Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0001521

Physical Location & Seq

Genomic Coordinates Forward (+)

75589000 .. 75592695

Gene Structure 3696 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG474800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1143 bp

ATGACTTTGATTCTTGGTTTCTTTGGATCCGCCGATTTACAACTGGGCCCAAATTGCTCACGTCTCATACGAACTAATCCATTCTTTGTTCAGACCATTAAGGCACAGGAACTTCAGGGTACAAAACCCGGGTCAATTTTATATGGATTTCACACACCTCCTCCTCTGGATGTTGAAACAGCTTGGACTGAAACACATCATACACTTGTGCACCCTACTTATCACAAGGAATGGATTTACTTTCTAAACAAAGGGTCCAGAATAGATATATATTACCATGTCAAACCTTCAAGTTCCTCACCTTTAACACTTGTAATTGCAGAAGGTAGAGAAAGCCTGGTTGAATGGATAGAGGATCCATCATATGGTAATGCAACATTGTCTTGGAATATAATTTATGGAAGTGGTAAGATCCAACAGGTAATTTCAGAGTCTTCTAATTATTATATTGCAGTAGGGAACTTGAACCCTGAGGATGTTGAGGTAGAGTTGGAATTCAACATAAAGTCCACTCTTTATAACACGGCCCAGGCGTATTACAGGTGCTCCATACATAATCAATACTGTAGCTTAAAGCTTTCCCTCGTAGGGGCAACTTTTGCTGTCTTAACTTCTCCAGGTCCTGAAGAGGGTATTCGGGAGGATGACTGGTATGTCAAACTGTCATATGGACCTCGATGGGTCATCTATTTTCTTGGATCAGGTGTGATGACTGTGCTCCTGTTAATGGTCTTTAGATTTTGTAACATTTTCCAAAATGCTGGTGAGGATAGAACAGATTTTCAAGCAAGGGAGGCATCACCTGTACGAACCCCGTTGCTTTTACCCAAAGATGATGATGCTTTGAGTTGGGGTTCATCTTATGAGTGTATTTCAAATGATGAAGAGGATTTGGAAGAGTTCCTTGGAGTGAGTTCCGTTGAAGGAAAGTCGATAAATGAAAGGAACGACAACAATACTCAGCGTCTTTGTGTTATTTGCTTTGATGGGCCGAGAGACTGCTTCTTTCTTCCATGTGGGCACTGTGCTACCTGTTTTACTTGTGGAACAAGGTATATAAATCTTCATCACTATATACCGCAAATTGAAATTCTGGATATAATGACTTGGTTTAGAGGACACATTATTCCATTAATTTGCTAA

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

DUF4792 DUF4793 zf-C3HC4_3

Protein Analysis

380

Amino Acids

43.11

Weight (kDa)

5.03

Isoelectric Point (pI)

38.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
APD1-4_N	PF16040	44 - 113	9.4e-22	E3 ubiquitin-protein ligase APD1-4, N-terminal
APD1-4_M	PF16041	138 - 244	7.3e-33	E3 ubiquitin-protein ligase APD1-4, middle domain
zf-C3HC4_3	PF13920	321 - 352	9.3e-08	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: OG0001521)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G01450
fragaria_vesca	FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_6g11430 FvH4_6g11430 FvH4_6g11430 FvH4_6g11430 FvH4_6g11430
malus_domestica	MD03G1070000.v1.1 MD04G1153100.v1.1 MD11G1073800.v1.1 MD12G1166600.v1.1
prunus_persica	Prupe.6G057100_v2.0.a1 Prupe.6G057100_v2.0.a1 Prupe.6G277400_v2.0.a1 Prupe.6G277400_v2.0.a1
pyrus_communis	pycom03g05570 pycom11g06120 pycom12g15850
rosa_chinensis	RchiOBHm_Chr3g0463121 RchiOBHm_Chr5g0069661
rosa_laevigata	RLG00000024811 RLG00000036082
rosa_multiflora	Rmu_sc0000738.1_g000037 Rmu_sc0000766.1_g000040 Rmu_sc0008595.1_g000001
rosa_roxburghii	Rroxscaffold_1G00011420 Rroxscaffold_6G00416950
rosa_rugosa	Rorug03G0061500 Rorug03G0061600 Rorug03G0061700 Rorug05G0399000 Rorug05G0399100
rosa_samantha	Rh3AG119800 Rh3BG124200 Rh3CG126200 Rh3DG125200 Rh5AG455800 Rh5BG474800 Rh5CG498200 Rh5DG486300
rosa_wichuraiana	Rw3G010130 Rw5G042530

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	519
AasI	GACNNNNNNGTC	1 cut(s)	653
AccB7I	CCANNNNNTGG	1 cut(s)	365
AciI	CCGC	2 cut(s)	30, 1079
AclWI	GGATC	6 cut(s)	21, 34, 350, 363, 406, 706
AcsI	RAATTY	2 cut(s)	494, 1089
AcuI	CTGAAG	2 cut(s)	98, 645
AfaI	GTAC	2 cut(s)	121, 807
AfiI	CCNNNNNNNGG	5 cut(s)	365, 588, 589, 629, 727
AgsI	TTSAA	9 cut(s)	176, 291, 344, 466, 499, 785, 876, 923, 1088
AjiI	CACGTC	1 cut(s)	62
AjnI	CCWGG	3 cut(s)	336, 528, 616
AjuI	GAANNNNNNNTTGG	2 cut(s)	888, 920
AluBI	AGCT	3 cut(s)	182, 570, 577
AluI	AGCT	3 cut(s)	182, 570, 577
Alw21I	GWGCWC	3 cut(s)	213, 548, 720
Alw26I	GTCTC	2 cut(s)	68, 990
Alw44I	GTGCAC	1 cut(s)	209
AlwI	GGATC	6 cut(s)	21, 34, 350, 363, 406, 706
AlwNI	CAGNNNCTG	1 cut(s)	623
Ama87I	CYCGRG	1 cut(s)	128
AoxI	GGCC	3 cut(s)	46, 525, 989
ApaI	GGGCCC	1 cut(s)	50
ApaLI	GTGCAC	1 cut(s)	209
ApoI	RAATTY	2 cut(s)	494, 1089
ArsI	GACNNNNNNTTYG	2 cut(s)	116, 148
AseI	ATTAAT	1 cut(s)	1133
AspS9I	GGNCC	7 cut(s)	46, 47, 255, 526, 620, 671, 989
AsuC2I	CCSGG	2 cut(s)	129, 130
AsuHPI	GGTGA	3 cut(s)	291, 776, 792
AvaI	CYCGRG	1 cut(s)	128
AvaII	GGWCC	3 cut(s)	255, 620, 671
AxyI	CCTNAGG	1 cut(s)	471
BaeGI	GKGCMC	3 cut(s)	50, 213, 1023
BamHI	GGATCC	2 cut(s)	26, 355
BanII	GRGCYC	1 cut(s)	50
BbsI	GAAGAC	1 cut(s)	426
Bbv12I	GWGCWC	3 cut(s)	213, 548, 720
BccI	CCATC	3 cut(s)	367, 672, 980
BceAI	ACGGC	1 cut(s)	540
BciT130I	CCWGG	3 cut(s)	338, 530, 618
BcnI	CCSGG	2 cut(s)	129, 130
BcoDI	GTCTC	2 cut(s)	68, 990
BfmI	CTRYAG	1 cut(s)	565
Bme1390I	CCNGG	5 cut(s)	129, 130, 338, 530, 618
Bme18I	GGWCC	3 cut(s)	255, 620, 671
BmeT110I	CYCGRG	1 cut(s)	128
BmgBI	CACGTC	1 cut(s)	62
BmgT120I	GGNCC	7 cut(s)	46, 47, 255, 526, 620, 671, 989
BmiI	GGNNCC	4 cut(s)	28, 48, 256, 357
BmrFI	CCNGG	5 cut(s)	129, 130, 338, 530, 618
BmrI	ACTGGG	1 cut(s)	53
BmsI	GCATC	2 cut(s)	806, 829
BmuI	ACTGGG	1 cut(s)	53
BpiI	GAAGAC	1 cut(s)	426
BpmI	CTGGAG	1 cut(s)	600
BpuMI	CCSGG	2 cut(s)	129, 130
BsaJI	CCNNGG	3 cut(s)	128, 528, 904
BsaXI	ACNNNNNCTCC	4 cut(s)	145, 175, 530, 560
Bsc4I	CCNNNNNNNGG	5 cut(s)	365, 588, 589, 629, 727
Bse1I	ACTGG	2 cut(s)	48, 653
Bse21I	CCTNAGG	1 cut(s)	471
BseBI	CCWGG	3 cut(s)	338, 530, 618
BseDI	CCNNGG	3 cut(s)	128, 528, 904
BseGI	GGATG	3 cut(s)	175, 481, 649
BseLI	CCNNNNNNNGG	5 cut(s)	365, 588, 589, 629, 727
BseMII	CTCAG	2 cut(s)	462, 974
BseNI	ACTGG	2 cut(s)	48, 653
BseRI	GAGGAG	2 cut(s)	150, 153
BseSI	GKGCMC	3 cut(s)	50, 213, 1023
BshFI	GGCC	3 cut(s)	48, 527, 991
BsiHKAI	GWGCWC	3 cut(s)	213, 548, 720
BsiHKCI	CYCGRG	1 cut(s)	128
BsiSI	CCGG	1 cut(s)	129
BslI	CCNNNNNNNGG	5 cut(s)	365, 588, 589, 629, 727
BsmAI	GTCTC	2 cut(s)	68, 990
BsmBI	CGTCTC	1 cut(s)	68
BsnI	GGCC	3 cut(s)	48, 527, 991
BsoBI	CYCGRG	1 cut(s)	128
Bsp120I	GGGCCC	1 cut(s)	46
Bsp1286I	GDGCHC	5 cut(s)	50, 213, 548, 720, 1023
Bsp143I	GATC	4 cut(s)	26, 355, 411, 698
BspACI	CCGC	2 cut(s)	30, 1079
BspANI	GGCC	3 cut(s)	48, 527, 991
BspCNI	CTCAG	2 cut(s)	463, 973
BspLI	GGNNCC	4 cut(s)	28, 48, 256, 357
BspPI	GGATC	6 cut(s)	21, 34, 350, 363, 406, 706
BsrI	ACTGG	2 cut(s)	48, 653
BssECI	CCNNGG	3 cut(s)	128, 528, 904
BssMI	GATC	4 cut(s)	26, 355, 411, 698
BssT1I	CCWWGG	1 cut(s)	904
Bst2UI	CCWGG	3 cut(s)	338, 530, 618
Bst4CI	ACNGT	4 cut(s)	566, 663, 715, 1025
Bst6I	CTCTTC	3 cut(s)	621, 879, 891
BstAPI	GCANNNNNTGC	1 cut(s)	599
BstDEI	CTNAG	2 cut(s)	471, 960
BstF5I	GGATG	3 cut(s)	175, 481, 649
BstKTI	GATC	4 cut(s)	29, 358, 414, 701
BstMAI	GTCTC	2 cut(s)	68, 990
BstMBI	GATC	4 cut(s)	26, 355, 411, 698
BstMWI	GCNNNNNNNGC	3 cut(s)	54, 599, 794
BstNI	CCWGG	3 cut(s)	338, 530, 618
BstSCI	CCNGG	5 cut(s)	127, 128, 336, 528, 616
BstSFI	CTRYAG	1 cut(s)	565
BstSLI	GKGCMC	3 cut(s)	50, 213, 1023
BstV2I	GAAGAC	1 cut(s)	426
BstX2I	RGATCY	3 cut(s)	26, 355, 411
BstXI	CCANNNNNNTGG	1 cut(s)	761
BstYI	RGATCY	3 cut(s)	26, 355, 411
Bsu36I	CCTNAGG	1 cut(s)	471
BsuRI	GGCC	3 cut(s)	48, 527, 991
BtrI	CACGTC	1 cut(s)	62
BtsCI	GGATG	3 cut(s)	175, 481, 649
BtsIMutI	CAGTG	1 cut(s)	1021
CaiI	CAGNNNCTG	1 cut(s)	623
Cfr13I	GGNCC	7 cut(s)	46, 47, 255, 526, 620, 671, 989
Cfr9I	CCCGGG	1 cut(s)	128
CseI	GACGC	1 cut(s)	953
Csp6I	GTAC	2 cut(s)	120, 806
CviAII	CATG	2 cut(s)	278, 1014
CviJI	RGCY	7 cut(s)	48, 182, 336, 527, 570, 577, 991
CviKI_1	RGCY	7 cut(s)	48, 182, 336, 527, 570, 577, 991
CviQI	GTAC	2 cut(s)	120, 806
DdeI	CTNAG	2 cut(s)	471, 960
DpnI	GATC	4 cut(s)	28, 357, 413, 700
DpnII	GATC	4 cut(s)	26, 355, 411, 698
DrdI	GACNNNNNNGTC	1 cut(s)	653
DseDI	GACNNNNNNGTC	1 cut(s)	653
Eam1104I	CTCTTC	3 cut(s)	621, 879, 891
EarI	CTCTTC	3 cut(s)	621, 879, 891
EciI	GGCGGA	1 cut(s)	19
Eco130I	CCWWGG	1 cut(s)	904
Eco24I	GRGCYC	1 cut(s)	50
Eco47I	GGWCC	3 cut(s)	255, 620, 671
Eco57I	CTGAAG	2 cut(s)	98, 645
Eco81I	CCTNAGG	1 cut(s)	471
Eco88I	CYCGRG	1 cut(s)	128
EcoO109I	RGGNCCY	1 cut(s)	620
EcoRI	GAATTC	1 cut(s)	494
EcoRII	CCWGG	3 cut(s)	336, 528, 616
EcoT14I	CCWWGG	1 cut(s)	904
EcoT38I	GRGCYC	1 cut(s)	50
ErhI	CCWWGG	1 cut(s)	904
Esp3I	CGTCTC	1 cut(s)	68
FaeI	CATG	2 cut(s)	281, 1017
FalI	AAGNNNNNCTT	2 cut(s)	888, 920
FatI	CATG	2 cut(s)	277, 1013
FauNDI	CATATG	2 cut(s)	364, 667
FokI	GGATG	3 cut(s)	182, 488, 656
FriOI	GRGCYC	1 cut(s)	50
GsuI	CTGGAG	1 cut(s)	600
HaeIII	GGCC	3 cut(s)	48, 527, 991
HapII	CCGG	1 cut(s)	129
HgaI	GACGC	1 cut(s)	953
Hin1II	CATG	2 cut(s)	281, 1017
HindIII	AAGCTT	1 cut(s)	575
HinfI	GANTC	2 cut(s)	10, 431
HpaII	CCGG	1 cut(s)	129
HphI	GGTGA	3 cut(s)	291, 776, 792
Hpy166II	GTNNAC	2 cut(s)	211, 510
Hpy188I	TCNGA	2 cut(s)	93, 430
Hpy188III	TCNNGA	5 cut(s)	167, 258, 623, 638, 1094
Hpy8I	GTNNAC	2 cut(s)	211, 510
HpyAV	CCTTC	3 cut(s)	297, 317, 917
HpyCH4III	ACNGT	4 cut(s)	566, 663, 715, 1025
HpyCH4IV	ACGT	1 cut(s)	61
HpyCH4V	TGCA	4 cut(s)	211, 320, 374, 452
HpyF10VI	GCNNNNNNNGC	3 cut(s)	54, 599, 794
HpyF3I	CTNAG	2 cut(s)	471, 960
HpySE526I	ACGT	1 cut(s)	61
Hsp92II	CATG	2 cut(s)	281, 1017
Kzo9I	GATC	4 cut(s)	26, 355, 411, 698
LmnI	GCTCC	2 cut(s)	551, 723
LweI	GCATC	2 cut(s)	806, 829
MaeII	ACGT	1 cut(s)	61
MaeIII	GTNAC	1 cut(s)	743
MalI	GATC	4 cut(s)	28, 357, 413, 700
MboI	GATC	4 cut(s)	26, 355, 411, 698
MboII	GAAGA	6 cut(s)	426, 638, 896, 908, 1001, 1055
MflI	RGATCY	3 cut(s)	26, 355, 411
MhlI	GDGCHC	5 cut(s)	50, 213, 548, 720, 1023
MlyI	GAGTC	1 cut(s)	440
MmeI	TCCRAC	2 cut(s)	439, 471
MseI	TTAA	6 cut(s)	99, 305, 572, 608, 725, 1133
MspI	CCGG	1 cut(s)	129
MspR9I	CCNGG	5 cut(s)	129, 130, 338, 530, 618
MvaI	CCWGG	3 cut(s)	338, 530, 618
MwoI	GCNNNNNNNGC	3 cut(s)	54, 599, 794
NciI	CCSGG	2 cut(s)	129, 130
NdeI	CATATG	2 cut(s)	364, 667
NdeII	GATC	4 cut(s)	26, 355, 411, 698
NlaIII	CATG	2 cut(s)	281, 1017
NlaIV	GGNNCC	4 cut(s)	28, 48, 256, 357
NmeAIII	GCCGAG	1 cut(s)	1017
PcsI	WCGNNNNNNNCGW	2 cut(s)	67, 530
PfeI	GAWTC	1 cut(s)	10
PflMI	CCANNNNNTGG	1 cut(s)	365
PleI	GAGTC	1 cut(s)	439
PpsI	GAGTC	1 cut(s)	439
PpuMI	RGGWCCY	1 cut(s)	620
PshBI	ATTAAT	1 cut(s)	1133
PsiI	TTATAA	1 cut(s)	519
Psp5II	RGGWCCY	1 cut(s)	620
Psp6I	CCWGG	3 cut(s)	336, 528, 616
PspGI	CCWGG	3 cut(s)	336, 528, 616
PspN4I	GGNNCC	4 cut(s)	28, 48, 256, 357
PspOMI	GGGCCC	1 cut(s)	46
PspPI	GGNCC	7 cut(s)	46, 47, 255, 526, 620, 671, 989
PspPPI	RGGWCCY	1 cut(s)	620
PstNI	CAGNNNCTG	1 cut(s)	623
PsuI	RGATCY	3 cut(s)	26, 355, 411
RsaI	GTAC	2 cut(s)	121, 807
RsaNI	GTAC	2 cut(s)	120, 806
SaqAI	TTAA	6 cut(s)	99, 305, 572, 608, 725, 1133
Sau3AI	GATC	4 cut(s)	26, 355, 411, 698
Sau96I	GGNCC	7 cut(s)	46, 47, 255, 526, 620, 671, 989
SchI	GAGTC	1 cut(s)	440
ScrFI	CCNGG	5 cut(s)	129, 130, 338, 530, 618
SduI	GDGCHC	5 cut(s)	50, 213, 548, 720, 1023
SfaNI	GCATC	2 cut(s)	806, 829
SfcI	CTRYAG	1 cut(s)	565
SinI	GGWCC	3 cut(s)	255, 620, 671
SmaI	CCCGGG	1 cut(s)	130
SsiI	CCGC	2 cut(s)	30, 1079
StyD4I	CCNGG	5 cut(s)	127, 128, 336, 528, 616
StyI	CCWWGG	1 cut(s)	904
TaaI	ACNGT	4 cut(s)	566, 663, 715, 1025
TaiI	ACGT	1 cut(s)	64
TaqI	TCGA	2 cut(s)	676, 932
TfiI	GAWTC	1 cut(s)	10
Tru1I	TTAA	6 cut(s)	99, 305, 572, 608, 725, 1133
Tru9I	TTAA	6 cut(s)	99, 305, 572, 608, 725, 1133
TscAI	CASTG	1 cut(s)	1028
TspDTI	ATGAA	4 cut(s)	846, 897, 954, 1055
TspGWI	ACGGA	1 cut(s)	907
TspMI	CCCGGG	1 cut(s)	128
TspRI	CASTG	1 cut(s)	1028
Van91I	CCANNNNNTGG	1 cut(s)	365
VneI	GTGCAC	1 cut(s)	209
VpaK11BI	GGWCC	3 cut(s)	255, 620, 671
VspI	ATTAAT	1 cut(s)	1133
XapI	RAATTY	2 cut(s)	494, 1089
XmaI	CCCGGG	1 cut(s)	128

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