Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0004171

Physical Location & Seq

Genomic Coordinates Reverse (-)

7165729 .. 7169289

Gene Structure 3561 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00084640.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 789 bp

ATGCCAGAACATTTTGTGGAAGATGCCATGGAGTTGCTTATATTCGCTTCCCGGATGCCAAAAGCATTTCATGGGATCTTGTTGGATGAATTTATGAACTTTATTATAATGTTCATGGCAAGTCCAGAATATATTAGGAACCCTTATCTAAGAGCAAAGATGGTTGAAGTCCTGAACTGCTTGATGCCCCGTCCAAGTCATCAATCACCTGCTGCTACAGCTGCTGCTACTAGCCTGTTCGAAGGGCACCAACTGTCTCTCGAGTATCTTGTGAGGAATCTCTTGAAATTATATGTAGACATTGAGTTCACTGGTTCTCATACACAGTTCTATGACAAGTTCAACATCCGCCACAATATTGCTGAACTTCTTGAATATCTTTGGCAAGTCCCCAGTCATCGAAATGCTTGGAAACAGATTGCTAGGGAAGAAGAGAAAGGCGTATATTTGAATTTCTTAAACTTCTTGATCAATGATAGTATATATCTTCTGGATGAAAGTCTTAACAAGATTCTTGAACACAAAGAACTGGAGGCTGAGATGTCAAACACCGCAGAATGGGAGCGTAGACCTGCTCAAGAGAGGCAGGAGAGAACCCGCCTGTTCCACTCTCAAGAAAATATTATCCGAATTGATATGAAATTAGCAAATGAAGATGTGAGTATGTTGGCATTTACTACAGAACAAATTACAGCTCCTTTCCTACTTCCTGAGATGGTTGAAAGGGTGGGCAAGTATGCTCAATTATTTTTTGTTGCAACTAGTAGGTCCTCAAAGAAAATCTCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000209 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006464 GO:0006508 GO:0006511 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010033 GO:0010243 GO:0010498 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019941 GO:0030163 GO:0030433 GO:0032446 GO:0033554 GO:0034450 GO:0034976 GO:0036211 GO:0036503 GO:0042221 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:0044424 GO:0044444 GO:0044464 GO:0050896 GO:0051603 GO:0051716 GO:0061630 GO:0061659 GO:0070647 GO:0071704 GO:0140096 GO:1901564 GO:1901565 GO:1901575 GO:1901698

KEGG Pathways

Metabolic & Signaling

ko04120 ko04141 map04120 map04141

Pfam Domains

Protein Families

U-box Ufd2P_core

Protein Analysis

262

Amino Acids

30.77

Weight (kDa)

5.64

Isoelectric Point (pI)

58.7

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ufd2P_core	PF10408	1 - 245	1.6e-85	Ubiquitin elongating factor core

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)

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Publication-ready

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Orthologous Genes (Group: OG0004171)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G15400
fragaria_vesca	FvH4_3g25920 FvH4_3g25930 FvH4_6g47550 FvH4_6g47550 FvH4_6g47550
malus_domestica	MD09G1060800.v1.1 MD17G1056200.v1.1
prunus_persica	Prupe.3G259400_v2.0.a1
pyrus_communis	pycom111g05110 pycom17g05530
rosa_chinensis	RchiOBHm_Chr2g0166651 RchiOBHm_Chr5g0047221
rosa_laevigata	RLG00000021638 RLG00000034480
rosa_multiflora	Rmu_sc0002310.1_g000029 Rmu_sc0005232.1_g000002
rosa_roxburghii	Rroxscaffold_1G00034160 Rroxscaffold_2G00084330 Rroxscaffold_2G00084640
rosa_rugosa	Rorug02G0524700 Rorug05G0235100
rosa_samantha	Rh2AG590900 Rh2BG602800 Rh2CG573700 Rh2DG613600 Rh5AG314000 Rh5BG322500 Rh5CG349700 Rh5CG349800 Rh5DG333500
rosa_wichuraiana	Rw2G049220 Rw5G029330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	107
AarI	CACCTGC	1 cut(s)	217
Acc36I	ACCTGC	2 cut(s)	217, 580
AccB1I	GGYRCC	1 cut(s)	246
AccI	GTMKAC	2 cut(s)	297, 568
AciI	CCGC	3 cut(s)	349, 552, 598
AclWI	GGATC	1 cut(s)	83
AcsI	RAATTY	2 cut(s)	89, 451
AfiI	CCNNNNNNNGG	1 cut(s)	558
AgsI	TTSAA	7 cut(s)	167, 286, 343, 374, 451, 518, 722
AhlI	ACTAGT	1 cut(s)	761
AluBI	AGCT	2 cut(s)	221, 695
AluI	AGCT	2 cut(s)	221, 695
Alw26I	GTCTC	1 cut(s)	261
AlwI	GGATC	1 cut(s)	83
AlwNI	CAGNNNCTG	1 cut(s)	224
Ama87I	CYCGRG	1 cut(s)	260
ApeKI	GCWGC	3 cut(s)	212, 221, 224
ApoI	RAATTY	2 cut(s)	89, 451
AspS9I	GGNCC	1 cut(s)	768
AsuC2I	CCSGG	1 cut(s)	52
AsuHPI	GGTGA	1 cut(s)	198
AsuII	TTCGAA	1 cut(s)	240
AvaI	CYCGRG	1 cut(s)	260
AvaII	GGWCC	1 cut(s)	768
BaeGI	GKGCMC	1 cut(s)	249
BanI	GGYRCC	1 cut(s)	246
BbvI	GCAGC	3 cut(s)	199, 208, 211
BccI	CCATC	2 cut(s)	154, 709
BclI	TGATCA	1 cut(s)	468
BcnI	CCSGG	1 cut(s)	52
BcoDI	GTCTC	1 cut(s)	261
BcuI	ACTAGT	1 cut(s)	761
BfaI	CTAG	3 cut(s)	231, 423, 762
BfmI	CTRYAG	2 cut(s)	216, 678
BfuAI	ACCTGC	2 cut(s)	217, 580
BisI	GCNGC	3 cut(s)	213, 222, 225
BlsI	GCNGC	3 cut(s)	214, 223, 226
Bme1390I	CCNGG	1 cut(s)	52
Bme18I	GGWCC	1 cut(s)	768
BmeT110I	CYCGRG	1 cut(s)	260
BmgT120I	GGNCC	1 cut(s)	768
BmiI	GGNNCC	2 cut(s)	140, 248
BmrFI	CCNGG	1 cut(s)	52
BmrI	ACTGGG	1 cut(s)	387
BmsI	GCATC	3 cut(s)	13, 45, 174
BmuI	ACTGGG	1 cut(s)	387
BpmI	CTGGAG	1 cut(s)	551
Bpu14I	TTCGAA	1 cut(s)	240
BpuEI	CTTGAG	2 cut(s)	561, 597
BpuMI	CCSGG	1 cut(s)	52
BsaJI	CCNNGG	1 cut(s)	27
Bsc4I	CCNNNNNNNGG	1 cut(s)	558
Bse1I	ACTGG	3 cut(s)	316, 393, 534
BseDI	CCNNGG	1 cut(s)	27
BseGI	GGATG	4 cut(s)	60, 91, 345, 499
BseLI	CCNNNNNNNGG	1 cut(s)	558
BseMII	CTCAG	2 cut(s)	528, 702
BseNI	ACTGG	3 cut(s)	316, 393, 534
BseSI	GKGCMC	1 cut(s)	249
BseXI	GCAGC	3 cut(s)	199, 208, 211
BshNI	GGYRCC	1 cut(s)	246
BsiHKCI	CYCGRG	1 cut(s)	260
BsiSI	CCGG	1 cut(s)	52
BslFI	GGGAC	1 cut(s)	374
BslI	CCNNNNNNNGG	1 cut(s)	558
BsmAI	GTCTC	1 cut(s)	261
BsmFI	GGGAC	1 cut(s)	374
BsoBI	CYCGRG	1 cut(s)	260
Bsp119I	TTCGAA	1 cut(s)	240
Bsp1286I	GDGCHC	1 cut(s)	249
Bsp143I	GATC	2 cut(s)	75, 468
Bsp19I	CCATGG	1 cut(s)	27
BspACI	CCGC	3 cut(s)	349, 552, 598
BspCNI	CTCAG	2 cut(s)	529, 703
BspLI	GGNNCC	2 cut(s)	140, 248
BspMI	ACCTGC	2 cut(s)	217, 580
BspPI	GGATC	1 cut(s)	83
BspT104I	TTCGAA	1 cut(s)	240
BspT107I	GGYRCC	1 cut(s)	246
BsrI	ACTGG	3 cut(s)	316, 393, 534
BssECI	CCNNGG	1 cut(s)	27
BssMI	GATC	2 cut(s)	75, 468
BssT1I	CCWWGG	1 cut(s)	27
Bst4CI	ACNGT	2 cut(s)	255, 327
Bst6I	CTCTTC	1 cut(s)	426
BstBI	TTCGAA	1 cut(s)	240
BstDEI	CTNAG	4 cut(s)	149, 537, 711, 786
BstDSI	CCRYGG	1 cut(s)	27
BstF5I	GGATG	4 cut(s)	60, 91, 345, 499
BstKTI	GATC	2 cut(s)	78, 471
BstMAI	GTCTC	1 cut(s)	261
BstMBI	GATC	2 cut(s)	75, 468
BstMWI	GCNNNNNNNGC	2 cut(s)	218, 221
BstSCI	CCNGG	1 cut(s)	50
BstSFI	CTRYAG	2 cut(s)	216, 678
BstSLI	GKGCMC	1 cut(s)	249
BstV1I	GCAGC	3 cut(s)	199, 208, 211
BstX2I	RGATCY	1 cut(s)	75
BstYI	RGATCY	1 cut(s)	75
BtgI	CCRYGG	1 cut(s)	27
BtsCI	GGATG	4 cut(s)	60, 91, 345, 499
BtsIMutI	CAGTG	1 cut(s)	309
BveI	ACCTGC	2 cut(s)	217, 580
CaiI	CAGNNNCTG	1 cut(s)	224
Cfr13I	GGNCC	1 cut(s)	768
CviAII	CATG	3 cut(s)	28, 71, 115
CviJI	RGCY	4 cut(s)	221, 234, 536, 695
CviKI_1	RGCY	4 cut(s)	221, 234, 536, 695
DdeI	CTNAG	4 cut(s)	149, 537, 711, 786
DpnI	GATC	2 cut(s)	77, 470
DpnII	GATC	2 cut(s)	75, 468
Eam1104I	CTCTTC	1 cut(s)	426
EarI	CTCTTC	1 cut(s)	426
EciI	GGCGGA	1 cut(s)	338
Eco130I	CCWWGG	1 cut(s)	27
Eco47I	GGWCC	1 cut(s)	768
Eco88I	CYCGRG	1 cut(s)	260
EcoO109I	RGGNCCY	1 cut(s)	768
EcoT14I	CCWWGG	1 cut(s)	27
ErhI	CCWWGG	1 cut(s)	27
FaeI	CATG	3 cut(s)	31, 74, 118
FaqI	GGGAC	1 cut(s)	374
FatI	CATG	3 cut(s)	27, 70, 114
FauI	CCCGC	1 cut(s)	605
FbaI	TGATCA	1 cut(s)	468
FblI	GTMKAC	2 cut(s)	297, 568
Fnu4HI	GCNGC	3 cut(s)	213, 222, 225
FokI	GGATG	4 cut(s)	67, 98, 332, 506
Fsp4HI	GCNGC	3 cut(s)	213, 222, 225
FspBI	CTAG	3 cut(s)	231, 423, 762
GluI	GCNGC	3 cut(s)	213, 222, 225
GsuI	CTGGAG	1 cut(s)	551
HapII	CCGG	1 cut(s)	52
Hin1II	CATG	3 cut(s)	31, 74, 118
HinfI	GANTC	2 cut(s)	277, 511
HpaII	CCGG	1 cut(s)	52
HphI	GGTGA	1 cut(s)	198
Hpy166II	GTNNAC	3 cut(s)	298, 309, 569
Hpy188I	TCNGA	1 cut(s)	629
Hpy8I	GTNNAC	3 cut(s)	298, 309, 569
HpyAV	CCTTC	1 cut(s)	236
HpyCH4III	ACNGT	2 cut(s)	255, 327
HpyCH4V	TGCA	1 cut(s)	758
HpyF10VI	GCNNNNNNNGC	2 cut(s)	218, 221
HpyF3I	CTNAG	4 cut(s)	149, 537, 711, 786
Hsp92II	CATG	3 cut(s)	31, 74, 118
Ksp22I	TGATCA	1 cut(s)	468
Kzo9I	GATC	2 cut(s)	75, 468
LmnI	GCTCC	2 cut(s)	562, 700
Lsp1109I	GCAGC	3 cut(s)	199, 208, 211
LweI	GCATC	3 cut(s)	13, 45, 174
MaeI	CTAG	3 cut(s)	231, 423, 762
MalI	GATC	2 cut(s)	77, 470
MboI	GATC	2 cut(s)	75, 468
MboII	GAAGA	5 cut(s)	32, 440, 443, 479, 665
MflI	RGATCY	1 cut(s)	75
MhlI	GDGCHC	1 cut(s)	249
MluCI	AATT	7 cut(s)	89, 287, 451, 630, 641, 687, 743
MmeI	TCCRAC	1 cut(s)	63
MnlI	CCTC	4 cut(s)	267, 526, 576, 781
MseI	TTAA	2 cut(s)	458, 504
MslI	CAYNNNNRTG	1 cut(s)	402
MspA1I	CMGCKG	1 cut(s)	221
MspI	CCGG	1 cut(s)	52
MspR9I	CCNGG	1 cut(s)	52
MwoI	GCNNNNNNNGC	2 cut(s)	218, 221
NciI	CCSGG	1 cut(s)	52
NcoI	CCATGG	1 cut(s)	27
NdeII	GATC	2 cut(s)	75, 468
NlaIII	CATG	3 cut(s)	31, 74, 118
NlaIV	GGNNCC	2 cut(s)	140, 248
NspV	TTCGAA	1 cut(s)	240
PaeR7I	CTCGAG	1 cut(s)	260
PaqCI	CACCTGC	1 cut(s)	217
PfeI	GAWTC	2 cut(s)	277, 511
PfoI	TCCNGGA	1 cut(s)	50
PkrI	GCNGC	3 cut(s)	214, 223, 226
PpuMI	RGGWCCY	1 cut(s)	768
PsiI	TTATAA	1 cut(s)	107
Psp5II	RGGWCCY	1 cut(s)	768
PspN4I	GGNNCC	2 cut(s)	140, 248
PspPI	GGNCC	1 cut(s)	768
PspPPI	RGGWCCY	1 cut(s)	768
PstNI	CAGNNNCTG	1 cut(s)	224
PsuI	RGATCY	1 cut(s)	75
PvuII	CAGCTG	1 cut(s)	221
RseI	CAYNNNNRTG	1 cut(s)	402
SaqAI	TTAA	2 cut(s)	458, 504
SatI	GCNGC	3 cut(s)	213, 222, 225
Sau3AI	GATC	2 cut(s)	75, 468
Sau96I	GGNCC	1 cut(s)	768
ScrFI	CCNGG	1 cut(s)	52
SduI	GDGCHC	1 cut(s)	249
SetI	ASST	5 cut(s)	211, 223, 574, 697, 770
SfaNI	GCATC	3 cut(s)	13, 45, 174
SfcI	CTRYAG	2 cut(s)	216, 678
Sfr274I	CTCGAG	1 cut(s)	260
SfuI	TTCGAA	1 cut(s)	240
SinI	GGWCC	1 cut(s)	768
SlaI	CTCGAG	1 cut(s)	260
SmiMI	CAYNNNNRTG	1 cut(s)	402
SmlI	CTYRAG	3 cut(s)	260, 576, 612
SmoI	CTYRAG	3 cut(s)	260, 576, 612
SpeI	ACTAGT	1 cut(s)	761
Sse9I	AATT	7 cut(s)	89, 287, 451, 630, 641, 687, 743
SsiI	CCGC	3 cut(s)	349, 552, 598
SspI	AATATT	2 cut(s)	358, 622
SspMI	CTAG	3 cut(s)	231, 423, 762
StyD4I	CCNGG	1 cut(s)	50
StyI	CCWWGG	1 cut(s)	27
TaaI	ACNGT	2 cut(s)	255, 327
TaqI	TCGA	3 cut(s)	240, 261, 400
TasI	AATT	7 cut(s)	89, 287, 451, 630, 641, 687, 743
TfiI	GAWTC	2 cut(s)	277, 511
Tru1I	TTAA	2 cut(s)	458, 504
Tru9I	TTAA	2 cut(s)	458, 504
TscAI	CASTG	1 cut(s)	316
TseI	GCWGC	3 cut(s)	212, 221, 224
TspDTI	ATGAA	7 cut(s)	59, 102, 103, 110, 510, 653, 666
TspRI	CASTG	1 cut(s)	316
VpaK11BI	GGWCC	1 cut(s)	768
XapI	RAATTY	2 cut(s)	89, 451
XhoI	CTCGAG	1 cut(s)	260
XmiI	GTMKAC	2 cut(s)	297, 568
XspI	CTAG	3 cut(s)	231, 423, 762

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