Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0009296

Physical Location & Seq

Genomic Coordinates Forward (+)

34134901 .. 34135467

Gene Structure 567 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0196100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 567 bp

ATGGCCACTTCCTCCTACCCGGAAACACCCCAGACATCAAGAAAGTCCAAGAACACGTACACGTGGAAGGGTTTCGGCGCGGTCCCTAACGCCCTGAAGGAGCTCAGAGAAGAAGGCCTGGATCTGACTCCGATCCTGGCGGCCTGCAATAACAACAACAACAATCCCCTGGATGAGACCAAGAGGGAAAAGTCTCTAGCGCTTCTGGCGCAGAATTTCGTGAAGCTGTTCGTGTGTACCGGATCAGAATCGGAATCGATTTCTCTTGATGAAGCTGCAAAATTACTGCTTGGAGTAGGGGATGCACAAAATGTATCGGTGATGAGGACGAAGGTGAGGAGGATCTATGACATTGGAAATGTGTTGTCGTCGATGAATTTGATTGAGAAGACTCATACGGCAGATACAAGGAAGCCGGCGTACATGTGGTTGGGGCTGAATGGGAGAAGAGATGGTTTGAATTTGAATTCGGAGCCAAATTTGGAGCAGGCTAAGAAGAGAAGCTTTGGGACAGATCTGACGAATGCGAGTAGTAAGAGGAGCAAGGTTGTGGAGAAGAGAGTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005770 GO:0006464 GO:0006508 GO:0006807 GO:0006810 GO:0006897 GO:0006996 GO:0007033 GO:0008150 GO:0008152 GO:0009987 GO:0010638 GO:0012505 GO:0016020 GO:0016021 GO:0016043 GO:0016192 GO:0016579 GO:0019538 GO:0031224 GO:0031410 GO:0031982 GO:0032386 GO:0032388 GO:0032879 GO:0032880 GO:0033043 GO:0033157 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043412 GO:0044088 GO:0044090 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044425 GO:0044444 GO:0044464 GO:0046907 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051049 GO:0051050 GO:0051128 GO:0051130 GO:0051179 GO:0051222 GO:0051223 GO:0051234 GO:0051641 GO:0051649 GO:0060341 GO:0065007 GO:0070201 GO:0070536 GO:0070646 GO:0070647 GO:0071108 GO:0071704 GO:0071840 GO:0090087 GO:0090316 GO:0097708 GO:0098657 GO:1901564 GO:1903827 GO:1903829 GO:1904951

KEGG Pathways

Metabolic & Signaling

ko04144 map04144

Pfam Domains

Protein Families

JAB USP8_dimer

Protein Analysis

188

Amino Acids

20.82

Weight (kDa)

9.46

Isoelectric Point (pI)

46.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_E2F_TDP	PF02319	62 - 145	1e-17	E2F/DP family winged-helix DNA-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0009296)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G16144
fragaria_vesca	FvH4_4g19320 FvH4_4g19320 FvH4_4g19320
malus_domestica	MD13G1157700.v1.1 MD16G1158700.v1.1
prunus_persica	Prupe.1G125200_v2.0.a1
pyrus_communis	pycom13g13500 pycom16g13350
rosa_chinensis	RchiOBHm_Chr4g0424341
rosa_laevigata	RLG00000007483
rosa_multiflora	Rmu_sc0005995.1_g000011
rosa_roxburghii	Rroxscaffold_5G00366290
rosa_rugosa	Rorug04G0196100 Rorug04G0196200 Rorug04G0196300 Rorug04G0196400
rosa_samantha	Rh4AG252900 Rh4BG258300 Rh4CG269300 Rh4DG252700
rosa_wichuraiana	Rw4G021810

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	80
AciI	CCGC	2 cut(s)	80, 140
AclWI	GGATC	4 cut(s)	127, 129, 250, 350
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	5 cut(s)	214, 376, 460, 466, 478
AcuI	CTGAAG	1 cut(s)	116
AcvI	CACGTG	1 cut(s)	63
AfaI	GTAC	3 cut(s)	59, 238, 422
AfeI	AGCGCT	1 cut(s)	201
AflIII	ACRYGT	3 cut(s)	54, 60, 423
AgsI	TTSAA	2 cut(s)	460, 466
AjnI	CCWGG	3 cut(s)	117, 135, 168
AluBI	AGCT	4 cut(s)	103, 226, 275, 504
AluI	AGCT	4 cut(s)	103, 226, 275, 504
Alw21I	GWGCWC	1 cut(s)	105
Alw26I	GTCTC	2 cut(s)	170, 198
AlwI	GGATC	4 cut(s)	127, 129, 250, 350
Aor51HI	AGCGCT	1 cut(s)	201
AoxI	GGCC	3 cut(s)	3, 115, 141
ApeKI	GCWGC	1 cut(s)	275
ApoI	RAATTY	5 cut(s)	214, 376, 460, 466, 478
Asp700I	GAANNNNTTC	2 cut(s)	71, 227
AspLEI	GCGC	3 cut(s)	80, 202, 211
AspS9I	GGNCC	1 cut(s)	82
AsuC2I	CCSGG	1 cut(s)	20
AsuHPI	GGTGA	2 cut(s)	331, 346
AvaII	GGWCC	1 cut(s)	82
BalI	TGGCCA	1 cut(s)	5
BanII	GRGCYC	1 cut(s)	105
BarI	GAAGNNNNNNTAC	2 cut(s)	404, 436
BbrPI	CACGTG	1 cut(s)	63
BbsI	GAAGAC	1 cut(s)	395
Bbv12I	GWGCWC	1 cut(s)	105
BbvI	GCAGC	1 cut(s)	262
BccI	CCATC	1 cut(s)	446
BceAI	ACGGC	1 cut(s)	414
BciT130I	CCWGG	3 cut(s)	119, 137, 170
BcnI	CCSGG	1 cut(s)	20
BcoDI	GTCTC	2 cut(s)	170, 198
BfaI	CTAG	1 cut(s)	197
BfoI	RGCGCY	1 cut(s)	203
BglII	AGATCT	1 cut(s)	514
BisI	GCNGC	2 cut(s)	141, 276
BlsI	GCNGC	2 cut(s)	142, 277
Bme1390I	CCNGG	4 cut(s)	20, 119, 137, 170
Bme18I	GGWCC	1 cut(s)	82
BmgT120I	GGNCC	1 cut(s)	82
BmiI	GGNNCC	2 cut(s)	84, 474
BmrFI	CCNGG	4 cut(s)	20, 119, 137, 170
BmsI	GCATC	1 cut(s)	292
BpiI	GAAGAC	1 cut(s)	395
BpuMI	CCSGG	1 cut(s)	20
Bsa29I	ATCGAT	1 cut(s)	257
BsaAI	YACGTR	2 cut(s)	57, 63
BsaBI	GATNNNNATC	1 cut(s)	247
BsaI	GGTCTC	1 cut(s)	170
BsaJI	CCNNGG	1 cut(s)	168
BsaWI	WCCGGW	1 cut(s)	239
Bse118I	RCCGGY	1 cut(s)	415
Bse8I	GATNNNNATC	1 cut(s)	247
BseBI	CCWGG	3 cut(s)	119, 137, 170
BseCI	ATCGAT	1 cut(s)	257
BseDI	CCNNGG	1 cut(s)	168
BseGI	GGATG	2 cut(s)	178, 307
BseJI	GATNNNNATC	1 cut(s)	247
BseMII	CTCAG	1 cut(s)	118
BseRI	GAGGAG	2 cut(s)	352, 553
BseXI	GCAGC	1 cut(s)	262
Bsh1236I	CGCG	1 cut(s)	80
BshFI	GGCC	3 cut(s)	5, 117, 143
BshVI	ATCGAT	1 cut(s)	257
BsiHKAI	GWGCWC	1 cut(s)	105
BsiSI	CCGG	3 cut(s)	20, 240, 416
BslFI	GGGAC	2 cut(s)	68, 523
BsmAI	GTCTC	2 cut(s)	170, 198
BsmFI	GGGAC	2 cut(s)	68, 523
BsmI	GAATGC	1 cut(s)	529
BsnI	GGCC	3 cut(s)	5, 117, 143
Bso31I	GGTCTC	1 cut(s)	170
Bsp1286I	GDGCHC	1 cut(s)	105
Bsp143I	GATC	5 cut(s)	121, 132, 242, 342, 514
BspACI	CCGC	2 cut(s)	80, 140
BspANI	GGCC	3 cut(s)	5, 117, 143
BspCNI	CTCAG	1 cut(s)	117
BspDI	ATCGAT	1 cut(s)	257
BspFNI	CGCG	1 cut(s)	80
BspLI	GGNNCC	2 cut(s)	84, 474
BspPI	GGATC	4 cut(s)	127, 129, 250, 350
BspTNI	GGTCTC	1 cut(s)	170
BsrFI	RCCGGY	1 cut(s)	415
BssAI	RCCGGY	1 cut(s)	415
BssECI	CCNNGG	1 cut(s)	168
BssMI	GATC	5 cut(s)	121, 132, 242, 342, 514
Bst2UI	CCWGG	3 cut(s)	119, 137, 170
Bst6I	CTCTTC	3 cut(s)	442, 491, 551
BstBAI	YACGTR	2 cut(s)	57, 63
BstC8I	GCNNGC	3 cut(s)	145, 417, 489
BstDEI	CTNAG	2 cut(s)	104, 492
BstF5I	GGATG	2 cut(s)	178, 307
BstFNI	CGCG	1 cut(s)	80
BstH2I	RGCGCY	1 cut(s)	203
BstHHI	GCGC	3 cut(s)	80, 202, 211
BstKTI	GATC	5 cut(s)	124, 135, 245, 345, 517
BstMAI	GTCTC	2 cut(s)	170, 198
BstMBI	GATC	5 cut(s)	121, 132, 242, 342, 514
BstMWI	GCNNNNNNNGC	2 cut(s)	206, 208
BstNI	CCWGG	3 cut(s)	119, 137, 170
BstNSI	RCATGY	1 cut(s)	427
BstSCI	CCNGG	4 cut(s)	18, 117, 135, 168
BstUI	CGCG	1 cut(s)	80
BstV1I	GCAGC	1 cut(s)	262
BstV2I	GAAGAC	1 cut(s)	395
BstX2I	RGATCY	3 cut(s)	121, 342, 514
BstYI	RGATCY	3 cut(s)	121, 342, 514
Bsu15I	ATCGAT	1 cut(s)	257
BsuRI	GGCC	3 cut(s)	5, 117, 143
BsuTUI	ATCGAT	1 cut(s)	257
BtsCI	GGATG	2 cut(s)	178, 307
Cac8I	GCNNGC	3 cut(s)	145, 417, 489
CfoI	GCGC	3 cut(s)	80, 202, 211
Cfr10I	RCCGGY	1 cut(s)	415
Cfr13I	GGNCC	1 cut(s)	82
ClaI	ATCGAT	1 cut(s)	257
Csp6I	GTAC	3 cut(s)	58, 237, 421
CviAII	CATG	1 cut(s)	424
CviQI	GTAC	3 cut(s)	58, 237, 421
DdeI	CTNAG	2 cut(s)	104, 492
DpnI	GATC	5 cut(s)	123, 134, 244, 344, 516
DpnII	GATC	5 cut(s)	121, 132, 242, 342, 514
EaeI	YGGCCR	1 cut(s)	3
Eam1104I	CTCTTC	3 cut(s)	442, 491, 551
EarI	CTCTTC	3 cut(s)	442, 491, 551
Ecl136II	GAGCTC	1 cut(s)	103
Eco147I	AGGCCT	1 cut(s)	117
Eco24I	GRGCYC	1 cut(s)	105
Eco31I	GGTCTC	1 cut(s)	170
Eco47I	GGWCC	1 cut(s)	82
Eco47III	AGCGCT	1 cut(s)	201
Eco53kI	GAGCTC	1 cut(s)	103
Eco57I	CTGAAG	1 cut(s)	116
Eco72I	CACGTG	1 cut(s)	63
EcoICRI	GAGCTC	1 cut(s)	103
EcoRI	GAATTC	1 cut(s)	466
EcoRII	CCWGG	3 cut(s)	117, 135, 168
EcoT38I	GRGCYC	1 cut(s)	105
FaeI	CATG	1 cut(s)	427
FaiI	YATR	3 cut(s)	348, 396, 425
FalI	AAGNNNNNCTT	2 cut(s)	488, 520
FaqI	GGGAC	2 cut(s)	68, 523
FatI	CATG	1 cut(s)	423
Fnu4HI	GCNGC	2 cut(s)	141, 276
FokI	GGATG	2 cut(s)	185, 314
FriOI	GRGCYC	1 cut(s)	105
Fsp4HI	GCNGC	2 cut(s)	141, 276
FspBI	CTAG	1 cut(s)	197
GlaI	GCGC	3 cut(s)	79, 201, 210
GluI	GCNGC	2 cut(s)	141, 276
HaeII	RGCGCY	1 cut(s)	203
HaeIII	GGCC	3 cut(s)	5, 117, 143
HapII	CCGG	3 cut(s)	20, 240, 416
HhaI	GCGC	3 cut(s)	80, 202, 211
Hin1II	CATG	1 cut(s)	427
Hin6I	GCGC	3 cut(s)	78, 200, 209
HinP1I	GCGC	3 cut(s)	78, 200, 209
HindIII	AAGCTT	1 cut(s)	502
HinfI	GANTC	4 cut(s)	127, 248, 254, 391
HpaII	CCGG	3 cut(s)	20, 240, 416
HphI	GGTGA	2 cut(s)	331, 346
Hpy166II	GTNNAC	2 cut(s)	60, 237
Hpy188I	TCNGA	7 cut(s)	107, 126, 132, 247, 253, 472, 519
Hpy188III	TCNNGA	3 cut(s)	39, 220, 266
Hpy8I	GTNNAC	2 cut(s)	60, 237
Hpy99I	CGWCG	1 cut(s)	373
HpyAV	CCTTC	4 cut(s)	61, 91, 107, 325
HpyCH4IV	ACGT	2 cut(s)	56, 62
HpyCH4V	TGCA	3 cut(s)	147, 278, 305
HpyF10VI	GCNNNNNNNGC	2 cut(s)	206, 208
HpyF3I	CTNAG	2 cut(s)	104, 492
HpySE526I	ACGT	2 cut(s)	56, 62
Hsp92II	CATG	1 cut(s)	427
HspAI	GCGC	3 cut(s)	78, 200, 209
KroI	GCCGGC	1 cut(s)	415
KroNI	GCCGGC	1 cut(s)	417
Kzo9I	GATC	5 cut(s)	121, 132, 242, 342, 514
LmnI	GCTCC	4 cut(s)	100, 472, 484, 540
Lsp1109I	GCAGC	1 cut(s)	262
LweI	GCATC	1 cut(s)	292
MaeI	CTAG	1 cut(s)	197
MaeII	ACGT	2 cut(s)	56, 62
MalI	GATC	5 cut(s)	123, 134, 244, 344, 516
MboI	GATC	5 cut(s)	121, 132, 242, 342, 514
MboII	GAAGA	4 cut(s)	122, 400, 459, 508
MflI	RGATCY	3 cut(s)	121, 342, 514
MhlI	GDGCHC	1 cut(s)	105
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	6 cut(s)	214, 281, 376, 460, 466, 478
MluNI	TGGCCA	1 cut(s)	5
MlyI	GAGTC	2 cut(s)	121, 385
MnlI	CCTC	6 cut(s)	22, 177, 318, 330, 333, 531
Mox20I	TGGCCA	1 cut(s)	5
MroNI	GCCGGC	1 cut(s)	415
MroXI	GAANNNNTTC	2 cut(s)	71, 227
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	1 cut(s)	565
Msp20I	TGGCCA	1 cut(s)	5
MspI	CCGG	3 cut(s)	20, 240, 416
MspR9I	CCNGG	4 cut(s)	20, 119, 137, 170
Mva1269I	GAATGC	1 cut(s)	529
MvaI	CCWGG	3 cut(s)	119, 137, 170
MvnI	CGCG	1 cut(s)	80
MwoI	GCNNNNNNNGC	2 cut(s)	206, 208
NaeI	GCCGGC	1 cut(s)	417
NciI	CCSGG	1 cut(s)	20
NdeII	GATC	5 cut(s)	121, 132, 242, 342, 514
NgoMIV	GCCGGC	1 cut(s)	415
NlaIII	CATG	1 cut(s)	427
NlaIV	GGNNCC	2 cut(s)	84, 474
NspI	RCATGY	1 cut(s)	427
PceI	AGGCCT	1 cut(s)	117
PciI	ACATGT	1 cut(s)	423
PctI	GAATGC	1 cut(s)	529
PdiI	GCCGGC	1 cut(s)	417
PdmI	GAANNNNTTC	2 cut(s)	71, 227
PfeI	GAWTC	2 cut(s)	248, 254
PkrI	GCNGC	2 cut(s)	142, 277
PleI	GAGTC	2 cut(s)	121, 385
PmaCI	CACGTG	1 cut(s)	63
PmlI	CACGTG	1 cut(s)	63
PpsI	GAGTC	2 cut(s)	121, 385
Ppu21I	YACGTR	2 cut(s)	57, 63
PscI	ACATGT	1 cut(s)	423
Psp124BI	GAGCTC	1 cut(s)	105
Psp6I	CCWGG	3 cut(s)	117, 135, 168
PspCI	CACGTG	1 cut(s)	63
PspGI	CCWGG	3 cut(s)	117, 135, 168
PspN4I	GGNNCC	2 cut(s)	84, 474
PspPI	GGNCC	1 cut(s)	82
PsuI	RGATCY	3 cut(s)	121, 342, 514
RsaI	GTAC	3 cut(s)	59, 238, 422
RsaNI	GTAC	3 cut(s)	58, 237, 421
SacI	GAGCTC	1 cut(s)	105
SaqAI	TTAA	1 cut(s)	565
SatI	GCNGC	2 cut(s)	141, 276
Sau3AI	GATC	5 cut(s)	121, 132, 242, 342, 514
Sau96I	GGNCC	1 cut(s)	82
SchI	GAGTC	2 cut(s)	121, 385
ScrFI	CCNGG	4 cut(s)	20, 119, 137, 170
SduI	GDGCHC	1 cut(s)	105
SetI	ASST	8 cut(s)	59, 65, 105, 228, 277, 336, 506, 549
SfaNI	GCATC	1 cut(s)	292
SinI	GGWCC	1 cut(s)	82
Sse9I	AATT	6 cut(s)	214, 281, 376, 460, 466, 478
SseBI	AGGCCT	1 cut(s)	117
SsiI	CCGC	2 cut(s)	80, 140
SspMI	CTAG	1 cut(s)	197
SstI	GAGCTC	1 cut(s)	105
StuI	AGGCCT	1 cut(s)	117
StyD4I	CCNGG	4 cut(s)	18, 117, 135, 168
TaiI	ACGT	2 cut(s)	59, 65
TaqI	TCGA	2 cut(s)	257, 371
TasI	AATT	6 cut(s)	214, 281, 376, 460, 466, 478
TauI	GCSGC	1 cut(s)	143
TfiI	GAWTC	2 cut(s)	248, 254
Tru1I	TTAA	1 cut(s)	565
Tru9I	TTAA	1 cut(s)	565
TseI	GCWGC	1 cut(s)	275
TspDTI	ATGAA	2 cut(s)	285, 389
VpaK11BI	GGWCC	1 cut(s)	82
XapI	RAATTY	5 cut(s)	214, 376, 460, 466, 478
XceI	RCATGY	1 cut(s)	427
XmnI	GAANNNNTTC	2 cut(s)	71, 227
XspI	CTAG	1 cut(s)	197

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