Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0004915

Physical Location & Seq

Genomic Coordinates Reverse (-)

11254039 .. 11256010

Gene Structure 1972 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG053700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 714 bp

ATGCTGCACAGGACTTGTACTACTATCTCTTGGACTTTTCGGATTTTCTACGAGAAGGCATTACTTGAGTTTGAAAAGCATAGATGGCATGGCAGTGAGCTTGCTTTTCCTGAACCTTCTAGAGTTGAGATTCGGGCTGATGGTAGTCAAACTTGTGGATCAGGCAGGACACTAAGGGATGCTGCAGCAGTGCAGCTCGTGCCATGCAGGGTTGGCACTCTCAATGCCTTTCCTGGAGGAGCATTTGAGGAAGCTCCTCCACCACTCCCAGAGGAACCTGAGCCCAAGCGGCAGAAGCTTGATGACTCCATGCTTATTGCAGAAGATAAATTTCTGGCACAGCATCCAGGGCCTGTTCGTATCACCGTATCTGTTCCCAATGTTGATGAAGGCAATCTCAAAGGACAACTTTTGGAGATCACAGTTCAGTCTTTATCTGAAACTGTTGGAAGTCTGAAAGAGAAAATTTCTGGGGAGATCCAGCTTCCGGCAAACAAACAGAAATTGAGTGGAAAACCTGGCTTTCTCAAGGACAATTTGTCTCTTGCATATTACAATGTTGGAGCAGGAGAAACACTTGCTCTTTCATTGAGAGAACGTGGTGGTAGAAAGCGGATTGGGCTCTGGTCTGTGCGACAAGTTAGATGTGTGCTCTTCATGCATCTAAACCAGCCTGGACTGGGACCACTGGGTTTGATTGCAACATCATGTTAG

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

237

Amino Acids

26.05

Weight (kDa)

8.6

Isoelectric Point (pI)

47.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ubiquitin	PF00240	133 - 200	9.4e-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)

Image

Tree File

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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)	289, 613
AclWI	GGATC	2 cut(s)	166, 472
AcsI	RAATTY	2 cut(s)	329, 465
AfaI	GTAC	1 cut(s)	19
AfiI	CCNNNNNNNGG	2 cut(s)	487, 680
AgsI	TTSAA	1 cut(s)	74
AhdI	GACNNNNNGTC	1 cut(s)	538
AjnI	CCWGG	4 cut(s)	232, 346, 517, 673
AluBI	AGCT	5 cut(s)	100, 196, 254, 298, 484
AluI	AGCT	5 cut(s)	100, 196, 254, 298, 484
Alw21I	GWGCWC	1 cut(s)	654
Alw26I	GTCTC	1 cut(s)	546
AlwI	GGATC	2 cut(s)	166, 472
AlwNI	CAGNNNCTG	1 cut(s)	353
AoxI	GGCC	1 cut(s)	350
ApeKI	GCWGC	4 cut(s)	4, 182, 185, 193
ApoI	RAATTY	2 cut(s)	329, 465
AspS9I	GGNCC	2 cut(s)	350, 683
AsuHPI	GGTGA	1 cut(s)	355
AvaII	GGWCC	1 cut(s)	683
BanII	GRGCYC	2 cut(s)	285, 624
BauI	CACGAG	1 cut(s)	197
Bbv12I	GWGCWC	1 cut(s)	654
BbvI	GCAGC	3 cut(s)	169, 197, 205
BccI	CCATC	2 cut(s)	78, 134
BciT130I	CCWGG	4 cut(s)	234, 348, 519, 675
BcoDI	GTCTC	1 cut(s)	546
BfaI	CTAG	1 cut(s)	120
BfmI	CTRYAG	1 cut(s)	183
BglI	GCCNNNNNGGC	1 cut(s)	289
BisI	GCNGC	5 cut(s)	5, 183, 186, 194, 290
BlsI	GCNGC	5 cut(s)	6, 184, 187, 195, 291
Bme1390I	CCNGG	4 cut(s)	234, 348, 519, 675
Bme18I	GGWCC	1 cut(s)	683
BmeRI	GACNNNNNGTC	1 cut(s)	538
BmgT120I	GGNCC	2 cut(s)	350, 683
BmiI	GGNNCC	2 cut(s)	276, 684
BmrFI	CCNGG	4 cut(s)	234, 348, 519, 675
BmrI	ACTGGG	2 cut(s)	689, 698
BmsI	GCATC	3 cut(s)	169, 352, 670
BmuI	ACTGGG	2 cut(s)	689, 698
BpmI	CTGGAG	1 cut(s)	255
Bpu10I	CCTNAGC	1 cut(s)	279
BpuEI	CTTGAG	2 cut(s)	86, 512
BsaJI	CCNNGG	1 cut(s)	347
Bsc4I	CCNNNNNNNGG	2 cut(s)	487, 680
Bse1I	ACTGG	2 cut(s)	684, 693
BseBI	CCWGG	4 cut(s)	234, 348, 519, 675
BseDI	CCNNGG	1 cut(s)	347
BseGI	GGATG	2 cut(s)	184, 343
BseLI	CCNNNNNNNGG	2 cut(s)	487, 680
BseMII	CTCAG	1 cut(s)	270
BseNI	ACTGG	2 cut(s)	684, 693
BseRI	GAGGAG	2 cut(s)	246, 252
BseXI	GCAGC	3 cut(s)	169, 197, 205
BsgI	GTGCAG	1 cut(s)	212
BshFI	GGCC	1 cut(s)	352
BsiHKAI	GWGCWC	1 cut(s)	654
BsiSI	CCGG	1 cut(s)	488
BslFI	GGGAC	1 cut(s)	696
BslI	CCNNNNNNNGG	2 cut(s)	487, 680
BsmAI	GTCTC	1 cut(s)	546
BsmFI	GGGAC	1 cut(s)	696
BsnI	GGCC	1 cut(s)	352
Bsp1286I	GDGCHC	3 cut(s)	285, 624, 654
Bsp143I	GATC	3 cut(s)	158, 417, 477
BspACI	CCGC	2 cut(s)	289, 613
BspANI	GGCC	1 cut(s)	352
BspCNI	CTCAG	1 cut(s)	271
BspLI	GGNNCC	2 cut(s)	276, 684
BspMAI	CTGCAG	1 cut(s)	187
BspPI	GGATC	2 cut(s)	166, 472
BspQI	GCTCTTC	1 cut(s)	659
BsrI	ACTGG	2 cut(s)	684, 693
BssECI	CCNNGG	1 cut(s)	347
BssMI	GATC	3 cut(s)	158, 417, 477
BssSI	CACGAG	1 cut(s)	197
Bst2BI	CACGAG	1 cut(s)	197
Bst2UI	CCWGG	4 cut(s)	234, 348, 519, 675
Bst4CI	ACNGT	3 cut(s)	367, 424, 445
Bst6I	CTCTTC	1 cut(s)	659
BstAPI	GCANNNNNTGC	1 cut(s)	199
BstC8I	GCNNGC	1 cut(s)	102
BstDEI	CTNAG	2 cut(s)	173, 279
BstF5I	GGATG	2 cut(s)	184, 343
BstKTI	GATC	3 cut(s)	161, 420, 480
BstMAI	GTCTC	1 cut(s)	546
BstMBI	GATC	3 cut(s)	158, 417, 477
BstMWI	GCNNNNNNNGC	8 cut(s)	85, 199, 213, 289, 295, 349, 619, 658
BstNI	CCWGG	4 cut(s)	234, 348, 519, 675
BstSCI	CCNGG	4 cut(s)	232, 346, 517, 673
BstSFI	CTRYAG	1 cut(s)	183
BstV1I	GCAGC	3 cut(s)	169, 197, 205
BstX2I	RGATCY	1 cut(s)	477
BstYI	RGATCY	1 cut(s)	477
BsuRI	GGCC	1 cut(s)	352
BtsCI	GGATG	2 cut(s)	184, 343
BtsI	GCAGTG	2 cut(s)	100, 195
BtsIMutI	CAGTG	3 cut(s)	100, 195, 686
Cac8I	GCNNGC	1 cut(s)	102
CaiI	CAGNNNCTG	1 cut(s)	353
Cfr13I	GGNCC	2 cut(s)	350, 683
Csp6I	GTAC	1 cut(s)	18
CspCI	CAANNNNNGTGG	2 cut(s)	675, 710
CviAII	CATG	5 cut(s)	89, 204, 310, 658, 708
CviQI	GTAC	1 cut(s)	18
DdeI	CTNAG	2 cut(s)	173, 279
DpnI	GATC	3 cut(s)	160, 419, 479
DpnII	GATC	3 cut(s)	158, 417, 477
DriI	GACNNNNNGTC	1 cut(s)	538
Eam1104I	CTCTTC	1 cut(s)	659
Eam1105I	GACNNNNNGTC	1 cut(s)	538
EarI	CTCTTC	1 cut(s)	659
Eco24I	GRGCYC	2 cut(s)	285, 624
Eco47I	GGWCC	1 cut(s)	683
EcoO109I	RGGNCCY	1 cut(s)	350
EcoRII	CCWGG	4 cut(s)	232, 346, 517, 673
EcoT22I	ATGCAT	1 cut(s)	663
EcoT38I	GRGCYC	2 cut(s)	285, 624
FaeI	CATG	5 cut(s)	92, 207, 313, 661, 711
FaiI	YATR	7 cut(s)	81, 90, 205, 311, 550, 659, 709
FalI	AAGNNNNNCTT	2 cut(s)	393, 425
FaqI	GGGAC	1 cut(s)	696
FatI	CATG	5 cut(s)	88, 203, 309, 657, 707
Fnu4HI	GCNGC	5 cut(s)	5, 183, 186, 194, 290
FokI	GGATG	2 cut(s)	191, 330
FriOI	GRGCYC	2 cut(s)	285, 624
Fsp4HI	GCNGC	5 cut(s)	5, 183, 186, 194, 290
FspBI	CTAG	1 cut(s)	120
GluI	GCNGC	5 cut(s)	5, 183, 186, 194, 290
GsuI	CTGGAG	1 cut(s)	255
HaeIII	GGCC	1 cut(s)	352
HapII	CCGG	1 cut(s)	488
Hin1II	CATG	5 cut(s)	92, 207, 313, 661, 711
HindIII	AAGCTT	1 cut(s)	296
HinfI	GANTC	2 cut(s)	130, 305
HpaII	CCGG	1 cut(s)	488
HphI	GGTGA	1 cut(s)	355
Hpy188I	TCNGA	3 cut(s)	42, 439, 456
Hpy188III	TCNNGA	2 cut(s)	110, 120
HpyAV	CCTTC	3 cut(s)	49, 126, 383
HpyCH4III	ACNGT	3 cut(s)	367, 424, 445
HpyCH4IV	ACGT	1 cut(s)	598
HpyCH4V	TGCA	8 cut(s)	7, 185, 193, 207, 320, 548, 661, 701
HpyF10VI	GCNNNNNNNGC	8 cut(s)	85, 199, 213, 289, 295, 349, 619, 658
HpyF3I	CTNAG	2 cut(s)	173, 279
HpySE526I	ACGT	1 cut(s)	598
Hsp92II	CATG	5 cut(s)	92, 207, 313, 661, 711
Kzo9I	GATC	3 cut(s)	158, 417, 477
LguI	GCTCTTC	1 cut(s)	659
LmnI	GCTCC	3 cut(s)	239, 259, 563
Lsp1109I	GCAGC	3 cut(s)	169, 197, 205
LweI	GCATC	3 cut(s)	169, 352, 670
MaeI	CTAG	1 cut(s)	120
MaeII	ACGT	1 cut(s)	598
MalI	GATC	3 cut(s)	160, 419, 479
MboI	GATC	3 cut(s)	158, 417, 477
MboII	GAAGA	2 cut(s)	335, 646
MflI	RGATCY	1 cut(s)	477
MhlI	GDGCHC	3 cut(s)	285, 624, 654
MluCI	AATT	4 cut(s)	329, 465, 503, 535
MlyI	GAGTC	1 cut(s)	299
MmeI	TCCRAC	2 cut(s)	427, 541
MnlI	CCTC	4 cut(s)	230, 241, 265, 267
Mph1103I	ATGCAT	1 cut(s)	663
MslI	CAYNNNNRTG	1 cut(s)	93
MspI	CCGG	1 cut(s)	488
MspR9I	CCNGG	4 cut(s)	234, 348, 519, 675
MvaI	CCWGG	4 cut(s)	234, 348, 519, 675
MwoI	GCNNNNNNNGC	8 cut(s)	85, 199, 213, 289, 295, 349, 619, 658
NdeII	GATC	3 cut(s)	158, 417, 477
NlaIII	CATG	5 cut(s)	92, 207, 313, 661, 711
NlaIV	GGNNCC	2 cut(s)	276, 684
NsiI	ATGCAT	1 cut(s)	663
PciSI	GCTCTTC	1 cut(s)	659
PfeI	GAWTC	1 cut(s)	130
PfoI	TCCNGGA	1 cut(s)	232
PkrI	GCNGC	5 cut(s)	6, 184, 187, 195, 291
PleI	GAGTC	1 cut(s)	299
PpsI	GAGTC	1 cut(s)	299
Psp6I	CCWGG	4 cut(s)	232, 346, 517, 673
PspGI	CCWGG	4 cut(s)	232, 346, 517, 673
PspN4I	GGNNCC	2 cut(s)	276, 684
PspPI	GGNCC	2 cut(s)	350, 683
PstI	CTGCAG	1 cut(s)	187
PstNI	CAGNNNCTG	1 cut(s)	353
PsuI	RGATCY	1 cut(s)	477
RsaI	GTAC	1 cut(s)	19
RsaNI	GTAC	1 cut(s)	18
RseI	CAYNNNNRTG	1 cut(s)	93
SapI	GCTCTTC	1 cut(s)	659
SatI	GCNGC	5 cut(s)	5, 183, 186, 194, 290
Sau3AI	GATC	3 cut(s)	158, 417, 477
Sau96I	GGNCC	2 cut(s)	350, 683
SchI	GAGTC	1 cut(s)	299
ScrFI	CCNGG	4 cut(s)	234, 348, 519, 675
SduI	GDGCHC	3 cut(s)	285, 624, 654
SetI	ASST	9 cut(s)	102, 118, 198, 256, 280, 300, 486, 520, 601
SfaNI	GCATC	3 cut(s)	169, 352, 670
SfcI	CTRYAG	1 cut(s)	183
SinI	GGWCC	1 cut(s)	683
SmiMI	CAYNNNNRTG	1 cut(s)	93
SmlI	CTYRAG	2 cut(s)	65, 527
SmoI	CTYRAG	2 cut(s)	65, 527
Sse9I	AATT	4 cut(s)	329, 465, 503, 535
SsiI	CCGC	2 cut(s)	289, 613
SspMI	CTAG	1 cut(s)	120
StyD4I	CCNGG	4 cut(s)	232, 346, 517, 673
TaaI	ACNGT	3 cut(s)	367, 424, 445
TaiI	ACGT	1 cut(s)	601
TasI	AATT	4 cut(s)	329, 465, 503, 535
TatI	WGTACW	1 cut(s)	17
TauI	GCSGC	1 cut(s)	292
TfiI	GAWTC	1 cut(s)	130
TscAI	CASTG	3 cut(s)	100, 195, 693
TseI	GCWGC	4 cut(s)	4, 182, 185, 193
TspDTI	ATGAA	3 cut(s)	402, 576, 646
TspRI	CASTG	3 cut(s)	100, 195, 693
VpaK11BI	GGWCC	1 cut(s)	683
XapI	RAATTY	2 cut(s)	329, 465
XbaI	TCTAGA	1 cut(s)	119
XspI	CTAG	1 cut(s)	120
Zsp2I	ATGCAT	1 cut(s)	663

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