Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0003474

Physical Location & Seq

Genomic Coordinates Reverse (-)

63721882 .. 63723047

Gene Structure 1166 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG402100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 333 bp

ATGATCAATGGGTTTTTCCAGGAAGCATCTGACTCGCTCAATATTCCTGTAGCATTTATTAGTGCCATCCTGCTCCCAGTTGTAGGAAATATGTGGTCTATCCTGTTTTCCATGAGAGAAAAACTTGACCTCACGCTTGGAGTCGCTATTGGATTATCTATACAAACATCCATGTTTACAATCCCCTTTTGTGTAATTGTTGGGTGGATAATAGGAAATCCTATGGACTTGAATTTTCAACTCTTTGAGACTGTTATATTGGTTATGGCTGTGCTAGTAGTGGCATTTATGTTGCAGGTTTGTGTATTATTTCTTGTTTTTACTTCCTTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000325 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005774 GO:0009705 GO:0016020 GO:0031090 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0098588 GO:0098805

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Na_Ca_ex

Protein Analysis

110

Amino Acids

12.18

Weight (kDa)

4.05

Isoelectric Point (pI)

23.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Na_Ca_ex	PF01699	10 - 98	5.9e-07	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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Publication-ready

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Orthologous Genes (Group: OG0003474)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g37510 FvH4_6g37510
malus_domestica	MD09G1157100.v1.1 MD17G1143500.v1.1
prunus_persica	Prupe.3G168500_v2.0.a1 Prupe.3G168500_v2.0.a1 Prupe.3G168500_v2.0.a1 Prupe.3G168500_v2.0.a1 Prupe.3G168500_v2.0.a1 Prupe.3G168500_v2.0.a1 Prupe.3G168500_v2.0.a1 Prupe.3G168500_v2.0.a1 Prupe.3G168500_v2.0.a1
pyrus_communis	pycom09g07580 pycom09g07590 pycom17g13660
rosa_chinensis	RchiOBHm_Chr2g0150371 RchiOBHm_Chr2g0150391 RchiOBHm_Chr7g0199401
rosa_laevigata	RLG00000020493 RLG00000020495
rosa_multiflora	Rmu_sc0002179.1_g000009 Rmu_ssc0000480.1_g000006
rosa_roxburghii	Rroxscaffold_2G00097160 Rroxscaffold_2G00097180
rosa_rugosa	Rorug02G0421000 Rorug02G0421000 Rorug02G0421000 Rorug02G0421100
rosa_samantha	Rh2AG480100 Rh2AG480300 Rh2CG466400 Rh2CG466600 Rh2DG501100 Rh5DG402100
rosa_wichuraiana	Rw2G039180

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	286
AcsI	RAATTY	1 cut(s)	232
AfiI	CCNNNNNNNGG	1 cut(s)	83
AgsI	TTSAA	2 cut(s)	232, 239
AjnI	CCWGG	1 cut(s)	18
Alw26I	GTCTC	1 cut(s)	242
ApoI	RAATTY	1 cut(s)	232
BccI	CCATC	1 cut(s)	74
BcgI	CGANNNNNNTGC	2 cut(s)	15, 49
BciT130I	CCWGG	1 cut(s)	20
BclI	TGATCA	1 cut(s)	3
BcoDI	GTCTC	1 cut(s)	242
BfaI	CTAG	1 cut(s)	275
BfmI	CTRYAG	1 cut(s)	48
BfuAI	ACCTGC	1 cut(s)	286
Bme1390I	CCNGG	1 cut(s)	20
BmrFI	CCNGG	1 cut(s)	20
BmrI	ACTGGG	1 cut(s)	71
BmsI	GCATC	1 cut(s)	35
BmuI	ACTGGG	1 cut(s)	71
Bsc4I	CCNNNNNNNGG	1 cut(s)	83
Bse1I	ACTGG	1 cut(s)	77
BseBI	CCWGG	1 cut(s)	20
BseGI	GGATG	2 cut(s)	66, 167
BseLI	CCNNNNNNNGG	1 cut(s)	83
BseNI	ACTGG	1 cut(s)	77
BslI	CCNNNNNNNGG	1 cut(s)	83
BsmAI	GTCTC	1 cut(s)	242
Bsp143I	GATC	1 cut(s)	3
BspMI	ACCTGC	1 cut(s)	286
BsrI	ACTGG	1 cut(s)	77
BssMI	GATC	1 cut(s)	3
Bst2UI	CCWGG	1 cut(s)	20
Bst4CI	ACNGT	1 cut(s)	253
BstF5I	GGATG	2 cut(s)	66, 167
BstKTI	GATC	1 cut(s)	6
BstMAI	GTCTC	1 cut(s)	242
BstMBI	GATC	1 cut(s)	3
BstNI	CCWGG	1 cut(s)	20
BstSCI	CCNGG	1 cut(s)	18
BstSFI	CTRYAG	1 cut(s)	48
BtsCI	GGATG	2 cut(s)	66, 167
BveI	ACCTGC	1 cut(s)	286
CviAII	CATG	2 cut(s)	112, 172
CviJI	RGCY	1 cut(s)	269
CviKI_1	RGCY	1 cut(s)	269
DpnI	GATC	1 cut(s)	5
DpnII	GATC	1 cut(s)	3
EcoRII	CCWGG	1 cut(s)	18
FaeI	CATG	2 cut(s)	115, 175
FaiI	YATR	8 cut(s)	92, 113, 161, 173, 224, 257, 266, 290
FatI	CATG	2 cut(s)	111, 171
FbaI	TGATCA	1 cut(s)	3
FokI	GGATG	2 cut(s)	53, 154
FspBI	CTAG	1 cut(s)	275
Hin1II	CATG	2 cut(s)	115, 175
HinfI	GANTC	2 cut(s)	32, 141
Hpy166II	GTNNAC	1 cut(s)	177
Hpy188I	TCNGA	1 cut(s)	31
Hpy8I	GTNNAC	1 cut(s)	177
HpyCH4III	ACNGT	1 cut(s)	253
HpyCH4V	TGCA	1 cut(s)	295
Hsp92II	CATG	2 cut(s)	115, 175
Ksp22I	TGATCA	1 cut(s)	3
Kzo9I	GATC	1 cut(s)	3
LmnI	GCTCC	1 cut(s)	78
LpnPI	CCDG	7 cut(s)	5, 32, 60, 83, 90, 116, 281
LweI	GCATC	1 cut(s)	35
MaeI	CTAG	1 cut(s)	275
MalI	GATC	1 cut(s)	5
MboI	GATC	1 cut(s)	3
MluCI	AATT	2 cut(s)	195, 232
MlyI	GAGTC	2 cut(s)	26, 150
MnlI	CCTC	1 cut(s)	140
MspR9I	CCNGG	1 cut(s)	20
MvaI	CCWGG	1 cut(s)	20
NdeII	GATC	1 cut(s)	3
NlaIII	CATG	2 cut(s)	115, 175
PfoI	TCCNGGA	1 cut(s)	18
PleI	GAGTC	2 cut(s)	26, 149
PpsI	GAGTC	2 cut(s)	26, 149
Psp6I	CCWGG	1 cut(s)	18
PspGI	CCWGG	1 cut(s)	18
Sau3AI	GATC	1 cut(s)	3
SchI	GAGTC	2 cut(s)	26, 150
ScrFI	CCNGG	1 cut(s)	20
SetI	ASST	2 cut(s)	132, 300
SfaNI	GCATC	1 cut(s)	35
SfcI	CTRYAG	1 cut(s)	48
Sse9I	AATT	2 cut(s)	195, 232
SspI	AATATT	1 cut(s)	43
SspMI	CTAG	1 cut(s)	275
StyD4I	CCNGG	1 cut(s)	18
TaaI	ACNGT	1 cut(s)	253
TasI	AATT	2 cut(s)	195, 232
XapI	RAATTY	1 cut(s)	232
XspI	CTAG	1 cut(s)	275

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