Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0002680

Physical Location & Seq

Genomic Coordinates Forward (+)

7718548 .. 7722210

Gene Structure 3663 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG042600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1113 bp

ATGGGGTCGTCTTCCTCCCAGAAACTCGAAGTCAATAACCGTTTTCCTCTGCGTTTTTACTTTCGGATGGCTAATATAATTCTCAGACAGGCTGACATATATCGGGAAGAGAAAGATATTTTTTACCTGTACATTACGCTCCTAAGGTTTGCAAGTTTGGTCTCCGAGACAATACCGGATCATCAAGACTATATAAAGGCTGATCAAAGAGAAAGATCCTCTCAGAAGGAAGTGAAAAAGAAATTGTTGAATGCTCTTGCTGAGCTAGAGGAGTTAAAACCAGCAGTTAAACAGAAGACCAATGAGATAAACAGAGGAAATGCATATCAAAACAGCAGGCATGATCACCAAACTGGGGAAAGTATACCTCGTAGATCTGATAAAAAGAAAGTAGAAAGTGTGGGGACTTGTAGCTCCAGTACTGGTGGAGAGAATTTATCCCCGCACCCAACACCAGAGTTTCCCTTTGGTCTCCCTGGTAACAAGAGATTAAAGAAAGAGACACGAACAAAAATTTTACTTGAAGAGGCACATGATTGGAAGCTTACCACTCCATGCAAGCCAATACCACAGGCGCGTCCTGCAATTAACCAGCCAACTGCACCACGAGTTGAAGAAGATTTAGAGCTGGTCAAGGCTATTGATGCCTCCTTCCAGTCTGCTTTGCAGGAGAGGCCGCCCTTGTCTGATGCACTCCAAATCCATGAAACAAATGCATCAAGTAGTTCGAGTACCTCCATGGATAGTGGAGACTTGTCACAGTGTGAAAGTGTCCCAGGAGGGGATTCAGATTCACATGCAGAGATCCATGTAATCTCTACCATTCAAACATCTACTACCTCAGAATCAATCCCATCAGCTCCACCAGTTTCAGATGATTGTCTAAATGATCCTTTTCAGTGTCGATCAACTGATTCCAGTCCTATCCAGGAAGGTGAAAATGCTTCTTCTTCATGCGTGATATGTATGGATGCTCCAGTTGAAGGAGCTTTTATCCCATGTGGGCATATGGCTGGATGCATGGCTTGTTTGAATGACATTAAAGATAAGAACTGGGATTGCCCTGTCTGCCGCGTTAAGGTCGATCAGGTCATAAAGCTCTATGTTGTATGA

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

370

Amino Acids

41.02

Weight (kDa)

5.58

Isoelectric Point (pI)

57.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
USP8_dimer	PF08969	5 - 95	4.7e-11	USP8 dimerisation domain
zf-C3HC4_3	PF13920	317 - 364	2.8e-14	Zinc finger, C3HC4 type (RING finger)
Prok-RING_4	PF14447	319 - 363	8.4e-06	Prokaryotic RING finger family 4

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)	364
AccII	CGCG	2 cut(s)	577, 1074
AciI	CCGC	3 cut(s)	443, 677, 1072
AclWI	GGATC	4 cut(s)	186, 210, 799, 884
AcsI	RAATTY	2 cut(s)	433, 513
AdeI	CACNNNGTG	1 cut(s)	764
AfaI	GTAC	3 cut(s)	131, 421, 733
AfiI	CCNNNNNNNGG	4 cut(s)	355, 781, 983, 1078
AgsI	TTSAA	6 cut(s)	250, 524, 614, 827, 983, 1033
AjnI	CCWGG	3 cut(s)	475, 775, 927
AluBI	AGCT	7 cut(s)	265, 414, 544, 628, 860, 989, 1099
AluI	AGCT	7 cut(s)	265, 414, 544, 628, 860, 989, 1099
Alw26I	GTCTC	5 cut(s)	161, 166, 476, 494, 744
AlwI	GGATC	4 cut(s)	186, 210, 799, 884
AoxI	GGCC	1 cut(s)	674
ApoI	RAATTY	2 cut(s)	433, 513
AspLEI	GCGC	1 cut(s)	577
AsuHPI	GGTGA	2 cut(s)	338, 947
AxyI	CCTNAGG	1 cut(s)	143
BauI	CACGAG	1 cut(s)	606
BbsI	GAAGAC	2 cut(s)	3, 302
BccI	CCATC	2 cut(s)	61, 862
BciT130I	CCWGG	3 cut(s)	477, 777, 929
BclI	TGATCA	2 cut(s)	202, 343
BcoDI	GTCTC	5 cut(s)	161, 166, 476, 494, 744
BfaI	CTAG	1 cut(s)	266
BglII	AGATCT	1 cut(s)	374
BisI	GCNGC	2 cut(s)	677, 1072
BlpI	GCTNAGC	1 cut(s)	261
BlsI	GCNGC	2 cut(s)	678, 1073
BmcAI	AGTACT	1 cut(s)	421
Bme1390I	CCNGG	3 cut(s)	477, 777, 929
BmrFI	CCNGG	3 cut(s)	477, 777, 929
BmrI	ACTGGG	2 cut(s)	363, 1063
BmsI	GCATC	5 cut(s)	634, 679, 725, 961, 1007
BmuI	ACTGGG	2 cut(s)	363, 1063
BpiI	GAAGAC	2 cut(s)	3, 302
BpmI	CTGGAG	2 cut(s)	400, 960
Bpu1102I	GCTNAGC	1 cut(s)	261
BsaI	GGTCTC	2 cut(s)	166, 476
BsaJI	CCNNGG	3 cut(s)	475, 738, 775
BsaWI	WCCGGW	1 cut(s)	175
Bsc4I	CCNNNNNNNGG	4 cut(s)	355, 781, 983, 1078
Bse1I	ACTGG	8 cut(s)	358, 417, 427, 655, 866, 918, 977, 1058
Bse21I	CCTNAGG	1 cut(s)	143
BseBI	CCWGG	3 cut(s)	477, 777, 929
BseDI	CCNNGG	3 cut(s)	475, 738, 775
BseGI	GGATG	3 cut(s)	72, 976, 1022
BseLI	CCNNNNNNNGG	4 cut(s)	355, 781, 983, 1078
BseMII	CTCAG	4 cut(s)	97, 236, 252, 855
BseNI	ACTGG	8 cut(s)	358, 417, 427, 655, 866, 918, 977, 1058
BseRI	GAGGAG	1 cut(s)	284
BsgI	GTGCAG	1 cut(s)	585
Bsh1236I	CGCG	2 cut(s)	577, 1074
BshFI	GGCC	1 cut(s)	676
BsiSI	CCGG	1 cut(s)	176
BslFI	GGGAC	2 cut(s)	418, 758
BslI	CCNNNNNNNGG	4 cut(s)	355, 781, 983, 1078
BsmAI	GTCTC	5 cut(s)	161, 166, 476, 494, 744
BsmFI	GGGAC	2 cut(s)	418, 758
BsmI	GAATGC	1 cut(s)	256
BsnI	GGCC	1 cut(s)	676
Bso31I	GGTCTC	2 cut(s)	166, 476
Bsp1407I	TGTACA	1 cut(s)	129
Bsp143I	GATC	9 cut(s)	178, 202, 215, 343, 374, 804, 889, 905, 1084
Bsp1720I	GCTNAGC	1 cut(s)	261
Bsp19I	CCATGG	1 cut(s)	738
BspACI	CCGC	3 cut(s)	443, 677, 1072
BspANI	GGCC	1 cut(s)	676
BspCNI	CTCAG	4 cut(s)	96, 235, 253, 854
BspFNI	CGCG	2 cut(s)	577, 1074
BspPI	GGATC	4 cut(s)	186, 210, 799, 884
BspTNI	GGTCTC	2 cut(s)	166, 476
BsrGI	TGTACA	1 cut(s)	129
BsrI	ACTGG	8 cut(s)	358, 417, 427, 655, 866, 918, 977, 1058
BssECI	CCNNGG	3 cut(s)	475, 738, 775
BssMI	GATC	9 cut(s)	178, 202, 215, 343, 374, 804, 889, 905, 1084
BssNAI	GTATAC	1 cut(s)	365
BssSI	CACGAG	1 cut(s)	606
BssT1I	CCWWGG	1 cut(s)	738
Bst1107I	GTATAC	1 cut(s)	365
Bst2BI	CACGAG	1 cut(s)	606
Bst2UI	CCWGG	3 cut(s)	477, 777, 929
Bst4CI	ACNGT	2 cut(s)	41, 762
Bst6I	CTCTTC	2 cut(s)	102, 519
BstAUI	TGTACA	1 cut(s)	129
BstC8I	GCNNGC	2 cut(s)	338, 560
BstDEI	CTNAG	5 cut(s)	83, 143, 222, 261, 841
BstDSI	CCRYGG	1 cut(s)	738
BstF5I	GGATG	3 cut(s)	72, 976, 1022
BstFNI	CGCG	2 cut(s)	577, 1074
BstHHI	GCGC	1 cut(s)	577
BstKTI	GATC	9 cut(s)	181, 205, 218, 346, 377, 807, 892, 908, 1087
BstMAI	GTCTC	5 cut(s)	161, 166, 476, 494, 744
BstMBI	GATC	9 cut(s)	178, 202, 215, 343, 374, 804, 889, 905, 1084
BstMWI	GCNNNNNNNGC	4 cut(s)	581, 644, 673, 1068
BstNI	CCWGG	3 cut(s)	477, 777, 929
BstNSI	RCATGY	1 cut(s)	800
BstSCI	CCNGG	3 cut(s)	475, 775, 927
BstUI	CGCG	2 cut(s)	577, 1074
BstV2I	GAAGAC	2 cut(s)	3, 302
BstX2I	RGATCY	3 cut(s)	215, 374, 804
BstYI	RGATCY	3 cut(s)	215, 374, 804
BstZ17I	GTATAC	1 cut(s)	365
Bsu36I	CCTNAGG	1 cut(s)	143
BsuRI	GGCC	1 cut(s)	676
BtgI	CCRYGG	1 cut(s)	738
BtsCI	GGATG	3 cut(s)	72, 976, 1022
BtsIMutI	CAGTG	2 cut(s)	767, 905
Cac8I	GCNNGC	2 cut(s)	338, 560
CfoI	GCGC	1 cut(s)	577
CseI	GACGC	1 cut(s)	566
Csp6I	GTAC	3 cut(s)	130, 420, 732
CviQI	GTAC	3 cut(s)	130, 420, 732
DdeI	CTNAG	5 cut(s)	83, 143, 222, 261, 841
DpnI	GATC	9 cut(s)	180, 204, 217, 345, 376, 806, 891, 907, 1086
DpnII	GATC	9 cut(s)	178, 202, 215, 343, 374, 804, 889, 905, 1084
DraIII	CACNNNGTG	1 cut(s)	764
Eam1104I	CTCTTC	2 cut(s)	102, 519
EarI	CTCTTC	2 cut(s)	102, 519
Eco130I	CCWWGG	1 cut(s)	738
Eco31I	GGTCTC	2 cut(s)	166, 476
Eco81I	CCTNAGG	1 cut(s)	143
EcoRII	CCWGG	3 cut(s)	475, 775, 927
EcoT14I	CCWWGG	1 cut(s)	738
EcoT22I	ATGCAT	3 cut(s)	325, 718, 1022
ErhI	CCWWGG	1 cut(s)	738
FaqI	GGGAC	2 cut(s)	418, 758
FauI	CCCGC	1 cut(s)	450
FauNDI	CATATG	1 cut(s)	1008
FbaI	TGATCA	2 cut(s)	202, 343
FblI	GTMKAC	1 cut(s)	364
Fnu4HI	GCNGC	2 cut(s)	677, 1072
FokI	GGATG	3 cut(s)	79, 983, 1029
Fsp4HI	GCNGC	2 cut(s)	677, 1072
FspBI	CTAG	1 cut(s)	266
GlaI	GCGC	1 cut(s)	576
GluI	GCNGC	2 cut(s)	677, 1072
GsuI	CTGGAG	2 cut(s)	400, 960
HaeIII	GGCC	1 cut(s)	676
HapII	CCGG	1 cut(s)	176
HgaI	GACGC	1 cut(s)	566
HhaI	GCGC	1 cut(s)	577
Hin6I	GCGC	1 cut(s)	575
HinP1I	GCGC	1 cut(s)	575
HindIII	AAGCTT	1 cut(s)	542
HinfI	GANTC	4 cut(s)	785, 791, 845, 914
HpaII	CCGG	1 cut(s)	176
HphI	GGTGA	2 cut(s)	338, 947
Hpy166II	GTNNAC	1 cut(s)	365
Hpy188I	TCNGA	9 cut(s)	66, 86, 166, 225, 379, 688, 790, 844, 874
Hpy188III	TCNNGA	2 cut(s)	104, 185
Hpy8I	GTNNAC	1 cut(s)	365
HpyAV	CCTTC	4 cut(s)	220, 661, 926, 977
HpyCH4III	ACNGT	2 cut(s)	41, 762
HpyF10VI	GCNNNNNNNGC	4 cut(s)	581, 644, 673, 1068
HpyF3I	CTNAG	5 cut(s)	83, 143, 222, 261, 841
HspAI	GCGC	1 cut(s)	575
Ksp22I	TGATCA	2 cut(s)	202, 343
Kzo9I	GATC	9 cut(s)	178, 202, 215, 343, 374, 804, 889, 905, 1084
LmnI	GCTCC	5 cut(s)	144, 419, 865, 979, 986
LweI	GCATC	5 cut(s)	634, 679, 725, 961, 1007
MaeI	CTAG	1 cut(s)	266
MaeIII	GTNAC	2 cut(s)	479, 756
MalI	GATC	9 cut(s)	180, 204, 217, 345, 376, 806, 891, 907, 1086
MboI	GATC	9 cut(s)	178, 202, 215, 343, 374, 804, 889, 905, 1084
MboII	GAAGA	8 cut(s)	3, 119, 307, 536, 626, 629, 939, 942
MflI	RGATCY	3 cut(s)	215, 374, 804
MluCI	AATT	5 cut(s)	78, 242, 433, 513, 585
Mph1103I	ATGCAT	3 cut(s)	325, 718, 1022
MseI	TTAA	6 cut(s)	275, 288, 491, 588, 1041, 1077
MspI	CCGG	1 cut(s)	176
MspR9I	CCNGG	3 cut(s)	477, 777, 929
Mva1269I	GAATGC	1 cut(s)	256
MvaI	CCWGG	3 cut(s)	477, 777, 929
MvnI	CGCG	2 cut(s)	577, 1074
MwoI	GCNNNNNNNGC	4 cut(s)	581, 644, 673, 1068
NcoI	CCATGG	1 cut(s)	738
NdeI	CATATG	1 cut(s)	1008
NdeII	GATC	9 cut(s)	178, 202, 215, 343, 374, 804, 889, 905, 1084
NmuCI	GTSAC	1 cut(s)	756
NsiI	ATGCAT	3 cut(s)	325, 718, 1022
NspI	RCATGY	1 cut(s)	800
PctI	GAATGC	1 cut(s)	256
PfeI	GAWTC	4 cut(s)	785, 791, 845, 914
PfoI	TCCNGGA	1 cut(s)	927
PkrI	GCNGC	2 cut(s)	678, 1073
Psp6I	CCWGG	3 cut(s)	475, 775, 927
PspGI	CCWGG	3 cut(s)	475, 775, 927
PsuI	RGATCY	3 cut(s)	215, 374, 804
RsaI	GTAC	3 cut(s)	131, 421, 733
RsaNI	GTAC	3 cut(s)	130, 420, 732
SaqAI	TTAA	6 cut(s)	275, 288, 491, 588, 1041, 1077
SatI	GCNGC	2 cut(s)	677, 1072
Sau3AI	GATC	9 cut(s)	178, 202, 215, 343, 374, 804, 889, 905, 1084
ScaI	AGTACT	1 cut(s)	421
ScrFI	CCNGG	3 cut(s)	477, 777, 929
SfaNI	GCATC	5 cut(s)	634, 679, 725, 961, 1007
Sse9I	AATT	5 cut(s)	78, 242, 433, 513, 585
SsiI	CCGC	3 cut(s)	443, 677, 1072
SspMI	CTAG	1 cut(s)	266
StyD4I	CCNGG	3 cut(s)	475, 775, 927
StyI	CCWWGG	1 cut(s)	738
TaaI	ACNGT	2 cut(s)	41, 762
TaqI	TCGA	4 cut(s)	27, 728, 904, 1083
TasI	AATT	5 cut(s)	78, 242, 433, 513, 585
TatI	WGTACW	2 cut(s)	129, 419
TauI	GCSGC	2 cut(s)	679, 1074
TfiI	GAWTC	4 cut(s)	785, 791, 845, 914
Tru1I	TTAA	6 cut(s)	275, 288, 491, 588, 1041, 1077
Tru9I	TTAA	6 cut(s)	275, 288, 491, 588, 1041, 1077
TscAI	CASTG	2 cut(s)	767, 905
TseFI	GTSAC	1 cut(s)	756
Tsp45I	GTSAC	1 cut(s)	756
TspDTI	ATGAA	2 cut(s)	720, 942
TspRI	CASTG	2 cut(s)	767, 905
XapI	RAATTY	2 cut(s)	433, 513
XceI	RCATGY	1 cut(s)	800
XmiI	GTMKAC	1 cut(s)	364
XspI	CTAG	1 cut(s)	266
ZrmI	AGTACT	1 cut(s)	421
Zsp2I	ATGCAT	3 cut(s)	325, 718, 1022

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