Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001388

Physical Location & Seq

Genomic Coordinates Reverse (-)

25382419 .. 25382880

Gene Structure 462 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG225300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 363 bp

ATGTTGGTGTCTGAGAAAAATAAGAGGGACGAGGATGTTAAAAGCCCCAAGTGGATCTCCTTCAAAGCAGCAATGATGTTGTTGCTGGGAACTTGTATCGCTGTTCTAGTTGCTGACCCTTTGGTAGATGCTGTTGATGATTTCTCGGAAGCCACCAGCATTCCAACCTTCTTTGTATCTTTCATTGTGTTGCCTTTAGCTACAAACAGTTGTGAAACATTGTCAGCGATCAAAATGGCTCGCCAGAAGACCCAGAGAACAGTCTCATCGACATTGTCTGAGTTATCTGTAACGGTAACACTGAATATCAGTTTTCCTGGCCATTGTTTACATCAAGGGATTGTATTGGGACTTCAGATCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000325 GO:0003674 GO:0005215 GO:0005432 GO:0005488 GO:0005509 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005774 GO:0005911 GO:0006810 GO:0006811 GO:0006812 GO:0006814 GO:0006816 GO:0006950 GO:0006970 GO:0008150 GO:0008324 GO:0009506 GO:0009628 GO:0009651 GO:0009987 GO:0015075 GO:0015077 GO:0015081 GO:0015085 GO:0015291 GO:0015297 GO:0015298 GO:0015318 GO:0015368 GO:0015491 GO:0015672 GO:0016020 GO:0022804 GO:0022857 GO:0022890 GO:0030001 GO:0030054 GO:0031090 GO:0033554 GO:0034220 GO:0035725 GO:0042592 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0046872 GO:0046873 GO:0048878 GO:0050801 GO:0050896 GO:0051179 GO:0051234 GO:0051716 GO:0055044 GO:0055065 GO:0055074 GO:0055080 GO:0055085 GO:0065007 GO:0065008 GO:0070588 GO:0070838 GO:0071214 GO:0071470 GO:0071472 GO:0072507 GO:0072511 GO:0098588 GO:0098655 GO:0098660 GO:0098662 GO:0098771 GO:0098805 GO:0099516 GO:0104004

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

EF-hand_7 Na_Ca_ex

Protein Analysis

120

Amino Acids

13.04

Weight (kDa)

6.05

Isoelectric Point (pI)

33.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Na_Ca_ex	PF01699	23 - 86	1.6e-08	Sodium/calcium exchanger protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0001388)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G53210
fragaria_vesca	FvH4_3g18760 FvH4_3g18770 FvH4_3g18770 FvH4_3g18770 FvH4_3g18770 FvH4_3g18800 FvH4_4g13751
malus_domestica	MD03G1238600.v1.1 MD03G1238700.v1.1 MD11G1258400.v1.1
prunus_persica	Prupe.4G171300_v2.0.a1 Prupe.4G171300_v2.0.a1 Prupe.4G171300_v2.0.a1 Prupe.4G171400_v2.0.a1
pyrus_communis	pycom03g18400 pycom03g18410 pycom05g21930 pycom11g22820
rosa_chinensis	RchiOBHm_Chr5g0031571 RchiOBHm_Chr5g0031591 RchiOBHm_Chr5g0031601 RchiOBHm_Chr5g0031631
rosa_laevigata	RLG00000033325 RLG00000033326 RLG00000033327 RLG00000033330
rosa_multiflora	Rmu_sc0001905.1_g000007 Rmu_sc0001905.1_g000015 Rmu_sc0014784.1_g000001
rosa_roxburghii	Rroxscaffold_1G00048650 Rroxscaffold_1G00048690 Rroxscaffold_1G00048700 Rroxscaffold_1G00048730
rosa_rugosa	Rorug02G0269100 Rorug05G0127000 Rorug05G0127100
rosa_samantha	Rh5AG220400 Rh5AG220600 Rh5AG220700 Rh5BG220000 Rh5BG220100 Rh5CG243100 Rh5CG243200 Rh5CG243900 Rh5DG224800 Rh5DG225000 Rh5DG225100 Rh5DG225300 Rh5DG225400
rosa_wichuraiana	Rw5G020090 Rw5G020100 Rw5G020110

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	62
AcoI	YGGCCR	1 cut(s)	319
AcuI	CTGAAG	1 cut(s)	338
AgsI	TTSAA	1 cut(s)	64
AjnI	CCWGG	1 cut(s)	316
AluBI	AGCT	1 cut(s)	200
AluI	AGCT	1 cut(s)	200
Alw26I	GTCTC	1 cut(s)	268
AlwI	GGATC	1 cut(s)	62
AoxI	GGCC	1 cut(s)	319
ApeKI	GCWGC	1 cut(s)	68
BalI	TGGCCA	1 cut(s)	321
BarI	GAAGNNNNNNTAC	1 cut(s)	336
BbsI	GAAGAC	1 cut(s)	254
BbvI	GCAGC	1 cut(s)	80
BciT130I	CCWGG	1 cut(s)	318
BcoDI	GTCTC	1 cut(s)	268
BfaI	CTAG	1 cut(s)	107
BglII	AGATCT	1 cut(s)	357
BisI	GCNGC	1 cut(s)	69
BlsI	GCNGC	1 cut(s)	70
Bme1390I	CCNGG	1 cut(s)	318
BmrFI	CCNGG	1 cut(s)	318
BmsI	GCATC	1 cut(s)	118
BpiI	GAAGAC	1 cut(s)	254
Bse3DI	GCAATG	1 cut(s)	78
BseBI	CCWGG	1 cut(s)	318
BseGI	GGATG	1 cut(s)	40
BseMI	GCAATG	1 cut(s)	78
BseMII	CTCAG	1 cut(s)	270
BseXI	GCAGC	1 cut(s)	80
BseYI	CCCAGC	1 cut(s)	85
BshFI	GGCC	1 cut(s)	321
BslFI	GGGAC	1 cut(s)	41
BsmAI	GTCTC	1 cut(s)	268
BsmFI	GGGAC	1 cut(s)	41
BsmI	GAATGC	1 cut(s)	159
BsnI	GGCC	1 cut(s)	321
Bsp143I	GATC	3 cut(s)	54, 228, 357
BspANI	GGCC	1 cut(s)	321
BspCNI	CTCAG	2 cut(s)	4, 271
BspPI	GGATC	1 cut(s)	62
BsrDI	GCAATG	1 cut(s)	78
BssMI	GATC	3 cut(s)	54, 228, 357
Bst2UI	CCWGG	1 cut(s)	318
Bst4CI	ACNGT	3 cut(s)	209, 262, 295
BstC8I	GCNNGC	1 cut(s)	241
BstDEI	CTNAG	2 cut(s)	12, 279
BstF5I	GGATG	1 cut(s)	40
BstKTI	GATC	3 cut(s)	57, 231, 360
BstMAI	GTCTC	1 cut(s)	268
BstMBI	GATC	3 cut(s)	54, 228, 357
BstNI	CCWGG	1 cut(s)	318
BstSCI	CCNGG	1 cut(s)	316
BstV1I	GCAGC	1 cut(s)	80
BstV2I	GAAGAC	1 cut(s)	254
BstX2I	RGATCY	2 cut(s)	54, 357
BstYI	RGATCY	2 cut(s)	54, 357
BsuRI	GGCC	1 cut(s)	321
BtsCI	GGATG	1 cut(s)	40
BtsIMutI	CAGTG	1 cut(s)	299
Cac8I	GCNNGC	1 cut(s)	241
CviJI	RGCY	5 cut(s)	45, 152, 200, 239, 321
CviKI_1	RGCY	5 cut(s)	45, 152, 200, 239, 321
DdeI	CTNAG	2 cut(s)	12, 279
DpnI	GATC	3 cut(s)	56, 230, 359
DpnII	GATC	3 cut(s)	54, 228, 357
EaeI	YGGCCR	1 cut(s)	319
Eco57I	CTGAAG	1 cut(s)	338
EcoRII	CCWGG	1 cut(s)	316
FaqI	GGGAC	1 cut(s)	41
Fnu4HI	GCNGC	1 cut(s)	69
FokI	GGATG	1 cut(s)	47
Fsp4HI	GCNGC	1 cut(s)	69
FspBI	CTAG	1 cut(s)	107
GluI	GCNGC	1 cut(s)	69
GsaI	CCCAGC	1 cut(s)	89
HaeIII	GGCC	1 cut(s)	321
Hpy166II	GTNNAC	1 cut(s)	329
Hpy188I	TCNGA	5 cut(s)	13, 148, 280, 357, 362
Hpy8I	GTNNAC	1 cut(s)	329
HpyAV	CCTTC	2 cut(s)	70, 178
HpyCH4III	ACNGT	3 cut(s)	209, 262, 295
HpyF3I	CTNAG	2 cut(s)	12, 279
Kzo9I	GATC	3 cut(s)	54, 228, 357
LpnPI	CCDG	6 cut(s)	71, 169, 257, 266, 303, 330
Lsp1109I	GCAGC	1 cut(s)	80
LweI	GCATC	1 cut(s)	118
MaeI	CTAG	1 cut(s)	107
MaeIII	GTNAC	2 cut(s)	289, 295
MalI	GATC	3 cut(s)	56, 230, 359
MboI	GATC	3 cut(s)	54, 228, 357
MboII	GAAGA	1 cut(s)	259
MflI	RGATCY	2 cut(s)	54, 357
MlsI	TGGCCA	1 cut(s)	321
MluNI	TGGCCA	1 cut(s)	321
MmeI	TCCRAC	1 cut(s)	188
MnlI	CCTC	2 cut(s)	18, 25
Mox20I	TGGCCA	1 cut(s)	321
MscI	TGGCCA	1 cut(s)	321
MseI	TTAA	1 cut(s)	39
Msp20I	TGGCCA	1 cut(s)	321
MspR9I	CCNGG	1 cut(s)	318
Mva1269I	GAATGC	1 cut(s)	159
MvaI	CCWGG	1 cut(s)	318
NdeII	GATC	3 cut(s)	54, 228, 357
PctI	GAATGC	1 cut(s)	159
PflFI	GACNNNGTC	1 cut(s)	274
PkrI	GCNGC	1 cut(s)	70
Psp6I	CCWGG	1 cut(s)	316
PspFI	CCCAGC	1 cut(s)	85
PspGI	CCWGG	1 cut(s)	316
PsuI	RGATCY	2 cut(s)	54, 357
PsyI	GACNNNGTC	1 cut(s)	274
SaqAI	TTAA	1 cut(s)	39
SatI	GCNGC	1 cut(s)	69
Sau3AI	GATC	3 cut(s)	54, 228, 357
ScrFI	CCNGG	1 cut(s)	318
SetI	ASST	2 cut(s)	170, 202
SfaNI	GCATC	1 cut(s)	118
SspMI	CTAG	1 cut(s)	107
StyD4I	CCNGG	1 cut(s)	316
TaaI	ACNGT	3 cut(s)	209, 262, 295
TaqI	TCGA	1 cut(s)	269
Tru1I	TTAA	1 cut(s)	39
Tru9I	TTAA	1 cut(s)	39
TscAI	CASTG	1 cut(s)	306
TseI	GCWGC	1 cut(s)	68
TspDTI	ATGAA	1 cut(s)	172
TspRI	CASTG	1 cut(s)	306
Tth111I	GACNNNGTC	1 cut(s)	274
XspI	CTAG	1 cut(s)	107

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