, 166, 470, 488, 738
BsmFI	GGGAC	1 cut(s)	412
BsmI	GAATGC	1 cut(s)	250
BsnI	GGCC	1 cut(s)	670
Bso31I	GGTCTC	2 cut(s)	166, 470
Bsp1407I	TGTACA	1 cut(s)	129
Bsp1720I	GCTNAGC	1 cut(s)	255
Bsp19I	CCATGG	1 cut(s)	732
BspACI	CCGC	2 cut(s)	671, 1081
BspANI	GGCC	1 cut(s)	670
BspCNI	CTCAG	3 cut(s)	96, 247, 848
BspFNI	CGCG	2 cut(s)	571, 1083
BspPI	GGATC	4 cut(s)	13, 186, 793, 893
BspTNI	GGTCTC	2 cut(s)	166, 470
BsrGI	TGTACA	1 cut(s)	129
BsrI	ACTGG	6 cut(s)	352, 411, 421, 649, 875, 1067
BssECI	CCNNGG	3 cut(s)	469, 732, 769
BssNAI	GTATAC	1 cut(s)	359
BssSI	CACGAG	1 cut(s)	600
BssT1I	CCWWGG	2 cut(s)	732, 769
Bst1107I	GTATAC	1 cut(s)	359
Bst2BI	CACGAG	1 cut(s)	600
Bst2UI	CCWGG	2 cut(s)	471, 938
Bst4CI	ACNGT	2 cut(s)	41, 756
Bst6I	CTCTTC	1 cut(s)	102
BstAUI	TGTACA	1 cut(s)	129
BstC8I	GCNNGC	2 cut(s)	332, 554
BstDEI	CTNAG	4 cut(s)	83, 143, 255, 835
BstDSI	CCRYGG	1 cut(s)	732
BstF5I	GGATG	4 cut(s)	72, 645, 985, 1031
BstFNI	CGCG	2 cut(s)	571, 1083
BstHHI	GCGC	1 cut(s)	571
BstMAI	GTCTC	5 cut(s)	161, 166, 470, 488, 738
BstMWI	GCNNNNNNNGC	4 cut(s)	575, 638, 667, 1077
BstNI	CCWGG	2 cut(s)	471, 938
BstNSI	RCATGY	1 cut(s)	794
BstSCI	CCNGG	2 cut(s)	469, 936
BstUI	CGCG	2 cut(s)	571, 1083
BstX2I	RGATCY	2 cut(s)	368, 798
BstYI	RGATCY	2 cut(s)	368, 798
BstZ17I	GTATAC	1 cut(s)	359
Bsu36I	CCTNAGG	1 cut(s)	143
BsuRI	GGCC	1 cut(s)	670
BtgI	CCRYGG	1 cut(s)	732
BtsCI	GGATG	4 cut(s)	72, 645, 985, 1031
BtsIMutI	CAGTG	2 cut(s)	761, 914
Cac8I	GCNNGC	2 cut(s)	332, 554
CfoI	GCGC	1 cut(s)	571
CseI	GACGC	1 cut(s)	560
Csp6I	GTAC	3 cut(s)	130, 414, 726
CviQI	GTAC	3 cut(s)	130, 414, 726
DdeI	CTNAG	4 cut(s)	83, 143, 255, 835
DraIII	CACNNNGTG	1 cut(s)	758
Eam1104I	CTCTTC	1 cut(s)	102
EarI	CTCTTC	1 cut(s)	102
Eco130I	CCWWGG	2 cut(s)	732, 769
Eco31I	GGTCTC	2 cut(s)	166, 470
Eco81I	CCTNAGG	1 cut(s)	143
EcoRII	CCWGG	2 cut(s)	469, 936
EcoT14I	CCWWGG	2 cut(s)	732, 769
EcoT22I	ATGCAT	3 cut(s)	319, 712, 1031
ErhI	CCWWGG	2 cut(s)	732, 769
FaqI	GGGAC	1 cut(s)	412
FauNDI	CATATG	1 cut(s)	1017
FbaI	TGATCA	2 cut(s)	202, 337
FblI	GTMKAC	1 cut(s)	358
Fnu4HI	GCNGC	2 cut(s)	671, 1081
FokI	GGATG	4 cut(s)	79, 632, 992, 1038
Fsp4HI	GCNGC	2 cut(s)	671, 1081
FspBI	CTAG	2 cut(s)	260, 770
GlaI	GCGC	1 cut(s)	570
GluI	GCNGC	2 cut(s)	671, 1081
GsuI	CTGGAG	1 cut(s)	394
HaeIII	GGCC	1 cut(s)	670
HapII	CCGG	1 cut(s)	176
HgaI	GACGC	1 cut(s)	560
HhaI	GCGC	1 cut(s)	571
Hin6I	GCGC	1 cut(s)	569
HinP1I	GCGC	1 cut(s)	569
HindIII	AAGCTT	1 cut(s)	536
HinfI	GANTC	4 cut(s)	693, 785, 839, 923
HpaII	CCGG	1 cut(s)	176
HphI	GGTGA	2 cut(s)	332, 956
Hpy166II	GTNNAC	1 cut(s)	359
Hpy188III	TCNNGA	2 cut(s)	104, 185
Hpy8I	GTNNAC	1 cut(s)	359
HpyAV	CCTTC	3 cut(s)	214, 935, 986
HpyCH4III	ACNGT	2 cut(s)	41, 756
HpyF10VI	GCNNNNNNNGC	4 cut(s)	575, 638, 667, 1077
HpyF3I	CTNAG	4 cut(s)	83, 143, 255, 835
HspAI	GCGC	1 cut(s)	569
Ksp22I	TGATCA	2 cut(s)	202, 337
LmnI	GCTCC	5 cut(s)	144, 413, 874, 988, 995
LweI	GCATC	5 cut(s)	628, 673, 719, 970, 1016
MaeI	CTAG	2 cut(s)	260, 770
MaeIII	GTNAC	2 cut(s)	473, 750
MboII	GAAGA	6 cut(s)	119, 301, 620, 623, 948, 951
MflI	RGATCY	2 cut(s)	368, 798
MluCI	AATT	5 cut(s)	78, 236, 427, 507, 579
MmeI	TCCRAC	1 cut(s)	881
MnlI	CCTC	9 cut(s)	57, 256, 302, 372, 652, 660, 739, 767, 844
Mph1103I	ATGCAT	3 cut(s)	319, 712, 1031
MseI	TTAA	6 cut(s)	269, 282, 485, 582, 1050, 1086
MspI	CCGG	1 cut(s)	176
MspR9I	CCNGG	2 cut(s)	471, 938
Mva1269I	GAATGC	1 cut(s)	250
MvaI	CCWGG	2 cut(s)	471, 938
MvnI	CGCG	2 cut(s)	571, 1083
MwoI	GCNNNNNNNGC	4 cut(s)	575, 638, 667, 1077
NcoI	CCATGG	1 cut(s)	732
NdeI	CATATG	1 cut(s)	1017
NmuCI	GTSAC	1 cut(s)	750
NsiI	ATGCAT	3 cut(s)	319, 712, 1031
NspI	RCATGY	1 cut(s)	794
PctI	GAATGC	1 cut(s)	250
PfeI	GAWTC	4 cut(s)	693, 785, 839, 923
PfoI	TCCNGGA	1 cut(s)	936
PkrI	GCNGC	2 cut(s)	672, 1082
Psp6I	CCWGG	2 cut(s)	469, 936
PspGI	CCWGG	2 cut(s)	469, 936
PsuI	RGATCY	2 cut(s)	368, 798
RsaI	GTAC	3 cut(s)	131, 415, 727
RsaNI	GTAC	3 cut(s)	130, 414, 726
SaqAI	TTAA	6 cut(s)	269, 282, 485, 582, 1050, 1086
SatI	GCNGC	2 cut(s)	671, 1081
ScaI	AGTACT	1 cut(s)	415
ScrFI	CCNGG	2 cut(s)	471, 938
SfaNI	GCATC	5 cut(s)	628, 673, 719, 970, 1016
Sse9I	AATT	5 cut(s)	78, 236, 427, 507, 579
SsiI	CCGC	2 cut(s)	671, 1081
SspMI	CTAG	2 cut(s)	260, 770
StyD4I	CCNGG	2 cut(s)	469, 936
StyI	CCWWGG	2 cut(s)	732, 769
TaaI	ACNGT	2 cut(s)	41, 756
TaqI	TCGA	5 cut(s)	27, 33, 722, 913, 1092
TasI	AATT	5 cut(s)	78, 236, 427, 507, 579
TatI	WGTACW	2 cut(s)	129, 413
TauI	GCSGC	2 cut(s)	673, 1083
TfiI	GAWTC	4 cut(s)	693, 785, 839, 923
Tru1I	TTAA	6 cut(s)	269, 282, 485, 582, 1050, 1086
Tru9I	TTAA	6 cut(s)	269, 282, 485, 582, 1050, 1086
TscAI	CASTG	2 cut(s)	761, 914
TseFI	GTSAC	1 cut(s)	750
Tsp45I	GTSAC	1 cut(s)	750
TspDTI	ATGAA	2 cut(s)	714, 951
TspRI	CASTG	2 cut(s)	761, 914
XapI	RAATTY	2 cut(s)	427, 507
XceI	RCATGY	1 cut(s)	794
XmaJI	CCTAGG	1 cut(s)	769
XmiI	GTMKAC	1 cut(s)	358
XspI	CTAG	2 cut(s)	260, 770
ZrmI	AGTACT	1 cut(s)	415
Zsp2I	ATGCAT	3 cut(s)	319, 712, 1031

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