Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0007322

Physical Location & Seq

Genomic Coordinates Reverse (-)

18605785 .. 18607216

Gene Structure 1432 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG110000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 552 bp

ATGGATCTCAAAATTCCTGTGGCTTCCAAAACCTGCGCGCACCGTTGTCCACCCTTCGTCTTCGCCGTTGTTCAATTTTGCTATTGTGGGTTTGTTGGCTGTGTTCATGTCAAAAATGTCGATACCTGTGACTCAAGGCTATTTGGTTTTTTTTTTTTTTTTTGGTCAATTCAAGGCTATTTGGTTGTGATTGGAATGCTGGTTGCGTATTGGTTTACGTTGCTGCCTGAATGGACTACTTGGGTGCTGTTGGTGGCCATGGCCTTGTATGATCTCGTGGCGGTTTTGCTCCCTGTTGAGCCGCTGAGGCTGTTGGTGGAGCTTGCGATTTCTAGAGACGAAGAAATTCCAACTTTGGTTTATGATGCCCTGCCTGTGGTGGCTGATCCCGATCTGAGGGGAGGTGTGGGTCAGAGGAGGGTTTGGAGAGATGGGAGGAACGAGAGTGAGAATAATGAAAATGTTGGTTCTGGTTTAGGCGAGAATGGAAGTTCCGGGTTGGGTGATAATGTGACTGCTTCATTCATATACAAGAATGGATCAAAGGGTTAA

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

183

Amino Acids

20.28

Weight (kDa)

4.97

Isoelectric Point (pI)

27.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Presenilin	PF01080	58 - 155	2.9e-30	Presenilin

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

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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)
Acc36I	ACCTGC	1 cut(s)	41
AccII	CGCG	1 cut(s)	38
AciI	CCGC	2 cut(s)	281, 302
AclWI	GGATC	3 cut(s)	12, 380, 547
AcoI	YGGCCR	1 cut(s)	255
AcsI	RAATTY	2 cut(s)	12, 345
AfiI	CCNNNNNNNGG	2 cut(s)	376, 396
AgsI	TTSAA	2 cut(s)	74, 173
AluBI	AGCT	1 cut(s)	322
AluI	AGCT	1 cut(s)	322
Alw26I	GTCTC	1 cut(s)	330
AlwI	GGATC	3 cut(s)	12, 380, 547
AoxI	GGCC	2 cut(s)	255, 261
ApeKI	GCWGC	1 cut(s)	223
ApoI	RAATTY	2 cut(s)	12, 345
Asp700I	GAANNNNTTC	1 cut(s)	345
AspLEI	GCGC	2 cut(s)	38, 40
AsuC2I	CCSGG	1 cut(s)	496
AsuHPI	GGTGA	1 cut(s)	515
BalI	TGGCCA	1 cut(s)	257
BauI	CACGAG	1 cut(s)	275
BbsI	GAAGAC	1 cut(s)	52
BbvCI	CCTCAGC	1 cut(s)	305
BbvI	GCAGC	1 cut(s)	210
BccI	CCATC	1 cut(s)	425
BceAI	ACGGC	1 cut(s)	50
BcnI	CCSGG	1 cut(s)	496
BcoDI	GTCTC	1 cut(s)	330
BfaI	CTAG	1 cut(s)	333
BfuAI	ACCTGC	1 cut(s)	41
BglI	GCCNNNNNGGC	1 cut(s)	307
BisI	GCNGC	2 cut(s)	224, 302
BlsI	GCNGC	2 cut(s)	225, 303
Bme1390I	CCNGG	1 cut(s)	496
BmrFI	CCNGG	1 cut(s)	496
BmsI	GCATC	1 cut(s)	355
BpiI	GAAGAC	1 cut(s)	52
Bpu10I	CCTNAGC	1 cut(s)	305
BpuEI	CTTGAG	1 cut(s)	118
BpuMI	CCSGG	1 cut(s)	496
BsaBI	GATNNNNATC	1 cut(s)	390
BsaJI	CCNNGG	1 cut(s)	258
Bsc4I	CCNNNNNNNGG	2 cut(s)	376, 396
Bse8I	GATNNNNATC	1 cut(s)	390
BseDI	CCNNGG	1 cut(s)	258
BseJI	GATNNNNATC	1 cut(s)	390
BseLI	CCNNNNNNNGG	2 cut(s)	376, 396
BseMII	CTCAG	2 cut(s)	296, 386
BsePI	GCGCGC	1 cut(s)	36
BseRI	GAGGAG	1 cut(s)	430
BseXI	GCAGC	1 cut(s)	210
Bsh1236I	CGCG	1 cut(s)	38
BshFI	GGCC	2 cut(s)	257, 263
BsiSI	CCGG	1 cut(s)	495
BslI	CCNNNNNNNGG	2 cut(s)	376, 396
BsmAI	GTCTC	1 cut(s)	330
BsmBI	CGTCTC	1 cut(s)	330
BsmI	GAATGC	1 cut(s)	201
BsnI	GGCC	2 cut(s)	257, 263
Bsp143I	GATC	5 cut(s)	4, 271, 385, 391, 539
Bsp19I	CCATGG	1 cut(s)	258
BspACI	CCGC	2 cut(s)	281, 302
BspANI	GGCC	2 cut(s)	257, 263
BspCNI	CTCAG	2 cut(s)	297, 387
BspFNI	CGCG	1 cut(s)	38
BspMI	ACCTGC	1 cut(s)	41
BspPI	GGATC	3 cut(s)	12, 380, 547
BssECI	CCNNGG	1 cut(s)	258
BssHII	GCGCGC	1 cut(s)	36
BssMI	GATC	5 cut(s)	4, 271, 385, 391, 539
BssSI	CACGAG	1 cut(s)	275
BssT1I	CCWWGG	1 cut(s)	258
Bst2BI	CACGAG	1 cut(s)	275
Bst4CI	ACNGT	1 cut(s)	44
BstC8I	GCNNGC	2 cut(s)	38, 324
BstDEI	CTNAG	2 cut(s)	305, 395
BstDSI	CCRYGG	1 cut(s)	258
BstFNI	CGCG	1 cut(s)	38
BstHHI	GCGC	2 cut(s)	38, 40
BstKTI	GATC	5 cut(s)	7, 274, 388, 394, 542
BstMAI	GTCTC	1 cut(s)	330
BstMBI	GATC	5 cut(s)	4, 271, 385, 391, 539
BstMWI	GCNNNNNNNGC	1 cut(s)	307
BstSCI	CCNGG	1 cut(s)	494
BstUI	CGCG	1 cut(s)	38
BstV1I	GCAGC	1 cut(s)	210
BstV2I	GAAGAC	1 cut(s)	52
BstX2I	RGATCY	1 cut(s)	4
BstYI	RGATCY	1 cut(s)	4
BsuRI	GGCC	2 cut(s)	257, 263
BtgI	CCRYGG	1 cut(s)	258
BveI	ACCTGC	1 cut(s)	41
Cac8I	GCNNGC	2 cut(s)	38, 324
CfoI	GCGC	2 cut(s)	38, 40
CviAII	CATG	2 cut(s)	107, 259
DdeI	CTNAG	2 cut(s)	305, 395
DpnI	GATC	5 cut(s)	6, 273, 387, 393, 541
DpnII	GATC	5 cut(s)	4, 271, 385, 391, 539
EaeI	YGGCCR	1 cut(s)	255
Eco130I	CCWWGG	1 cut(s)	258
EcoT14I	CCWWGG	1 cut(s)	258
ErhI	CCWWGG	1 cut(s)	258
Esp3I	CGTCTC	1 cut(s)	330
FaeI	CATG	2 cut(s)	110, 262
FaiI	YATR	6 cut(s)	108, 260, 270, 363, 527, 529
FatI	CATG	2 cut(s)	106, 258
Fnu4HI	GCNGC	2 cut(s)	224, 302
Fsp4HI	GCNGC	2 cut(s)	224, 302
FspBI	CTAG	1 cut(s)	333
GlaI	GCGC	2 cut(s)	37, 39
GluI	GCNGC	2 cut(s)	224, 302
HaeIII	GGCC	2 cut(s)	257, 263
HapII	CCGG	1 cut(s)	495
HhaI	GCGC	2 cut(s)	38, 40
Hin1II	CATG	2 cut(s)	110, 262
Hin6I	GCGC	2 cut(s)	36, 38
HinP1I	GCGC	2 cut(s)	36, 38
HinfI	GANTC	1 cut(s)	131
HpaII	CCGG	1 cut(s)	495
HphI	GGTGA	1 cut(s)	515
Hpy166II	GTNNAC	2 cut(s)	50, 216
Hpy188I	TCNGA	2 cut(s)	396, 414
Hpy188III	TCNNGA	2 cut(s)	333, 389
Hpy8I	GTNNAC	2 cut(s)	50, 216
HpyAV	CCTTC	1 cut(s)	64
HpyCH4III	ACNGT	1 cut(s)	44
HpyCH4IV	ACGT	1 cut(s)	218
HpyF10VI	GCNNNNNNNGC	1 cut(s)	307
HpyF3I	CTNAG	2 cut(s)	305, 395
HpySE526I	ACGT	1 cut(s)	218
Hsp92II	CATG	2 cut(s)	110, 262
HspAI	GCGC	2 cut(s)	36, 38
Kzo9I	GATC	5 cut(s)	4, 271, 385, 391, 539
LmnI	GCTCC	2 cut(s)	294, 319
Lsp1109I	GCAGC	1 cut(s)	210
LweI	GCATC	1 cut(s)	355
MaeI	CTAG	1 cut(s)	333
MaeII	ACGT	1 cut(s)	218
MaeIII	GTNAC	2 cut(s)	128, 511
MalI	GATC	5 cut(s)	6, 273, 387, 393, 541
MboI	GATC	5 cut(s)	4, 271, 385, 391, 539
MboII	GAAGA	2 cut(s)	52, 353
MflI	RGATCY	1 cut(s)	4
MlsI	TGGCCA	1 cut(s)	257
MluCI	AATT	4 cut(s)	12, 74, 168, 345
MluNI	TGGCCA	1 cut(s)	257
MlyI	GAGTC	1 cut(s)	125
MmeI	TCCRAC	1 cut(s)	374
MnlI	CCTC	6 cut(s)	300, 390, 395, 408, 411, 429
Mox20I	TGGCCA	1 cut(s)	257
MroXI	GAANNNNTTC	1 cut(s)	345
MscI	TGGCCA	1 cut(s)	257
MseI	TTAA	1 cut(s)	550
Msp20I	TGGCCA	1 cut(s)	257
MspA1I	CMGCKG	1 cut(s)	304
MspI	CCGG	1 cut(s)	495
MspR9I	CCNGG	1 cut(s)	496
Mva1269I	GAATGC	1 cut(s)	201
MvnI	CGCG	1 cut(s)	38
MwoI	GCNNNNNNNGC	1 cut(s)	307
NciI	CCSGG	1 cut(s)	496
NcoI	CCATGG	1 cut(s)	258
NdeII	GATC	5 cut(s)	4, 271, 385, 391, 539
NlaIII	CATG	2 cut(s)	110, 262
NmuCI	GTSAC	2 cut(s)	128, 511
PauI	GCGCGC	1 cut(s)	36
PcsI	WCGNNNNNNNCGW	1 cut(s)	63
PctI	GAATGC	1 cut(s)	201
PdmI	GAANNNNTTC	1 cut(s)	345
PkrI	GCNGC	2 cut(s)	225, 303
PleI	GAGTC	1 cut(s)	125
PpsI	GAGTC	1 cut(s)	125
PsuI	RGATCY	1 cut(s)	4
PteI	GCGCGC	1 cut(s)	36
SaqAI	TTAA	1 cut(s)	550
SatI	GCNGC	2 cut(s)	224, 302
Sau3AI	GATC	5 cut(s)	4, 271, 385, 391, 539
SchI	GAGTC	1 cut(s)	125
ScrFI	CCNGG	1 cut(s)	496
SetI	ASST	5 cut(s)	35, 128, 221, 324, 406
SfaNI	GCATC	1 cut(s)	355
SmlI	CTYRAG	1 cut(s)	133
SmoI	CTYRAG	1 cut(s)	133
Sse9I	AATT	4 cut(s)	12, 74, 168, 345
SsiI	CCGC	2 cut(s)	281, 302
SspMI	CTAG	1 cut(s)	333
StyD4I	CCNGG	1 cut(s)	494
StyI	CCWWGG	1 cut(s)	258
TaaI	ACNGT	1 cut(s)	44
TaiI	ACGT	1 cut(s)	221
TaqI	TCGA	1 cut(s)	120
TasI	AATT	4 cut(s)	12, 74, 168, 345
TauI	GCSGC	1 cut(s)	304
Tru1I	TTAA	1 cut(s)	550
Tru9I	TTAA	1 cut(s)	550
TseFI	GTSAC	2 cut(s)	128, 511
TseI	GCWGC	1 cut(s)	223
Tsp45I	GTSAC	2 cut(s)	128, 511
TspDTI	ATGAA	4 cut(s)	95, 471, 510, 514
XapI	RAATTY	2 cut(s)	12, 345
XbaI	TCTAGA	1 cut(s)	332
XmnI	GAANNNNTTC	1 cut(s)	345
XspI	CTAG	1 cut(s)	333

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