Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0006241

Physical Location & Seq

Genomic Coordinates Reverse (-)

11367200 .. 11380287

Gene Structure 13088 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00342410.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 993 bp

ATGGGTTCGTCTTCAACCGACGCTTTTCCACAAATGCAGGAAATTATGCTGGAGTTTCGAGCTGGTAAAATGGCTTTTGAGGGGAAAAGGGTTATTCCCGATACTCGTAAAGGACTTGTTCGCATAGCAAGGGGTGAGGAGGGTTTGTTGCATTTCCAGTGGCTTGATCGGAATCAAAATGTAGTTGAAGATGATCAGATTGTTTTTCCTGATGAGGCAGTTTTTGAAAAGGTTAATCAAGCATCAGGAAGGGTGTACATACTGAAATTCAACACAGATGATAGGAAGTTTTTCTTTTGGATGCAGGAGCTGAAAGCTGAAGATGACACACAGTTATGTACCTCCGTTAATTACTACATCAATCGACCAATAGAAGAGATACTTGAAGAAGAAAGCCCTGATGGCTCAGTTCCTCTCACAGCTGATGATATGTTTGAAGATGATATTTCATCAAGAGCTGGAATCTTGGTGGAACCAAACTTGGGTGCGGAAGCAAGTAGCGATGTAACCTCTTCATCTGGCCCAGTGAAGCTGGAAGATCTTCAAAGAATCTTGAGTAACATCGATCGTGCAGATAGTGCTGGGGATCCAGATGGAGGCATAAATTTGGAGGATATATTGACACCTGATTTGATTCTGCCATTGATTGAGACATTGCCACTGCAACAGAGTTTAGGATCTTACTTGCCTGAGGGTCAATGGTCTCCCAGAGGATATATTGGACTTCTTCAAGTTATTTATTCAATACAAGTGCTTGATCATATTTCAATCATCACAATCTTCCCAAGTATATCACCAATATTGTTTGGACAGCATCCATCGGGTTACCGGGTTAATGTGGATTCACAACAAGCAGCCTTGGAACGAAGTAACACATGGTTATCCACAAAGTTTCTCCTTGAAGCTTCTCTCCATGATCACAGAGTTGTTGTGGAAAGAGCTTCCCATACTCTTCTTGAATTCCTCGATGCTAATTGTGCCATCACCACTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000502 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005838 GO:0006508 GO:0006511 GO:0006807 GO:0008047 GO:0008150 GO:0008152 GO:0008541 GO:0009056 GO:0009057 GO:0009893 GO:0009987 GO:0010604 GO:0010950 GO:0010952 GO:0016043 GO:0016504 GO:0019222 GO:0019538 GO:0019941 GO:0022607 GO:0022624 GO:0030162 GO:0030163 GO:0030234 GO:0031323 GO:0031325 GO:0032182 GO:0032268 GO:0032270 GO:0032991 GO:0034622 GO:0043085 GO:0043130 GO:0043170 GO:0043248 GO:0043632 GO:0043933 GO:0044085 GO:0044093 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044424 GO:0044464 GO:0044877 GO:0045862 GO:0048518 GO:0048522 GO:0050789 GO:0050790 GO:0050794 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0051336 GO:0051345 GO:0051603 GO:0052547 GO:0052548 GO:0060255 GO:0061133 GO:0061134 GO:0061135 GO:0065003 GO:0065007 GO:0065009 GO:0070628 GO:0071704 GO:0071840 GO:0080090 GO:0098772 GO:1901564 GO:1901565 GO:1901575 GO:1902494 GO:1905368 GO:1905369

KEGG Pathways

Metabolic & Signaling

ko03050 ko05169 map03050 map05169

Pfam Domains

Protein Families

Proteasom_Rpn13 RPN13_C

Protein Analysis

330

Amino Acids

36.93

Weight (kDa)

4.44

Isoelectric Point (pI)

47.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rpn13_ADRM1_Pru	PF04683	17 - 113	2.2e-31	Proteasome complex subunit Rpn13, Pru domain
RPN13_C	PF16550	182 - 251	1.2e-07	UCH-binding domain

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: OG0006241)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G26590 AT2G26590 AT2G26590 AT2G26590
fragaria_vesca	FvH4_4g06040 FvH4_4g06040 FvH4_4g06040 FvH4_4g06040 FvH4_4g06040 FvH4_4g06040 FvH4_4g06040
malus_domestica	MD16G1238000.v1.1
prunus_persica	Prupe.1G063800_v2.0.a1 Prupe.1G063800_v2.0.a1 Prupe.1G063800_v2.0.a1 Prupe.1G063800_v2.0.a1
pyrus_communis	pycom16g19920
rosa_chinensis	RchiOBHm_Chr4g0397601
rosa_laevigata	RLG00000009425
rosa_multiflora	Rmu_sc0005653.1_g000003
rosa_roxburghii	Rroxscaffold_5G00342410
rosa_rugosa	Rorug03G0342400
rosa_samantha	Rh4AG079200 Rh4BG077100 Rh4CG084800 Rh4DG072200
rosa_wichuraiana	Rw4G006480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	488
AclWI	GGATC	3 cut(s)	581, 594, 685
AcsI	RAATTY	3 cut(s)	266, 604, 959
AcuI	CTGAAG	1 cut(s)	339
AfaI	GTAC	2 cut(s)	257, 340
AfiI	CCNNNNNNNGG	2 cut(s)	482, 596
AluBI	AGCT	8 cut(s)	62, 310, 317, 422, 458, 532, 905, 941
AluI	AGCT	8 cut(s)	62, 310, 317, 422, 458, 532, 905, 941
Alw26I	GTCTC	2 cut(s)	644, 708
AlwI	GGATC	3 cut(s)	581, 594, 685
AlwNI	CAGNNNCTG	1 cut(s)	310
AoxI	GGCC	1 cut(s)	520
ApeKI	GCWGC	1 cut(s)	854
ApoI	RAATTY	3 cut(s)	266, 604, 959
ArsI	GACNNNNNNTTYG	2 cut(s)	613, 645
Asp700I	GAANNNNTTC	2 cut(s)	290, 540
AspS9I	GGNCC	1 cut(s)	521
AsuC2I	CCSGG	1 cut(s)	830
AsuHPI	GGTGA	3 cut(s)	146, 786, 976
AxyI	CCTNAGG	1 cut(s)	690
BamHI	GGATCC	1 cut(s)	586
BbsI	GAAGAC	1 cut(s)	3
BbvI	GCAGC	1 cut(s)	866
BccI	CCATC	4 cut(s)	395, 587, 826, 989
BclI	TGATCA	3 cut(s)	193, 757, 916
BcnI	CCSGG	1 cut(s)	830
BcoDI	GTCTC	2 cut(s)	644, 708
BglI	GCCNNNNNGGC	1 cut(s)	402
BglII	AGATCT	1 cut(s)	538
BisI	GCNGC	1 cut(s)	855
BlsI	GCNGC	1 cut(s)	856
Bme1390I	CCNGG	1 cut(s)	830
BmgT120I	GGNCC	1 cut(s)	521
BmiI	GGNNCC	2 cut(s)	474, 588
BmrFI	CCNGG	1 cut(s)	830
BmrI	ACTGGG	1 cut(s)	518
BmsI	GCATC	4 cut(s)	251, 291, 823, 958
BmuI	ACTGGG	1 cut(s)	518
BpiI	GAAGAC	1 cut(s)	3
BpmI	CTGGAG	1 cut(s)	71
BpuEI	CTTGAG	1 cut(s)	574
BpuMI	CCSGG	1 cut(s)	830
Bsa29I	ATCGAT	1 cut(s)	564
BsaBI	GATNNNNATC	1 cut(s)	171
BsaI	GGTCTC	1 cut(s)	708
BsaJI	CCNNGG	1 cut(s)	858
BsaXI	ACNNNNNCTCC	2 cut(s)	131, 161
Bsc4I	CCNNNNNNNGG	2 cut(s)	482, 596
Bse1I	ACTGG	2 cut(s)	157, 524
Bse21I	CCTNAGG	1 cut(s)	690
Bse3DI	GCAATG	1 cut(s)	653
Bse8I	GATNNNNATC	1 cut(s)	171
BseCI	ATCGAT	1 cut(s)	564
BseDI	CCNNGG	1 cut(s)	858
BseGI	GGATG	2 cut(s)	306, 814
BseJI	GATNNNNATC	1 cut(s)	171
BseLI	CCNNNNNNNGG	2 cut(s)	482, 596
BseMI	GCAATG	1 cut(s)	653
BseMII	CTCAG	2 cut(s)	420, 681
BseNI	ACTGG	2 cut(s)	157, 524
BseRI	GAGGAG	1 cut(s)	152
BseXI	GCAGC	1 cut(s)	866
BseYI	CCCAGC	1 cut(s)	581
BsgI	GTGCAG	1 cut(s)	591
Bsh1285I	CGRYCG	1 cut(s)	568
BshFI	GGCC	1 cut(s)	522
BshVI	ATCGAT	1 cut(s)	564
BsiEI	CGRYCG	1 cut(s)	568
BsiSI	CCGG	1 cut(s)	829
BslI	CCNNNNNNNGG	2 cut(s)	482, 596
BsmAI	GTCTC	2 cut(s)	644, 708
BsnI	GGCC	1 cut(s)	522
Bso31I	GGTCTC	1 cut(s)	708
Bsp1407I	TGTACA	1 cut(s)	255
Bsp143I	GATC	8 cut(s)	166, 193, 538, 565, 586, 677, 757, 916
BspACI	CCGC	1 cut(s)	488
BspANI	GGCC	1 cut(s)	522
BspCNI	CTCAG	2 cut(s)	419, 682
BspDI	ATCGAT	1 cut(s)	564
BspLI	GGNNCC	2 cut(s)	474, 588
BspPI	GGATC	3 cut(s)	581, 594, 685
BspTNI	GGTCTC	1 cut(s)	708
BsrDI	GCAATG	1 cut(s)	653
BsrGI	TGTACA	1 cut(s)	255
BsrI	ACTGG	2 cut(s)	157, 524
BssECI	CCNNGG	1 cut(s)	858
BssMI	GATC	8 cut(s)	166, 193, 538, 565, 586, 677, 757, 916
BssT1I	CCWWGG	1 cut(s)	858
Bst4CI	ACNGT	1 cut(s)	333
Bst6I	CTCTTC	3 cut(s)	369, 517, 957
BstAPI	GCANNNNNTGC	1 cut(s)	578
BstAUI	TGTACA	1 cut(s)	255
BstDEI	CTNAG	2 cut(s)	406, 690
BstEII	GGTNACC	1 cut(s)	824
BstF5I	GGATG	2 cut(s)	306, 814
BstKTI	GATC	8 cut(s)	169, 196, 541, 568, 589, 680, 760, 919
BstMAI	GTCTC	2 cut(s)	644, 708
BstMBI	GATC	8 cut(s)	166, 193, 538, 565, 586, 677, 757, 916
BstMCI	CGRYCG	1 cut(s)	568
BstMWI	GCNNNNNNNGC	3 cut(s)	402, 578, 977
BstPI	GGTNACC	1 cut(s)	824
BstSCI	CCNGG	1 cut(s)	828
BstV1I	GCAGC	1 cut(s)	866
BstV2I	GAAGAC	1 cut(s)	3
BstX2I	RGATCY	3 cut(s)	538, 586, 677
BstYI	RGATCY	3 cut(s)	538, 586, 677
Bsu15I	ATCGAT	1 cut(s)	564
Bsu36I	CCTNAGG	1 cut(s)	690
BsuRI	GGCC	1 cut(s)	522
BsuTUI	ATCGAT	1 cut(s)	564
BtgZI	GCGATG	1 cut(s)	516
BtsCI	GGATG	2 cut(s)	306, 814
BtsI	GCAGTG	1 cut(s)	659
BtsIMutI	CAGTG	3 cut(s)	164, 531, 659
CaiI	CAGNNNCTG	1 cut(s)	310
Cfr13I	GGNCC	1 cut(s)	521
ClaI	ATCGAT	1 cut(s)	564
CseI	GACGC	1 cut(s)	29
Csp6I	GTAC	2 cut(s)	256, 339
CviAII	CATG	2 cut(s)	876, 914
CviQI	GTAC	2 cut(s)	256, 339
DdeI	CTNAG	2 cut(s)	406, 690
DpnI	GATC	8 cut(s)	168, 195, 540, 567, 588, 679, 759, 918
DpnII	GATC	8 cut(s)	166, 193, 538, 565, 586, 677, 757, 916
Eam1104I	CTCTTC	3 cut(s)	369, 517, 957
EarI	CTCTTC	3 cut(s)	369, 517, 957
Eco130I	CCWWGG	1 cut(s)	858
Eco31I	GGTCTC	1 cut(s)	708
Eco57I	CTGAAG	1 cut(s)	339
Eco81I	CCTNAGG	1 cut(s)	690
Eco91I	GGTNACC	1 cut(s)	824
EcoO65I	GGTNACC	1 cut(s)	824
EcoRI	GAATTC	1 cut(s)	959
EcoT14I	CCWWGG	1 cut(s)	858
ErhI	CCWWGG	1 cut(s)	858
FaeI	CATG	2 cut(s)	879, 917
FalI	AAGNNNNNCTT	4 cut(s)	278, 310, 366, 398
FatI	CATG	2 cut(s)	875, 913
FbaI	TGATCA	3 cut(s)	193, 757, 916
Fnu4HI	GCNGC	1 cut(s)	855
FokI	GGATG	2 cut(s)	313, 801
Fsp4HI	GCNGC	1 cut(s)	855
GluI	GCNGC	1 cut(s)	855
GsaI	CCCAGC	1 cut(s)	585
GsuI	CTGGAG	1 cut(s)	71
HaeIII	GGCC	1 cut(s)	522
HapII	CCGG	1 cut(s)	829
HgaI	GACGC	1 cut(s)	29
Hin1II	CATG	2 cut(s)	879, 917
HindIII	AAGCTT	1 cut(s)	903
HinfI	GANTC	5 cut(s)	172, 462, 549, 634, 842
HpaII	CCGG	1 cut(s)	829
HphI	GGTGA	3 cut(s)	146, 786, 976
Hpy166II	GTNNAC	1 cut(s)	256
Hpy188I	TCNGA	2 cut(s)	171, 198
Hpy188III	TCNNGA	7 cut(s)	98, 209, 246, 453, 553, 590, 956
Hpy8I	GTNNAC	1 cut(s)	256
Hpy99I	CGWCG	1 cut(s)	23
HpyAV	CCTTC	1 cut(s)	243
HpyCH4III	ACNGT	1 cut(s)	333
HpyCH4V	TGCA	5 cut(s)	37, 151, 304, 572, 664
HpyF10VI	GCNNNNNNNGC	3 cut(s)	402, 578, 977
HpyF3I	CTNAG	2 cut(s)	406, 690
Hsp92II	CATG	2 cut(s)	879, 917
Ksp22I	TGATCA	3 cut(s)	193, 757, 916
Kzo9I	GATC	8 cut(s)	166, 193, 538, 565, 586, 677, 757, 916
LmnI	GCTCC	1 cut(s)	307
Lsp1109I	GCAGC	1 cut(s)	866
LweI	GCATC	4 cut(s)	251, 291, 823, 958
MaeIII	GTNAC	4 cut(s)	505, 557, 824, 869
MalI	GATC	8 cut(s)	168, 195, 540, 567, 588, 679, 759, 918
MboI	GATC	8 cut(s)	166, 193, 538, 565, 586, 677, 757, 916
MflI	RGATCY	3 cut(s)	538, 586, 677
MluCI	AATT	6 cut(s)	42, 266, 349, 604, 959, 973
MroXI	GAANNNNTTC	2 cut(s)	290, 540
MseI	TTAA	3 cut(s)	234, 348, 834
MslI	CAYNNNNRTG	1 cut(s)	334
MspA1I	CMGCKG	1 cut(s)	422
MspI	CCGG	1 cut(s)	829
MspR9I	CCNGG	1 cut(s)	830
MwoI	GCNNNNNNNGC	3 cut(s)	402, 578, 977
NciI	CCSGG	1 cut(s)	830
NdeII	GATC	8 cut(s)	166, 193, 538, 565, 586, 677, 757, 916
NlaIII	CATG	2 cut(s)	879, 917
NlaIV	GGNNCC	2 cut(s)	474, 588
PdmI	GAANNNNTTC	2 cut(s)	290, 540
PfeI	GAWTC	5 cut(s)	172, 462, 549, 634, 842
PkrI	GCNGC	1 cut(s)	856
Ple19I	CGATCG	1 cut(s)	568
PspEI	GGTNACC	1 cut(s)	824
PspFI	CCCAGC	1 cut(s)	581
PspN4I	GGNNCC	2 cut(s)	474, 588
PspPI	GGNCC	1 cut(s)	521
PstNI	CAGNNNCTG	1 cut(s)	310
PsuI	RGATCY	3 cut(s)	538, 586, 677
PvuI	CGATCG	1 cut(s)	568
PvuII	CAGCTG	1 cut(s)	422
RsaI	GTAC	2 cut(s)	257, 340
RsaNI	GTAC	2 cut(s)	256, 339
RseI	CAYNNNNRTG	1 cut(s)	334
SaqAI	TTAA	3 cut(s)	234, 348, 834
SatI	GCNGC	1 cut(s)	855
Sau3AI	GATC	8 cut(s)	166, 193, 538, 565, 586, 677, 757, 916
Sau96I	GGNCC	1 cut(s)	521
ScrFI	CCNGG	1 cut(s)	830
SfaNI	GCATC	4 cut(s)	251, 291, 823, 958
SmiMI	CAYNNNNRTG	1 cut(s)	334
SmlI	CTYRAG	1 cut(s)	553
SmoI	CTYRAG	1 cut(s)	553
Sse9I	AATT	6 cut(s)	42, 266, 349, 604, 959, 973
SsiI	CCGC	1 cut(s)	488
SspI	AATATT	1 cut(s)	801
StyD4I	CCNGG	1 cut(s)	828
StyI	CCWWGG	1 cut(s)	858
TaaI	ACNGT	1 cut(s)	333
TaqI	TCGA	4 cut(s)	58, 364, 564, 966
TasI	AATT	6 cut(s)	42, 266, 349, 604, 959, 973
TatI	WGTACW	1 cut(s)	255
TfiI	GAWTC	5 cut(s)	172, 462, 549, 634, 842
Tru1I	TTAA	3 cut(s)	234, 348, 834
Tru9I	TTAA	3 cut(s)	234, 348, 834
TscAI	CASTG	3 cut(s)	164, 531, 666
TseI	GCWGC	1 cut(s)	854
TspDTI	ATGAA	2 cut(s)	438, 504
TspGWI	ACGGA	1 cut(s)	334
TspRI	CASTG	3 cut(s)	164, 531, 666
XapI	RAATTY	3 cut(s)	266, 604, 959
XmnI	GAANNNNTTC	2 cut(s)	290, 540

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