Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0012826

Physical Location & Seq

Genomic Coordinates Forward (+)

8856514 .. 8857972

Gene Structure 1459 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00167840.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 903 bp

ATGGCTGGTGTTGATATACTGTATGATATATGTGATTCGAGTTTAAGAGGTTATCCTCCAGGTATGGCAAGTGGTTTTGGGGATTCAGCGAGCAGGCCATCCCAATCACAAGGGCCTTCTTTCTCCGGCAGTAACAATAATAACGGGGATGCTGGTGATTTCGAATGCAATATCTGCTTTGACTTAGCCCAAGACCCAATTGTTACCCTATGCGGCCATCTTTTCTGCTGGCCGTGCCTTTACAAATGGCTCCACATTCACTCCCATTCTCAGGAATGCCCTGTTTGCAAAGCCGTCGTGAAGGAGGAGAGTTTGGTCCCCTTGTATGGTAGGGGAAAGACATCTACTGACCCAAGATCAAAGTCAATTCCTGGAGTTAATATTCCAAATCGTCCAGCGGGGCAAAGGCCTGAAACAGCTCCTCCACCAGATCAAAACCATTTCGCCCAACGTGGGTTTGGATTCATGGGAGGCTTGGGAGGTTTGGGAGGGTTTGCTCCACCAATTGCAACCACAACAAGGTTTGGCAATTTCACCTTCTCTGCAGCTTTTGGTGGCCTTTTCCCGTCTTTGTTAAATTTTCAGATGCATGGATTTCCTGATGCTCCCGTGTATGGTACAAGTGCTGGATTTCCGCATGGGTTTCATAATACATTTCATGGCCCCCATGGACATAGATACAATTTGCGACCGGGACCTCGTGTGGGTCGTCCTGCTGTGATACTCTGCTGCATTTATTTCTCTGTCTCACACACACGCACACAGAGCCCGCTCTTTTCTGCAACATCGCTCATGGGATCAGCTCTCTCCACACAATGCAGTAGTGCAGAGGCATGGAATATGTTGCAGCAGTATTTGCCTAGCATCCATAAACCAGATGCGTTAGGAGGACTGCTGAAGTAG

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:0005634 GO:0005737 GO:0005783 GO:0005789 GO:0006464 GO:0006508 GO:0006511 GO:0006515 GO:0006807 GO:0006928 GO:0006950 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010033 GO:0010243 GO:0010498 GO:0012505 GO:0016020 GO:0016477 GO:0016567 GO:0016740 GO:0018996 GO:0019538 GO:0019787 GO:0019899 GO:0019941 GO:0030054 GO:0030154 GO:0030163 GO:0031984 GO:0032446 GO:0032501 GO:0032502 GO:0032991 GO:0033554 GO:0034976 GO:0035966 GO:0035967 GO:0036211 GO:0036503 GO:0036513 GO:0040011 GO:0040039 GO:0042175 GO:0042221 GO:0042303 GO:0042692 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043292 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:0044449 GO:0044464 GO:0048468 GO:0048856 GO:0048869 GO:0048870 GO:0050896 GO:0051146 GO:0051179 GO:0051603 GO:0051674 GO:0051716 GO:0051788 GO:0055001 GO:0055002 GO:0055120 GO:0061061 GO:0061630 GO:0061659 GO:0070647 GO:0070887 GO:0071218 GO:0071310 GO:0071704 GO:0071712 GO:0098796 GO:0098827 GO:0099080 GO:0099081 GO:0099512 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

300

Amino Acids

32.14

Weight (kDa)

8.02

Isoelectric Point (pI)

53.63

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	54 - 101	8.4e-08	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	55 - 96	1.2e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	55 - 97	3.3e-08	Ring finger domain
zf-RING_5	PF14634	55 - 97	1.9e-07	zinc-RING finger domain
zf-C3HC4	PF00097	56 - 96	9.6e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	56 - 94	3e-08	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: OG0012826)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G19310
fragaria_vesca	FvH4_2g40351 FvH4_2g40351 FvH4_2g40351
malus_domestica	MD08G1036700.v1.1
prunus_persica	Prupe.1G384000_v2.0.a1
pyrus_communis	pycom08g02930 pycom15g02870
rosa_chinensis	RchiOBHm_Chr6g0300391
rosa_laevigata	RLG00000011342
rosa_multiflora	Rmu_sc0001670.1_g000013
rosa_roxburghii	Rroxscaffold_7G00167840
rosa_rugosa	Rorug06G0295600
rosa_samantha	Rh6AG408300 Rh6BG415600 Rh6CG423000 Rh6DG408600
rosa_wichuraiana	Rw6G035710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	772
AciI	CCGC	4 cut(s)	213, 398, 635, 770
AclWI	GGATC	1 cut(s)	805
AcoI	YGGCCR	2 cut(s)	214, 230
AcsI	RAATTY	1 cut(s)	577
AfaI	GTAC	1 cut(s)	619
AfiI	CCNNNNNNNGG	6 cut(s)	271, 326, 453, 519, 614, 704
AjnI	CCWGG	2 cut(s)	58, 370
AluBI	AGCT	3 cut(s)	419, 548, 803
AluI	AGCT	3 cut(s)	419, 548, 803
Alw26I	GTCTC	1 cut(s)	751
AlwI	GGATC	1 cut(s)	805
AoxI	GGCC	7 cut(s)	95, 113, 214, 230, 407, 556, 661
ApeKI	GCWGC	3 cut(s)	545, 729, 847
ApoI	RAATTY	1 cut(s)	577
AspS9I	GGNCC	4 cut(s)	113, 316, 662, 695
AsuC2I	CCSGG	1 cut(s)	693
AsuHPI	GGTGA	2 cut(s)	167, 526
AsuII	TTCGAA	1 cut(s)	162
AvaII	GGWCC	2 cut(s)	316, 695
BanII	GRGCYC	1 cut(s)	770
BauI	CACGAG	1 cut(s)	699
BbvI	GCAGC	3 cut(s)	557, 716, 859
BccI	CCATC	2 cut(s)	106, 225
BceAI	ACGGC	2 cut(s)	217, 278
BcgI	CGANNNNNNTGC	2 cut(s)	277, 311
BciT130I	CCWGG	2 cut(s)	60, 372
BcnI	CCSGG	1 cut(s)	693
BcoDI	GTCTC	1 cut(s)	751
BfaI	CTAG	1 cut(s)	861
BfmI	CTRYAG	1 cut(s)	543
BisI	GCNGC	4 cut(s)	214, 546, 730, 848
BlsI	GCNGC	4 cut(s)	215, 547, 731, 849
Bme1390I	CCNGG	3 cut(s)	60, 372, 693
Bme18I	GGWCC	2 cut(s)	316, 695
BmgT120I	GGNCC	4 cut(s)	113, 316, 662, 695
BmiI	GGNNCC	4 cut(s)	251, 318, 664, 696
BmrFI	CCNGG	3 cut(s)	60, 372, 693
BmsI	GCATC	5 cut(s)	139, 576, 592, 868, 873
BpmI	CTGGAG	2 cut(s)	42, 393
Bpu14I	TTCGAA	1 cut(s)	162
BpuMI	CCSGG	1 cut(s)	693
BsaJI	CCNNGG	1 cut(s)	667
BsaXI	ACNNNNNCTCC	4 cut(s)	245, 275, 406, 436
Bsc4I	CCNNNNNNNGG	6 cut(s)	271, 326, 453, 519, 614, 704
BseBI	CCWGG	2 cut(s)	60, 372
BseDI	CCNNGG	1 cut(s)	667
BseGI	GGATG	3 cut(s)	98, 154, 864
BseLI	CCNNNNNNNGG	6 cut(s)	271, 326, 453, 519, 614, 704
BseMII	CTCAG	1 cut(s)	284
BseRI	GAGGAG	2 cut(s)	320, 411
BseXI	GCAGC	3 cut(s)	557, 716, 859
BsgI	GTGCAG	1 cut(s)	846
Bsh1285I	CGRYCG	1 cut(s)	692
BshFI	GGCC	7 cut(s)	97, 115, 216, 232, 409, 558, 663
BsiEI	CGRYCG	1 cut(s)	692
BsiSI	CCGG	2 cut(s)	126, 692
BslFI	GGGAC	2 cut(s)	302, 708
BslI	CCNNNNNNNGG	6 cut(s)	271, 326, 453, 519, 614, 704
BsmAI	GTCTC	1 cut(s)	751
BsmFI	GGGAC	2 cut(s)	302, 708
BsmI	GAATGC	2 cut(s)	170, 281
BsnI	GGCC	7 cut(s)	97, 115, 216, 232, 409, 558, 663
Bsp119I	TTCGAA	1 cut(s)	162
Bsp1286I	GDGCHC	1 cut(s)	770
Bsp143I	GATC	3 cut(s)	356, 430, 797
Bsp19I	CCATGG	1 cut(s)	667
BspACI	CCGC	4 cut(s)	213, 398, 635, 770
BspANI	GGCC	7 cut(s)	97, 115, 216, 232, 409, 558, 663
BspCNI	CTCAG	1 cut(s)	283
BspLI	GGNNCC	4 cut(s)	251, 318, 664, 696
BspMAI	CTGCAG	1 cut(s)	547
BspPI	GGATC	1 cut(s)	805
BspT104I	TTCGAA	1 cut(s)	162
BsrBI	CCGCTC	1 cut(s)	772
BssECI	CCNNGG	1 cut(s)	667
BssMI	GATC	3 cut(s)	356, 430, 797
BssSI	CACGAG	1 cut(s)	699
BssT1I	CCWWGG	1 cut(s)	667
Bst2BI	CACGAG	1 cut(s)	699
Bst2UI	CCWGG	2 cut(s)	60, 372
Bst4CI	ACNGT	1 cut(s)	21
BstAPI	GCANNNNNTGC	2 cut(s)	174, 856
BstBI	TTCGAA	1 cut(s)	162
BstC8I	GCNNGC	4 cut(s)	91, 95, 230, 770
BstDEI	CTNAG	2 cut(s)	184, 270
BstDSI	CCRYGG	1 cut(s)	667
BstF5I	GGATG	3 cut(s)	98, 154, 864
BstKTI	GATC	3 cut(s)	359, 433, 800
BstMAI	GTCTC	1 cut(s)	751
BstMBI	GATC	3 cut(s)	356, 430, 797
BstMCI	CGRYCG	1 cut(s)	692
BstMWI	GCNNNNNNNGC	5 cut(s)	174, 234, 285, 765, 856
BstNI	CCWGG	2 cut(s)	60, 372
BstSCI	CCNGG	3 cut(s)	58, 370, 691
BstSFI	CTRYAG	1 cut(s)	543
BstV1I	GCAGC	3 cut(s)	557, 716, 859
BsuRI	GGCC	7 cut(s)	97, 115, 216, 232, 409, 558, 663
BtgI	CCRYGG	1 cut(s)	667
BtgZI	GCGATG	1 cut(s)	771
BtsCI	GGATG	3 cut(s)	98, 154, 864
Cac8I	GCNNGC	4 cut(s)	91, 95, 230, 770
Cfr13I	GGNCC	4 cut(s)	113, 316, 662, 695
Csp6I	GTAC	1 cut(s)	618
CviAII	CATG	7 cut(s)	466, 590, 638, 659, 668, 793, 834
CviQI	GTAC	1 cut(s)	618
DdeI	CTNAG	2 cut(s)	184, 270
DpnI	GATC	3 cut(s)	358, 432, 799
DpnII	GATC	3 cut(s)	356, 430, 797
EaeI	YGGCCR	2 cut(s)	214, 230
Eco130I	CCWWGG	1 cut(s)	667
Eco147I	AGGCCT	1 cut(s)	409
Eco24I	GRGCYC	1 cut(s)	770
Eco47I	GGWCC	2 cut(s)	316, 695
EcoO109I	RGGNCCY	2 cut(s)	113, 695
EcoRII	CCWGG	2 cut(s)	58, 370
EcoT14I	CCWWGG	1 cut(s)	667
EcoT22I	ATGCAT	1 cut(s)	591
EcoT38I	GRGCYC	1 cut(s)	770
ErhI	CCWWGG	1 cut(s)	667
FaeI	CATG	7 cut(s)	469, 593, 641, 662, 671, 796, 837
FaqI	GGGAC	2 cut(s)	302, 708
FatI	CATG	7 cut(s)	465, 589, 637, 658, 667, 792, 833
FauI	CCCGC	2 cut(s)	391, 777
Fnu4HI	GCNGC	4 cut(s)	214, 546, 730, 848
FokI	GGATG	3 cut(s)	85, 161, 851
FriOI	GRGCYC	1 cut(s)	770
Fsp4HI	GCNGC	4 cut(s)	214, 546, 730, 848
FspBI	CTAG	1 cut(s)	861
GluI	GCNGC	4 cut(s)	214, 546, 730, 848
GsuI	CTGGAG	2 cut(s)	42, 393
HaeIII	GGCC	7 cut(s)	97, 115, 216, 232, 409, 558, 663
HapII	CCGG	2 cut(s)	126, 692
Hin1II	CATG	7 cut(s)	469, 593, 641, 662, 671, 796, 837
HinfI	GANTC	3 cut(s)	35, 83, 462
HpaII	CCGG	2 cut(s)	126, 692
HphI	GGTGA	2 cut(s)	167, 526
Hpy188I	TCNGA	1 cut(s)	585
Hpy188III	TCNNGA	3 cut(s)	272, 298, 599
Hpy99I	CGWCG	1 cut(s)	299
HpyAV	CCTTC	3 cut(s)	126, 295, 547
HpyCH4III	ACNGT	1 cut(s)	21
HpyCH4IV	ACGT	1 cut(s)	451
HpyF10VI	GCNNNNNNNGC	5 cut(s)	174, 234, 285, 765, 856
HpyF3I	CTNAG	2 cut(s)	184, 270
HpySE526I	ACGT	1 cut(s)	451
Hsp92II	CATG	7 cut(s)	469, 593, 641, 662, 671, 796, 837
Kzo9I	GATC	3 cut(s)	356, 430, 797
LmnI	GCTCC	4 cut(s)	255, 424, 502, 610
Lsp1109I	GCAGC	3 cut(s)	557, 716, 859
LweI	GCATC	5 cut(s)	139, 576, 592, 868, 873
MaeI	CTAG	1 cut(s)	861
MaeII	ACGT	1 cut(s)	451
MaeIII	GTNAC	2 cut(s)	131, 202
MalI	GATC	3 cut(s)	358, 432, 799
MbiI	CCGCTC	1 cut(s)	772
MboI	GATC	3 cut(s)	356, 430, 797
MfeI	CAATTG	2 cut(s)	198, 504
MhlI	GDGCHC	1 cut(s)	770
MluCI	AATT	6 cut(s)	198, 366, 504, 529, 577, 682
Mph1103I	ATGCAT	1 cut(s)	591
MseI	TTAA	3 cut(s)	44, 378, 575
MspA1I	CMGCKG	1 cut(s)	398
MspI	CCGG	2 cut(s)	126, 692
MspR9I	CCNGG	3 cut(s)	60, 372, 693
MunI	CAATTG	2 cut(s)	198, 504
Mva1269I	GAATGC	2 cut(s)	170, 281
MvaI	CCWGG	2 cut(s)	60, 372
MwoI	GCNNNNNNNGC	5 cut(s)	174, 234, 285, 765, 856
NciI	CCSGG	1 cut(s)	693
NcoI	CCATGG	1 cut(s)	667
NdeII	GATC	3 cut(s)	356, 430, 797
NlaIII	CATG	7 cut(s)	469, 593, 641, 662, 671, 796, 837
NlaIV	GGNNCC	4 cut(s)	251, 318, 664, 696
NsiI	ATGCAT	1 cut(s)	591
NspV	TTCGAA	1 cut(s)	162
PceI	AGGCCT	1 cut(s)	409
PcsI	WCGNNNNNNNCGW	1 cut(s)	706
PctI	GAATGC	2 cut(s)	170, 281
PfeI	GAWTC	3 cut(s)	35, 83, 462
PfoI	TCCNGGA	1 cut(s)	370
PkrI	GCNGC	4 cut(s)	215, 547, 731, 849
PpuMI	RGGWCCY	1 cut(s)	695
Psp5II	RGGWCCY	1 cut(s)	695
Psp6I	CCWGG	2 cut(s)	58, 370
PspGI	CCWGG	2 cut(s)	58, 370
PspN4I	GGNNCC	4 cut(s)	251, 318, 664, 696
PspPI	GGNCC	4 cut(s)	113, 316, 662, 695
PspPPI	RGGWCCY	1 cut(s)	695
PstI	CTGCAG	1 cut(s)	547
RsaI	GTAC	1 cut(s)	619
RsaNI	GTAC	1 cut(s)	618
SaqAI	TTAA	3 cut(s)	44, 378, 575
SatI	GCNGC	4 cut(s)	214, 546, 730, 848
Sau3AI	GATC	3 cut(s)	356, 430, 797
Sau96I	GGNCC	4 cut(s)	113, 316, 662, 695
ScrFI	CCNGG	3 cut(s)	60, 372, 693
SduI	GDGCHC	1 cut(s)	770
SfaNI	GCATC	5 cut(s)	139, 576, 592, 868, 873
SfcI	CTRYAG	1 cut(s)	543
SfuI	TTCGAA	1 cut(s)	162
SinI	GGWCC	2 cut(s)	316, 695
Sse9I	AATT	6 cut(s)	198, 366, 504, 529, 577, 682
SseBI	AGGCCT	1 cut(s)	409
SsiI	CCGC	4 cut(s)	213, 398, 635, 770
SspI	AATATT	1 cut(s)	382
SspMI	CTAG	1 cut(s)	861
StuI	AGGCCT	1 cut(s)	409
StyD4I	CCNGG	3 cut(s)	58, 370, 691
StyI	CCWWGG	1 cut(s)	667
TaaI	ACNGT	1 cut(s)	21
TaiI	ACGT	1 cut(s)	454
TaqI	TCGA	2 cut(s)	38, 162
TasI	AATT	6 cut(s)	198, 366, 504, 529, 577, 682
TauI	GCSGC	1 cut(s)	216
TfiI	GAWTC	3 cut(s)	35, 83, 462
Tru1I	TTAA	3 cut(s)	44, 378, 575
Tru9I	TTAA	3 cut(s)	44, 378, 575
TseI	GCWGC	3 cut(s)	545, 729, 847
TspDTI	ATGAA	3 cut(s)	454, 635, 647
VpaK11BI	GGWCC	2 cut(s)	316, 695
XapI	RAATTY	1 cut(s)	577
XcmI	CCANNNNNNNNNTGG	1 cut(s)	455
XspI	CTAG	1 cut(s)	861
Zsp2I	ATGCAT	1 cut(s)	591

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