Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0004915

Physical Location & Seq

Genomic Coordinates Reverse (-)

9231608 .. 9249417

Gene Structure 17810 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG051600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 570 bp

ATGCAATCTGCATTACTTGAGTTTGAAAAGCATAGATGGCATGGCAGTGAGCTTGCTTTTCCTGAACCTTCTAGAGTTGAGATTCGGGCTGATGGTAGTCAAACTTGTGGATCAGGCAGGACACTAAGGGATGCTGCAGCAGTGCAGCTCGTGCCATGCAGGGTTGGCACTCTCAATGCCTTTCCTGGAGGAGCATTTGAGGAAGCTCCTCCACCACTCCCAGAGGAACCTGAGCCCAAGCGGCAGAAGCTTGATGACTCCATGCTTATTGCAGAAGATAAATTTCTGGCACAGCATCCAGGGCCTGTTCGTATCACCGTATCTGTTCCCAATGTTGATGAAGGCAATCTCAAAGGACAACTTTTGGAGATCACAGTTCAGTCTTTATCTGAAACTGTTGGAAGTCTGAAAGAGAAAATTTCTGGGGAGATCCAGCTTCCGGCAAACAAACAGAAATTGAGTGGAAAACCTGGCTTTCTCAAGGACAATTTGTCTCTTGCATATTACAATGTTGGAGCAGGAGAAACACTTGCTCTTTCATTGAGAGAACGTGGTGGTAGAAAGCGGTGA

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

189

Amino Acids

20.52

Weight (kDa)

6.34

Isoelectric Point (pI)

48.94

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ubiquitin	PF00240	117 - 184	5.9e-09	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)

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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)	241, 565
AclWI	GGATC	2 cut(s)	118, 424
AcsI	RAATTY	2 cut(s)	281, 417
AfiI	CCNNNNNNNGG	1 cut(s)	439
AgsI	TTSAA	1 cut(s)	26
AhdI	GACNNNNNGTC	1 cut(s)	490
AjnI	CCWGG	3 cut(s)	184, 298, 469
AluBI	AGCT	5 cut(s)	52, 148, 206, 250, 436
AluI	AGCT	5 cut(s)	52, 148, 206, 250, 436
Alw26I	GTCTC	1 cut(s)	498
AlwI	GGATC	2 cut(s)	118, 424
AlwNI	CAGNNNCTG	1 cut(s)	305
AoxI	GGCC	1 cut(s)	302
ApeKI	GCWGC	3 cut(s)	134, 137, 145
ApoI	RAATTY	2 cut(s)	281, 417
AspS9I	GGNCC	1 cut(s)	302
AsuHPI	GGTGA	1 cut(s)	307
BanII	GRGCYC	1 cut(s)	237
BauI	CACGAG	1 cut(s)	149
BbvI	GCAGC	3 cut(s)	121, 149, 157
BccI	CCATC	2 cut(s)	30, 86
BciT130I	CCWGG	3 cut(s)	186, 300, 471
BcoDI	GTCTC	1 cut(s)	498
BfaI	CTAG	1 cut(s)	72
BfmI	CTRYAG	1 cut(s)	135
BglI	GCCNNNNNGGC	1 cut(s)	241
BisI	GCNGC	4 cut(s)	135, 138, 146, 242
BlsI	GCNGC	4 cut(s)	136, 139, 147, 243
Bme1390I	CCNGG	3 cut(s)	186, 300, 471
BmeRI	GACNNNNNGTC	1 cut(s)	490
BmgT120I	GGNCC	1 cut(s)	302
BmiI	GGNNCC	1 cut(s)	228
BmrFI	CCNGG	3 cut(s)	186, 300, 471
BmsI	GCATC	2 cut(s)	121, 304
BpmI	CTGGAG	1 cut(s)	207
Bpu10I	CCTNAGC	1 cut(s)	231
BpuEI	CTTGAG	2 cut(s)	38, 464
BsaJI	CCNNGG	1 cut(s)	299
Bsc4I	CCNNNNNNNGG	1 cut(s)	439
BseBI	CCWGG	3 cut(s)	186, 300, 471
BseDI	CCNNGG	1 cut(s)	299
BseGI	GGATG	2 cut(s)	136, 295
BseLI	CCNNNNNNNGG	1 cut(s)	439
BseMII	CTCAG	1 cut(s)	222
BseRI	GAGGAG	2 cut(s)	198, 204
BseXI	GCAGC	3 cut(s)	121, 149, 157
BsgI	GTGCAG	1 cut(s)	164
BshFI	GGCC	1 cut(s)	304
BsiSI	CCGG	1 cut(s)	440
BslI	CCNNNNNNNGG	1 cut(s)	439
BsmAI	GTCTC	1 cut(s)	498
BsnI	GGCC	1 cut(s)	304
Bsp1286I	GDGCHC	1 cut(s)	237
Bsp143I	GATC	3 cut(s)	110, 369, 429
BspACI	CCGC	2 cut(s)	241, 565
BspANI	GGCC	1 cut(s)	304
BspCNI	CTCAG	1 cut(s)	223
BspLI	GGNNCC	1 cut(s)	228
BspMAI	CTGCAG	1 cut(s)	139
BspPI	GGATC	2 cut(s)	118, 424
BssECI	CCNNGG	1 cut(s)	299
BssMI	GATC	3 cut(s)	110, 369, 429
BssSI	CACGAG	1 cut(s)	149
Bst2BI	CACGAG	1 cut(s)	149
Bst2UI	CCWGG	3 cut(s)	186, 300, 471
Bst4CI	ACNGT	3 cut(s)	319, 376, 397
BstAPI	GCANNNNNTGC	1 cut(s)	151
BstC8I	GCNNGC	1 cut(s)	54
BstDEI	CTNAG	2 cut(s)	125, 231
BstF5I	GGATG	2 cut(s)	136, 295
BstKTI	GATC	3 cut(s)	113, 372, 432
BstMAI	GTCTC	1 cut(s)	498
BstMBI	GATC	3 cut(s)	110, 369, 429
BstMWI	GCNNNNNNNGC	6 cut(s)	37, 151, 165, 241, 247, 301
BstNI	CCWGG	3 cut(s)	186, 300, 471
BstSCI	CCNGG	3 cut(s)	184, 298, 469
BstSFI	CTRYAG	1 cut(s)	135
BstV1I	GCAGC	3 cut(s)	121, 149, 157
BstX2I	RGATCY	1 cut(s)	429
BstYI	RGATCY	1 cut(s)	429
BsuRI	GGCC	1 cut(s)	304
BtsCI	GGATG	2 cut(s)	136, 295
BtsI	GCAGTG	2 cut(s)	52, 147
BtsIMutI	CAGTG	2 cut(s)	52, 147
Cac8I	GCNNGC	1 cut(s)	54
CaiI	CAGNNNCTG	1 cut(s)	305
Cfr13I	GGNCC	1 cut(s)	302
CviAII	CATG	3 cut(s)	41, 156, 262
CviJI	RGCY	9 cut(s)	52, 89, 148, 206, 235, 250, 304, 436, 474
CviKI_1	RGCY	9 cut(s)	52, 89, 148, 206, 235, 250, 304, 436, 474
DdeI	CTNAG	2 cut(s)	125, 231
DpnI	GATC	3 cut(s)	112, 371, 431
DpnII	GATC	3 cut(s)	110, 369, 429
DriI	GACNNNNNGTC	1 cut(s)	490
Eam1105I	GACNNNNNGTC	1 cut(s)	490
Eco24I	GRGCYC	1 cut(s)	237
EcoO109I	RGGNCCY	1 cut(s)	302
EcoRII	CCWGG	3 cut(s)	184, 298, 469
EcoT38I	GRGCYC	1 cut(s)	237
FaeI	CATG	3 cut(s)	44, 159, 265
FaiI	YATR	5 cut(s)	33, 42, 157, 263, 502
FalI	AAGNNNNNCTT	2 cut(s)	345, 377
FatI	CATG	3 cut(s)	40, 155, 261
Fnu4HI	GCNGC	4 cut(s)	135, 138, 146, 242
FokI	GGATG	2 cut(s)	143, 282
FriOI	GRGCYC	1 cut(s)	237
Fsp4HI	GCNGC	4 cut(s)	135, 138, 146, 242
FspBI	CTAG	1 cut(s)	72
GluI	GCNGC	4 cut(s)	135, 138, 146, 242
GsuI	CTGGAG	1 cut(s)	207
HaeIII	GGCC	1 cut(s)	304
HapII	CCGG	1 cut(s)	440
Hin1II	CATG	3 cut(s)	44, 159, 265
HindIII	AAGCTT	1 cut(s)	248
HinfI	GANTC	2 cut(s)	82, 257
HpaII	CCGG	1 cut(s)	440
HphI	GGTGA	1 cut(s)	307
Hpy188I	TCNGA	2 cut(s)	391, 408
Hpy188III	TCNNGA	2 cut(s)	62, 72
HpyAV	CCTTC	2 cut(s)	78, 335
HpyCH4III	ACNGT	3 cut(s)	319, 376, 397
HpyCH4IV	ACGT	1 cut(s)	550
HpyCH4V	TGCA	7 cut(s)	4, 11, 137, 145, 159, 272, 500
HpyF10VI	GCNNNNNNNGC	6 cut(s)	37, 151, 165, 241, 247, 301
HpyF3I	CTNAG	2 cut(s)	125, 231
HpySE526I	ACGT	1 cut(s)	550
Hsp92II	CATG	3 cut(s)	44, 159, 265
Kzo9I	GATC	3 cut(s)	110, 369, 429
LmnI	GCTCC	3 cut(s)	191, 211, 515
Lsp1109I	GCAGC	3 cut(s)	121, 149, 157
LweI	GCATC	2 cut(s)	121, 304
MaeI	CTAG	1 cut(s)	72
MaeII	ACGT	1 cut(s)	550
MalI	GATC	3 cut(s)	112, 371, 431
MboI	GATC	3 cut(s)	110, 369, 429
MboII	GAAGA	1 cut(s)	287
MflI	RGATCY	1 cut(s)	429
MhlI	GDGCHC	1 cut(s)	237
MluCI	AATT	4 cut(s)	281, 417, 455, 487
MlyI	GAGTC	1 cut(s)	251
MmeI	TCCRAC	2 cut(s)	379, 493
MnlI	CCTC	4 cut(s)	182, 193, 217, 219
MslI	CAYNNNNRTG	1 cut(s)	45
MspI	CCGG	1 cut(s)	440
MspR9I	CCNGG	3 cut(s)	186, 300, 471
MvaI	CCWGG	3 cut(s)	186, 300, 471
MwoI	GCNNNNNNNGC	6 cut(s)	37, 151, 165, 241, 247, 301
NdeII	GATC	3 cut(s)	110, 369, 429
NlaIII	CATG	3 cut(s)	44, 159, 265
NlaIV	GGNNCC	1 cut(s)	228
PfeI	GAWTC	1 cut(s)	82
PfoI	TCCNGGA	1 cut(s)	184
PkrI	GCNGC	4 cut(s)	136, 139, 147, 243
PleI	GAGTC	1 cut(s)	251
PpsI	GAGTC	1 cut(s)	251
Psp6I	CCWGG	3 cut(s)	184, 298, 469
PspGI	CCWGG	3 cut(s)	184, 298, 469
PspN4I	GGNNCC	1 cut(s)	228
PspPI	GGNCC	1 cut(s)	302
PstI	CTGCAG	1 cut(s)	139
PstNI	CAGNNNCTG	1 cut(s)	305
PsuI	RGATCY	1 cut(s)	429
RseI	CAYNNNNRTG	1 cut(s)	45
SatI	GCNGC	4 cut(s)	135, 138, 146, 242
Sau3AI	GATC	3 cut(s)	110, 369, 429
Sau96I	GGNCC	1 cut(s)	302
SchI	GAGTC	1 cut(s)	251
ScrFI	CCNGG	3 cut(s)	186, 300, 471
SduI	GDGCHC	1 cut(s)	237
SetI	ASST	9 cut(s)	54, 70, 150, 208, 232, 252, 438, 472, 553
SfaNI	GCATC	2 cut(s)	121, 304
SfcI	CTRYAG	1 cut(s)	135
SmiMI	CAYNNNNRTG	1 cut(s)	45
SmlI	CTYRAG	2 cut(s)	17, 479
SmoI	CTYRAG	2 cut(s)	17, 479
Sse9I	AATT	4 cut(s)	281, 417, 455, 487
SsiI	CCGC	2 cut(s)	241, 565
SspMI	CTAG	1 cut(s)	72
StyD4I	CCNGG	3 cut(s)	184, 298, 469
TaaI	ACNGT	3 cut(s)	319, 376, 397
TaiI	ACGT	1 cut(s)	553
TasI	AATT	4 cut(s)	281, 417, 455, 487
TauI	GCSGC	1 cut(s)	244
TfiI	GAWTC	1 cut(s)	82
TscAI	CASTG	2 cut(s)	52, 147
TseI	GCWGC	3 cut(s)	134, 137, 145
TspDTI	ATGAA	2 cut(s)	354, 528
TspRI	CASTG	2 cut(s)	52, 147
XapI	RAATTY	2 cut(s)	281, 417
XbaI	TCTAGA	1 cut(s)	71
XspI	CTAG	1 cut(s)	72

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