Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0002680

Physical Location & Seq

Genomic Coordinates Reverse (-)

57415363 .. 57419889

Gene Structure 4527 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000009758

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1011 bp

ATGGGGTCGTCTTCCTCCCAGAGAATCAACATTATTCAGAAATTCGAAGTCGATAACCGTTTTCCTCTGCGTTTTTACTTTCGGATGGCTGATATATTTCTCAGACAGGCTGACATATATCGGGAAGAGAAAGATATTTTTTACCTGTACATTACGCTCCTAAGGTTTGCAAGTTTGGTCTCCGAGACAATACCGGATCATCAAGACTATATAAGGGCTGATCAAAGAGAAAGATCCTATCAGAAGGAAGTGAAAAAGAAATTGTTGAATGCTCTTGCTGAGCTAGAGGAGTTAAAACCAGCAGTTAAACAGAAGATCAATGAGATAAACAGAGGAAATGCATATCAAAACAGCAGGCATGATCACCAAACTGGGGAAAGTATACCTCGTAGATCTGATAAAAAGAAAGTCGAAAGTGTGGGGACTTGTAGCTCCAGTATTGGTGGAGAGAATTTATCCCTACACCCAACACCAGAGTTTCCCTTTGGTCTCCGTGGTAACAAGAGATTAAAGAAAGAGACACGAACAAAAATTTTACTTGAAGAGGCACATGATTGGAAGTTTACCACTCCATGCAAGCCAATACAACAGGCGCGTCCTGTAATTAACCAGCCAACTGCACCACGAGTTGAAGAAGATTTAGAGCTGGTCAAGGCTATTGATGCCTCCATCCAGTCTGCTTTGCAGGAGAGGCCGCCCTTGTCTGATGCACTCCAAATCCATGAAACAAATGCATCAAGTAGTTCGAGTACCTCCATGGATAGTGGAGACTTGTCACAGTGTGAAAGTGTCCCAGGAGGGGATTCAGATTCACATGCAGAGATCCATGAAGGTGAAAATGCTTCTTCTTCATGTGTGATATGTATGGATGCTCCAGTTGAAGGAGCTTTTATCCCATGTGGGCATATGGCTGGATGTATGGCTTGTTTGAATGACATTAAAGATAAGAACTGGGATTGCCCTGTCTGCCGCGCTAAGGTCAATCAGGTCATAAAGCTCTACGTCGTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko04144 map04144

Pfam Domains

Protein Families

JAB USP8_dimer

Protein Analysis

337

Amino Acids

37.86

Weight (kDa)

6.18

Isoelectric Point (pI)

51.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
USP8_dimer	PF08969	13 - 102	6.1e-10	USP8 dimerisation domain
zf-C3HC4_3	PF13920	283 - 330	1.6e-14	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	284 - 324	1e-05	Ring finger domain

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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
AccII	CGCG	2 cut(s)	595, 972
AciI	CCGC	2 cut(s)	695, 970
AclWI	GGATC	3 cut(s)	204, 228, 817
AcsI	RAATTY	3 cut(s)	41, 451, 531
AdeI	CACNNNGTG	1 cut(s)	782
AfaI	GTAC	2 cut(s)	149, 751
AfiI	CCNNNNNNNGG	4 cut(s)	373, 799, 881, 976
AgsI	TTSAA	5 cut(s)	268, 542, 632, 881, 931
AjnI	CCWGG	1 cut(s)	793
AluBI	AGCT	5 cut(s)	283, 432, 646, 887, 997
AluI	AGCT	5 cut(s)	283, 432, 646, 887, 997
Alw26I	GTCTC	5 cut(s)	179, 184, 494, 512, 762
AlwI	GGATC	3 cut(s)	204, 228, 817
AoxI	GGCC	1 cut(s)	692
ApoI	RAATTY	3 cut(s)	41, 451, 531
AspLEI	GCGC	2 cut(s)	595, 974
AsuHPI	GGTGA	2 cut(s)	356, 845
AsuII	TTCGAA	1 cut(s)	45
AxyI	CCTNAGG	1 cut(s)	161
BauI	CACGAG	1 cut(s)	624
BbsI	GAAGAC	1 cut(s)	3
BccI	CCATC	2 cut(s)	79, 677
BciT130I	CCWGG	1 cut(s)	795
BclI	TGATCA	2 cut(s)	220, 361
BcoDI	GTCTC	5 cut(s)	179, 184, 494, 512, 762
BfaI	CTAG	1 cut(s)	284
BglII	AGATCT	1 cut(s)	392
BisI	GCNGC	2 cut(s)	695, 970
BlpI	GCTNAGC	1 cut(s)	279
BlsI	GCNGC	2 cut(s)	696, 971
Bme1390I	CCNGG	1 cut(s)	795
BmrFI	CCNGG	1 cut(s)	795
BmrI	ACTGGG	2 cut(s)	381, 961
BmsI	GCATC	4 cut(s)	652, 697, 743, 859
BmuI	ACTGGG	2 cut(s)	381, 961
BpiI	GAAGAC	1 cut(s)	3
BpmI	CTGGAG	2 cut(s)	418, 858
Bpu10I	CCTNAGC	1 cut(s)	975
Bpu1102I	GCTNAGC	1 cut(s)	279
Bpu14I	TTCGAA	1 cut(s)	45
BsaI	GGTCTC	2 cut(s)	184, 494
BsaJI	CCNNGG	3 cut(s)	493, 756, 793
BsaWI	WCCGGW	1 cut(s)	193
Bsc4I	CCNNNNNNNGG	4 cut(s)	373, 799, 881, 976
Bse1I	ACTGG	5 cut(s)	376, 435, 673, 875, 956
Bse21I	CCTNAGG	1 cut(s)	161
BseBI	CCWGG	1 cut(s)	795
BseDI	CCNNGG	3 cut(s)	493, 756, 793
BseGI	GGATG	4 cut(s)	90, 669, 874, 920
BseLI	CCNNNNNNNGG	4 cut(s)	373, 799, 881, 976
BseMII	CTCAG	2 cut(s)	115, 270
BseNI	ACTGG	5 cut(s)	376, 435, 673, 875, 956
BseRI	GAGGAG	1 cut(s)	302
BsgI	GTGCAG	1 cut(s)	603
Bsh1236I	CGCG	2 cut(s)	595, 972
BshFI	GGCC	1 cut(s)	694
BsiSI	CCGG	1 cut(s)	194
BslFI	GGGAC	2 cut(s)	436, 776
BslI	CCNNNNNNNGG	4 cut(s)	373, 799, 881, 976
BsmAI	GTCTC	5 cut(s)	179, 184, 494, 512, 762
BsmFI	GGGAC	2 cut(s)	436, 776
BsmI	GAATGC	1 cut(s)	274
BsnI	GGCC	1 cut(s)	694
Bso31I	GGTCTC	2 cut(s)	184, 494
Bsp119I	TTCGAA	1 cut(s)	45
Bsp1407I	TGTACA	1 cut(s)	147
Bsp143I	GATC	7 cut(s)	196, 220, 233, 315, 361, 392, 822
Bsp1720I	GCTNAGC	1 cut(s)	279
Bsp19I	CCATGG	1 cut(s)	756
BspACI	CCGC	2 cut(s)	695, 970
BspANI	GGCC	1 cut(s)	694
BspCNI	CTCAG	2 cut(s)	114, 271
BspFNI	CGCG	2 cut(s)	595, 972
BspPI	GGATC	3 cut(s)	204, 228, 817
BspT104I	TTCGAA	1 cut(s)	45
BspTNI	GGTCTC	2 cut(s)	184, 494
BsrGI	TGTACA	1 cut(s)	147
BsrI	ACTGG	5 cut(s)	376, 435, 673, 875, 956
BssECI	CCNNGG	3 cut(s)	493, 756, 793
BssMI	GATC	7 cut(s)	196, 220, 233, 315, 361, 392, 822
BssNAI	GTATAC	1 cut(s)	383
BssSI	CACGAG	1 cut(s)	624
BssT1I	CCWWGG	1 cut(s)	756
Bst1107I	GTATAC	1 cut(s)	383
Bst2BI	CACGAG	1 cut(s)	624
Bst2UI	CCWGG	1 cut(s)	795
Bst4CI	ACNGT	2 cut(s)	59, 780
Bst6I	CTCTTC	2 cut(s)	120, 537
BstAUI	TGTACA	1 cut(s)	147
BstBI	TTCGAA	1 cut(s)	45
BstC8I	GCNNGC	2 cut(s)	356, 578
BstDEI	CTNAG	4 cut(s)	101, 161, 279, 975
BstDSI	CCRYGG	2 cut(s)	493, 756
BstF5I	GGATG	4 cut(s)	90, 669, 874, 920
BstFNI	CGCG	2 cut(s)	595, 972
BstHHI	GCGC	2 cut(s)	595, 974
BstKTI	GATC	7 cut(s)	199, 223, 236, 318, 364, 395, 825
BstMAI	GTCTC	5 cut(s)	179, 184, 494, 512, 762
BstMBI	GATC	7 cut(s)	196, 220, 233, 315, 361, 392, 822
BstMWI	GCNNNNNNNGC	3 cut(s)	662, 691, 966
BstNI	CCWGG	1 cut(s)	795
BstNSI	RCATGY	1 cut(s)	818
BstSCI	CCNGG	1 cut(s)	793
BstUI	CGCG	2 cut(s)	595, 972
BstV2I	GAAGAC	1 cut(s)	3
BstX2I	RGATCY	3 cut(s)	233, 392, 822
BstYI	RGATCY	3 cut(s)	233, 392, 822
BstZ17I	GTATAC	1 cut(s)	383
Bsu36I	CCTNAGG	1 cut(s)	161
BsuRI	GGCC	1 cut(s)	694
BtgI	CCRYGG	2 cut(s)	493, 756
BtsCI	GGATG	4 cut(s)	90, 669, 874, 920
BtsIMutI	CAGTG	1 cut(s)	785
Cac8I	GCNNGC	2 cut(s)	356, 578
CfoI	GCGC	2 cut(s)	595, 974
CseI	GACGC	1 cut(s)	584
Csp6I	GTAC	2 cut(s)	148, 750
CviAII	CATG	9 cut(s)	359, 551, 573, 722, 757, 815, 827, 852, 897
CviQI	GTAC	2 cut(s)	148, 750
DdeI	CTNAG	4 cut(s)	101, 161, 279, 975
DpnI	GATC	7 cut(s)	198, 222, 235, 317, 363, 394, 824
DpnII	GATC	7 cut(s)	196, 220, 233, 315, 361, 392, 822
DraIII	CACNNNGTG	1 cut(s)	782
Eam1104I	CTCTTC	2 cut(s)	120, 537
EarI	CTCTTC	2 cut(s)	120, 537
Eco130I	CCWWGG	1 cut(s)	756
Eco31I	GGTCTC	2 cut(s)	184, 494
Eco81I	CCTNAGG	1 cut(s)	161
EcoRII	CCWGG	1 cut(s)	793
EcoT14I	CCWWGG	1 cut(s)	756
EcoT22I	ATGCAT	2 cut(s)	343, 736
ErhI	CCWWGG	1 cut(s)	756
FaeI	CATG	9 cut(s)	362, 554, 576, 725, 760, 818, 830, 855, 900
FaqI	GGGAC	2 cut(s)	436, 776
FatI	CATG	9 cut(s)	358, 550, 572, 721, 756, 814, 826, 851, 896
FauNDI	CATATG	1 cut(s)	906
FbaI	TGATCA	2 cut(s)	220, 361
FblI	GTMKAC	1 cut(s)	382
Fnu4HI	GCNGC	2 cut(s)	695, 970
FokI	GGATG	4 cut(s)	97, 656, 881, 927
Fsp4HI	GCNGC	2 cut(s)	695, 970
FspBI	CTAG	1 cut(s)	284
GlaI	GCGC	2 cut(s)	594, 973
GluI	GCNGC	2 cut(s)	695, 970
GsuI	CTGGAG	2 cut(s)	418, 858
HaeIII	GGCC	1 cut(s)	694
HapII	CCGG	1 cut(s)	194
HgaI	GACGC	1 cut(s)	584
HhaI	GCGC	2 cut(s)	595, 974
Hin1II	CATG	9 cut(s)	362, 554, 576, 725, 760, 818, 830, 855, 900
Hin6I	GCGC	2 cut(s)	593, 972
HinP1I	GCGC	2 cut(s)	593, 972
HinfI	GANTC	3 cut(s)	24, 803, 809
HpaII	CCGG	1 cut(s)	194
HphI	GGTGA	2 cut(s)	356, 845
Hpy166II	GTNNAC	2 cut(s)	383, 564
Hpy188I	TCNGA	8 cut(s)	39, 84, 104, 184, 243, 397, 706, 808
Hpy188III	TCNNGA	2 cut(s)	122, 203
Hpy8I	GTNNAC	2 cut(s)	383, 564
Hpy99I	CGWCG	1 cut(s)	1007
HpyAV	CCTTC	3 cut(s)	238, 824, 875
HpyCH4III	ACNGT	2 cut(s)	59, 780
HpyCH4IV	ACGT	1 cut(s)	1002
HpyCH4V	TGCA	8 cut(s)	170, 341, 576, 620, 685, 710, 734, 818
HpyF10VI	GCNNNNNNNGC	3 cut(s)	662, 691, 966
HpyF3I	CTNAG	4 cut(s)	101, 161, 279, 975
HpySE526I	ACGT	1 cut(s)	1002
Hsp92II	CATG	9 cut(s)	362, 554, 576, 725, 760, 818, 830, 855, 900
HspAI	GCGC	2 cut(s)	593, 972
Ksp22I	TGATCA	2 cut(s)	220, 361
Kzo9I	GATC	7 cut(s)	196, 220, 233, 315, 361, 392, 822
LmnI	GCTCC	4 cut(s)	162, 437, 877, 884
LweI	GCATC	4 cut(s)	652, 697, 743, 859
MaeI	CTAG	1 cut(s)	284
MaeII	ACGT	1 cut(s)	1002
MaeIII	GTNAC	2 cut(s)	497, 774
MalI	GATC	7 cut(s)	198, 222, 235, 317, 363, 394, 824
MboI	GATC	7 cut(s)	196, 220, 233, 315, 361, 392, 822
MboII	GAAGA	8 cut(s)	3, 137, 325, 554, 644, 647, 837, 840
MflI	RGATCY	3 cut(s)	233, 392, 822
MluCI	AATT	5 cut(s)	41, 260, 451, 531, 603
Mph1103I	ATGCAT	2 cut(s)	343, 736
MseI	TTAA	5 cut(s)	293, 306, 509, 606, 939
MslI	CAYNNNNRTG	1 cut(s)	831
MspI	CCGG	1 cut(s)	194
MspR9I	CCNGG	1 cut(s)	795
Mva1269I	GAATGC	1 cut(s)	274
MvaI	CCWGG	1 cut(s)	795
MvnI	CGCG	2 cut(s)	595, 972
MwoI	GCNNNNNNNGC	3 cut(s)	662, 691, 966
NcoI	CCATGG	1 cut(s)	756
NdeI	CATATG	1 cut(s)	906
NdeII	GATC	7 cut(s)	196, 220, 233, 315, 361, 392, 822
NlaIII	CATG	9 cut(s)	362, 554, 576, 725, 760, 818, 830, 855, 900
NmuCI	GTSAC	1 cut(s)	774
NsiI	ATGCAT	2 cut(s)	343, 736
NspI	RCATGY	1 cut(s)	818
NspV	TTCGAA	1 cut(s)	45
PctI	GAATGC	1 cut(s)	274
PfeI	GAWTC	3 cut(s)	24, 803, 809
PkrI	GCNGC	2 cut(s)	696, 971
Psp6I	CCWGG	1 cut(s)	793
PspGI	CCWGG	1 cut(s)	793
PsuI	RGATCY	3 cut(s)	233, 392, 822
RsaI	GTAC	2 cut(s)	149, 751
RsaNI	GTAC	2 cut(s)	148, 750
RseI	CAYNNNNRTG	1 cut(s)	831
SaqAI	TTAA	5 cut(s)	293, 306, 509, 606, 939
SatI	GCNGC	2 cut(s)	695, 970
Sau3AI	GATC	7 cut(s)	196, 220, 233, 315, 361, 392, 822
ScrFI	CCNGG	1 cut(s)	795
SfaNI	GCATC	4 cut(s)	652, 697, 743, 859
SfuI	TTCGAA	1 cut(s)	45
SmiMI	CAYNNNNRTG	1 cut(s)	831
Sse9I	AATT	5 cut(s)	41, 260, 451, 531, 603
SsiI	CCGC	2 cut(s)	695, 970
SspMI	CTAG	1 cut(s)	284
StyD4I	CCNGG	1 cut(s)	793
StyI	CCWWGG	1 cut(s)	756
TaaI	ACNGT	2 cut(s)	59, 780
TaiI	ACGT	1 cut(s)	1005
TaqI	TCGA	4 cut(s)	45, 51, 411, 746
TasI	AATT	5 cut(s)	41, 260, 451, 531, 603
TatI	WGTACW	1 cut(s)	147
TauI	GCSGC	2 cut(s)	697, 972
TfiI	GAWTC	3 cut(s)	24, 803, 809
Tru1I	TTAA	5 cut(s)	293, 306, 509, 606, 939
Tru9I	TTAA	5 cut(s)	293, 306, 509, 606, 939
TscAI	CASTG	1 cut(s)	785
TseFI	GTSAC	1 cut(s)	774
Tsp45I	GTSAC	1 cut(s)	774
TspDTI	ATGAA	3 cut(s)	738, 840, 843
TspGWI	ACGGA	1 cut(s)	482
TspRI	CASTG	1 cut(s)	785
XapI	RAATTY	3 cut(s)	41, 451, 531
XceI	RCATGY	1 cut(s)	818
XmiI	GTMKAC	1 cut(s)	382
XspI	CTAG	1 cut(s)	284
Zsp2I	ATGCAT	2 cut(s)	343, 736

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