Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0004484

Physical Location & Seq

Genomic Coordinates Reverse (-)

12065541 .. 12066180

Gene Structure 640 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G012250.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 288 bp

ATGGATAAGAGCATGCTGCAGGGGGCGGACTTGGATAGTCTTCCTGAAGAAGATAAGAAGAGAATGGCCACCATGATCGACCAGCTTCAGATTCGTGACAGTTTGAGGATGTATAATTCATTGGTGGAGAGCTGTTTCAGTGACTGCGTAGACAGCTTTACGCGCAAGGCCCTGACCAAGCAAGAGGACACGTGTGTTCGAAGGTGTGCTGAGAAGTTCCTGAAGCATTCGATGCGTGTTGGTATGAGATTTGGAGAGCTCAACCAAGGAGCAGCTACCCAGGATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005215 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005740 GO:0005743 GO:0005758 GO:0006605 GO:0006626 GO:0006810 GO:0006839 GO:0006886 GO:0006996 GO:0007005 GO:0007006 GO:0007007 GO:0008104 GO:0008150 GO:0008565 GO:0009987 GO:0015031 GO:0015833 GO:0016020 GO:0016043 GO:0017038 GO:0019866 GO:0031090 GO:0031966 GO:0031967 GO:0031970 GO:0031974 GO:0031975 GO:0032991 GO:0033036 GO:0033365 GO:0034613 GO:0042719 GO:0042721 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044425 GO:0044429 GO:0044444 GO:0044446 GO:0044455 GO:0044464 GO:0044743 GO:0045039 GO:0045184 GO:0046907 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0055085 GO:0061024 GO:0065002 GO:0070013 GO:0070585 GO:0070727 GO:0071702 GO:0071705 GO:0071806 GO:0071840 GO:0072321 GO:0072594 GO:0072655 GO:0072657 GO:0090150 GO:0090151 GO:0098796 GO:0098798 GO:0098800 GO:1990351 GO:1990542

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-Tim10_DDP

Protein Analysis

95

Amino Acids

10.9

Weight (kDa)

5.81

Isoelectric Point (pI)

46.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-Tim10_DDP	PF02953	25 - 85	5.4e-21	Tim10/DDP family zinc finger

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: OG0004484)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G46560
fragaria_vesca	FvH4_3g36110 FvH4_6g13690
malus_domestica	MD03G1093400.v1.1 MD04G1129100.v1.1 MD11G1108200.v1.1 MD12G1141800.v1.1
prunus_persica	Prupe.6G077400_v2.0.a1 Prupe.6G255300_v2.0.a1
pyrus_communis	pycom03g07500 pycom04g11730 pycom11g08940 pycom12g13650
rosa_chinensis	RchiOBHm_Chr3g0466561 RchiOBHm_Chr5g0064531
rosa_multiflora	Rmu_sc0003352.1_g000004 Rmu_sc0018367.1_g000003 Rmu_sc0020778.1_g000005
rosa_roxburghii	Rroxscaffold_1G00016490 Rroxscaffold_6G00414370
rosa_rugosa	Rorug03G0082700 Rorug05G0365900
rosa_samantha	Rh3AG129600 Rh3BG151000 Rh3CG150700 Rh3DG151600 Rh5AG423900 Rh5BG439300 Rh5CG461900 Rh5DG452600
rosa_wichuraiana	Rw3G012250 Rw5G039850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	150
AccII	CGCG	1 cut(s)	163
AciI	CCGC	1 cut(s)	26
AcoI	YGGCCR	1 cut(s)	66
AcuI	CTGAAG	3 cut(s)	66, 71, 242
AcvI	CACGTG	1 cut(s)	192
AflIII	ACRYGT	2 cut(s)	189, 191
AjnI	CCWGG	1 cut(s)	279
AluBI	AGCT	5 cut(s)	85, 132, 156, 259, 275
AluI	AGCT	5 cut(s)	85, 132, 156, 259, 275
Alw21I	GWGCWC	1 cut(s)	261
AlwNI	CAGNNNCTG	1 cut(s)	144
AoxI	GGCC	2 cut(s)	66, 168
ApeKI	GCWGC	2 cut(s)	16, 272
AspLEI	GCGC	1 cut(s)	165
AspS9I	GGNCC	1 cut(s)	169
AsuII	TTCGAA	1 cut(s)	199
BalI	TGGCCA	1 cut(s)	68
BanII	GRGCYC	1 cut(s)	261
BbrPI	CACGTG	1 cut(s)	192
BbsI	GAAGAC	1 cut(s)	32
Bbv12I	GWGCWC	1 cut(s)	261
BbvI	GCAGC	2 cut(s)	3, 284
BciT130I	CCWGG	1 cut(s)	281
BfmI	CTRYAG	1 cut(s)	17
BisI	GCNGC	2 cut(s)	17, 273
BlsI	GCNGC	2 cut(s)	18, 274
Bme1390I	CCNGG	1 cut(s)	281
BmgT120I	GGNCC	1 cut(s)	169
BmrFI	CCNGG	1 cut(s)	281
BmsI	GCATC	1 cut(s)	222
BpiI	GAAGAC	1 cut(s)	32
Bpu14I	TTCGAA	1 cut(s)	199
BsaAI	YACGTR	1 cut(s)	192
BsaJI	CCNNGG	2 cut(s)	265, 279
BseBI	CCWGG	1 cut(s)	281
BseDI	CCNNGG	2 cut(s)	265, 279
BseGI	GGATG	1 cut(s)	114
BseMII	CTCAG	1 cut(s)	201
BseXI	GCAGC	2 cut(s)	3, 284
Bsh1236I	CGCG	1 cut(s)	163
BshFI	GGCC	2 cut(s)	68, 170
BsiHKAI	GWGCWC	1 cut(s)	261
BsmI	GAATGC	1 cut(s)	226
BsnI	GGCC	2 cut(s)	68, 170
Bsp119I	TTCGAA	1 cut(s)	199
Bsp1286I	GDGCHC	1 cut(s)	261
Bsp143I	GATC	1 cut(s)	75
BspACI	CCGC	1 cut(s)	26
BspANI	GGCC	2 cut(s)	68, 170
BspCNI	CTCAG	1 cut(s)	202
BspFNI	CGCG	1 cut(s)	163
BspMAI	CTGCAG	1 cut(s)	21
BspT104I	TTCGAA	1 cut(s)	199
BssECI	CCNNGG	2 cut(s)	265, 279
BssMI	GATC	1 cut(s)	75
BssT1I	CCWWGG	1 cut(s)	265
Bst2UI	CCWGG	1 cut(s)	281
Bst4CI	ACNGT	1 cut(s)	101
Bst6I	CTCTTC	1 cut(s)	53
BstAPI	GCANNNNNTGC	1 cut(s)	232
BstBAI	YACGTR	1 cut(s)	192
BstBI	TTCGAA	1 cut(s)	199
BstC8I	GCNNGC	1 cut(s)	14
BstDEI	CTNAG	1 cut(s)	210
BstF5I	GGATG	1 cut(s)	114
BstFNI	CGCG	1 cut(s)	163
BstHHI	GCGC	1 cut(s)	165
BstKTI	GATC	1 cut(s)	78
BstMBI	GATC	1 cut(s)	75
BstMWI	GCNNNNNNNGC	3 cut(s)	153, 162, 232
BstNI	CCWGG	1 cut(s)	281
BstNSI	RCATGY	1 cut(s)	16
BstSCI	CCNGG	1 cut(s)	279
BstSFI	CTRYAG	1 cut(s)	17
BstUI	CGCG	1 cut(s)	163
BstV1I	GCAGC	2 cut(s)	3, 284
BstV2I	GAAGAC	1 cut(s)	32
BsuRI	GGCC	2 cut(s)	68, 170
BtsCI	GGATG	1 cut(s)	114
BtsIMutI	CAGTG	1 cut(s)	145
Cac8I	GCNNGC	1 cut(s)	14
CaiI	CAGNNNCTG	1 cut(s)	144
CfoI	GCGC	1 cut(s)	165
Cfr13I	GGNCC	1 cut(s)	169
CviAII	CATG	2 cut(s)	13, 73
CviJI	RGCY	7 cut(s)	68, 85, 132, 156, 170, 259, 275
CviKI_1	RGCY	7 cut(s)	68, 85, 132, 156, 170, 259, 275
DdeI	CTNAG	1 cut(s)	210
DpnI	GATC	1 cut(s)	77
DpnII	GATC	1 cut(s)	75
EaeI	YGGCCR	1 cut(s)	66
Eam1104I	CTCTTC	1 cut(s)	53
EarI	CTCTTC	1 cut(s)	53
EciI	GGCGGA	1 cut(s)	41
Ecl136II	GAGCTC	1 cut(s)	259
Eco130I	CCWWGG	1 cut(s)	265
Eco24I	GRGCYC	1 cut(s)	261
Eco53kI	GAGCTC	1 cut(s)	259
Eco57I	CTGAAG	3 cut(s)	66, 71, 242
Eco72I	CACGTG	1 cut(s)	192
EcoICRI	GAGCTC	1 cut(s)	259
EcoO109I	RGGNCCY	1 cut(s)	169
EcoRII	CCWGG	1 cut(s)	279
EcoT14I	CCWWGG	1 cut(s)	265
EcoT38I	GRGCYC	1 cut(s)	261
ErhI	CCWWGG	1 cut(s)	265
FaeI	CATG	2 cut(s)	16, 76
FaiI	YATR	4 cut(s)	14, 74, 114, 245
FatI	CATG	2 cut(s)	12, 72
FblI	GTMKAC	1 cut(s)	150
Fnu4HI	GCNGC	2 cut(s)	17, 273
FokI	GGATG	1 cut(s)	121
FriOI	GRGCYC	1 cut(s)	261
Fsp4HI	GCNGC	2 cut(s)	17, 273
GlaI	GCGC	1 cut(s)	164
GluI	GCNGC	2 cut(s)	17, 273
HaeIII	GGCC	2 cut(s)	68, 170
HhaI	GCGC	1 cut(s)	165
Hin1II	CATG	2 cut(s)	16, 76
Hin6I	GCGC	1 cut(s)	163
HinP1I	GCGC	1 cut(s)	163
HinfI	GANTC	1 cut(s)	91
Hpy166II	GTNNAC	1 cut(s)	151
Hpy188I	TCNGA	1 cut(s)	90
Hpy188III	TCNNGA	3 cut(s)	44, 95, 220
Hpy8I	GTNNAC	1 cut(s)	151
HpyAV	CCTTC	1 cut(s)	195
HpyCH4III	ACNGT	1 cut(s)	101
HpyCH4IV	ACGT	1 cut(s)	191
HpyCH4V	TGCA	1 cut(s)	19
HpyF10VI	GCNNNNNNNGC	3 cut(s)	153, 162, 232
HpyF3I	CTNAG	1 cut(s)	210
HpySE526I	ACGT	1 cut(s)	191
Hsp92II	CATG	2 cut(s)	16, 76
HspAI	GCGC	1 cut(s)	163
Kzo9I	GATC	1 cut(s)	75
LmnI	GCTCC	1 cut(s)	269
LpnPI	CCDG	6 cut(s)	5, 57, 95, 185, 233, 266
Lsp1109I	GCAGC	2 cut(s)	3, 284
LweI	GCATC	1 cut(s)	222
MaeII	ACGT	1 cut(s)	191
MaeIII	GTNAC	2 cut(s)	95, 140
MalI	GATC	1 cut(s)	77
MboI	GATC	1 cut(s)	75
MboII	GAAGA	4 cut(s)	32, 59, 62, 70
MhlI	GDGCHC	1 cut(s)	261
MlsI	TGGCCA	1 cut(s)	68
MluCI	AATT	1 cut(s)	115
MluNI	TGGCCA	1 cut(s)	68
MnlI	CCTC	2 cut(s)	99, 178
Mox20I	TGGCCA	1 cut(s)	68
MscI	TGGCCA	1 cut(s)	68
Msp20I	TGGCCA	1 cut(s)	68
MspR9I	CCNGG	1 cut(s)	281
Mva1269I	GAATGC	1 cut(s)	226
MvaI	CCWGG	1 cut(s)	281
MvnI	CGCG	1 cut(s)	163
MwoI	GCNNNNNNNGC	3 cut(s)	153, 162, 232
NdeII	GATC	1 cut(s)	75
NlaIII	CATG	2 cut(s)	16, 76
NmuCI	GTSAC	2 cut(s)	95, 140
NspI	RCATGY	1 cut(s)	16
NspV	TTCGAA	1 cut(s)	199
PaeI	GCATGC	1 cut(s)	16
PctI	GAATGC	1 cut(s)	226
PfeI	GAWTC	1 cut(s)	91
PkrI	GCNGC	2 cut(s)	18, 274
PmaCI	CACGTG	1 cut(s)	192
PmlI	CACGTG	1 cut(s)	192
Ppu21I	YACGTR	1 cut(s)	192
Psp124BI	GAGCTC	1 cut(s)	261
Psp6I	CCWGG	1 cut(s)	279
PspCI	CACGTG	1 cut(s)	192
PspGI	CCWGG	1 cut(s)	279
PspPI	GGNCC	1 cut(s)	169
PstI	CTGCAG	1 cut(s)	21
PstNI	CAGNNNCTG	1 cut(s)	144
SacI	GAGCTC	1 cut(s)	261
SatI	GCNGC	2 cut(s)	17, 273
Sau3AI	GATC	1 cut(s)	75
Sau96I	GGNCC	1 cut(s)	169
ScrFI	CCNGG	1 cut(s)	281
SduI	GDGCHC	1 cut(s)	261
SetI	ASST	7 cut(s)	87, 134, 158, 194, 206, 261, 277
SfaNI	GCATC	1 cut(s)	222
SfcI	CTRYAG	1 cut(s)	17
SfuI	TTCGAA	1 cut(s)	199
SphI	GCATGC	1 cut(s)	16
Sse9I	AATT	1 cut(s)	115
SsiI	CCGC	1 cut(s)	26
SstI	GAGCTC	1 cut(s)	261
StyD4I	CCNGG	1 cut(s)	279
StyI	CCWWGG	1 cut(s)	265
TaaI	ACNGT	1 cut(s)	101
TaiI	ACGT	1 cut(s)	194
TaqI	TCGA	3 cut(s)	78, 199, 230
TasI	AATT	1 cut(s)	115
TfiI	GAWTC	1 cut(s)	91
TscAI	CASTG	1 cut(s)	145
TseFI	GTSAC	2 cut(s)	95, 140
TseI	GCWGC	2 cut(s)	16, 272
Tsp45I	GTSAC	2 cut(s)	95, 140
TspDTI	ATGAA	1 cut(s)	108
TspRI	CASTG	1 cut(s)	145
XceI	RCATGY	1 cut(s)	16
XmiI	GTMKAC	1 cut(s)	150

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