Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000177

Orthogroup ID

OG0016750

Physical Location & Seq

Genomic Coordinates Forward (+)

461292 .. 465310

Gene Structure 4019 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_177G00434460.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 888 bp

ATGGCGGTTGCAGGAAATGCTTCAGATCCTGCAATTGTGGAAACAGATTCTCCAGTTATCAAACAGCAACTGACTAATGCTGGGGTTAATCTATCTAGGCTGAGTCAACTTGCTGATTTTGTAGCTCGCTACATAATGGACGAAGACAATGAAGCTGGTTTTGAATGCAACATTTGCCTTGCCTTAGCTGAGGACCCAGTCATAACACTCTGTGGTCACCTTTACTGTTGGTCTTGTTTGGTCAAATGGCTCTTCAATTCGCAGTATTCCAACAATGAGTGTCCGATTTGCAAGTCCGACATCGAGTTCAGCAAATTAATCTTTTCTTATGGAAAGTTGAAATCGTCTGAATCCAACCCGATATCTCGGTTTGAATGTAACATTTGCTCTGGATTAGCTCAAGATCCGATTATAACACACTGTGGCCACCTCTATTGTTGGCCTTGCATCTATAGATGGCTTTCCAAGTGGAATTCAAATTCCAATTGTTGGGTTTGTAATGCTGTCATAGAGGAGAACAAATTGATCCCTCTTTATGGAAAAGGGATAAAATTGTCATCACATGATTCAAACTCAAGCTTTCGAGCTATTGCACCTGCGAGCGCTGGCAGTCTTGCTTCAACTACCAAGGTGAACTGTTTTGTACGGTGTGCATTCGATGCTAGCCGGACATTGTTTCGGTTTGGAAGATATACCATGGAGATTTTCATGACAAGGGTGTTACCACTAGTTGCAATTCTTTTGATGTTTCATCCCTCCATGCCGAGGGAAAGGAAAAGCGATTTGGTGGAGAAGGTTTTCGGGTTGAGTTTATGGTGTTTGTTGATTCTAGTCGTTTGGGATATCCTCAAGGGAAAAATAAGACGACATCACAAATTGGAACATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005789 GO:0006464 GO:0006508 GO:0006511 GO:0006515 GO:0006807 GO:0006810 GO:0006886 GO:0006950 GO:0008104 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010033 GO:0010243 GO:0010498 GO:0012505 GO:0015031 GO:0015833 GO:0016020 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019899 GO:0019941 GO:0030163 GO:0031984 GO:0032446 GO:0032527 GO:0032991 GO:0033036 GO:0033554 GO:0034613 GO:0034976 GO:0035966 GO:0035967 GO:0036211 GO:0036503 GO:0036513 GO:0042175 GO:0042221 GO:0042886 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044390 GO:0044422 GO:0044424 GO:0044425 GO:0044432 GO:0044444 GO:0044446 GO:0044464 GO:0045184 GO:0046907 GO:0050896 GO:0051179 GO:0051234 GO:0051603 GO:0051641 GO:0051649 GO:0051716 GO:0051788 GO:0070647 GO:0070727 GO:0070887 GO:0071218 GO:0071310 GO:0071702 GO:0071704 GO:0071705 GO:0071712 GO:0098796 GO:0098827 GO:0140096 GO:1901564 GO:1901565 GO:1901575 GO:1901698

KEGG Pathways

Metabolic & Signaling

ko04141 map04141

Pfam Domains

Protein Families

zf-C3HC4 zf-C3HC4_3

Protein Analysis

295

Amino Acids

33.29

Weight (kDa)

8.09

Isoelectric Point (pI)

47.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	55 - 102	2.3e-09	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	55 - 97	3.2e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	55 - 98	2.8e-08	Ring finger domain
zf-RING_5	PF14634	55 - 98	2.5e-07	zinc-RING finger domain
zf-C3HC4	PF00097	56 - 97	8.7e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	56 - 95	7.2e-09	RING-type zinc-finger
zf-C3HC4_4	PF15227	56 - 97	6.4e-06	zinc finger of C3HC4-type, RING
zf-C3HC4_3	PF13920	124 - 171	9.3e-07	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	125 - 166	2.4e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	126 - 166	8.5e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	126 - 160	9.1e-06	RING-type zinc-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: OG0016750)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g07980
malus_domestica	MD05G1072100.v1.1 MD10G1082500.v1.1
rosa_chinensis	RchiOBHm_Chr6g0262431
rosa_laevigata	RLG00000014429
rosa_multiflora	Rmu_co8450695.1_g000001 Rmu_sc0010965.1_g000002 Rmu_sc0018995.1_g000001
rosa_roxburghii	Rroxscaffold_177G00434460 Rroxscaffold_7G00205270
rosa_rugosa	Rorug05G0597200
rosa_samantha	Rh6BG112000 Rh6CG110100 Rh6DG099700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	413
AarI	CACCTGC	1 cut(s)	604
Acc36I	ACCTGC	1 cut(s)	604
AccB7I	CCANNNNNTGG	1 cut(s)	489
AciI	CCGC	1 cut(s)	5
AclWI	GGATC	3 cut(s)	20, 398, 520
AcoI	YGGCCR	1 cut(s)	424
AcsI	RAATTY	2 cut(s)	472, 478
AcuI	CTGAAG	1 cut(s)	6
AdeI	CACNNNGTG	2 cut(s)	212, 422
AfaI	GTAC	1 cut(s)	645
AfeI	AGCGCT	1 cut(s)	604
AfiI	CCNNNNNNNGG	3 cut(s)	489, 536, 765
AgsI	TTSAA	7 cut(s)	164, 256, 340, 374, 477, 570, 621
AhlI	ACTAGT	1 cut(s)	727
AjuI	GAANNNNNNNTTGG	2 cut(s)	767, 799
AluBI	AGCT	6 cut(s)	125, 155, 188, 398, 579, 587
AluI	AGCT	6 cut(s)	125, 155, 188, 398, 579, 587
AlwI	GGATC	3 cut(s)	20, 398, 520
AlwNI	CAGNNNCTG	2 cut(s)	29, 70
Aor51HI	AGCGCT	1 cut(s)	604
AoxI	GGCC	2 cut(s)	424, 440
ApoI	RAATTY	2 cut(s)	472, 478
AseI	ATTAAT	1 cut(s)	317
Asp700I	GAANNNNTTC	2 cut(s)	19, 797
AspLEI	GCGC	1 cut(s)	605
AspS9I	GGNCC	1 cut(s)	193
AsuHPI	GGTGA	2 cut(s)	209, 643
AsuNHI	GCTAGC	1 cut(s)	662
AvaII	GGWCC	1 cut(s)	193
BalI	TGGCCA	1 cut(s)	426
BbsI	GAAGAC	1 cut(s)	150
BbvCI	CCTCAGC	1 cut(s)	189
BccI	CCATC	1 cut(s)	450
BcuI	ACTAGT	1 cut(s)	727
BfaI	CTAG	4 cut(s)	96, 663, 728, 830
BfmI	CTRYAG	1 cut(s)	451
BfoI	RGCGCY	1 cut(s)	606
BfuAI	ACCTGC	1 cut(s)	604
Bme18I	GGWCC	1 cut(s)	193
BmgT120I	GGNCC	1 cut(s)	193
BmiI	GGNNCC	1 cut(s)	195
BmrI	ACTGGG	1 cut(s)	191
BmsI	GCATC	2 cut(s)	456, 649
BmtI	GCTAGC	1 cut(s)	666
BmuI	ACTGGG	1 cut(s)	191
BpiI	GAAGAC	1 cut(s)	150
BpmI	CTGGAG	1 cut(s)	36
Bpu10I	CCTNAGC	2 cut(s)	184, 189
BpuEI	CTTGAG	3 cut(s)	384, 559, 833
BsaJI	CCNNGG	3 cut(s)	627, 696, 764
BsaXI	ACNNNNNCTCC	2 cut(s)	34, 64
Bsc4I	CCNNNNNNNGG	3 cut(s)	489, 536, 765
Bse1I	ACTGG	2 cut(s)	53, 197
BseDI	CCNNGG	3 cut(s)	627, 696, 764
BseGI	GGATG	1 cut(s)	751
BseLI	CCNNNNNNNGG	3 cut(s)	489, 536, 765
BseMII	CTCAG	2 cut(s)	92, 180
BseNI	ACTGG	2 cut(s)	53, 197
BseRI	GAGGAG	1 cut(s)	527
BseYI	CCCAGC	1 cut(s)	80
BshFI	GGCC	2 cut(s)	426, 442
BsiSI	CCGG	1 cut(s)	667
BslI	CCNNNNNNNGG	3 cut(s)	489, 536, 765
BsmI	GAATGC	2 cut(s)	170, 653
BsnI	GGCC	2 cut(s)	426, 442
Bsp143I	GATC	3 cut(s)	25, 403, 525
Bsp19I	CCATGG	1 cut(s)	696
BspACI	CCGC	1 cut(s)	5
BspANI	GGCC	2 cut(s)	426, 442
BspCNI	CTCAG	2 cut(s)	93, 181
BspHI	TCATGA	1 cut(s)	708
BspLI	GGNNCC	1 cut(s)	195
BspMI	ACCTGC	1 cut(s)	604
BspOI	GCTAGC	1 cut(s)	666
BspPI	GGATC	3 cut(s)	20, 398, 520
BspQI	GCTCTTC	1 cut(s)	257
BsrI	ACTGG	2 cut(s)	53, 197
BssECI	CCNNGG	3 cut(s)	627, 696, 764
BssMI	GATC	3 cut(s)	25, 403, 525
BssT1I	CCWWGG	2 cut(s)	627, 696
Bst4CI	ACNGT	4 cut(s)	227, 422, 638, 648
Bst6I	CTCTTC	1 cut(s)	257
BstAPI	GCANNNNNTGC	3 cut(s)	17, 174, 659
BstC8I	GCNNGC	4 cut(s)	127, 601, 607, 664
BstDEI	CTNAG	3 cut(s)	101, 184, 189
BstDSI	CCRYGG	1 cut(s)	696
BstEII	GGTNACC	1 cut(s)	215
BstF5I	GGATG	1 cut(s)	751
BstH2I	RGCGCY	1 cut(s)	606
BstHHI	GCGC	1 cut(s)	605
BstKTI	GATC	3 cut(s)	28, 406, 528
BstMBI	GATC	3 cut(s)	25, 403, 525
BstMWI	GCNNNNNNNGC	3 cut(s)	17, 174, 659
BstPI	GGTNACC	1 cut(s)	215
BstSFI	CTRYAG	1 cut(s)	451
BstV2I	GAAGAC	1 cut(s)	150
BstX2I	RGATCY	2 cut(s)	25, 403
BstYI	RGATCY	2 cut(s)	25, 403
BsuRI	GGCC	2 cut(s)	426, 442
BtgI	CCRYGG	1 cut(s)	696
BtsCI	GGATG	1 cut(s)	751
BtsIMutI	CAGTG	1 cut(s)	418
BveI	ACCTGC	1 cut(s)	604
Cac8I	GCNNGC	4 cut(s)	127, 601, 607, 664
CaiI	CAGNNNCTG	2 cut(s)	29, 70
CciI	TCATGA	1 cut(s)	708
CfoI	GCGC	1 cut(s)	605
Cfr13I	GGNCC	1 cut(s)	193
Csp6I	GTAC	1 cut(s)	644
CspCI	CAANNNNNGTGG	2 cut(s)	416, 451
CviAII	CATG	4 cut(s)	563, 697, 709, 760
CviQI	GTAC	1 cut(s)	644
DdeI	CTNAG	3 cut(s)	101, 184, 189
DpnI	GATC	3 cut(s)	27, 405, 527
DpnII	GATC	3 cut(s)	25, 403, 525
DraIII	CACNNNGTG	2 cut(s)	212, 422
EaeI	YGGCCR	1 cut(s)	424
Eam1104I	CTCTTC	1 cut(s)	257
EarI	CTCTTC	1 cut(s)	257
Eco130I	CCWWGG	2 cut(s)	627, 696
Eco32I	GATATC	2 cut(s)	363, 844
Eco47I	GGWCC	1 cut(s)	193
Eco47III	AGCGCT	1 cut(s)	604
Eco57I	CTGAAG	1 cut(s)	6
Eco91I	GGTNACC	1 cut(s)	215
EcoO109I	RGGNCCY	1 cut(s)	193
EcoO65I	GGTNACC	1 cut(s)	215
EcoRI	GAATTC	1 cut(s)	472
EcoRV	GATATC	2 cut(s)	363, 844
EcoT14I	CCWWGG	2 cut(s)	627, 696
ErhI	CCWWGG	2 cut(s)	627, 696
FaeI	CATG	4 cut(s)	566, 700, 712, 763
FatI	CATG	4 cut(s)	562, 696, 708, 759
FokI	GGATG	1 cut(s)	738
FspBI	CTAG	4 cut(s)	96, 663, 728, 830
GlaI	GCGC	1 cut(s)	604
GsaI	CCCAGC	1 cut(s)	84
GsuI	CTGGAG	1 cut(s)	36
HaeII	RGCGCY	1 cut(s)	606
HaeIII	GGCC	2 cut(s)	426, 442
HapII	CCGG	1 cut(s)	667
HhaI	GCGC	1 cut(s)	605
Hin1II	CATG	4 cut(s)	566, 700, 712, 763
Hin6I	GCGC	1 cut(s)	603
HinP1I	GCGC	1 cut(s)	603
HincII	GTYRAC	1 cut(s)	107
HindII	GTYRAC	1 cut(s)	107
HindIII	AAGCTT	1 cut(s)	577
HinfI	GANTC	5 cut(s)	47, 103, 350, 566, 826
HpaII	CCGG	1 cut(s)	667
HphI	GGTGA	2 cut(s)	209, 643
Hpy166II	GTNNAC	2 cut(s)	107, 634
Hpy188I	TCNGA	5 cut(s)	25, 285, 298, 349, 408
Hpy188III	TCNNGA	3 cut(s)	390, 401, 709
Hpy8I	GTNNAC	2 cut(s)	107, 634
HpyAV	CCTTC	1 cut(s)	787
HpyCH4III	ACNGT	4 cut(s)	227, 422, 638, 648
HpyCH4V	TGCA	8 cut(s)	11, 32, 168, 291, 447, 593, 653, 734
HpyF10VI	GCNNNNNNNGC	3 cut(s)	17, 174, 659
HpyF3I	CTNAG	3 cut(s)	101, 184, 189
Hsp92II	CATG	4 cut(s)	566, 700, 712, 763
HspAI	GCGC	1 cut(s)	603
Kzo9I	GATC	3 cut(s)	25, 403, 525
LguI	GCTCTTC	1 cut(s)	257
LpnPI	CCDG	9 cut(s)	42, 66, 66, 141, 210, 375, 591, 609, 680
LweI	GCATC	2 cut(s)	456, 649
MaeI	CTAG	4 cut(s)	96, 663, 728, 830
MaeIII	GTNAC	3 cut(s)	215, 377, 720
MalI	GATC	3 cut(s)	27, 405, 527
MboI	GATC	3 cut(s)	25, 403, 525
MboII	GAAGA	3 cut(s)	155, 244, 699
MfeI	CAATTG	2 cut(s)	33, 484
MflI	RGATCY	2 cut(s)	25, 403
MlsI	TGGCCA	1 cut(s)	426
MluNI	TGGCCA	1 cut(s)	426
MlyI	GAGTC	1 cut(s)	112
MmeI	TCCRAC	3 cut(s)	294, 321, 378
MnlI	CCTC	7 cut(s)	184, 440, 505, 540, 759, 766, 857
Mox20I	TGGCCA	1 cut(s)	426
MroXI	GAANNNNTTC	2 cut(s)	19, 797
MscI	TGGCCA	1 cut(s)	426
MseI	TTAA	2 cut(s)	87, 317
Msp20I	TGGCCA	1 cut(s)	426
MspI	CCGG	1 cut(s)	667
MunI	CAATTG	2 cut(s)	33, 484
Mva1269I	GAATGC	2 cut(s)	170, 653
MwoI	GCNNNNNNNGC	3 cut(s)	17, 174, 659
NcoI	CCATGG	1 cut(s)	696
NdeII	GATC	3 cut(s)	25, 403, 525
NheI	GCTAGC	1 cut(s)	662
NlaIII	CATG	4 cut(s)	566, 700, 712, 763
NlaIV	GGNNCC	1 cut(s)	195
NmeAIII	GCCGAG	1 cut(s)	789
NmuCI	GTSAC	1 cut(s)	215
PagI	TCATGA	1 cut(s)	708
PaqCI	CACCTGC	1 cut(s)	604
PciSI	GCTCTTC	1 cut(s)	257
PctI	GAATGC	2 cut(s)	170, 653
PdmI	GAANNNNTTC	2 cut(s)	19, 797
PfeI	GAWTC	4 cut(s)	47, 350, 566, 826
PflFI	GACNNNGTC	1 cut(s)	197
PflMI	CCANNNNNTGG	1 cut(s)	489
PleI	GAGTC	1 cut(s)	111
PpsI	GAGTC	1 cut(s)	111
PpuMI	RGGWCCY	1 cut(s)	193
PshBI	ATTAAT	1 cut(s)	317
PsiI	TTATAA	1 cut(s)	413
Psp5II	RGGWCCY	1 cut(s)	193
PspEI	GGTNACC	1 cut(s)	215
PspFI	CCCAGC	1 cut(s)	80
PspN4I	GGNNCC	1 cut(s)	195
PspPI	GGNCC	1 cut(s)	193
PspPPI	RGGWCCY	1 cut(s)	193
PstNI	CAGNNNCTG	2 cut(s)	29, 70
PsuI	RGATCY	2 cut(s)	25, 403
PsyI	GACNNNGTC	1 cut(s)	197
RsaI	GTAC	1 cut(s)	645
RsaNI	GTAC	1 cut(s)	644
SapI	GCTCTTC	1 cut(s)	257
SaqAI	TTAA	2 cut(s)	87, 317
Sau3AI	GATC	3 cut(s)	25, 403, 525
Sau96I	GGNCC	1 cut(s)	193
SchI	GAGTC	1 cut(s)	112
SfaNI	GCATC	2 cut(s)	456, 649
SfcI	CTRYAG	1 cut(s)	451
SinI	GGWCC	1 cut(s)	193
SmlI	CTYRAG	3 cut(s)	399, 574, 848
SmoI	CTYRAG	3 cut(s)	399, 574, 848
SpeI	ACTAGT	1 cut(s)	727
SsiI	CCGC	1 cut(s)	5
SspMI	CTAG	4 cut(s)	96, 663, 728, 830
StyI	CCWWGG	2 cut(s)	627, 696
TaaI	ACNGT	4 cut(s)	227, 422, 638, 648
TaqI	TCGA	3 cut(s)	303, 583, 657
TfiI	GAWTC	4 cut(s)	47, 350, 566, 826
Tru1I	TTAA	2 cut(s)	87, 317
Tru9I	TTAA	2 cut(s)	87, 317
TscAI	CASTG	1 cut(s)	425
TseFI	GTSAC	1 cut(s)	215
Tsp45I	GTSAC	1 cut(s)	215
TspDTI	ATGAA	3 cut(s)	165, 697, 740
TspRI	CASTG	1 cut(s)	425
Tth111I	GACNNNGTC	1 cut(s)	197
Van91I	CCANNNNNTGG	1 cut(s)	489
VpaK11BI	GGWCC	1 cut(s)	193
VspI	ATTAAT	1 cut(s)	317
XapI	RAATTY	2 cut(s)	472, 478
XmnI	GAANNNNTTC	2 cut(s)	19, 797
XspI	CTAG	4 cut(s)	96, 663, 728, 830

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