Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0005488

Physical Location & Seq

Genomic Coordinates Reverse (-)

8447991 .. 8449158

Gene Structure 1168 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG101600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 366 bp

ATGGCGTTCTCTGGAGTTCTGAAGGTGATTTGCTTGGTGGTGCTATCCGTGGCTGCACTGTGGTTTGGTGATGCGAAAGCAGCCATTACGTGCGGGCAGGTGGTGAATAAGCTGATGCCATGCGTTGCCTACGTCCAAAACGGTGGGACTCCCGCGGTGGGTTGCTGTAGCGGGATCAAGACCCTCTACGGCATGGCTCAAACCACCCCTGACCGCCAGAGCGTGTGCAACTGTTTGAAACAAGCAGTTGCCGGAATTCCGTACACCGGAGCTAACGCCGGTCTTGCTGCTGGCCTTCCCGGCAAGTGTGGTGTCAACCTTCCCTACAAGATCAACCCTTCTACTGACTGCAAAAGCATCAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0006810 GO:0006869 GO:0008150 GO:0010876 GO:0016020 GO:0033036 GO:0051179 GO:0051234 GO:0071702

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LTP_2 Tryp_alpha_amyl

Protein Analysis

121

Amino Acids

12.33

Weight (kDa)

9.04

Isoelectric Point (pI)

20.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	14 - 109	3.5e-06	Probable lipid transfer
Tryp_alpha_amyl	PF00234	31 - 117	5.5e-15	Protease inhibitor/seed storage/LTP family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

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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: OG0005488)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G01870
fragaria_vesca	FvH4_6g09960 FvH4_7g28420
malus_domestica	MD04G1174000.v1.1 MD12G1187600.v1.1
prunus_persica	Prupe.6G293000_v2.0.a1
pyrus_communis	pycom04g15360 pycom12g17560
rosa_chinensis	RchiOBHm_Chr3g0460541 RchiOBHm_Chr3g0460571
rosa_laevigata	RLG00000024995 RLG00000031904
rosa_multiflora	Rmu_co8040472.1_g000001 Rmu_sc0001256.1_g000003 Rmu_sc0003701.1_g000004 Rmu_sc0006046.1_g000007
rosa_roxburghii	Rroxscaffold_6G00419360 Rroxscaffold_6G00419390
rosa_rugosa	Rorug03G0043600 Rorug03G0043900
rosa_samantha	Rh3AG101600 Rh3AG102100 Rh3BG105600 Rh3BG105800 Rh3CG107400 Rh3DG107000 Rh3DG107200
rosa_wichuraiana	Rw3G008650 Rw3G008670

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	88
Acc36I	ACCTGC	1 cut(s)	88
AccII	CGCG	1 cut(s)	155
AciI	CCGC	5 cut(s)	93, 153, 155, 171, 214
AclWI	GGATC	1 cut(s)	182
AcsI	RAATTY	1 cut(s)	255
AcuI	CTGAAG	1 cut(s)	41
AfaI	GTAC	1 cut(s)	263
AfiI	CCNNNNNNNGG	2 cut(s)	158, 266
AgsI	TTSAA	1 cut(s)	238
AluBI	AGCT	2 cut(s)	112, 272
AluI	AGCT	2 cut(s)	112, 272
AlwI	GGATC	1 cut(s)	182
AoxI	GGCC	1 cut(s)	292
ApeKI	GCWGC	3 cut(s)	53, 80, 287
ApoI	RAATTY	1 cut(s)	255
AsuC2I	CCSGG	1 cut(s)	300
AsuHPI	GGTGA	3 cut(s)	37, 80, 115
BbvI	GCAGC	3 cut(s)	40, 92, 274
BceAI	ACGGC	1 cut(s)	205
BcnI	CCSGG	1 cut(s)	300
BfmI	CTRYAG	1 cut(s)	166
BfuAI	ACCTGC	1 cut(s)	88
BglI	GCCNNNNNGGC	1 cut(s)	300
BisI	GCNGC	3 cut(s)	54, 81, 288
BlsI	GCNGC	3 cut(s)	55, 82, 289
Bme1390I	CCNGG	1 cut(s)	300
BmrFI	CCNGG	1 cut(s)	300
BmsI	GCATC	2 cut(s)	61, 105
BpmI	CTGGAG	1 cut(s)	33
BpuMI	CCSGG	1 cut(s)	300
BsaAI	YACGTR	1 cut(s)	90
BsaJI	CCNNGG	2 cut(s)	48, 153
BsaWI	WCCGGW	1 cut(s)	266
Bsc4I	CCNNNNNNNGG	2 cut(s)	158, 266
Bse118I	RCCGGY	1 cut(s)	278
BseDI	CCNNGG	2 cut(s)	48, 153
BseLI	CCNNNNNNNGG	2 cut(s)	158, 266
BseXI	GCAGC	3 cut(s)	40, 92, 274
BsgI	GTGCAG	1 cut(s)	39
Bsh1236I	CGCG	1 cut(s)	155
BshFI	GGCC	1 cut(s)	294
BsiSI	CCGG	4 cut(s)	252, 267, 279, 300
BslFI	GGGAC	1 cut(s)	160
BslI	CCNNNNNNNGG	2 cut(s)	158, 266
BsmFI	GGGAC	1 cut(s)	160
BsnI	GGCC	1 cut(s)	294
Bsp143I	GATC	2 cut(s)	174, 330
BspACI	CCGC	5 cut(s)	93, 153, 155, 171, 214
BspANI	GGCC	1 cut(s)	294
BspFNI	CGCG	1 cut(s)	155
BspMI	ACCTGC	1 cut(s)	88
BspPI	GGATC	1 cut(s)	182
BsrFI	RCCGGY	1 cut(s)	278
BssAI	RCCGGY	1 cut(s)	278
BssECI	CCNNGG	2 cut(s)	48, 153
BssMI	GATC	2 cut(s)	174, 330
Bst4CI	ACNGT	3 cut(s)	60, 143, 233
BstBAI	YACGTR	1 cut(s)	90
BstC8I	GCNNGC	2 cut(s)	95, 292
BstDSI	CCRYGG	2 cut(s)	48, 153
BstFNI	CGCG	1 cut(s)	155
BstKTI	GATC	2 cut(s)	177, 333
BstMBI	GATC	2 cut(s)	174, 330
BstMWI	GCNNNNNNNGC	3 cut(s)	80, 284, 300
BstSCI	CCNGG	1 cut(s)	298
BstSFI	CTRYAG	1 cut(s)	166
BstUI	CGCG	1 cut(s)	155
BstV1I	GCAGC	3 cut(s)	40, 92, 274
BstXI	CCANNNNNNTGG	1 cut(s)	143
BsuRI	GGCC	1 cut(s)	294
BtgI	CCRYGG	2 cut(s)	48, 153
BtsIMutI	CAGTG	1 cut(s)	56
BveI	ACCTGC	1 cut(s)	88
Cac8I	GCNNGC	2 cut(s)	95, 292
Cfr10I	RCCGGY	1 cut(s)	278
Cfr42I	CCGCGG	1 cut(s)	156
Csp6I	GTAC	1 cut(s)	262
CviAII	CATG	2 cut(s)	120, 193
CviJI	RGCY	6 cut(s)	53, 83, 112, 197, 272, 294
CviKI_1	RGCY	6 cut(s)	53, 83, 112, 197, 272, 294
CviQI	GTAC	1 cut(s)	262
DpnI	GATC	2 cut(s)	176, 332
DpnII	GATC	2 cut(s)	174, 330
Eco57I	CTGAAG	1 cut(s)	41
EcoRI	GAATTC	1 cut(s)	255
FaeI	CATG	2 cut(s)	123, 196
FaiI	YATR	2 cut(s)	121, 194
FaqI	GGGAC	1 cut(s)	160
FatI	CATG	2 cut(s)	119, 192
FauI	CCCGC	3 cut(s)	86, 160, 164
Fnu4HI	GCNGC	3 cut(s)	54, 81, 288
Fsp4HI	GCNGC	3 cut(s)	54, 81, 288
GluI	GCNGC	3 cut(s)	54, 81, 288
GsuI	CTGGAG	1 cut(s)	33
HaeIII	GGCC	1 cut(s)	294
HapII	CCGG	4 cut(s)	252, 267, 279, 300
Hin1II	CATG	2 cut(s)	123, 196
HincII	GTYRAC	1 cut(s)	316
HindII	GTYRAC	1 cut(s)	316
HinfI	GANTC	1 cut(s)	148
HpaII	CCGG	4 cut(s)	252, 267, 279, 300
HphI	GGTGA	3 cut(s)	37, 80, 115
Hpy166II	GTNNAC	2 cut(s)	264, 316
Hpy188I	TCNGA	1 cut(s)	21
Hpy188III	TCNNGA	2 cut(s)	12, 178
Hpy8I	GTNNAC	2 cut(s)	264, 316
HpyAV	CCTTC	4 cut(s)	16, 305, 329, 348
HpyCH4III	ACNGT	3 cut(s)	60, 143, 233
HpyCH4IV	ACGT	2 cut(s)	89, 132
HpyCH4V	TGCA	3 cut(s)	56, 228, 351
HpyF10VI	GCNNNNNNNGC	3 cut(s)	80, 284, 300
HpySE526I	ACGT	2 cut(s)	89, 132
Hsp92II	CATG	2 cut(s)	123, 196
KspI	CCGCGG	1 cut(s)	156
Kzo9I	GATC	2 cut(s)	174, 330
LmnI	GCTCC	1 cut(s)	269
LpnPI	CCDG	8 cut(s)	83, 222, 230, 265, 276, 280, 292, 313
Lsp1109I	GCAGC	3 cut(s)	40, 92, 274
LweI	GCATC	2 cut(s)	61, 105
MaeII	ACGT	2 cut(s)	89, 132
MalI	GATC	2 cut(s)	176, 332
MboI	GATC	2 cut(s)	174, 330
MluCI	AATT	1 cut(s)	255
MlyI	GAGTC	1 cut(s)	142
MnlI	CCTC	1 cut(s)	194
MspA1I	CMGCKG	1 cut(s)	155
MspI	CCGG	4 cut(s)	252, 267, 279, 300
MspR9I	CCNGG	1 cut(s)	300
MvnI	CGCG	1 cut(s)	155
MwoI	GCNNNNNNNGC	3 cut(s)	80, 284, 300
NciI	CCSGG	1 cut(s)	300
NdeII	GATC	2 cut(s)	174, 330
NlaIII	CATG	2 cut(s)	123, 196
PaqCI	CACCTGC	1 cut(s)	88
PkrI	GCNGC	3 cut(s)	55, 82, 289
PleI	GAGTC	1 cut(s)	142
PpsI	GAGTC	1 cut(s)	142
Ppu21I	YACGTR	1 cut(s)	90
RsaI	GTAC	1 cut(s)	263
RsaNI	GTAC	1 cut(s)	262
SacII	CCGCGG	1 cut(s)	156
SatI	GCNGC	3 cut(s)	54, 81, 288
Sau3AI	GATC	2 cut(s)	174, 330
SchI	GAGTC	1 cut(s)	142
ScrFI	CCNGG	1 cut(s)	300
SetI	ASST	7 cut(s)	27, 92, 102, 114, 135, 274, 321
SfaNI	GCATC	2 cut(s)	61, 105
SfcI	CTRYAG	1 cut(s)	166
Sfr303I	CCGCGG	1 cut(s)	156
SgrBI	CCGCGG	1 cut(s)	156
Sse9I	AATT	1 cut(s)	255
SsiI	CCGC	5 cut(s)	93, 153, 155, 171, 214
StyD4I	CCNGG	1 cut(s)	298
TaaI	ACNGT	3 cut(s)	60, 143, 233
TaiI	ACGT	2 cut(s)	92, 135
TasI	AATT	1 cut(s)	255
TscAI	CASTG	1 cut(s)	63
TseI	GCWGC	3 cut(s)	53, 80, 287
TspGWI	ACGGA	2 cut(s)	37, 249
TspRI	CASTG	1 cut(s)	63
XapI	RAATTY	1 cut(s)	255

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