Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0007322

Physical Location & Seq

Genomic Coordinates Forward (+)

4884365 .. 4884772

Gene Structure 408 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG071900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 408 bp

ATGTCGATAACTGTGACTCAAGGCTATTTGGTTATGATTGGAATGCTGGTTGCGTATTGGTTTACGTTGCTACCTGAATGGACTACTTGGGTGCTGTTGGTGGCCATGGCATTGTATGATCTGGCGGTAGTTTTGCTCCCTGTTGAGCCGCTGAGGCTGTTGGTGGAGCTTGCAATTTCTAGAGACGAAGAAATTCCAACTTTGGTTTATGATGCCCTACTTGTGGTGGCTGATCCCGATCTGAAGGGAGGTGTGGGTCAGAGGAGGGTTTGGAGAGATGGGAGGAACGAGAGTGAGAATAATGAAAATGTTGGTTCTGGTTTAGGCGAAAATGGAAGTTCCGGCTTGGGTGATAATGTGACTGCTAATGCAACTGTTTCATTCATACACAAGAATGGATCAAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004175 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005798 GO:0005886 GO:0005887 GO:0006508 GO:0006807 GO:0008150 GO:0008152 GO:0008233 GO:0016020 GO:0016021 GO:0016787 GO:0019538 GO:0031224 GO:0031226 GO:0031410 GO:0031982 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044238 GO:0044424 GO:0044425 GO:0044444 GO:0044459 GO:0044464 GO:0070011 GO:0071704 GO:0071944 GO:0097708 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko04310 ko04330 ko04722 ko05010 ko05165 map04310 map04330 map04722 map05010 map05165

Pfam Domains

Protein Families

Presenilin

Protein Analysis

135

Amino Acids

14.7

Weight (kDa)

4.4

Isoelectric Point (pI)

29.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Presenilin	PF01080	2 - 105	5.1e-31	Presenilin

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

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Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0007322)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G29900
fragaria_vesca	FvH4_5g13800 FvH4_5g13800
malus_domestica	MD06G1225300.v1.1 MD14G1212200.v1.1
prunus_persica	Prupe.5G205400_v2.0.a1
pyrus_communis	pycom06g17980 pycom14g17580 pycom15g04200
rosa_chinensis	RchiOBHm_Chr7g0183141
rosa_laevigata	RLG00000005075 RLG00000009030
rosa_multiflora	Rmu_sc0001023.1_g000022 Rmu_ssc0000111.1_g000011
rosa_roxburghii	Rroxscaffold_3G00270720 Rroxscaffold_6G00424050
rosa_rugosa	Rorug06G0453800
rosa_samantha	Rh3DG071900 Rh4BG110000 Rh4CG124300 Rh7AG056500 Rh7BG055800 Rh7CG057200 Rh7DG056100
rosa_wichuraiana	Rw7G004610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	125, 149
AclWI	GGATC	2 cut(s)	227, 406
AcoI	YGGCCR	1 cut(s)	102
AcsI	RAATTY	1 cut(s)	192
AcuI	CTGAAG	1 cut(s)	263
AfiI	CCNNNNNNNGG	1 cut(s)	223
AluBI	AGCT	1 cut(s)	169
AluI	AGCT	1 cut(s)	169
Alw26I	GTCTC	1 cut(s)	177
AlwI	GGATC	2 cut(s)	227, 406
AoxI	GGCC	1 cut(s)	102
ApoI	RAATTY	1 cut(s)	192
Asp700I	GAANNNNTTC	1 cut(s)	192
AsuHPI	GGTGA	1 cut(s)	362
BalI	TGGCCA	1 cut(s)	104
BbvCI	CCTCAGC	1 cut(s)	152
BccI	CCATC	1 cut(s)	272
BcoDI	GTCTC	1 cut(s)	177
BfaI	CTAG	1 cut(s)	180
BglI	GCCNNNNNGGC	1 cut(s)	154
BisI	GCNGC	1 cut(s)	149
BlsI	GCNGC	1 cut(s)	150
BmsI	GCATC	1 cut(s)	202
Bpu10I	CCTNAGC	1 cut(s)	152
BsaBI	GATNNNNATC	1 cut(s)	237
BsaJI	CCNNGG	1 cut(s)	105
Bsc4I	CCNNNNNNNGG	1 cut(s)	223
Bse8I	GATNNNNATC	1 cut(s)	237
BseDI	CCNNGG	1 cut(s)	105
BseJI	GATNNNNATC	1 cut(s)	237
BseLI	CCNNNNNNNGG	1 cut(s)	223
BseMII	CTCAG	1 cut(s)	143
BseRI	GAGGAG	1 cut(s)	277
BshFI	GGCC	1 cut(s)	104
BsiSI	CCGG	1 cut(s)	342
BslI	CCNNNNNNNGG	1 cut(s)	223
BsmAI	GTCTC	1 cut(s)	177
BsmBI	CGTCTC	1 cut(s)	177
BsmI	GAATGC	1 cut(s)	48
BsnI	GGCC	1 cut(s)	104
Bsp143I	GATC	4 cut(s)	118, 232, 238, 398
Bsp19I	CCATGG	1 cut(s)	105
BspACI	CCGC	2 cut(s)	125, 149
BspANI	GGCC	1 cut(s)	104
BspCNI	CTCAG	1 cut(s)	144
BspPI	GGATC	2 cut(s)	227, 406
BssECI	CCNNGG	1 cut(s)	105
BssMI	GATC	4 cut(s)	118, 232, 238, 398
BssT1I	CCWWGG	1 cut(s)	105
Bst4CI	ACNGT	2 cut(s)	13, 376
BstC8I	GCNNGC	1 cut(s)	171
BstDEI	CTNAG	1 cut(s)	152
BstDSI	CCRYGG	1 cut(s)	105
BstKTI	GATC	4 cut(s)	121, 235, 241, 401
BstMAI	GTCTC	1 cut(s)	177
BstMBI	GATC	4 cut(s)	118, 232, 238, 398
BstMWI	GCNNNNNNNGC	1 cut(s)	154
BsuRI	GGCC	1 cut(s)	104
BtgI	CCRYGG	1 cut(s)	105
Cac8I	GCNNGC	1 cut(s)	171
CviAII	CATG	1 cut(s)	106
CviJI	RGCY	7 cut(s)	24, 104, 148, 157, 169, 230, 345
CviKI_1	RGCY	7 cut(s)	24, 104, 148, 157, 169, 230, 345
DdeI	CTNAG	1 cut(s)	152
DpnI	GATC	4 cut(s)	120, 234, 240, 400
DpnII	GATC	4 cut(s)	118, 232, 238, 398
EaeI	YGGCCR	1 cut(s)	102
Eco130I	CCWWGG	1 cut(s)	105
Eco57I	CTGAAG	1 cut(s)	263
EcoT14I	CCWWGG	1 cut(s)	105
ErhI	CCWWGG	1 cut(s)	105
Esp3I	CGTCTC	1 cut(s)	177
FaeI	CATG	1 cut(s)	109
FaiI	YATR	5 cut(s)	35, 107, 117, 210, 386
FatI	CATG	1 cut(s)	105
Fnu4HI	GCNGC	1 cut(s)	149
Fsp4HI	GCNGC	1 cut(s)	149
FspBI	CTAG	1 cut(s)	180
GluI	GCNGC	1 cut(s)	149
HaeIII	GGCC	1 cut(s)	104
HapII	CCGG	1 cut(s)	342
Hin1II	CATG	1 cut(s)	109
HinfI	GANTC	1 cut(s)	16
HpaII	CCGG	1 cut(s)	342
HphI	GGTGA	1 cut(s)	362
Hpy166II	GTNNAC	1 cut(s)	63
Hpy188I	TCNGA	2 cut(s)	243, 261
Hpy188III	TCNNGA	2 cut(s)	180, 236
Hpy8I	GTNNAC	1 cut(s)	63
HpyAV	CCTTC	1 cut(s)	238
HpyCH4III	ACNGT	2 cut(s)	13, 376
HpyCH4IV	ACGT	1 cut(s)	65
HpyCH4V	TGCA	2 cut(s)	173, 371
HpyF10VI	GCNNNNNNNGC	1 cut(s)	154
HpyF3I	CTNAG	1 cut(s)	152
HpySE526I	ACGT	1 cut(s)	65
Hsp92II	CATG	1 cut(s)	109
Kzo9I	GATC	4 cut(s)	118, 232, 238, 398
LmnI	GCTCC	2 cut(s)	141, 166
LpnPI	CCDG	6 cut(s)	32, 87, 107, 153, 303, 355
LweI	GCATC	1 cut(s)	202
MaeI	CTAG	1 cut(s)	180
MaeII	ACGT	1 cut(s)	65
MaeIII	GTNAC	2 cut(s)	13, 358
MalI	GATC	4 cut(s)	120, 234, 240, 400
MboI	GATC	4 cut(s)	118, 232, 238, 398
MboII	GAAGA	1 cut(s)	200
MlsI	TGGCCA	1 cut(s)	104
MluCI	AATT	3 cut(s)	174, 192, 403
MluNI	TGGCCA	1 cut(s)	104
MlyI	GAGTC	1 cut(s)	10
MmeI	TCCRAC	1 cut(s)	221
MnlI	CCTC	5 cut(s)	147, 242, 255, 258, 276
Mox20I	TGGCCA	1 cut(s)	104
MroXI	GAANNNNTTC	1 cut(s)	192
MscI	TGGCCA	1 cut(s)	104
MseI	TTAA	1 cut(s)	406
MslI	CAYNNNNRTG	1 cut(s)	393
Msp20I	TGGCCA	1 cut(s)	104
MspA1I	CMGCKG	1 cut(s)	151
MspI	CCGG	1 cut(s)	342
Mva1269I	GAATGC	1 cut(s)	48
MwoI	GCNNNNNNNGC	1 cut(s)	154
NcoI	CCATGG	1 cut(s)	105
NdeII	GATC	4 cut(s)	118, 232, 238, 398
NlaIII	CATG	1 cut(s)	109
NmuCI	GTSAC	2 cut(s)	13, 358
PctI	GAATGC	1 cut(s)	48
PdmI	GAANNNNTTC	1 cut(s)	192
PkrI	GCNGC	1 cut(s)	150
PleI	GAGTC	1 cut(s)	10
PpsI	GAGTC	1 cut(s)	10
RseI	CAYNNNNRTG	1 cut(s)	393
SaqAI	TTAA	1 cut(s)	406
SatI	GCNGC	1 cut(s)	149
Sau3AI	GATC	4 cut(s)	118, 232, 238, 398
SchI	GAGTC	1 cut(s)	10
SetI	ASST	4 cut(s)	68, 76, 171, 253
SfaNI	GCATC	1 cut(s)	202
SmiMI	CAYNNNNRTG	1 cut(s)	393
SmlI	CTYRAG	1 cut(s)	18
SmoI	CTYRAG	1 cut(s)	18
Sse9I	AATT	3 cut(s)	174, 192, 403
SsiI	CCGC	2 cut(s)	125, 149
SspMI	CTAG	1 cut(s)	180
StyI	CCWWGG	1 cut(s)	105
TaaI	ACNGT	2 cut(s)	13, 376
TaiI	ACGT	1 cut(s)	68
TaqI	TCGA	1 cut(s)	5
TasI	AATT	3 cut(s)	174, 192, 403
TauI	GCSGC	1 cut(s)	151
Tru1I	TTAA	1 cut(s)	406
Tru9I	TTAA	1 cut(s)	406
TseFI	GTSAC	2 cut(s)	13, 358
Tsp45I	GTSAC	2 cut(s)	13, 358
TspDTI	ATGAA	3 cut(s)	318, 369, 373
XapI	RAATTY	1 cut(s)	192
XbaI	TCTAGA	1 cut(s)	179
XmnI	GAANNNNTTC	1 cut(s)	192
XspI	CTAG	1 cut(s)	180

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