Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0002680

Physical Location & Seq

Genomic Coordinates Forward (+)

9954376 .. 9956039

Gene Structure 1664 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG047400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 573 bp

ATGGGGTCGTCTTCCTCCCAGAGAATCAACATTATTCAGAAACTCGAAGTCGATAACCGTTTTCCTCTGCGTTTGTACTTTCGGATGGCTGATATATTTCTCAGACAGGCTGACATATATCGGGAAGAGAAAGATATTTTTTACCTGTACATTACGCTCCTAAGGTTTGCAAGTTTGGTCTCCGAGACAATACCGGATCATCAAGACTATATAAAGGCTGATCAAAGAGAAAGATCCTCTCAGAAGGAAGTGAAAAAGAAATTGTTGAATGCTCTTGTTGAGCTAGAGGAGTTAGAACCAGCAGTTAAACAGAAGATCAATGAGATAAACAGAGGAAATGCATATCAAAACAGCAGGCATGATCACCAAACTGGGGAAAGTATACCTCGTAGATCTGATAAAAAGAAAGTCGAAAGTGTGGGGACTTGTAGCTCCAGTACTGGTGGAGAGAATTTATCCCCACACCCAACACCAGAGTTTCCCCTTGGTCTCCGTGGTAACAGGAGATTAAAGAAAGGTGATATTAAAGCTCAGAAATGGGGATATATGGACTCAATGATATATGTTCATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0006464 GO:0006508 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0016579 GO:0019538 GO:0036211 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0070536 GO:0070646 GO:0070647 GO:0071108 GO:0071704 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko04144 map04144

Pfam Domains

Protein Families

JAB USP8_dimer

Protein Analysis

190

Amino Acids

22.07

Weight (kDa)

9.34

Isoelectric Point (pI)

47.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
USP8_dimer	PF08969	13 - 99	1e-10	USP8 dimerisation domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0002680)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G23280 AT3G23280 AT4G14365
fragaria_vesca	FvH4_4g03720 FvH4_4g03720 FvH4_4g03730
malus_domestica	MD05G1075400.v1.1 MD13G1214800.v1.1 MD16G1219900.v1.1
prunus_persica	Prupe.1G040200_v2.0.a1 Prupe.1G040200_v2.0.a1
pyrus_communis	pycom13g18820 pycom16g18320
rosa_chinensis	RchiOBHm_Chr4g0393331 RchiOBHm_Chr4g0393371
rosa_laevigata	RLG00000009750 RLG00000009758 RLG00000009759 RLG00000009763
rosa_multiflora	Rmu_sc0008931.1_g000009
rosa_roxburghii	Rroxscaffold_3G00224380 Rroxscaffold_5G00338320 Rroxscaffold_5G00338340 Rroxscaffold_5G00338360 Rroxscaffold_5G00338390
rosa_rugosa	Rorug04G0001300 Rorug04G0001500 Rorug04G0001800
rosa_samantha	Rh4AG046800 Rh4AG047000 Rh4AG047300 Rh4AG047400 Rh4BG042400 Rh4BG042600 Rh4CG049900 Rh4CG050000 Rh4DG044200 Rh5AG327600
rosa_wichuraiana	Rw4G003700 Rw4G003720

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	382
AclWI	GGATC	2 cut(s)	204, 228
AcsI	RAATTY	1 cut(s)	451
AfaI	GTAC	3 cut(s)	77, 149, 439
AfiI	CCNNNNNNNGG	1 cut(s)	373
AgsI	TTSAA	1 cut(s)	268
AluBI	AGCT	3 cut(s)	283, 432, 530
AluI	AGCT	3 cut(s)	283, 432, 530
Alw26I	GTCTC	3 cut(s)	179, 184, 494
AlwI	GGATC	2 cut(s)	204, 228
ApoI	RAATTY	1 cut(s)	451
AsuHPI	GGTGA	2 cut(s)	356, 530
AxyI	CCTNAGG	1 cut(s)	161
BbsI	GAAGAC	1 cut(s)	3
BccI	CCATC	1 cut(s)	79
BclI	TGATCA	2 cut(s)	220, 361
BcoDI	GTCTC	3 cut(s)	179, 184, 494
BfaI	CTAG	1 cut(s)	284
BglII	AGATCT	1 cut(s)	392
BmcAI	AGTACT	1 cut(s)	439
BmrI	ACTGGG	1 cut(s)	381
BmuI	ACTGGG	1 cut(s)	381
BpiI	GAAGAC	1 cut(s)	3
BpmI	CTGGAG	1 cut(s)	418
BsaI	GGTCTC	2 cut(s)	184, 494
BsaJI	CCNNGG	2 cut(s)	484, 493
BsaWI	WCCGGW	1 cut(s)	193
Bsc4I	CCNNNNNNNGG	1 cut(s)	373
Bse1I	ACTGG	3 cut(s)	376, 435, 445
Bse21I	CCTNAGG	1 cut(s)	161
BseDI	CCNNGG	2 cut(s)	484, 493
BseGI	GGATG	1 cut(s)	90
BseLI	CCNNNNNNNGG	1 cut(s)	373
BseMII	CTCAG	3 cut(s)	115, 254, 545
BseNI	ACTGG	3 cut(s)	376, 435, 445
BseRI	GAGGAG	1 cut(s)	302
BsiSI	CCGG	1 cut(s)	194
BslFI	GGGAC	1 cut(s)	436
BslI	CCNNNNNNNGG	1 cut(s)	373
BsmAI	GTCTC	3 cut(s)	179, 184, 494
BsmFI	GGGAC	1 cut(s)	436
BsmI	GAATGC	1 cut(s)	274
Bso31I	GGTCTC	2 cut(s)	184, 494
Bsp1407I	TGTACA	1 cut(s)	147
Bsp143I	GATC	6 cut(s)	196, 220, 233, 315, 361, 392
BspCNI	CTCAG	3 cut(s)	114, 253, 544
BspPI	GGATC	2 cut(s)	204, 228
BspTNI	GGTCTC	2 cut(s)	184, 494
BsrGI	TGTACA	1 cut(s)	147
BsrI	ACTGG	3 cut(s)	376, 435, 445
BssECI	CCNNGG	2 cut(s)	484, 493
BssMI	GATC	6 cut(s)	196, 220, 233, 315, 361, 392
BssNAI	GTATAC	1 cut(s)	383
BssT1I	CCWWGG	1 cut(s)	484
Bst1107I	GTATAC	1 cut(s)	383
Bst4CI	ACNGT	1 cut(s)	59
Bst6I	CTCTTC	1 cut(s)	120
BstAUI	TGTACA	1 cut(s)	147
BstC8I	GCNNGC	1 cut(s)	356
BstDEI	CTNAG	4 cut(s)	101, 161, 240, 531
BstDSI	CCRYGG	1 cut(s)	493
BstF5I	GGATG	1 cut(s)	90
BstKTI	GATC	6 cut(s)	199, 223, 236, 318, 364, 395
BstMAI	GTCTC	3 cut(s)	179, 184, 494
BstMBI	GATC	6 cut(s)	196, 220, 233, 315, 361, 392
BstV2I	GAAGAC	1 cut(s)	3
BstX2I	RGATCY	2 cut(s)	233, 392
BstYI	RGATCY	2 cut(s)	233, 392
BstZ17I	GTATAC	1 cut(s)	383
Bsu36I	CCTNAGG	1 cut(s)	161
BtgI	CCRYGG	1 cut(s)	493
BtsCI	GGATG	1 cut(s)	90
Cac8I	GCNNGC	1 cut(s)	356
Csp6I	GTAC	3 cut(s)	76, 148, 438
CviAII	CATG	1 cut(s)	359
CviJI	RGCY	6 cut(s)	89, 110, 218, 283, 432, 530
CviKI_1	RGCY	6 cut(s)	89, 110, 218, 283, 432, 530
CviQI	GTAC	3 cut(s)	76, 148, 438
DdeI	CTNAG	4 cut(s)	101, 161, 240, 531
DpnI	GATC	6 cut(s)	198, 222, 235, 317, 363, 394
DpnII	GATC	6 cut(s)	196, 220, 233, 315, 361, 392
Eam1104I	CTCTTC	1 cut(s)	120
EarI	CTCTTC	1 cut(s)	120
Eco130I	CCWWGG	1 cut(s)	484
Eco31I	GGTCTC	2 cut(s)	184, 494
Eco81I	CCTNAGG	1 cut(s)	161
EcoT14I	CCWWGG	1 cut(s)	484
EcoT22I	ATGCAT	1 cut(s)	343
ErhI	CCWWGG	1 cut(s)	484
FaeI	CATG	1 cut(s)	362
FaqI	GGGAC	1 cut(s)	436
FatI	CATG	1 cut(s)	358
FbaI	TGATCA	2 cut(s)	220, 361
FblI	GTMKAC	1 cut(s)	382
FokI	GGATG	1 cut(s)	97
FspBI	CTAG	1 cut(s)	284
GsuI	CTGGAG	1 cut(s)	418
HapII	CCGG	1 cut(s)	194
Hin1II	CATG	1 cut(s)	362
HinfI	GANTC	2 cut(s)	24, 551
HpaII	CCGG	1 cut(s)	194
HphI	GGTGA	2 cut(s)	356, 530
Hpy166II	GTNNAC	1 cut(s)	383
Hpy188I	TCNGA	7 cut(s)	39, 84, 104, 184, 243, 397, 534
Hpy188III	TCNNGA	2 cut(s)	122, 203
Hpy8I	GTNNAC	1 cut(s)	383
HpyAV	CCTTC	1 cut(s)	238
HpyCH4III	ACNGT	1 cut(s)	59
HpyCH4V	TGCA	2 cut(s)	170, 341
HpyF3I	CTNAG	4 cut(s)	101, 161, 240, 531
Hsp92II	CATG	1 cut(s)	362
Ksp22I	TGATCA	2 cut(s)	220, 361
Kzo9I	GATC	6 cut(s)	196, 220, 233, 315, 361, 392
LmnI	GCTCC	2 cut(s)	162, 437
MaeI	CTAG	1 cut(s)	284
MaeIII	GTNAC	1 cut(s)	497
MalI	GATC	6 cut(s)	198, 222, 235, 317, 363, 394
MboI	GATC	6 cut(s)	196, 220, 233, 315, 361, 392
MboII	GAAGA	3 cut(s)	3, 137, 325
MflI	RGATCY	2 cut(s)	233, 392
MluCI	AATT	2 cut(s)	260, 451
MlyI	GAGTC	1 cut(s)	545
MnlI	CCTC	6 cut(s)	25, 75, 247, 280, 326, 396
Mph1103I	ATGCAT	1 cut(s)	343
MseI	TTAA	3 cut(s)	306, 509, 525
MspI	CCGG	1 cut(s)	194
Mva1269I	GAATGC	1 cut(s)	274
NdeII	GATC	6 cut(s)	196, 220, 233, 315, 361, 392
NlaIII	CATG	1 cut(s)	362
NsiI	ATGCAT	1 cut(s)	343
PctI	GAATGC	1 cut(s)	274
PfeI	GAWTC	1 cut(s)	24
PleI	GAGTC	1 cut(s)	545
PpsI	GAGTC	1 cut(s)	545
PsuI	RGATCY	2 cut(s)	233, 392
RsaI	GTAC	3 cut(s)	77, 149, 439
RsaNI	GTAC	3 cut(s)	76, 148, 438
SaqAI	TTAA	3 cut(s)	306, 509, 525
Sau3AI	GATC	6 cut(s)	196, 220, 233, 315, 361, 392
ScaI	AGTACT	1 cut(s)	439
SchI	GAGTC	1 cut(s)	545
SetI	ASST	7 cut(s)	147, 167, 285, 388, 434, 520, 532
Sse9I	AATT	2 cut(s)	260, 451
SspMI	CTAG	1 cut(s)	284
StyI	CCWWGG	1 cut(s)	484
TaaI	ACNGT	1 cut(s)	59
TaqI	TCGA	3 cut(s)	45, 51, 411
TasI	AATT	2 cut(s)	260, 451
TatI	WGTACW	3 cut(s)	75, 147, 437
TfiI	GAWTC	1 cut(s)	24
Tru1I	TTAA	3 cut(s)	306, 509, 525
Tru9I	TTAA	3 cut(s)	306, 509, 525
TspDTI	ATGAA	1 cut(s)	557
TspGWI	ACGGA	1 cut(s)	482
XapI	RAATTY	1 cut(s)	451
XmiI	GTMKAC	1 cut(s)	382
XspI	CTAG	1 cut(s)	284
ZrmI	AGTACT	1 cut(s)	439
Zsp2I	ATGCAT	1 cut(s)	343

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