Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0005907

Physical Location & Seq

Genomic Coordinates Reverse (-)

17839404 .. 17840372

Gene Structure 969 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG170000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 555 bp

ATGTCGACTTCAACCGACAACAACGCCTCCATCACTCAAGAAAGCGGCCCCTCCGCCGCCGTCCAAGACATCCAGAAGAAGATCGTGGTAAGGACCGCAGACGGCGAGGTCTTCAATTTGAAGGAAGAGGTGGCAATGGAGATAGATATCATCAAGACCTTCTTCCAGGAGGACAGTATTTCTTACGAGACGGTGATGCCCTTACCCAACGTGGAGGGCTGGGAGATGGTGAAGGTCATAGAGTACTGCACCAAGCATGTTGAACTCAAACACAAGGTCGACGGTTACAAGGAACTCAAGGCCTTCCAGGCCTTGTTCGTCCAGAACCTGAGCACAAAGAGCCTATTGGCTCTCACCAACACGGCCAATTACTTGGAAGTTAAATATCTTCTTGACTTTCTCTGTCAAGCCGTCTCGGAGCAGATTAAGAATAAGGATGTCGACCATGTGAGGGAGCTGTTCGGAGTGGAGAATGATTTCAATGATGAGGAGTATGAGCAGGTCAAGGCAGAGGCTCCTTGGGCTCATGAAAACCTTAATAATGACCTGCATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko04110 ko04111 ko04114 ko04120 ko04141 ko04310 ko04341 ko04350 ko04710 ko05168 ko05200 map04110 map04111 map04114 map04120 map04141 map04310 map04341 map04350 map04710 map05168 map05200

Pfam Domains

Protein Families

Skp1 Skp1_POZ

Protein Analysis

184

Amino Acids

21.02

Weight (kDa)

4.61

Isoelectric Point (pI)

26.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Skp1_POZ	PF03931	26 - 87	4.7e-11	Skp1 family, tetramerisation domain
Skp1	PF01466	128 - 175	2e-16	Skp1 family, dimerisation 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: OG0005907)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g14710 FvH4_3g14720 FvH4_3g14730
malus_domestica	MD02G1116700.v1.1 MD08G1210300.v1.1 MD10G1208900.v1.1
prunus_persica	Prupe.4G132400_v2.0.a1
pyrus_communis	pycom08g18130 pycom10g17770
rosa_chinensis	RchiOBHm_Chr5g0024221 RchiOBHm_Chr5g0024251
rosa_laevigata	RLG00000032781 RLG00000032787
rosa_multiflora	Rmu_sc0009993.1_g000004
rosa_roxburghii	Rroxscaffold_1G00055030 Rroxscaffold_1G00055730
rosa_rugosa	Rorug05G0082600 Rorug05G0082800
rosa_samantha	Rh5AG173200 Rh5BG170000 Rh5BG170100 Rh5CG185800 Rh5CG186200 Rh5DG172300 Rh5DG172700
rosa_wichuraiana	Rw0G000840 Rw5G015630 Rw5G015640

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	107
Acc36I	ACCTGC	1 cut(s)	490
AccI	GTMKAC	3 cut(s)	5, 279, 441
AciI	CCGC	4 cut(s)	45, 54, 57, 96
AcoI	YGGCCR	1 cut(s)	363
AfaI	GTAC	1 cut(s)	245
AfiI	CCNNNNNNNGG	1 cut(s)	451
AgsI	TTSAA	5 cut(s)	12, 115, 121, 263, 481
AjnI	CCWGG	2 cut(s)	165, 306
AluBI	AGCT	1 cut(s)	457
AluI	AGCT	1 cut(s)	457
Alw21I	GWGCWC	1 cut(s)	335
Alw26I	GTCTC	2 cut(s)	182, 418
AlwNI	CAGNNNCTG	1 cut(s)	328
AoxI	GGCC	4 cut(s)	46, 300, 309, 363
ArsI	GACNNNNNNTTYG	2 cut(s)	261, 293
Asp700I	GAANNNNTTC	1 cut(s)	476
AspS9I	GGNCC	2 cut(s)	47, 93
AsuHPI	GGTGA	3 cut(s)	205, 241, 346
AvaII	GGWCC	1 cut(s)	93
BanII	GRGCYC	1 cut(s)	526
BbsI	GAAGAC	1 cut(s)	103
Bbv12I	GWGCWC	1 cut(s)	335
BccI	CCATC	2 cut(s)	38, 220
BceAI	ACGGC	4 cut(s)	44, 118, 378, 395
BciT130I	CCWGG	2 cut(s)	167, 308
BcoDI	GTCTC	2 cut(s)	182, 418
BfuAI	ACCTGC	1 cut(s)	490
BglI	GCCNNNNNGGC	1 cut(s)	308
BisI	GCNGC	2 cut(s)	46, 57
BlsI	GCNGC	2 cut(s)	47, 58
BmcAI	AGTACT	1 cut(s)	245
Bme1390I	CCNGG	2 cut(s)	167, 308
Bme18I	GGWCC	1 cut(s)	93
BmgT120I	GGNCC	2 cut(s)	47, 93
BmiI	GGNNCC	2 cut(s)	49, 516
BmrFI	CCNGG	2 cut(s)	167, 308
BmsI	GCATC	1 cut(s)	186
BpiI	GAAGAC	1 cut(s)	103
Bpu10I	CCTNAGC	1 cut(s)	329
BpuEI	CTTGAG	2 cut(s)	21, 281
BsaBI	GATNNNNATC	1 cut(s)	146
BsaJI	CCNNGG	1 cut(s)	518
BsaXI	ACNNNNNCTCC	2 cut(s)	11, 41
Bsc4I	CCNNNNNNNGG	1 cut(s)	451
Bse3DI	GCAATG	1 cut(s)	141
Bse8I	GATNNNNATC	1 cut(s)	146
BseBI	CCWGG	2 cut(s)	167, 308
BseDI	CCNNGG	1 cut(s)	518
BseGI	GGATG	2 cut(s)	69, 442
BseJI	GATNNNNATC	1 cut(s)	146
BseLI	CCNNNNNNNGG	1 cut(s)	451
BseMI	GCAATG	1 cut(s)	141
BseMII	CTCAG	1 cut(s)	320
BseRI	GAGGAG	1 cut(s)	503
BseYI	CCCAGC	1 cut(s)	219
BsgI	GTGCAG	1 cut(s)	232
BshFI	GGCC	4 cut(s)	48, 302, 311, 365
BsiHKAI	GWGCWC	1 cut(s)	335
BslI	CCNNNNNNNGG	1 cut(s)	451
BsmAI	GTCTC	2 cut(s)	182, 418
BsmBI	CGTCTC	2 cut(s)	182, 418
BsnI	GGCC	4 cut(s)	48, 302, 311, 365
Bsp1286I	GDGCHC	2 cut(s)	335, 526
Bsp143I	GATC	1 cut(s)	81
BspACI	CCGC	4 cut(s)	45, 54, 57, 96
BspANI	GGCC	4 cut(s)	48, 302, 311, 365
BspCNI	CTCAG	1 cut(s)	321
BspHI	TCATGA	1 cut(s)	526
BspLI	GGNNCC	2 cut(s)	49, 516
BspMI	ACCTGC	1 cut(s)	490
BsrDI	GCAATG	1 cut(s)	141
BssECI	CCNNGG	1 cut(s)	518
BssMI	GATC	1 cut(s)	81
BssT1I	CCWWGG	1 cut(s)	518
Bst2UI	CCWGG	2 cut(s)	167, 308
Bst4CI	ACNGT	3 cut(s)	176, 193, 284
Bst6I	CTCTTC	1 cut(s)	120
BstDEI	CTNAG	1 cut(s)	329
BstF5I	GGATG	2 cut(s)	69, 442
BstKTI	GATC	1 cut(s)	84
BstMAI	GTCTC	2 cut(s)	182, 418
BstMBI	GATC	1 cut(s)	81
BstMWI	GCNNNNNNNGC	3 cut(s)	308, 339, 521
BstNI	CCWGG	2 cut(s)	167, 308
BstNSI	RCATGY	1 cut(s)	260
BstSCI	CCNGG	2 cut(s)	165, 306
BstV2I	GAAGAC	1 cut(s)	103
BstXI	CCANNNNNNTGG	1 cut(s)	373
BsuRI	GGCC	4 cut(s)	48, 302, 311, 365
BtsCI	GGATG	2 cut(s)	69, 442
BveI	ACCTGC	1 cut(s)	490
CaiI	CAGNNNCTG	1 cut(s)	328
CciI	TCATGA	1 cut(s)	526
Cfr13I	GGNCC	2 cut(s)	47, 93
Csp6I	GTAC	1 cut(s)	244
CviAII	CATG	3 cut(s)	257, 446, 527
CviQI	GTAC	1 cut(s)	244
DdeI	CTNAG	1 cut(s)	329
DpnI	GATC	1 cut(s)	83
DpnII	GATC	1 cut(s)	81
DrdI	GACNNNNNNGTC	1 cut(s)	107
DseDI	GACNNNNNNGTC	1 cut(s)	107
EaeI	YGGCCR	1 cut(s)	363
Eam1104I	CTCTTC	1 cut(s)	120
EarI	CTCTTC	1 cut(s)	120
EciI	GGCGGA	1 cut(s)	43
Eco130I	CCWWGG	1 cut(s)	518
Eco147I	AGGCCT	2 cut(s)	302, 311
Eco24I	GRGCYC	1 cut(s)	526
Eco32I	GATATC	1 cut(s)	148
Eco47I	GGWCC	1 cut(s)	93
EcoRII	CCWGG	2 cut(s)	165, 306
EcoRV	GATATC	1 cut(s)	148
EcoT14I	CCWWGG	1 cut(s)	518
EcoT38I	GRGCYC	1 cut(s)	526
ErhI	CCWWGG	1 cut(s)	518
Esp3I	CGTCTC	2 cut(s)	182, 418
FaeI	CATG	3 cut(s)	260, 449, 530
FaiI	YATR	5 cut(s)	239, 258, 447, 495, 528
FalI	AAGNNNNNCTT	2 cut(s)	146, 178
FatI	CATG	3 cut(s)	256, 445, 526
FblI	GTMKAC	3 cut(s)	5, 279, 441
Fnu4HI	GCNGC	2 cut(s)	46, 57
FokI	GGATG	2 cut(s)	56, 449
FriOI	GRGCYC	1 cut(s)	526
Fsp4HI	GCNGC	2 cut(s)	46, 57
GluI	GCNGC	2 cut(s)	46, 57
GsaI	CCCAGC	1 cut(s)	223
HaeIII	GGCC	4 cut(s)	48, 302, 311, 365
Hin1II	CATG	3 cut(s)	260, 449, 530
HincII	GTYRAC	3 cut(s)	6, 280, 442
HindII	GTYRAC	3 cut(s)	6, 280, 442
HphI	GGTGA	3 cut(s)	205, 241, 346
Hpy166II	GTNNAC	3 cut(s)	6, 280, 442
Hpy188I	TCNGA	2 cut(s)	418, 464
Hpy188III	TCNNGA	6 cut(s)	38, 73, 154, 322, 392, 527
Hpy8I	GTNNAC	3 cut(s)	6, 280, 442
Hpy99I	CGWCG	1 cut(s)	284
HpyAV	CCTTC	4 cut(s)	115, 169, 226, 313
HpyCH4III	ACNGT	3 cut(s)	176, 193, 284
HpyCH4IV	ACGT	1 cut(s)	210
HpyCH4V	TGCA	2 cut(s)	249, 550
HpyF10VI	GCNNNNNNNGC	3 cut(s)	308, 339, 521
HpyF3I	CTNAG	1 cut(s)	329
HpySE526I	ACGT	1 cut(s)	210
Hsp92II	CATG	3 cut(s)	260, 449, 530
Kzo9I	GATC	1 cut(s)	81
LmnI	GCTCC	3 cut(s)	418, 454, 520
LpnPI	CCDG	9 cut(s)	86, 152, 179, 205, 293, 320, 335, 341, 485
LweI	GCATC	1 cut(s)	186
MaeII	ACGT	1 cut(s)	210
MaeIII	GTNAC	1 cut(s)	284
MalI	GATC	1 cut(s)	83
MboI	GATC	1 cut(s)	81
MboII	GAAGA	6 cut(s)	88, 91, 103, 137, 154, 380
MhlI	GDGCHC	2 cut(s)	335, 526
MluCI	AATT	2 cut(s)	115, 367
MnlI	CCTC	9 cut(s)	37, 61, 100, 121, 163, 208, 444, 481, 505
MroXI	GAANNNNTTC	1 cut(s)	476
MseI	TTAA	4 cut(s)	381, 426, 537, 553
MspR9I	CCNGG	2 cut(s)	167, 308
MvaI	CCWGG	2 cut(s)	167, 308
MwoI	GCNNNNNNNGC	3 cut(s)	308, 339, 521
NdeII	GATC	1 cut(s)	81
NlaIII	CATG	3 cut(s)	260, 449, 530
NlaIV	GGNNCC	2 cut(s)	49, 516
NspI	RCATGY	1 cut(s)	260
PagI	TCATGA	1 cut(s)	526
PceI	AGGCCT	2 cut(s)	302, 311
PdmI	GAANNNNTTC	1 cut(s)	476
PfoI	TCCNGGA	1 cut(s)	165
PkrI	GCNGC	2 cut(s)	47, 58
Psp6I	CCWGG	2 cut(s)	165, 306
PspFI	CCCAGC	1 cut(s)	219
PspGI	CCWGG	2 cut(s)	165, 306
PspN4I	GGNNCC	2 cut(s)	49, 516
PspPI	GGNCC	2 cut(s)	47, 93
PstNI	CAGNNNCTG	1 cut(s)	328
RsaI	GTAC	1 cut(s)	245
RsaNI	GTAC	1 cut(s)	244
SalI	GTCGAC	3 cut(s)	4, 278, 440
SaqAI	TTAA	4 cut(s)	381, 426, 537, 553
SatI	GCNGC	2 cut(s)	46, 57
Sau3AI	GATC	1 cut(s)	81
Sau96I	GGNCC	2 cut(s)	47, 93
ScaI	AGTACT	1 cut(s)	245
ScrFI	CCNGG	2 cut(s)	167, 308
SduI	GDGCHC	2 cut(s)	335, 526
SfaNI	GCATC	1 cut(s)	186
SfiI	GGCCNNNNNGGCC	1 cut(s)	308
SinI	GGWCC	1 cut(s)	93
SmlI	CTYRAG	2 cut(s)	36, 296
SmoI	CTYRAG	2 cut(s)	36, 296
Sse9I	AATT	2 cut(s)	115, 367
SseBI	AGGCCT	2 cut(s)	302, 311
SsiI	CCGC	4 cut(s)	45, 54, 57, 96
StuI	AGGCCT	2 cut(s)	302, 311
StyD4I	CCNGG	2 cut(s)	165, 306
StyI	CCWWGG	1 cut(s)	518
TaaI	ACNGT	3 cut(s)	176, 193, 284
TaiI	ACGT	1 cut(s)	213
TaqI	TCGA	3 cut(s)	5, 279, 441
TasI	AATT	2 cut(s)	115, 367
TatI	WGTACW	1 cut(s)	243
TauI	GCSGC	2 cut(s)	48, 59
Tru1I	TTAA	4 cut(s)	381, 426, 537, 553
Tru9I	TTAA	4 cut(s)	381, 426, 537, 553
TspDTI	ATGAA	1 cut(s)	543
VpaK11BI	GGWCC	1 cut(s)	93
XceI	RCATGY	1 cut(s)	260
XmiI	GTMKAC	3 cut(s)	5, 279, 441
XmnI	GAANNNNTTC	1 cut(s)	476
ZrmI	AGTACT	1 cut(s)	245

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