Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0007165

Physical Location & Seq

Genomic Coordinates Reverse (-)

63477494 .. 63482542

Gene Structure 5049 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000004893

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1575 bp

ATGAGGTCGTCGTCGTCGTCGTCGTCGTCTTACTCGGATAGAATAGACATTGCCGCCAACGCTCAGAGGCTCGATGTCGACCATCGGATTTCGCTGCGTATCTACTTTCGGATCGCTAACACTCTTCTCAAACAGGCTGATATATTTCGACAAGAGAGGAATATTATAGACCTTTATGTCATGCTCCTAAGATTTTCAAGTTTGGCCTCCGAGACAATACCGTGTCATCGAGACTATAGAGCATCTGTTCAAAGAGAAAAGGATGTTTTGAAAGTGAAATTGTTGAATGCTCTCTGTGAACTGGAGAAATTAAAGCCAGCAGTGAAACAGAAGAATGATGAGTTTAACAGGAGAAATGCATATCAAAACAACGGTTGGGGCCATAATCATCAAATTCAAGCTCCTCCGAAGATGCAGAATTTGATTAGTTATGACATAAACAAGGTACTGTTGGTACTTCATCATATTGAATCTACTTATATGTTTATGTGCTTTATTGATTGCTTTTTGGAACTGCAACCTCAAAATTTTAGGACTCAGTTTTCATATGCCAGGCCCATGGAGGAGCAATTTCGCAAACTATCCATAAATCTTCGGCCTCCAAAGGAGGATACTCTTTCCAAACATTCAATTTTGGGCCCGAATGGGCTTCATGGGCAGTGGCAGCCACCTAAAATTGATATAGGGGTTCAATATCCAAGCATTGTAGACTTGACTCCTTTTGAAATCCCAAGTCTGGAACAGTCCATAGAAGGCAAAAATGCGACTTTAAGCAATTCGGAACATGAAAGACCAAGTTTAGAACCGATTCCTACCCAGAGCAGTAACGATGGTCAGATAACTCGTACTGAGGAACCTTCCCTTATTTCCTTCGAATCAATAGAACCTCCTGAACATACACAACTTATCAGACAGCCTTCTCCTCCACCTGTACTTGCTGAAGTGCAAGATTTGATCCCAGCAATTTCACCCCAAGTCTCTGCGGTAGAAAGTGAATTGGAGACTCTCTCATCAGATGAATTTCTTCCTGCTGAATCTCCCCTGCAATTGCACATTTCAACAACGATGATGGATCATTTCTTGAAGTTAGCAAAGTCAAATACTAAAAAGGACTTAGAAACTTGTGGGATTCTAGCTGGTTCACTTAAAAACAGGAAGTTTTATGTTACAGCTCTCATCATACCAAAGCAAGAGTCAACGGCAAATTCTTGCCAAGCCACGCATGAAGAGGAGATATTTGAAGTTCAGGACAAACGATCTCTCTTCCCTCTTGGCTGGATACATACTCATCCTACACAGTCTTGTTTCATGTCGTCGATTGATGTTCACACGCATTATTCTTATCAGATTATGTTGCCCGAAGCTGTTGCAATTGTCATGGCACCAAGAGATAGTACAAGAACCCATGGCATTTTCCGATTGACAACCCCAGGTGGCATGTCAGTCATTAGAAAGTGCCCCCAGCGTGGTTTTCATTCACATGATCAGCCACCAGATGGTGGGCCAATTTACAACACCTGTACAGATGTTTATATGAGCCCTAATCTTAAATTTGACGTCATCGATCTTCGATAA

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

525

Amino Acids

59.66

Weight (kDa)

6.21

Isoelectric Point (pI)

59.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
USP8_dimer	PF08969	16 - 110	3.9e-12	USP8 dimerisation domain
JAB	PF01398	346 - 454	1.8e-18	JAB1/Mov34/MPN/PAD-1 ubiquitin protease
Prok-JAB	PF14464	365 - 447	2.9e-07	Prokaryotic homologs of the JAB 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: OG0007165)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G48790
fragaria_vesca	FvH4_5g11880 FvH4_5g11880 FvH4_5g11880 FvH4_5g11880 FvH4_5g11880 FvH4_5g11880
malus_domestica	MD06G1217700.v1.1 MD14G1227900.v1.1
prunus_persica	Prupe.5G222900_v2.0.a1
pyrus_communis	pycom06g19390 pycom14g18930
rosa_chinensis	RchiOBHm_Chr7g0185701
rosa_laevigata	RLG00000004893
rosa_multiflora	Rmu_sc0004909.1_g000002 Rmu_sc0008747.1_g000004 Rmu_sc0023648.1_g000001
rosa_roxburghii	Rroxscaffold_3G00268720
rosa_rugosa	Rorug06G0470600 Rorug06G0470700
rosa_samantha	Rh7AG071800 Rh7BG076100 Rh7CG076100 Rh7DG076100
rosa_wichuraiana	Rw7G006340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	176
AatII	GACGTC	1 cut(s)	1560
AccB1I	GGYRCC	1 cut(s)	1381
AccB7I	CCANNNNNTGG	2 cut(s)	1496, 1499
AccI	GTMKAC	2 cut(s)	78, 708
AciI	CCGC	2 cut(s)	54, 983
AclWI	GGATC	3 cut(s)	119, 949, 1080
AcsI	RAATTY	6 cut(s)	393, 418, 526, 1019, 1204, 1550
AcuI	CTGAAG	1 cut(s)	960
AcyI	GRCGYC	1 cut(s)	1557
AfaI	GTAC	6 cut(s)	447, 456, 847, 933, 1396, 1522
AfiI	CCNNNNNNNGG	4 cut(s)	736, 1466, 1496, 1499
AjnI	CCWGG	2 cut(s)	551, 1429
AluBI	AGCT	4 cut(s)	401, 1136, 1172, 1364
AluI	AGCT	4 cut(s)	401, 1136, 1172, 1364
Alw26I	GTCTC	4 cut(s)	206, 225, 982, 995
AlwI	GGATC	3 cut(s)	119, 949, 1080
AoxI	GGCC	6 cut(s)	204, 379, 554, 596, 637, 1502
ApaI	GGGCCC	1 cut(s)	641
ApeKI	GCWGC	2 cut(s)	94, 664
ApoI	RAATTY	6 cut(s)	393, 418, 526, 1019, 1204, 1550
ArsI	GACNNNNNNTTYG	2 cut(s)	1178, 1210
Asp700I	GAANNNNTTC	2 cut(s)	807, 1023
AspS9I	GGNCC	5 cut(s)	379, 555, 637, 638, 1502
AsuHPI	GGTGA	1 cut(s)	960
AsuII	TTCGAA	1 cut(s)	873
BaeGI	GKGCMC	2 cut(s)	641, 1460
BanI	GGYRCC	1 cut(s)	1381
BanII	GRGCYC	2 cut(s)	641, 1541
BbvI	GCAGC	2 cut(s)	81, 676
BccI	CCATC	4 cut(s)	90, 824, 1063, 1490
BceAI	ACGGC	1 cut(s)	1215
BcgI	CGANNNNNNTGC	2 cut(s)	1349, 1383
BciT130I	CCWGG	2 cut(s)	553, 1431
BciVI	GTATCC	2 cut(s)	604, 1272
BclI	TGATCA	1 cut(s)	1483
BcoDI	GTCTC	4 cut(s)	206, 225, 982, 995
BfaI	CTAG	1 cut(s)	1133
BfmI	CTRYAG	1 cut(s)	235
BfuI	GTATCC	2 cut(s)	604, 1272
BisI	GCNGC	3 cut(s)	54, 95, 665
BlsI	GCNGC	3 cut(s)	55, 96, 666
Bme1390I	CCNGG	2 cut(s)	553, 1431
BmgT120I	GGNCC	5 cut(s)	379, 555, 637, 638, 1502
BmiI	GGNNCC	4 cut(s)	380, 639, 855, 1383
BmrFI	CCNGG	2 cut(s)	553, 1431
BmsI	GCATC	2 cut(s)	251, 402
BplI	GAGNNNNNCTC	2 cut(s)	992, 1024
BpmI	CTGGAG	1 cut(s)	323
Bpu14I	TTCGAA	1 cut(s)	873
Bsa29I	ATCGAT	1 cut(s)	1563
BsaHI	GRCGYC	1 cut(s)	1557
BsaJI	CCNNGG	3 cut(s)	558, 1405, 1429
Bsc4I	CCNNNNNNNGG	4 cut(s)	736, 1466, 1496, 1499
Bse1I	ACTGG	1 cut(s)	306
Bse3DI	GCAATG	1 cut(s)	48
BseBI	CCWGG	2 cut(s)	553, 1431
BseCI	ATCGAT	1 cut(s)	1563
BseDI	CCNNGG	3 cut(s)	558, 1405, 1429
BseGI	GGATG	2 cut(s)	268, 1288
BseLI	CCNNNNNNNGG	4 cut(s)	736, 1466, 1496, 1499
BseMI	GCAATG	1 cut(s)	48
BseMII	CTCAG	3 cut(s)	77, 551, 840
BseNI	ACTGG	1 cut(s)	306
BseRI	GAGGAG	4 cut(s)	393, 578, 912, 1244
BseSI	GKGCMC	2 cut(s)	641, 1460
BseXI	GCAGC	2 cut(s)	81, 676
BseYI	CCCAGC	2 cut(s)	958, 1461
BshFI	GGCC	6 cut(s)	206, 381, 556, 598, 639, 1504
BshNI	GGYRCC	1 cut(s)	1381
BshVI	ATCGAT	1 cut(s)	1563
BslI	CCNNNNNNNGG	4 cut(s)	736, 1466, 1496, 1499
BsmAI	GTCTC	4 cut(s)	206, 225, 982, 995
BsmI	GAATGC	1 cut(s)	292
BsnI	GGCC	6 cut(s)	206, 381, 556, 598, 639, 1504
Bsp119I	TTCGAA	1 cut(s)	873
Bsp120I	GGGCCC	1 cut(s)	637
Bsp1286I	GDGCHC	3 cut(s)	641, 1460, 1541
Bsp1407I	TGTACA	1 cut(s)	1520
Bsp143I	GATC	6 cut(s)	111, 954, 1072, 1256, 1483, 1564
Bsp19I	CCATGG	2 cut(s)	558, 1405
BspACI	CCGC	2 cut(s)	54, 983
BspANI	GGCC	6 cut(s)	206, 381, 556, 598, 639, 1504
BspCNI	CTCAG	3 cut(s)	76, 550, 841
BspDI	ATCGAT	1 cut(s)	1563
BspLI	GGNNCC	4 cut(s)	380, 639, 855, 1383
BspPI	GGATC	3 cut(s)	119, 949, 1080
BspT104I	TTCGAA	1 cut(s)	873
BspT107I	GGYRCC	1 cut(s)	1381
BsrDI	GCAATG	1 cut(s)	48
BsrGI	TGTACA	1 cut(s)	1520
BsrI	ACTGG	1 cut(s)	306
BssECI	CCNNGG	3 cut(s)	558, 1405, 1429
BssMI	GATC	6 cut(s)	111, 954, 1072, 1256, 1483, 1564
BssNI	GRCGYC	1 cut(s)	1557
BssT1I	CCWWGG	2 cut(s)	558, 1405
Bst2UI	CCWGG	2 cut(s)	553, 1431
Bst4CI	ACNGT	5 cut(s)	222, 374, 450, 744, 1299
Bst6I	CTCTTC	3 cut(s)	129, 1221, 1268
BstACI	GRCGYC	1 cut(s)	1557
BstAUI	TGTACA	1 cut(s)	1520
BstBI	TTCGAA	1 cut(s)	873
BstC8I	GCNNGC	1 cut(s)	318
BstDEI	CTNAG	5 cut(s)	63, 188, 537, 849, 1114
BstDSI	CCRYGG	2 cut(s)	558, 1405
BstF5I	GGATG	2 cut(s)	268, 1288
BstKTI	GATC	6 cut(s)	114, 957, 1075, 1259, 1486, 1567
BstMAI	GTCTC	4 cut(s)	206, 225, 982, 995
BstMBI	GATC	6 cut(s)	111, 954, 1072, 1256, 1483, 1564
BstMWI	GCNNNNNNNGC	3 cut(s)	59, 655, 664
BstNI	CCWGG	2 cut(s)	553, 1431
BstNSI	RCATGY	1 cut(s)	1441
BstSCI	CCNGG	2 cut(s)	551, 1429
BstSFI	CTRYAG	1 cut(s)	235
BstSLI	GKGCMC	2 cut(s)	641, 1460
BstV1I	GCAGC	2 cut(s)	81, 676
BstXI	CCANNNNNNTGG	1 cut(s)	559
Bsu15I	ATCGAT	1 cut(s)	1563
BsuI	GTATCC	2 cut(s)	604, 1272
BsuRI	GGCC	6 cut(s)	206, 381, 556, 598, 639, 1504
BsuTUI	ATCGAT	1 cut(s)	1563
BtgI	CCRYGG	2 cut(s)	558, 1405
BtsCI	GGATG	2 cut(s)	268, 1288
BtsI	GCAGTG	2 cut(s)	327, 665
BtsIMutI	CAGTG	2 cut(s)	327, 665
Cac8I	GCNNGC	1 cut(s)	318
Cfr13I	GGNCC	5 cut(s)	379, 555, 637, 638, 1502
ClaI	ATCGAT	1 cut(s)	1563
Csp6I	GTAC	6 cut(s)	446, 455, 846, 932, 1395, 1521
CviQI	GTAC	6 cut(s)	446, 455, 846, 932, 1395, 1521
DdeI	CTNAG	5 cut(s)	63, 188, 537, 849, 1114
DpnI	GATC	6 cut(s)	113, 956, 1074, 1258, 1485, 1566
DpnII	GATC	6 cut(s)	111, 954, 1072, 1256, 1483, 1564
DrdI	GACNNNNNNGTC	1 cut(s)	176
DseDI	GACNNNNNNGTC	1 cut(s)	176
Eam1104I	CTCTTC	3 cut(s)	129, 1221, 1268
EarI	CTCTTC	3 cut(s)	129, 1221, 1268
Eco130I	CCWWGG	2 cut(s)	558, 1405
Eco24I	GRGCYC	2 cut(s)	641, 1541
Eco57I	CTGAAG	1 cut(s)	960
EcoRII	CCWGG	2 cut(s)	551, 1429
EcoT14I	CCWWGG	2 cut(s)	558, 1405
EcoT22I	ATGCAT	1 cut(s)	361
EcoT38I	GRGCYC	2 cut(s)	641, 1541
ErhI	CCWWGG	2 cut(s)	558, 1405
FauNDI	CATATG	1 cut(s)	547
FbaI	TGATCA	1 cut(s)	1483
FblI	GTMKAC	2 cut(s)	78, 708
Fnu4HI	GCNGC	3 cut(s)	54, 95, 665
FokI	GGATG	2 cut(s)	275, 1275
FriOI	GRGCYC	2 cut(s)	641, 1541
Fsp4HI	GCNGC	3 cut(s)	54, 95, 665
FspBI	CTAG	1 cut(s)	1133
GluI	GCNGC	3 cut(s)	54, 95, 665
GsaI	CCCAGC	2 cut(s)	962, 1465
GsuI	CTGGAG	1 cut(s)	323
HaeIII	GGCC	6 cut(s)	206, 381, 556, 598, 639, 1504
Hin1I	GRCGYC	1 cut(s)	1557
HincII	GTYRAC	2 cut(s)	79, 1197
HindII	GTYRAC	2 cut(s)	79, 1197
HinfI	GANTC	9 cut(s)	470, 535, 715, 808, 875, 1003, 1034, 1129, 1193
HphI	GGTGA	1 cut(s)	960
Hpy166II	GTNNAC	6 cut(s)	79, 299, 709, 1142, 1197, 1327
Hpy188III	TCNNGA	5 cut(s)	230, 737, 890, 1081, 1247
Hpy8I	GTNNAC	6 cut(s)	79, 299, 709, 1142, 1197, 1327
Hpy99I	CGWCG	7 cut(s)	13, 16, 19, 22, 25, 28, 1318
HpyAV	CCTTC	4 cut(s)	746, 867, 880, 927
HpyCH4III	ACNGT	5 cut(s)	222, 374, 450, 744, 1299
HpyCH4IV	ACGT	1 cut(s)	1557
HpyCH4V	TGCA	7 cut(s)	359, 415, 517, 946, 1045, 1051, 1370
HpyF10VI	GCNNNNNNNGC	3 cut(s)	59, 655, 664
HpyF3I	CTNAG	5 cut(s)	63, 188, 537, 849, 1114
HpySE526I	ACGT	1 cut(s)	1557
Hsp92I	GRCGYC	1 cut(s)	1557
Ksp22I	TGATCA	1 cut(s)	1483
Kzo9I	GATC	6 cut(s)	111, 954, 1072, 1256, 1483, 1564
LmnI	GCTCC	3 cut(s)	189, 406, 565
Lsp1109I	GCAGC	2 cut(s)	81, 676
LweI	GCATC	2 cut(s)	251, 402
MaeI	CTAG	1 cut(s)	1133
MaeII	ACGT	1 cut(s)	1557
MaeIII	GTNAC	2 cut(s)	824, 1165
MalI	GATC	6 cut(s)	113, 956, 1074, 1258, 1485, 1566
MboI	GATC	6 cut(s)	111, 954, 1072, 1256, 1483, 1564
MboII	GAAGA	8 cut(s)	116, 343, 421, 584, 1016, 1238, 1255, 1559
MfeI	CAATTG	2 cut(s)	1046, 1371
MhlI	GDGCHC	3 cut(s)	641, 1460, 1541
MlyI	GAGTC	4 cut(s)	529, 709, 997, 1202
Mph1103I	ATGCAT	1 cut(s)	361
MroXI	GAANNNNTTC	2 cut(s)	807, 1023
MseI	TTAA	5 cut(s)	311, 345, 770, 1146, 1548
MslI	CAYNNNNRTG	1 cut(s)	1479
MspR9I	CCNGG	2 cut(s)	553, 1431
MunI	CAATTG	2 cut(s)	1046, 1371
Mva1269I	GAATGC	1 cut(s)	292
MvaI	CCWGG	2 cut(s)	553, 1431
MwoI	GCNNNNNNNGC	3 cut(s)	59, 655, 664
NcoI	CCATGG	2 cut(s)	558, 1405
NdeI	CATATG	1 cut(s)	547
NdeII	GATC	6 cut(s)	111, 954, 1072, 1256, 1483, 1564
NlaIV	GGNNCC	4 cut(s)	380, 639, 855, 1383
NsiI	ATGCAT	1 cut(s)	361
NspI	RCATGY	1 cut(s)	1441
NspV	TTCGAA	1 cut(s)	873
PcsI	WCGNNNNNNNCGW	4 cut(s)	14, 17, 20, 23
PctI	GAATGC	1 cut(s)	292
PdmI	GAANNNNTTC	2 cut(s)	807, 1023
PfeI	GAWTC	5 cut(s)	470, 808, 875, 1034, 1129
PflMI	CCANNNNNTGG	2 cut(s)	1496, 1499
PkrI	GCNGC	3 cut(s)	55, 96, 666
PleI	GAGTC	4 cut(s)	529, 709, 997, 1201
PpsI	GAGTC	4 cut(s)	529, 709, 997, 1201
Psp6I	CCWGG	2 cut(s)	551, 1429
PspFI	CCCAGC	2 cut(s)	958, 1461
PspGI	CCWGG	2 cut(s)	551, 1429
PspN4I	GGNNCC	4 cut(s)	380, 639, 855, 1383
PspOMI	GGGCCC	1 cut(s)	637
PspPI	GGNCC	5 cut(s)	379, 555, 637, 638, 1502
RsaI	GTAC	6 cut(s)	447, 456, 847, 933, 1396, 1522
RsaNI	GTAC	6 cut(s)	446, 455, 846, 932, 1395, 1521
RseI	CAYNNNNRTG	1 cut(s)	1479
SalI	GTCGAC	1 cut(s)	77
SaqAI	TTAA	5 cut(s)	311, 345, 770, 1146, 1548
SatI	GCNGC	3 cut(s)	54, 95, 665
Sau3AI	GATC	6 cut(s)	111, 954, 1072, 1256, 1483, 1564
Sau96I	GGNCC	5 cut(s)	379, 555, 637, 638, 1502
SchI	GAGTC	4 cut(s)	529, 709, 997, 1202
ScrFI	CCNGG	2 cut(s)	553, 1431
SduI	GDGCHC	3 cut(s)	641, 1460, 1541
SfaNI	GCATC	2 cut(s)	251, 402
SfcI	CTRYAG	1 cut(s)	235
SfuI	TTCGAA	1 cut(s)	873
SmiMI	CAYNNNNRTG	1 cut(s)	1479
SsiI	CCGC	2 cut(s)	54, 983
SspI	AATATT	1 cut(s)	163
SspMI	CTAG	1 cut(s)	1133
StyD4I	CCNGG	2 cut(s)	551, 1429
StyI	CCWWGG	2 cut(s)	558, 1405
TaaI	ACNGT	5 cut(s)	222, 374, 450, 744, 1299
TaiI	ACGT	1 cut(s)	1560
TaqI	TCGA	8 cut(s)	72, 78, 148, 229, 873, 1316, 1563, 1570
TatI	WGTACW	3 cut(s)	931, 1394, 1520
TauI	GCSGC	1 cut(s)	56
TfiI	GAWTC	5 cut(s)	470, 808, 875, 1034, 1129
Tru1I	TTAA	5 cut(s)	311, 345, 770, 1146, 1548
Tru9I	TTAA	5 cut(s)	311, 345, 770, 1146, 1548
TscAI	CASTG	2 cut(s)	327, 665
TseI	GCWGC	2 cut(s)	94, 664
TspDTI	ATGAA	8 cut(s)	449, 534, 641, 801, 1032, 1239, 1297, 1463
TspRI	CASTG	2 cut(s)	327, 665
Van91I	CCANNNNNTGG	2 cut(s)	1496, 1499
XapI	RAATTY	6 cut(s)	393, 418, 526, 1019, 1204, 1550
XceI	RCATGY	1 cut(s)	1441
XmiI	GTMKAC	2 cut(s)	78, 708
XmnI	GAANNNNTTC	2 cut(s)	807, 1023
XspI	CTAG	1 cut(s)	1133
ZraI	GACGTC	1 cut(s)	1558
Zsp2I	ATGCAT	1 cut(s)	361

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