Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0008226

Physical Location & Seq

Genomic Coordinates Forward (+)

44764516 .. 44766466

Gene Structure 1951 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00117240.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 789 bp

ATGGCAACAGAGCAATACTTTGAAGATGCTGTGGTCCAGTCTAACTCCATTGGAGATGATAAATGTTCATTTGGAAAATGGAATCCTGTTTCTGAAGTCGCAGAGTCTGAAAACAAGTCCTGTGGTAACTTCGACTGCAGCGTATGCTTAGACTCTGTGCACGATCCGGTGGTGACCCTCTGTGGCCATCTATACTGCTGGCCGTGCATATACAAGTGGATTCAGTTCCAGACTCCGTCTTCTGAAAGCCAAGAGAACCAAAAACAGCCACAGTGCCCTGTTTGCAAAACTGAAATCTCCGAATCCTCTCTAGTCCCACTCTATGGTCGTGGTCAAACAACAAAGCCCACAAAGCCATCTAAAGGCAAGGCTCCCAATCTTGGTATAGTCATTCCAAAAAGACCTCTCGCTCCTTGCGGGGTTGACACACCACGAACCCCAAGTACCAGCCCTTACGGTACTCAGCAACTCCACCACCGGATTAATCCTTATCAATCCCAACTGAACAGCCCTCAAGGAGGTAGTTATGCAGCTGCTTTACCGATGCATGGTCCTGGTGATACAGCAACACAAGTCTTAAATCCGATGGTCGGCTTGTTTGGTGAAATGGTTTATGCTAGGGTGTTTGGTAACTCGATAACAAATGTCTACACATACCCTAATTCGTATAATCTTGCTGGCAGCACTAGTCCTAGGGTGAGAAGGCATGTATTGCAGGCTGATAAGTCGCTCAACAGAATGTGTTTTTTTCTGTTTTGTTGCTTTATGTTGTGCCTAATTTTGTTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 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:0006970 GO:0008104 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009611 GO:0009628 GO:0009719 GO:0009723 GO:0009725 GO:0009987 GO:0010033 GO:0010035 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:0043161 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 GO:1901700

KEGG Pathways

Metabolic & Signaling

ko04141 map04141

Pfam Domains

Protein Families

zf-C3HC4 zf-C3HC4_2 zf-RING_UBOX

Protein Analysis

262

Amino Acids

28.92

Weight (kDa)

7.89

Isoelectric Point (pI)

46.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	45 - 101	9.3e-06	Zinc finger, C3HC4 type (RING finger)
RING_XB3-XBAT31	PF24921	46 - 100	6.1e-10	E3 ubiquitin-protein ligase XB3/XBAT31 RING finger
zf-RING_UBOX	PF13445	46 - 93	1.3e-09	RING-type zinc-finger
zf-C3HC4	PF00097	46 - 95	3.8e-09	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	46 - 75	5.4e-07	Zinc finger, C3HC4 type (RING finger)

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)

Image

Tree File

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Orthologous Genes (Group: OG0008226)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G03510 AT4G03510 AT4G03510 AT4G03510
fragaria_vesca	FvH4_6g26170
malus_domestica	MD09G1248700.v1.1 MD17G1241200.v1.1
prunus_persica	Prupe.3G137000_v2.0.a1
pyrus_communis	pycom09g16560 pycom17g24430 pycom17g24440 pycom17g24450
rosa_chinensis	RchiOBHm_Chr2g0126321
rosa_laevigata	RLG00000018901
rosa_multiflora	Rmu_ssc0000264.1_g000040
rosa_roxburghii	Rroxscaffold_2G00117240
rosa_rugosa	Rorug02G0262600 Rorug02G0262700
rosa_samantha	Rh2AG319500 Rh2BG327900 Rh2CG307800 Rh2DG347600
rosa_wichuraiana	Rw2G025890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	323
AccI	GTMKAC	1 cut(s)	648
AciI	CCGC	1 cut(s)	417
AclWI	GGATC	1 cut(s)	158
AcoI	YGGCCR	2 cut(s)	184, 200
AcuI	CTGAAG	1 cut(s)	114
AfaI	GTAC	2 cut(s)	445, 460
AfiI	CCNNNNNNNGG	6 cut(s)	323, 362, 380, 518, 548, 590
AgsI	TTSAA	1 cut(s)	23
AhlI	ACTAGT	1 cut(s)	686
AjnI	CCWGG	1 cut(s)	553
AluBI	AGCT	1 cut(s)	533
AluI	AGCT	1 cut(s)	533
Alw21I	GWGCWC	1 cut(s)	162
Alw44I	GTGCAC	1 cut(s)	158
AlwI	GGATC	1 cut(s)	158
AlwNI	CAGNNNCTG	1 cut(s)	107
AoxI	GGCC	2 cut(s)	184, 200
ApaLI	GTGCAC	1 cut(s)	158
ApeKI	GCWGC	4 cut(s)	138, 530, 533, 681
AseI	ATTAAT	1 cut(s)	483
AspA2I	CCTAGG	1 cut(s)	692
AspS9I	GGNCC	2 cut(s)	34, 551
AsuHPI	GGTGA	4 cut(s)	184, 569, 614, 709
AvaII	GGWCC	2 cut(s)	34, 551
AvrII	CCTAGG	1 cut(s)	692
BaeGI	GKGCMC	2 cut(s)	162, 278
BalI	TGGCCA	1 cut(s)	186
BbsI	GAAGAC	1 cut(s)	231
Bbv12I	GWGCWC	1 cut(s)	162
BbvI	GCAGC	4 cut(s)	150, 520, 542, 693
BccI	CCATC	3 cut(s)	195, 364, 580
BceAI	ACGGC	1 cut(s)	187
BciT130I	CCWGG	1 cut(s)	555
BcuI	ACTAGT	1 cut(s)	686
BfaI	CTAG	4 cut(s)	311, 618, 687, 693
BfmI	CTRYAG	1 cut(s)	136
BisI	GCNGC	4 cut(s)	139, 531, 534, 682
BlnI	CCTAGG	1 cut(s)	692
BlsI	GCNGC	4 cut(s)	140, 532, 535, 683
Bme1390I	CCNGG	1 cut(s)	555
Bme18I	GGWCC	2 cut(s)	34, 551
BmgT120I	GGNCC	2 cut(s)	34, 551
BmiI	GGNNCC	1 cut(s)	372
BmrFI	CCNGG	1 cut(s)	555
BmsI	GCATC	2 cut(s)	16, 534
BpiI	GAAGAC	1 cut(s)	231
BpuEI	CTTGAG	1 cut(s)	498
BsaJI	CCNNGG	1 cut(s)	692
BsaWI	WCCGGW	2 cut(s)	166, 477
Bsc4I	CCNNNNNNNGG	6 cut(s)	323, 362, 380, 518, 548, 590
Bse1I	ACTGG	1 cut(s)	37
BseBI	CCWGG	1 cut(s)	555
BseDI	CCNNGG	1 cut(s)	692
BseLI	CCNNNNNNNGG	6 cut(s)	323, 362, 380, 518, 548, 590
BseMII	CTCAG	1 cut(s)	476
BseNI	ACTGG	1 cut(s)	37
BseSI	GKGCMC	2 cut(s)	162, 278
BseXI	GCAGC	4 cut(s)	150, 520, 542, 693
BshFI	GGCC	2 cut(s)	186, 202
BsiHKAI	GWGCWC	1 cut(s)	162
BsiSI	CCGG	2 cut(s)	167, 478
BslFI	GGGAC	1 cut(s)	299
BslI	CCNNNNNNNGG	6 cut(s)	323, 362, 380, 518, 548, 590
BsmFI	GGGAC	1 cut(s)	299
BsnI	GGCC	2 cut(s)	186, 202
Bsp1286I	GDGCHC	2 cut(s)	162, 278
Bsp143I	GATC	1 cut(s)	163
BspACI	CCGC	1 cut(s)	417
BspANI	GGCC	2 cut(s)	186, 202
BspCNI	CTCAG	1 cut(s)	475
BspLI	GGNNCC	1 cut(s)	372
BspMAI	CTGCAG	1 cut(s)	140
BspPI	GGATC	1 cut(s)	158
BsrI	ACTGG	1 cut(s)	37
BssECI	CCNNGG	1 cut(s)	692
BssMI	GATC	1 cut(s)	163
BssT1I	CCWWGG	1 cut(s)	692
Bst2UI	CCWGG	1 cut(s)	555
Bst4CI	ACNGT	2 cut(s)	273, 458
BstAPI	GCANNNNNTGC	2 cut(s)	144, 712
BstC8I	GCNNGC	3 cut(s)	200, 679, 717
BstDEI	CTNAG	2 cut(s)	148, 462
BstEII	GGTNACC	1 cut(s)	172
BstENI	CCTNNNNNAGG	1 cut(s)	516
BstKTI	GATC	1 cut(s)	166
BstMBI	GATC	1 cut(s)	163
BstMWI	GCNNNNNNNGC	5 cut(s)	144, 204, 282, 352, 712
BstNI	CCWGG	1 cut(s)	555
BstNSI	RCATGY	1 cut(s)	710
BstPI	GGTNACC	1 cut(s)	172
BstSCI	CCNGG	1 cut(s)	553
BstSFI	CTRYAG	1 cut(s)	136
BstSLI	GKGCMC	2 cut(s)	162, 278
BstV1I	GCAGC	4 cut(s)	150, 520, 542, 693
BstV2I	GAAGAC	1 cut(s)	231
BsuRI	GGCC	2 cut(s)	186, 202
BtsIMutI	CAGTG	1 cut(s)	278
Cac8I	GCNNGC	3 cut(s)	200, 679, 717
CaiI	CAGNNNCTG	1 cut(s)	107
Cfr13I	GGNCC	2 cut(s)	34, 551
Csp6I	GTAC	2 cut(s)	444, 459
CspCI	CAANNNNNGTGG	2 cut(s)	103, 138
CviAII	CATG	2 cut(s)	548, 707
CviQI	GTAC	2 cut(s)	444, 459
DdeI	CTNAG	2 cut(s)	148, 462
DpnI	GATC	1 cut(s)	165
DpnII	GATC	1 cut(s)	163
EaeI	YGGCCR	2 cut(s)	184, 200
Eco130I	CCWWGG	1 cut(s)	692
Eco47I	GGWCC	2 cut(s)	34, 551
Eco57I	CTGAAG	1 cut(s)	114
Eco91I	GGTNACC	1 cut(s)	172
EcoNI	CCTNNNNNAGG	1 cut(s)	516
EcoO65I	GGTNACC	1 cut(s)	172
EcoRII	CCWGG	1 cut(s)	553
EcoT14I	CCWWGG	1 cut(s)	692
EcoT22I	ATGCAT	1 cut(s)	549
ErhI	CCWWGG	1 cut(s)	692
FaeI	CATG	2 cut(s)	551, 710
FaqI	GGGAC	1 cut(s)	299
FatI	CATG	2 cut(s)	547, 706
FauI	CCCGC	1 cut(s)	410
FblI	GTMKAC	1 cut(s)	648
Fnu4HI	GCNGC	4 cut(s)	139, 531, 534, 682
Fsp4HI	GCNGC	4 cut(s)	139, 531, 534, 682
FspBI	CTAG	4 cut(s)	311, 618, 687, 693
GluI	GCNGC	4 cut(s)	139, 531, 534, 682
HaeIII	GGCC	2 cut(s)	186, 202
HapII	CCGG	2 cut(s)	167, 478
Hin1II	CATG	2 cut(s)	551, 710
HincII	GTYRAC	1 cut(s)	424
HindII	GTYRAC	1 cut(s)	424
HinfI	GANTC	6 cut(s)	82, 104, 152, 220, 232, 302
HpaII	CCGG	2 cut(s)	167, 478
HphI	GGTGA	4 cut(s)	184, 569, 614, 709
Hpy166II	GTNNAC	3 cut(s)	160, 424, 649
Hpy188I	TCNGA	5 cut(s)	94, 109, 244, 301, 585
Hpy188III	TCNNGA	1 cut(s)	229
Hpy8I	GTNNAC	3 cut(s)	160, 424, 649
HpyAV	CCTTC	1 cut(s)	696
HpyCH4III	ACNGT	2 cut(s)	273, 458
HpyCH4V	TGCA	7 cut(s)	138, 160, 207, 285, 530, 547, 715
HpyF10VI	GCNNNNNNNGC	5 cut(s)	144, 204, 282, 352, 712
HpyF3I	CTNAG	2 cut(s)	148, 462
Hsp92II	CATG	2 cut(s)	551, 710
Kzo9I	GATC	1 cut(s)	163
LmnI	GCTCC	2 cut(s)	376, 415
Lsp1109I	GCAGC	4 cut(s)	150, 520, 542, 693
LweI	GCATC	2 cut(s)	16, 534
MaeI	CTAG	4 cut(s)	311, 618, 687, 693
MaeIII	GTNAC	3 cut(s)	125, 172, 629
MalI	GATC	1 cut(s)	165
MboI	GATC	1 cut(s)	163
MboII	GAAGA	2 cut(s)	35, 231
MhlI	GDGCHC	2 cut(s)	162, 278
MlsI	TGGCCA	1 cut(s)	186
MluCI	AATT	2 cut(s)	661, 777
MluNI	TGGCCA	1 cut(s)	186
MlyI	GAGTC	3 cut(s)	113, 146, 226
MnlI	CCTC	5 cut(s)	188, 316, 414, 512, 522
Mox20I	TGGCCA	1 cut(s)	186
Mph1103I	ATGCAT	1 cut(s)	549
MscI	TGGCCA	1 cut(s)	186
MseI	TTAA	2 cut(s)	483, 578
Msp20I	TGGCCA	1 cut(s)	186
MspA1I	CMGCKG	1 cut(s)	533
MspI	CCGG	2 cut(s)	167, 478
MspR9I	CCNGG	1 cut(s)	555
MvaI	CCWGG	1 cut(s)	555
MwoI	GCNNNNNNNGC	5 cut(s)	144, 204, 282, 352, 712
NdeII	GATC	1 cut(s)	163
NlaIII	CATG	2 cut(s)	551, 710
NlaIV	GGNNCC	1 cut(s)	372
NmuCI	GTSAC	1 cut(s)	172
NsiI	ATGCAT	1 cut(s)	549
NspI	RCATGY	1 cut(s)	710
PcsI	WCGNNNNNNNCGW	1 cut(s)	138
PfeI	GAWTC	3 cut(s)	82, 220, 302
PflFI	GACNNNGTC	1 cut(s)	235
PflMI	CCANNNNNTGG	1 cut(s)	323
PkrI	GCNGC	4 cut(s)	140, 532, 535, 683
PleI	GAGTC	3 cut(s)	112, 146, 226
PpsI	GAGTC	3 cut(s)	112, 146, 226
PshBI	ATTAAT	1 cut(s)	483
Psp6I	CCWGG	1 cut(s)	553
PspEI	GGTNACC	1 cut(s)	172
PspGI	CCWGG	1 cut(s)	553
PspN4I	GGNNCC	1 cut(s)	372
PspPI	GGNCC	2 cut(s)	34, 551
PsrI	GAACNNNNNNTAC	2 cut(s)	427, 459
PstI	CTGCAG	1 cut(s)	140
PstNI	CAGNNNCTG	1 cut(s)	107
PsyI	GACNNNGTC	1 cut(s)	235
PvuII	CAGCTG	1 cut(s)	533
RsaI	GTAC	2 cut(s)	445, 460
RsaNI	GTAC	2 cut(s)	444, 459
SaqAI	TTAA	2 cut(s)	483, 578
SatI	GCNGC	4 cut(s)	139, 531, 534, 682
Sau3AI	GATC	1 cut(s)	163
Sau96I	GGNCC	2 cut(s)	34, 551
SchI	GAGTC	3 cut(s)	113, 146, 226
ScrFI	CCNGG	1 cut(s)	555
SduI	GDGCHC	2 cut(s)	162, 278
SetI	ASST	3 cut(s)	406, 523, 535
SfaNI	GCATC	2 cut(s)	16, 534
SfcI	CTRYAG	1 cut(s)	136
SinI	GGWCC	2 cut(s)	34, 551
SmlI	CTYRAG	1 cut(s)	513
SmoI	CTYRAG	1 cut(s)	513
SpeI	ACTAGT	1 cut(s)	686
Sse9I	AATT	2 cut(s)	661, 777
SsiI	CCGC	1 cut(s)	417
SspMI	CTAG	4 cut(s)	311, 618, 687, 693
StyD4I	CCNGG	1 cut(s)	553
StyI	CCWWGG	1 cut(s)	692
TaaI	ACNGT	2 cut(s)	273, 458
TaqI	TCGA	2 cut(s)	132, 635
TasI	AATT	2 cut(s)	661, 777
TfiI	GAWTC	3 cut(s)	82, 220, 302
Tru1I	TTAA	2 cut(s)	483, 578
Tru9I	TTAA	2 cut(s)	483, 578
TscAI	CASTG	1 cut(s)	278
TseFI	GTSAC	1 cut(s)	172
TseI	GCWGC	4 cut(s)	138, 530, 533, 681
Tsp45I	GTSAC	1 cut(s)	172
TspDTI	ATGAA	1 cut(s)	57
TspGWI	ACGGA	1 cut(s)	225
TspRI	CASTG	1 cut(s)	278
Tth111I	GACNNNGTC	1 cut(s)	235
Van91I	CCANNNNNTGG	1 cut(s)	323
VneI	GTGCAC	1 cut(s)	158
VpaK11BI	GGWCC	2 cut(s)	34, 551
VspI	ATTAAT	1 cut(s)	483
XagI	CCTNNNNNAGG	1 cut(s)	516
XceI	RCATGY	1 cut(s)	710
XmaJI	CCTAGG	1 cut(s)	692
XmiI	GTMKAC	1 cut(s)	648
XspI	CTAG	4 cut(s)	311, 618, 687, 693
Zsp2I	ATGCAT	1 cut(s)	549

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