Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0004579

Physical Location & Seq

Genomic Coordinates Reverse (-)

15894299 .. 15896181

Gene Structure 1883 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00230940.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 738 bp

ATGATTTGCCTTGATATGAGTGAATTTATGGAACGGCACTCTGTTTCAAAGCTTATTGGTTCTCCCCCTGGTTATGTTGGTTACACTGATGGAGGTCAGCTGACTGAAGCAGTTGGACGCCGTCCTTACACTGTGGTGCTATTTGATGAGATTGAGAAGGCTGATCCAGACGTCTTAAATATGATGCTTCAAATTCTTGAGGATGGAAGATTGACCGACAGCAAGGGCAGAACTGTGGATTTCAAGAATACACTTCTGATCATGACATCTAATGTCGGAAGCAGTGTAATTGAGACAGGAGGACTCCGTGTAGGATTTGATCTTGATTACGATGAGAATGATAGCAGTTACAATCGCATCAAGAGCTCAGTGACAGAGGAGCTAAAACAGCAATTTAGACCTGAGTTCCTAAATAGGTTGGATGAAGTCATTGTCTTCCGCCAGCTGACTAAGTTGGAGCTGAAGGAAATAGCAGAAATAATGCTGAAGGAGGTTTCTGAAAGGCTGAAGACTAAAGAGATAGAGCTTCAAGTGACAGAGAGGTTCAGGGATAGATTGGTCGATGAAGGATACAATCCAAGCTATGGGGCAAGGCCTCTAAGAAGAGCCAGAATGAGACTTTTGGAGGACAACATGGCTGAGAAGATGCTAGCAAGGGAAATCAAAGAGGGCGACACAGTTATTGTGGATGTCGATTTTGATGGGAACGTAATTGTGCTCAATCAGTGGTTCTCCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009536 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko01100 map01100

Pfam Domains

Protein Families

AAA AAA_2 ClpB_D2-small Clp_N UVR

Protein Analysis

245

Amino Acids

28.16

Weight (kDa)

4.79

Isoelectric Point (pI)

40.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AAA_2	PF07724	1 - 143	1.5e-53	AAA domain (Cdc48 subfamily)
AAA_5	PF07728	34 - 93	3.5e-06	AAA domain (dynein-related subfamily)
ClpB_D2-small	PF10431	149 - 229	2e-24	C-terminal, D2-small domain, of ClpB protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0004579)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G50920
fragaria_vesca	FvH4_5g09290 FvH4_5g09290
malus_domestica	MD06G1132300.v1.1 MD14G1148700.v1.1
prunus_persica	Prupe.5G143300_v2.0.a1 Prupe.5G143300_v2.0.a1
pyrus_communis	pycom06g12390 pycom14g12350
rosa_chinensis	RchiOBHm_Chr7g0188931 RchiOBHm_Chr7g0228651 RchiOBHm_Chr7g0228661
rosa_laevigata	RLG00000001549 RLG00000004649
rosa_multiflora	Rmu_sc0004237.1_g000004 Rmu_sc0010299.1_g000001 Rmu_sc0019257.1_g000002 Rmu_sc0032883.1_g000002 Rmu_ssc0000113.1_g000007
rosa_roxburghii	Rroxscaffold_3G00230940 Rroxscaffold_3G00265930
rosa_rugosa	Rorug06G0494700
rosa_samantha	Rh7AG099600 Rh7AG403400 Rh7CG103000 Rh7CG422600 Rh7DG101500 Rh7DG399000
rosa_wichuraiana	Rw7G008580 Rw7G033500 Rw7G033530

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	174
AccB7I	CCANNNNNTGG	1 cut(s)	584
AciI	CCGC	1 cut(s)	439
AclWI	GGATC	1 cut(s)	158
AcsI	RAATTY	2 cut(s)	23, 192
AcuI	CTGAAG	4 cut(s)	126, 482, 506, 527
AcyI	GRCGYC	2 cut(s)	118, 171
AfiI	CCNNNNNNNGG	1 cut(s)	584
AgsI	TTSAA	4 cut(s)	48, 191, 244, 530
AjnI	CCWGG	1 cut(s)	67
AleI	CACNNNNGTG	1 cut(s)	134
AluBI	AGCT	8 cut(s)	52, 100, 366, 382, 445, 460, 526, 582
AluI	AGCT	8 cut(s)	52, 100, 366, 382, 445, 460, 526, 582
Alw21I	GWGCWC	2 cut(s)	368, 720
Alw26I	GTCTC	2 cut(s)	287, 610
AlwI	GGATC	1 cut(s)	158
AoxI	GGCC	1 cut(s)	593
ApoI	RAATTY	2 cut(s)	23, 192
AsuNHI	GCTAGC	1 cut(s)	649
BanII	GRGCYC	1 cut(s)	368
BbsI	GAAGAC	2 cut(s)	427, 515
Bbv12I	GWGCWC	2 cut(s)	368, 720
BccI	CCATC	3 cut(s)	83, 197, 695
BceAI	ACGGC	2 cut(s)	50, 105
BciT130I	CCWGG	1 cut(s)	69
BciVI	GTATCC	1 cut(s)	563
BclI	TGATCA	1 cut(s)	258
BcoDI	GTCTC	2 cut(s)	287, 610
BfaI	CTAG	1 cut(s)	650
BfuI	GTATCC	1 cut(s)	563
Bme1390I	CCNGG	1 cut(s)	69
BmrFI	CCNGG	1 cut(s)	69
BmsI	GCATC	3 cut(s)	174, 366, 636
BmtI	GCTAGC	1 cut(s)	653
BpiI	GAAGAC	2 cut(s)	427, 515
BpuEI	CTTGAG	1 cut(s)	218
BsaHI	GRCGYC	2 cut(s)	118, 171
BsaJI	CCNNGG	1 cut(s)	67
Bsc4I	CCNNNNNNNGG	1 cut(s)	584
BseBI	CCWGG	1 cut(s)	69
BseDI	CCNNGG	1 cut(s)	67
BseGI	GGATG	3 cut(s)	208, 427, 694
BseLI	CCNNNNNNNGG	1 cut(s)	584
BseMII	CTCAG	3 cut(s)	381, 393, 630
BseRI	GAGGAG	1 cut(s)	392
BshFI	GGCC	1 cut(s)	595
BsiHKAI	GWGCWC	2 cut(s)	368, 720
BslI	CCNNNNNNNGG	1 cut(s)	584
BsmAI	GTCTC	2 cut(s)	287, 610
BsnI	GGCC	1 cut(s)	595
Bsp1286I	GDGCHC	2 cut(s)	368, 720
Bsp143I	GATC	3 cut(s)	163, 258, 319
BspACI	CCGC	1 cut(s)	439
BspANI	GGCC	1 cut(s)	595
BspCNI	CTCAG	3 cut(s)	380, 394, 631
BspHI	TCATGA	1 cut(s)	261
BspOI	GCTAGC	1 cut(s)	653
BspPI	GGATC	1 cut(s)	158
BspQI	GCTCTTC	1 cut(s)	598
BssECI	CCNNGG	1 cut(s)	67
BssMI	GATC	3 cut(s)	163, 258, 319
BssNI	GRCGYC	2 cut(s)	118, 171
Bst2UI	CCWGG	1 cut(s)	69
Bst4CI	ACNGT	3 cut(s)	133, 235, 679
Bst6I	CTCTTC	1 cut(s)	598
BstACI	GRCGYC	2 cut(s)	118, 171
BstC8I	GCNNGC	2 cut(s)	443, 651
BstDEI	CTNAG	5 cut(s)	367, 402, 450, 599, 639
BstF5I	GGATG	3 cut(s)	208, 427, 694
BstKTI	GATC	3 cut(s)	166, 261, 322
BstMAI	GTCTC	2 cut(s)	287, 610
BstMBI	GATC	3 cut(s)	163, 258, 319
BstMWI	GCNNNNNNNGC	2 cut(s)	363, 388
BstNI	CCWGG	1 cut(s)	69
BstSCI	CCNGG	1 cut(s)	67
BstV2I	GAAGAC	2 cut(s)	427, 515
BsuI	GTATCC	1 cut(s)	563
BsuRI	GGCC	1 cut(s)	595
BtsCI	GGATG	3 cut(s)	208, 427, 694
BtsI	GCAGTG	1 cut(s)	289
BtsIMutI	CAGTG	5 cut(s)	84, 129, 289, 375, 731
Cac8I	GCNNGC	2 cut(s)	443, 651
CciI	TCATGA	1 cut(s)	261
CseI	GACGC	1 cut(s)	126
CviAII	CATG	2 cut(s)	262, 634
DdeI	CTNAG	5 cut(s)	367, 402, 450, 599, 639
DpnI	GATC	3 cut(s)	165, 260, 321
DpnII	GATC	3 cut(s)	163, 258, 319
Eam1104I	CTCTTC	1 cut(s)	598
EarI	CTCTTC	1 cut(s)	598
EciI	GGCGGA	1 cut(s)	428
Ecl136II	GAGCTC	1 cut(s)	366
Eco147I	AGGCCT	1 cut(s)	595
Eco24I	GRGCYC	1 cut(s)	368
Eco53kI	GAGCTC	1 cut(s)	366
Eco57I	CTGAAG	4 cut(s)	126, 482, 506, 527
EcoICRI	GAGCTC	1 cut(s)	366
EcoRII	CCWGG	1 cut(s)	67
EcoT38I	GRGCYC	1 cut(s)	368
FaeI	CATG	2 cut(s)	265, 637
FaiI	YATR	7 cut(s)	17, 29, 75, 182, 263, 585, 635
FatI	CATG	2 cut(s)	261, 633
FbaI	TGATCA	1 cut(s)	258
FokI	GGATG	3 cut(s)	215, 434, 701
FriOI	GRGCYC	1 cut(s)	368
FspBI	CTAG	1 cut(s)	650
HaeIII	GGCC	1 cut(s)	595
HgaI	GACGC	1 cut(s)	126
Hin1I	GRCGYC	2 cut(s)	118, 171
Hin1II	CATG	2 cut(s)	265, 637
HindIII	AAGCTT	1 cut(s)	50
HinfI	GANTC	1 cut(s)	303
Hpy188I	TCNGA	3 cut(s)	258, 278, 499
Hpy188III	TCNNGA	7 cut(s)	167, 197, 244, 262, 323, 361, 735
HpyAV	CCTTC	4 cut(s)	151, 457, 481, 560
HpyCH4III	ACNGT	3 cut(s)	133, 235, 679
HpyCH4IV	ACGT	2 cut(s)	171, 708
HpyF10VI	GCNNNNNNNGC	2 cut(s)	363, 388
HpyF3I	CTNAG	5 cut(s)	367, 402, 450, 599, 639
HpySE526I	ACGT	2 cut(s)	171, 708
Hsp92I	GRCGYC	2 cut(s)	118, 171
Hsp92II	CATG	2 cut(s)	265, 637
Ksp22I	TGATCA	1 cut(s)	258
Kzo9I	GATC	3 cut(s)	163, 258, 319
LguI	GCTCTTC	1 cut(s)	598
LmnI	GCTCC	2 cut(s)	379, 457
LpnPI	CCDG	8 cut(s)	54, 81, 180, 282, 414, 455, 532, 622
LweI	GCATC	3 cut(s)	174, 366, 636
MaeI	CTAG	1 cut(s)	650
MaeII	ACGT	2 cut(s)	171, 708
MaeIII	GTNAC	4 cut(s)	80, 347, 370, 532
MalI	GATC	3 cut(s)	165, 260, 321
MboI	GATC	3 cut(s)	163, 258, 319
MboII	GAAGA	5 cut(s)	219, 427, 520, 615, 655
MhlI	GDGCHC	2 cut(s)	368, 720
MluCI	AATT	5 cut(s)	23, 192, 288, 392, 711
MlyI	GAGTC	1 cut(s)	297
MmeI	TCCRAC	4 cut(s)	94, 256, 399, 435
MnlI	CCTC	9 cut(s)	86, 193, 293, 370, 484, 534, 606, 619, 661
MseI	TTAA	1 cut(s)	176
MslI	CAYNNNNRTG	1 cut(s)	134
MspA1I	CMGCKG	2 cut(s)	100, 445
MspR9I	CCNGG	1 cut(s)	69
MvaI	CCWGG	1 cut(s)	69
MwoI	GCNNNNNNNGC	2 cut(s)	363, 388
NdeII	GATC	3 cut(s)	163, 258, 319
NheI	GCTAGC	1 cut(s)	649
NlaIII	CATG	2 cut(s)	265, 637
NmuCI	GTSAC	2 cut(s)	370, 532
OliI	CACNNNNGTG	1 cut(s)	134
PagI	TCATGA	1 cut(s)	261
PceI	AGGCCT	1 cut(s)	595
PciSI	GCTCTTC	1 cut(s)	598
PflFI	GACNNNGTC	1 cut(s)	120
PflMI	CCANNNNNTGG	1 cut(s)	584
PleI	GAGTC	1 cut(s)	297
PpsI	GAGTC	1 cut(s)	297
Psp124BI	GAGCTC	1 cut(s)	368
Psp6I	CCWGG	1 cut(s)	67
PspGI	CCWGG	1 cut(s)	67
PsyI	GACNNNGTC	1 cut(s)	120
PvuII	CAGCTG	2 cut(s)	100, 445
RseI	CAYNNNNRTG	1 cut(s)	134
SacI	GAGCTC	1 cut(s)	368
SapI	GCTCTTC	1 cut(s)	598
SaqAI	TTAA	1 cut(s)	176
Sau3AI	GATC	3 cut(s)	163, 258, 319
SchI	GAGTC	1 cut(s)	297
ScrFI	CCNGG	1 cut(s)	69
SduI	GDGCHC	2 cut(s)	368, 720
SfaNI	GCATC	3 cut(s)	174, 366, 636
SmiMI	CAYNNNNRTG	1 cut(s)	134
SmlI	CTYRAG	1 cut(s)	197
SmoI	CTYRAG	1 cut(s)	197
Sse9I	AATT	5 cut(s)	23, 192, 288, 392, 711
SseBI	AGGCCT	1 cut(s)	595
SsiI	CCGC	1 cut(s)	439
SspMI	CTAG	1 cut(s)	650
SstI	GAGCTC	1 cut(s)	368
StuI	AGGCCT	1 cut(s)	595
StyD4I	CCNGG	1 cut(s)	67
TaaI	ACNGT	3 cut(s)	133, 235, 679
TaiI	ACGT	2 cut(s)	174, 711
TaqI	TCGA	2 cut(s)	561, 693
TaqII	GACCGA	1 cut(s)	230
TasI	AATT	5 cut(s)	23, 192, 288, 392, 711
Tru1I	TTAA	1 cut(s)	176
Tru9I	TTAA	1 cut(s)	176
TscAI	CASTG	5 cut(s)	91, 136, 289, 375, 731
TseFI	GTSAC	2 cut(s)	370, 532
Tsp45I	GTSAC	2 cut(s)	370, 532
TspDTI	ATGAA	2 cut(s)	438, 579
TspGWI	ACGGA	1 cut(s)	296
TspRI	CASTG	5 cut(s)	91, 136, 289, 375, 731
Tth111I	GACNNNGTC	1 cut(s)	120
Van91I	CCANNNNNTGG	1 cut(s)	584
XapI	RAATTY	2 cut(s)	23, 192
XspI	CTAG	1 cut(s)	650
ZraI	GACGTC	1 cut(s)	172

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