Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0003337

Physical Location & Seq

Genomic Coordinates Forward (+)

42232305 .. 42238373

Gene Structure 6069 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG221000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 411 bp

ATGGCTCCGGCGACGATGATCGTCACCAACACTCCGGCCGCCGATCTTGCTCTCACCTACTTCTCACCGATCGATCTCCAGACCTTCGCCATTCCCGGCACCAAGCTCAACCCAGCTCTAATCGCCGACTCGTTTTCTCCGCCTGATGATTTCAACCTGACTGTGCTCACTCTGGAATTGGAGTTGGTGAAAAAAGGGACTAAGAGTGAACAGAGAATTACCCTAACAGCAGTAAAAAGGCTAAAATATACAGTGGAACACTCCTTATCTTGCCCTGATGCACCACGGAACGAGCCTAATCTGGCAAGGCCTACTAGGGCTGGAAATGCGCAAGTTGGGGCCGTTGCTGGTAGTGTAATTAGCGTCGAGGGTGGAGGATGGATGCCGAGAGTGAAAGATGAGAGGCAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005794 GO:0005886 GO:0005911 GO:0009506 GO:0012505 GO:0016020 GO:0030054 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0055044 GO:0071944

KEGG Pathways

Metabolic & Signaling

ko04138 ko04721 ko04727 ko04962 map04138 map04721 map04727 map04962

Pfam Domains

Protein Families

AAA CDC48_2 CDC48_N

Protein Analysis

136

Amino Acids

14.6

Weight (kDa)

6.57

Isoelectric Point (pI)

37.62

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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

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Orthologous Genes (Group: OG0003337)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G04910
fragaria_vesca	FvH4_3g09180 FvH4_4g01371 FvH4_4g01380
malus_domestica	MD05G1312500.v1.1 MD05G1339600.v1.1 MD10G1294300.v1.1
prunus_persica	Prupe.4G047600_v2.0.a1
pyrus_communis	pycom05g29040 pycom10g24600
rosa_chinensis	RchiOBHm_Chr4g0419821 RchiOBHm_Chr5g0005931 RchiOBHm_Chr5g0005941 RchiOBHm_Chr5g0008441
rosa_laevigata	RLG00000031340 RLG00000031347 RLG00000031352 RLG00000031389 RLG00000031572
rosa_multiflora	Rmu_sc0000720.1_g000006 Rmu_sc0004326.1_g000001 Rmu_sc0006414.1_g000006
rosa_roxburghii	Rroxscaffold_1G00068050
rosa_rugosa	Rorug04G0435800
rosa_samantha	Rh4AG222000 Rh4BG224200 Rh4CG235100 Rh4DG221000 Rh5AG064700 Rh5BG061700 Rh5CG071500 Rh5CG071600 Rh5CG071800 Rh5CG071900
rosa_wichuraiana	Rw4G019100 Rw5G005630

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	330
AccB1I	GGYRCC	1 cut(s)	98
AciI	CCGC	2 cut(s)	39, 140
AcoI	YGGCCR	1 cut(s)	36
AgsI	TTSAA	1 cut(s)	154
AluBI	AGCT	2 cut(s)	106, 116
AluI	AGCT	2 cut(s)	106, 116
Alw21I	GWGCWC	1 cut(s)	168
AoxI	GGCC	3 cut(s)	36, 308, 339
AspLEI	GCGC	1 cut(s)	331
AspS9I	GGNCC	1 cut(s)	339
AsuC2I	CCSGG	1 cut(s)	96
AsuHPI	GGTGA	4 cut(s)	16, 46, 57, 199
BanI	GGYRCC	1 cut(s)	98
Bbv12I	GWGCWC	1 cut(s)	168
BccI	CCATC	1 cut(s)	372
BceAI	ACGGC	1 cut(s)	326
BcnI	CCSGG	1 cut(s)	96
BfaI	CTAG	1 cut(s)	315
BisI	GCNGC	1 cut(s)	39
BlsI	GCNGC	1 cut(s)	40
Bme1390I	CCNGG	1 cut(s)	96
BmgT120I	GGNCC	1 cut(s)	339
BmiI	GGNNCC	3 cut(s)	6, 100, 340
BmrFI	CCNGG	1 cut(s)	96
BmsI	GCATC	2 cut(s)	268, 372
BpmI	CTGGAG	1 cut(s)	62
BpuMI	CCSGG	1 cut(s)	96
Bsa29I	ATCGAT	1 cut(s)	72
BsaJI	CCNNGG	1 cut(s)	284
BsaXI	ACNNNNNCTCC	2 cut(s)	16, 46
BseCI	ATCGAT	1 cut(s)	72
BseDI	CCNNGG	1 cut(s)	284
BseGI	GGATG	2 cut(s)	383, 387
BseX3I	CGGCCG	1 cut(s)	36
BseYI	CCCAGC	1 cut(s)	112
Bsh1285I	CGRYCG	2 cut(s)	39, 72
BshFI	GGCC	3 cut(s)	38, 310, 341
BshNI	GGYRCC	1 cut(s)	98
BshVI	ATCGAT	1 cut(s)	72
BsiEI	CGRYCG	2 cut(s)	39, 72
BsiHKAI	GWGCWC	1 cut(s)	168
BsiSI	CCGG	3 cut(s)	8, 35, 96
BslFI	GGGAC	1 cut(s)	211
BsmFI	GGGAC	1 cut(s)	211
BsnI	GGCC	3 cut(s)	38, 310, 341
Bsp1286I	GDGCHC	1 cut(s)	168
Bsp143I	GATC	4 cut(s)	18, 43, 69, 73
BspACI	CCGC	2 cut(s)	39, 140
BspANI	GGCC	3 cut(s)	38, 310, 341
BspDI	ATCGAT	1 cut(s)	72
BspLI	GGNNCC	3 cut(s)	6, 100, 340
BspT107I	GGYRCC	1 cut(s)	98
BssECI	CCNNGG	1 cut(s)	284
BssMI	GATC	4 cut(s)	18, 43, 69, 73
Bst4CI	ACNGT	2 cut(s)	163, 253
BstDEI	CTNAG	1 cut(s)	201
BstDSI	CCRYGG	1 cut(s)	284
BstF5I	GGATG	2 cut(s)	383, 387
BstHHI	GCGC	1 cut(s)	331
BstKTI	GATC	4 cut(s)	21, 46, 72, 76
BstMBI	GATC	4 cut(s)	18, 43, 69, 73
BstMCI	CGRYCG	2 cut(s)	39, 72
BstMWI	GCNNNNNNNGC	3 cut(s)	47, 122, 326
BstSCI	CCNGG	1 cut(s)	94
BstZI	CGGCCG	1 cut(s)	36
Bsu15I	ATCGAT	1 cut(s)	72
BsuRI	GGCC	3 cut(s)	38, 310, 341
BsuTUI	ATCGAT	1 cut(s)	72
BtgI	CCRYGG	1 cut(s)	284
BtsCI	GGATG	2 cut(s)	383, 387
BtsIMutI	CAGTG	1 cut(s)	258
CfoI	GCGC	1 cut(s)	331
Cfr13I	GGNCC	1 cut(s)	339
ClaI	ATCGAT	1 cut(s)	72
CseI	GACGC	1 cut(s)	352
CviJI	RGCY	9 cut(s)	5, 38, 106, 116, 241, 295, 310, 320, 341
CviKI_1	RGCY	9 cut(s)	5, 38, 106, 116, 241, 295, 310, 320, 341
DdeI	CTNAG	1 cut(s)	201
DpnI	GATC	4 cut(s)	20, 45, 71, 75
DpnII	GATC	4 cut(s)	18, 43, 69, 73
EaeI	YGGCCR	1 cut(s)	36
EagI	CGGCCG	1 cut(s)	36
EciI	GGCGGA	1 cut(s)	129
EclXI	CGGCCG	1 cut(s)	36
Eco147I	AGGCCT	1 cut(s)	310
Eco52I	CGGCCG	1 cut(s)	36
FaiI	YATR	1 cut(s)	249
FaqI	GGGAC	1 cut(s)	211
Fnu4HI	GCNGC	1 cut(s)	39
FokI	GGATG	2 cut(s)	390, 394
Fsp4HI	GCNGC	1 cut(s)	39
FspBI	CTAG	1 cut(s)	315
FspI	TGCGCA	1 cut(s)	330
GlaI	GCGC	1 cut(s)	330
GluI	GCNGC	1 cut(s)	39
GsaI	CCCAGC	1 cut(s)	116
GsuI	CTGGAG	1 cut(s)	62
HaeIII	GGCC	3 cut(s)	38, 310, 341
HapII	CCGG	3 cut(s)	8, 35, 96
HgaI	GACGC	1 cut(s)	352
HhaI	GCGC	1 cut(s)	331
Hin6I	GCGC	1 cut(s)	329
HinP1I	GCGC	1 cut(s)	329
HinfI	GANTC	1 cut(s)	128
HpaII	CCGG	3 cut(s)	8, 35, 96
HphI	GGTGA	4 cut(s)	16, 46, 57, 199
Hpy166II	GTNNAC	1 cut(s)	209
Hpy188III	TCNNGA	2 cut(s)	79, 173
Hpy8I	GTNNAC	1 cut(s)	209
Hpy99I	CGWCG	2 cut(s)	16, 368
HpyAV	CCTTC	1 cut(s)	94
HpyCH4III	ACNGT	2 cut(s)	163, 253
HpyCH4V	TGCA	1 cut(s)	281
HpyF10VI	GCNNNNNNNGC	3 cut(s)	47, 122, 326
HpyF3I	CTNAG	1 cut(s)	201
HspAI	GCGC	1 cut(s)	329
Kzo9I	GATC	4 cut(s)	18, 43, 69, 73
LmnI	GCTCC	1 cut(s)	10
LweI	GCATC	2 cut(s)	268, 372
MaeI	CTAG	1 cut(s)	315
MaeIII	GTNAC	1 cut(s)	22
MalI	GATC	4 cut(s)	20, 45, 71, 75
MboI	GATC	4 cut(s)	18, 43, 69, 73
MhlI	GDGCHC	1 cut(s)	168
MluCI	AATT	3 cut(s)	176, 216, 357
MlyI	GAGTC	1 cut(s)	122
MnlI	CCTC	3 cut(s)	361, 368, 396
MspI	CCGG	3 cut(s)	8, 35, 96
MspR9I	CCNGG	1 cut(s)	96
MwoI	GCNNNNNNNGC	3 cut(s)	47, 122, 326
NciI	CCSGG	1 cut(s)	96
NdeII	GATC	4 cut(s)	18, 43, 69, 73
NlaIV	GGNNCC	3 cut(s)	6, 100, 340
NmeAIII	GCCGAG	1 cut(s)	411
NmuCI	GTSAC	1 cut(s)	22
NsbI	TGCGCA	1 cut(s)	330
PceI	AGGCCT	1 cut(s)	310
PkrI	GCNGC	1 cut(s)	40
Ple19I	CGATCG	1 cut(s)	72
PleI	GAGTC	1 cut(s)	122
PpsI	GAGTC	1 cut(s)	122
PspFI	CCCAGC	1 cut(s)	112
PspN4I	GGNNCC	3 cut(s)	6, 100, 340
PspPI	GGNCC	1 cut(s)	339
PvuI	CGATCG	1 cut(s)	72
SatI	GCNGC	1 cut(s)	39
Sau3AI	GATC	4 cut(s)	18, 43, 69, 73
Sau96I	GGNCC	1 cut(s)	339
SchI	GAGTC	1 cut(s)	122
ScrFI	CCNGG	1 cut(s)	96
SduI	GDGCHC	1 cut(s)	168
SetI	ASST	5 cut(s)	59, 86, 108, 118, 159
SfaNI	GCATC	2 cut(s)	268, 372
Sse9I	AATT	3 cut(s)	176, 216, 357
SseBI	AGGCCT	1 cut(s)	310
SsiI	CCGC	2 cut(s)	39, 140
SspMI	CTAG	1 cut(s)	315
StuI	AGGCCT	1 cut(s)	310
StyD4I	CCNGG	1 cut(s)	94
TaaI	ACNGT	2 cut(s)	163, 253
TaqI	TCGA	2 cut(s)	72, 366
TasI	AATT	3 cut(s)	176, 216, 357
TauI	GCSGC	1 cut(s)	41
TscAI	CASTG	1 cut(s)	258
TseFI	GTSAC	1 cut(s)	22
Tsp45I	GTSAC	1 cut(s)	22
TspGWI	ACGGA	1 cut(s)	301
TspRI	CASTG	1 cut(s)	258
XspI	CTAG	1 cut(s)	315

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