Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0004915

Physical Location & Seq

Genomic Coordinates Reverse (-)

28686156 .. 28691415

Gene Structure 5260 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00351920.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 528 bp

ATGACTTTCGCTACCGTCTCGTTAAGCAGATCTGAGGAAGAACCACTAGAGCGAAGAAGAAGAGAGCCAGACCTACACAAACCGCTTCTTTCCGTCCTCTCTCAGGCATTACTTGAGTTTGAAAAGCATAGATGGCATGGCAATGAGCTTGCTCTTCCTGAACCTTCTAGAGTTGAGATTCGGGCTGATGGTAGTCAAACTTGTGGATCAGGCAGGACACTAAGGGATGCTGCAGCAGTGCAGCTCTTGCCATGCAGGGGGCCTGTTCGTATCACCGTATCTGTTCCCAATGTTGATGAAGGCAATCTCAAAGGACAACTTTTGGAGATCACAGTTCAGTCTTTATCTGAAACTGTTAGAAGTCTGAAAGAGAAAATTTCTGGGGAGATCCAGCTTCCGGCAAACAAACAGAAATTGAGTGGAAAACCTGGCTTTCTCAAGGACAATTTGTCTCTTGCATATTTCAATGTTGGAGCAGGAGAAACACTTGCTCTTTCATTGAGAGAACGTGGTGGTAGAAAGCGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000375 GO:0000377 GO:0000381 GO:0000389 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0005686 GO:0006139 GO:0006376 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0010468 GO:0016043 GO:0016070 GO:0016071 GO:0019219 GO:0019222 GO:0022607 GO:0022613 GO:0022618 GO:0030532 GO:0031323 GO:0032991 GO:0034622 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043484 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048024 GO:0050684 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065003 GO:0065007 GO:0071004 GO:0071010 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0080090 GO:0090304 GO:0097159 GO:0097525 GO:0120114 GO:1901360 GO:1901363 GO:1902494 GO:1903311 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

PRP21_like_P Surp ubiquitin

Protein Analysis

175

Amino Acids

19.35

Weight (kDa)

9.46

Isoelectric Point (pI)

56.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ubiquitin	PF00240	103 - 170	7.2e-08	Ubiquitin family

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

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Publication-ready

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Orthologous Genes (Group: OG0004915)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G06890
malus_domestica	MD10G1329400.v1.1
pyrus_communis	pycom05g32220 pycom10g27920
rosa_chinensis	RchiOBHm_Chr7g0191091
rosa_laevigata	RLG00000004475
rosa_multiflora	Rmu_sc0005151.1_g000002 Rmu_sc0005657.1_g000002 Rmu_sc0005903.1_g000003 Rmu_sc0005903.1_g000004 Rmu_sc0005903.1_g000005 Rmu_sc0013941.1_g000002 Rmu_sc0034959.1_g000001
rosa_roxburghii	Rroxscaffold_3G00264050 Rroxscaffold_5G00351920
rosa_rugosa	Rorug01G0317000 Rorug01G0317100
rosa_samantha	Rh1AG145900 Rh1AG325300 Rh3BG312100 Rh4AG053700 Rh4BG051600 Rh4DG247700 Rh7AG116000 Rh7BG117500 Rh7CG120900 Rh7DG298100
rosa_wichuraiana	Rw1G028860 Rw7G010070 Rw7G010160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	83, 523
AclWI	GGATC	2 cut(s)	214, 382
AcsI	RAATTY	1 cut(s)	375
AfiI	CCNNNNNNNGG	3 cut(s)	103, 257, 397
AgsI	TTSAA	2 cut(s)	122, 466
AhdI	GACNNNNNGTC	1 cut(s)	448
AjnI	CCWGG	1 cut(s)	427
AluBI	AGCT	3 cut(s)	148, 244, 394
AluI	AGCT	3 cut(s)	148, 244, 394
Alw26I	GTCTC	2 cut(s)	22, 456
AlwI	GGATC	2 cut(s)	214, 382
AoxI	GGCC	1 cut(s)	260
ApeKI	GCWGC	3 cut(s)	230, 233, 241
ApoI	RAATTY	1 cut(s)	375
AspS9I	GGNCC	1 cut(s)	260
AsuHPI	GGTGA	1 cut(s)	265
BbvI	GCAGC	3 cut(s)	217, 245, 253
BccI	CCATC	2 cut(s)	126, 182
BciT130I	CCWGG	1 cut(s)	429
BcoDI	GTCTC	2 cut(s)	22, 456
BfaI	CTAG	2 cut(s)	47, 168
BfmI	CTRYAG	1 cut(s)	231
BglII	AGATCT	1 cut(s)	29
BisI	GCNGC	3 cut(s)	231, 234, 242
BlsI	GCNGC	3 cut(s)	232, 235, 243
Bme1390I	CCNGG	1 cut(s)	429
BmeRI	GACNNNNNGTC	1 cut(s)	448
BmgT120I	GGNCC	1 cut(s)	260
BmiI	GGNNCC	1 cut(s)	261
BmrFI	CCNGG	1 cut(s)	429
BmsI	GCATC	1 cut(s)	217
BpuEI	CTTGAG	2 cut(s)	134, 422
Bsc4I	CCNNNNNNNGG	3 cut(s)	103, 257, 397
Bse3DI	GCAATG	1 cut(s)	148
BseBI	CCWGG	1 cut(s)	429
BseGI	GGATG	1 cut(s)	232
BseLI	CCNNNNNNNGG	3 cut(s)	103, 257, 397
BseMI	GCAATG	1 cut(s)	148
BseMII	CTCAG	2 cut(s)	24, 116
BseXI	GCAGC	3 cut(s)	217, 245, 253
BsgI	GTGCAG	1 cut(s)	260
BshFI	GGCC	1 cut(s)	262
BsiSI	CCGG	1 cut(s)	398
BslI	CCNNNNNNNGG	3 cut(s)	103, 257, 397
BsmAI	GTCTC	2 cut(s)	22, 456
BsmBI	CGTCTC	1 cut(s)	22
BsnI	GGCC	1 cut(s)	262
Bsp143I	GATC	4 cut(s)	29, 206, 327, 387
BspACI	CCGC	2 cut(s)	83, 523
BspANI	GGCC	1 cut(s)	262
BspCNI	CTCAG	2 cut(s)	25, 115
BspLI	GGNNCC	1 cut(s)	261
BspMAI	CTGCAG	1 cut(s)	235
BspPI	GGATC	2 cut(s)	214, 382
BspQI	GCTCTTC	1 cut(s)	159
BsrDI	GCAATG	1 cut(s)	148
BssMI	GATC	4 cut(s)	29, 206, 327, 387
Bst2UI	CCWGG	1 cut(s)	429
Bst4CI	ACNGT	4 cut(s)	16, 277, 334, 355
Bst6I	CTCTTC	2 cut(s)	55, 159
BstAPI	GCANNNNNTGC	1 cut(s)	247
BstC8I	GCNNGC	1 cut(s)	150
BstDEI	CTNAG	3 cut(s)	33, 102, 221
BstENI	CCTNNNNNAGG	1 cut(s)	101
BstF5I	GGATG	1 cut(s)	232
BstKTI	GATC	4 cut(s)	32, 209, 330, 390
BstMAI	GTCTC	2 cut(s)	22, 456
BstMBI	GATC	4 cut(s)	29, 206, 327, 387
BstMWI	GCNNNNNNNGC	2 cut(s)	133, 247
BstNI	CCWGG	1 cut(s)	429
BstSCI	CCNGG	1 cut(s)	427
BstSFI	CTRYAG	1 cut(s)	231
BstV1I	GCAGC	3 cut(s)	217, 245, 253
BstX2I	RGATCY	2 cut(s)	29, 387
BstYI	RGATCY	2 cut(s)	29, 387
BsuRI	GGCC	1 cut(s)	262
BtsCI	GGATG	1 cut(s)	232
BtsI	GCAGTG	1 cut(s)	243
BtsIMutI	CAGTG	1 cut(s)	243
Cac8I	GCNNGC	1 cut(s)	150
Cfr13I	GGNCC	1 cut(s)	260
CviAII	CATG	2 cut(s)	137, 252
CviJI	RGCY	7 cut(s)	67, 148, 185, 244, 262, 394, 432
CviKI_1	RGCY	7 cut(s)	67, 148, 185, 244, 262, 394, 432
DdeI	CTNAG	3 cut(s)	33, 102, 221
DpnI	GATC	4 cut(s)	31, 208, 329, 389
DpnII	GATC	4 cut(s)	29, 206, 327, 387
DriI	GACNNNNNGTC	1 cut(s)	448
Eam1104I	CTCTTC	2 cut(s)	55, 159
Eam1105I	GACNNNNNGTC	1 cut(s)	448
EarI	CTCTTC	2 cut(s)	55, 159
EcoNI	CCTNNNNNAGG	1 cut(s)	101
EcoO109I	RGGNCCY	1 cut(s)	260
EcoRII	CCWGG	1 cut(s)	427
Esp3I	CGTCTC	1 cut(s)	22
FaeI	CATG	2 cut(s)	140, 255
FaiI	YATR	4 cut(s)	129, 138, 253, 460
FalI	AAGNNNNNCTT	2 cut(s)	303, 335
FatI	CATG	2 cut(s)	136, 251
Fnu4HI	GCNGC	3 cut(s)	231, 234, 242
FokI	GGATG	1 cut(s)	239
Fsp4HI	GCNGC	3 cut(s)	231, 234, 242
FspBI	CTAG	2 cut(s)	47, 168
GluI	GCNGC	3 cut(s)	231, 234, 242
HaeIII	GGCC	1 cut(s)	262
HapII	CCGG	1 cut(s)	398
Hin1II	CATG	2 cut(s)	140, 255
HinfI	GANTC	1 cut(s)	178
HpaII	CCGG	1 cut(s)	398
HphI	GGTGA	1 cut(s)	265
Hpy188I	TCNGA	3 cut(s)	34, 349, 366
Hpy188III	TCNNGA	2 cut(s)	158, 168
HpyAV	CCTTC	2 cut(s)	174, 293
HpyCH4III	ACNGT	4 cut(s)	16, 277, 334, 355
HpyCH4IV	ACGT	1 cut(s)	508
HpyCH4V	TGCA	4 cut(s)	233, 241, 255, 458
HpyF10VI	GCNNNNNNNGC	2 cut(s)	133, 247
HpyF3I	CTNAG	3 cut(s)	33, 102, 221
HpySE526I	ACGT	1 cut(s)	508
Hsp92II	CATG	2 cut(s)	140, 255
Kzo9I	GATC	4 cut(s)	29, 206, 327, 387
LguI	GCTCTTC	1 cut(s)	159
LmnI	GCTCC	1 cut(s)	473
Lsp1109I	GCAGC	3 cut(s)	217, 245, 253
LweI	GCATC	1 cut(s)	217
MaeI	CTAG	2 cut(s)	47, 168
MaeII	ACGT	1 cut(s)	508
MalI	GATC	4 cut(s)	31, 208, 329, 389
MboI	GATC	4 cut(s)	29, 206, 327, 387
MboII	GAAGA	5 cut(s)	50, 66, 69, 72, 146
MflI	RGATCY	2 cut(s)	29, 387
MluCI	AATT	3 cut(s)	375, 413, 445
MmeI	TCCRAC	1 cut(s)	451
MnlI	CCTC	2 cut(s)	28, 107
MseI	TTAA	1 cut(s)	23
MslI	CAYNNNNRTG	1 cut(s)	141
MspI	CCGG	1 cut(s)	398
MspR9I	CCNGG	1 cut(s)	429
MvaI	CCWGG	1 cut(s)	429
MwoI	GCNNNNNNNGC	2 cut(s)	133, 247
NdeII	GATC	4 cut(s)	29, 206, 327, 387
NlaIII	CATG	2 cut(s)	140, 255
NlaIV	GGNNCC	1 cut(s)	261
PciSI	GCTCTTC	1 cut(s)	159
PfeI	GAWTC	1 cut(s)	178
PkrI	GCNGC	3 cut(s)	232, 235, 243
Psp6I	CCWGG	1 cut(s)	427
PspGI	CCWGG	1 cut(s)	427
PspN4I	GGNNCC	1 cut(s)	261
PspPI	GGNCC	1 cut(s)	260
PstI	CTGCAG	1 cut(s)	235
PsuI	RGATCY	2 cut(s)	29, 387
RseI	CAYNNNNRTG	1 cut(s)	141
SapI	GCTCTTC	1 cut(s)	159
SaqAI	TTAA	1 cut(s)	23
SatI	GCNGC	3 cut(s)	231, 234, 242
Sau3AI	GATC	4 cut(s)	29, 206, 327, 387
Sau96I	GGNCC	1 cut(s)	260
ScrFI	CCNGG	1 cut(s)	429
SetI	ASST	7 cut(s)	75, 150, 166, 246, 396, 430, 511
SfaNI	GCATC	1 cut(s)	217
SfcI	CTRYAG	1 cut(s)	231
SmiMI	CAYNNNNRTG	1 cut(s)	141
SmlI	CTYRAG	2 cut(s)	113, 437
SmoI	CTYRAG	2 cut(s)	113, 437
Sse9I	AATT	3 cut(s)	375, 413, 445
SsiI	CCGC	2 cut(s)	83, 523
SspMI	CTAG	2 cut(s)	47, 168
StyD4I	CCNGG	1 cut(s)	427
TaaI	ACNGT	4 cut(s)	16, 277, 334, 355
TaiI	ACGT	1 cut(s)	511
TasI	AATT	3 cut(s)	375, 413, 445
TfiI	GAWTC	1 cut(s)	178
Tru1I	TTAA	1 cut(s)	23
Tru9I	TTAA	1 cut(s)	23
TscAI	CASTG	1 cut(s)	243
TseI	GCWGC	3 cut(s)	230, 233, 241
TspDTI	ATGAA	2 cut(s)	312, 486
TspGWI	ACGGA	1 cut(s)	82
TspRI	CASTG	1 cut(s)	243
XagI	CCTNNNNNAGG	1 cut(s)	101
XapI	RAATTY	1 cut(s)	375
XbaI	TCTAGA	1 cut(s)	167
XspI	CTAG	2 cut(s)	47, 168

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