Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0004528

Physical Location & Seq

Genomic Coordinates Forward (+)

1185477 .. 1185827

Gene Structure 351 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG015600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 351 bp

ATGGAGAAGAAAATGATGACTTTCGCTGCGCTGGTGATTATGGTCGTCGTCCTCAATGCATGTCCTGCAATTGGAGGGTGCGACGAAGCCTTAGTCGAGTTGTTGCCCTGTGCCACGTTCGTGTTGGGCCCTGGCATAGGGGAGCCCCCTTCTCTGTGCTGTGCAGGTTTAAAGCATGTGGTTGCTGGAGCTGATACCAGTGAGAAGCGCAGGAGTCTTTGCCAATGTTTGAAAGACAAAGCTGTTGGTACTGGCGTTAAAGTCGACCCTGAAAAACTTAAGCACGTTACTGACGCTTGTGGCGTCAAAATTCCTATTCCTATTGATCCCAATGTCGACTGCAGCACGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LTP_2 Tryp_alpha_amyl

Protein Analysis

116

Amino Acids

12.06

Weight (kDa)

6.06

Isoelectric Point (pI)

33.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	12 - 105	2.3e-08	Probable lipid transfer
Tryp_alpha_amyl	PF00234	27 - 114	4.3e-11	Protease inhibitor/seed storage/LTP family

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

Tree File

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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: OG0004528)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g01200 FvH4_3g01230 FvH4_3g09850
rosa_chinensis	RchiOBHm_Chr5g0001761 RchiOBHm_Chr5g0015561
rosa_laevigata	RLG00000030969 RLG00000030970 RLG00000032208
rosa_multiflora	Rmu_sc0002886.1_g000025 Rmu_sc0008119.1_g000005 Rmu_sc0008119.1_g000007 Rmu_ssc0000237.1_g000015 Rmu_ssc0000237.1_g000017
rosa_roxburghii	Rroxscaffold_1G00071220 Rroxscaffold_1G00074560
rosa_rugosa	Rorug04G0392800 Rorug04G0392900 Rorug05G0028400
rosa_samantha	Rh5AG013900 Rh5AG014100 Rh5AG121700 Rh5BG017400 Rh5BG017500 Rh5BG120600 Rh5CG015000 Rh5CG015200 Rh5CG130900 Rh5DG015500 Rh5DG015600 Rh5DG119500
rosa_wichuraiana	Rw5G001360 Rw5G010510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	155
AccI	GTMKAC	2 cut(s)	264, 336
AclWI	GGATC	1 cut(s)	320
AcsI	RAATTY	1 cut(s)	309
AcyI	GRCGYC	1 cut(s)	303
AfaI	GTAC	1 cut(s)	250
AfiI	CCNNNNNNNGG	2 cut(s)	71, 137
AflII	CTTAAG	1 cut(s)	278
AgsI	TTSAA	1 cut(s)	232
AjnI	CCWGG	1 cut(s)	130
AleI	CACNNNNGTG	1 cut(s)	119
AluBI	AGCT	2 cut(s)	191, 242
AluI	AGCT	2 cut(s)	191, 242
AlwI	GGATC	1 cut(s)	320
AoxI	GGCC	1 cut(s)	127
ApaI	GGGCCC	1 cut(s)	131
ApeKI	GCWGC	2 cut(s)	26, 342
ApoI	RAATTY	1 cut(s)	309
ArsI	GACNNNNNNTTYG	2 cut(s)	78, 110
AspLEI	GCGC	2 cut(s)	31, 210
AspS9I	GGNCC	2 cut(s)	127, 128
AsuHPI	GGTGA	1 cut(s)	46
BaeGI	GKGCMC	1 cut(s)	131
BaeI	ACNNNNGTAYC	2 cut(s)	240, 273
BanII	GRGCYC	2 cut(s)	131, 147
BbvI	GCAGC	1 cut(s)	13
BciT130I	CCWGG	1 cut(s)	132
BfmI	CTRYAG	1 cut(s)	340
BfrI	CTTAAG	1 cut(s)	278
BfuAI	ACCTGC	1 cut(s)	155
BisI	GCNGC	2 cut(s)	27, 343
BlsI	GCNGC	2 cut(s)	28, 344
Bme1390I	CCNGG	1 cut(s)	132
BmgT120I	GGNCC	2 cut(s)	127, 128
BmiI	GGNNCC	2 cut(s)	129, 144
BmrFI	CCNGG	1 cut(s)	132
BpmI	CTGGAG	1 cut(s)	207
BsaAI	YACGTR	1 cut(s)	348
BsaHI	GRCGYC	1 cut(s)	303
BsaJI	CCNNGG	1 cut(s)	130
Bsc4I	CCNNNNNNNGG	2 cut(s)	71, 137
Bse1I	ACTGG	2 cut(s)	198, 256
BseBI	CCWGG	1 cut(s)	132
BseDI	CCNNGG	1 cut(s)	130
BseLI	CCNNNNNNNGG	2 cut(s)	71, 137
BseNI	ACTGG	2 cut(s)	198, 256
BseSI	GKGCMC	1 cut(s)	131
BseXI	GCAGC	1 cut(s)	13
BsgI	GTGCAG	1 cut(s)	183
BshFI	GGCC	1 cut(s)	129
BslI	CCNNNNNNNGG	2 cut(s)	71, 137
BsnI	GGCC	1 cut(s)	129
Bsp120I	GGGCCC	1 cut(s)	127
Bsp1286I	GDGCHC	2 cut(s)	131, 147
Bsp143I	GATC	1 cut(s)	325
BspANI	GGCC	1 cut(s)	129
BspLI	GGNNCC	2 cut(s)	129, 144
BspMAI	CTGCAG	1 cut(s)	344
BspMI	ACCTGC	1 cut(s)	155
BspPI	GGATC	1 cut(s)	320
BspTI	CTTAAG	1 cut(s)	278
BsrI	ACTGG	2 cut(s)	198, 256
BssECI	CCNNGG	1 cut(s)	130
BssMI	GATC	1 cut(s)	325
BssNI	GRCGYC	1 cut(s)	303
Bst2UI	CCWGG	1 cut(s)	132
BstACI	GRCGYC	1 cut(s)	303
BstAFI	CTTAAG	1 cut(s)	278
BstAPI	GCANNNNNTGC	1 cut(s)	65
BstBAI	YACGTR	1 cut(s)	348
BstDEI	CTNAG	1 cut(s)	91
BstENI	CCTNNNNNAGG	1 cut(s)	135
BstHHI	GCGC	2 cut(s)	31, 210
BstKTI	GATC	1 cut(s)	328
BstMBI	GATC	1 cut(s)	325
BstMWI	GCNNNNNNNGC	1 cut(s)	65
BstNI	CCWGG	1 cut(s)	132
BstNSI	RCATGY	2 cut(s)	63, 179
BstSCI	CCNGG	1 cut(s)	130
BstSFI	CTRYAG	1 cut(s)	340
BstSLI	GKGCMC	1 cut(s)	131
BstV1I	GCAGC	1 cut(s)	13
BsuRI	GGCC	1 cut(s)	129
BtsIMutI	CAGTG	1 cut(s)	205
BveI	ACCTGC	1 cut(s)	155
CfoI	GCGC	2 cut(s)	31, 210
Cfr13I	GGNCC	2 cut(s)	127, 128
CseI	GACGC	2 cut(s)	292, 302
Csp6I	GTAC	1 cut(s)	249
CviAII	CATG	2 cut(s)	60, 176
CviJI	RGCY	5 cut(s)	89, 129, 145, 191, 242
CviKI_1	RGCY	5 cut(s)	89, 129, 145, 191, 242
CviQI	GTAC	1 cut(s)	249
DdeI	CTNAG	1 cut(s)	91
DpnI	GATC	1 cut(s)	327
DpnII	GATC	1 cut(s)	325
DraI	TTTAAA	1 cut(s)	171
Eco24I	GRGCYC	2 cut(s)	131, 147
EcoNI	CCTNNNNNAGG	1 cut(s)	135
EcoO109I	RGGNCCY	1 cut(s)	128
EcoRII	CCWGG	1 cut(s)	130
EcoT22I	ATGCAT	1 cut(s)	61
EcoT38I	GRGCYC	2 cut(s)	131, 147
FaeI	CATG	2 cut(s)	63, 179
FaiI	YATR	4 cut(s)	41, 61, 137, 177
FatI	CATG	2 cut(s)	59, 175
FblI	GTMKAC	2 cut(s)	264, 336
Fnu4HI	GCNGC	2 cut(s)	27, 343
FriOI	GRGCYC	2 cut(s)	131, 147
Fsp4HI	GCNGC	2 cut(s)	27, 343
GlaI	GCGC	2 cut(s)	30, 209
GluI	GCNGC	2 cut(s)	27, 343
GsuI	CTGGAG	1 cut(s)	207
HaeIII	GGCC	1 cut(s)	129
HgaI	GACGC	2 cut(s)	292, 302
HhaI	GCGC	2 cut(s)	31, 210
Hin1I	GRCGYC	1 cut(s)	303
Hin1II	CATG	2 cut(s)	63, 179
Hin6I	GCGC	2 cut(s)	29, 208
HinP1I	GCGC	2 cut(s)	29, 208
HincII	GTYRAC	2 cut(s)	265, 337
HindII	GTYRAC	2 cut(s)	265, 337
HinfI	GANTC	1 cut(s)	214
HphI	GGTGA	1 cut(s)	46
Hpy166II	GTNNAC	2 cut(s)	265, 337
Hpy8I	GTNNAC	2 cut(s)	265, 337
Hpy99I	CGWCG	2 cut(s)	50, 86
HpyAV	CCTTC	1 cut(s)	159
HpyCH4IV	ACGT	3 cut(s)	116, 285, 347
HpyCH4V	TGCA	4 cut(s)	59, 68, 164, 342
HpyF10VI	GCNNNNNNNGC	1 cut(s)	65
HpyF3I	CTNAG	1 cut(s)	91
HpySE526I	ACGT	3 cut(s)	116, 285, 347
Hsp92I	GRCGYC	1 cut(s)	303
Hsp92II	CATG	2 cut(s)	63, 179
HspAI	GCGC	2 cut(s)	29, 208
Kzo9I	GATC	1 cut(s)	325
LmnI	GCTCC	2 cut(s)	142, 188
Lsp1109I	GCAGC	1 cut(s)	13
MaeII	ACGT	3 cut(s)	116, 285, 347
MaeIII	GTNAC	1 cut(s)	286
MalI	GATC	1 cut(s)	327
MboI	GATC	1 cut(s)	325
MboII	GAAGA	1 cut(s)	19
MfeI	CAATTG	1 cut(s)	69
MhlI	GDGCHC	2 cut(s)	131, 147
MluCI	AATT	2 cut(s)	69, 309
MlyI	GAGTC	1 cut(s)	223
MnlI	CCTC	2 cut(s)	62, 68
Mph1103I	ATGCAT	1 cut(s)	61
MseI	TTAA	3 cut(s)	170, 258, 279
MslI	CAYNNNNRTG	1 cut(s)	119
MspCI	CTTAAG	1 cut(s)	278
MspR9I	CCNGG	1 cut(s)	132
MunI	CAATTG	1 cut(s)	69
MvaI	CCWGG	1 cut(s)	132
MwoI	GCNNNNNNNGC	1 cut(s)	65
NdeII	GATC	1 cut(s)	325
NlaIII	CATG	2 cut(s)	63, 179
NlaIV	GGNNCC	2 cut(s)	129, 144
NsiI	ATGCAT	1 cut(s)	61
NspI	RCATGY	2 cut(s)	63, 179
OliI	CACNNNNGTG	1 cut(s)	119
PcsI	WCGNNNNNNNCGW	1 cut(s)	300
PkrI	GCNGC	2 cut(s)	28, 344
PleI	GAGTC	1 cut(s)	222
PpsI	GAGTC	1 cut(s)	222
Ppu21I	YACGTR	1 cut(s)	348
Psp6I	CCWGG	1 cut(s)	130
PspGI	CCWGG	1 cut(s)	130
PspN4I	GGNNCC	2 cut(s)	129, 144
PspOMI	GGGCCC	1 cut(s)	127
PspPI	GGNCC	2 cut(s)	127, 128
PstI	CTGCAG	1 cut(s)	344
RsaI	GTAC	1 cut(s)	250
RsaNI	GTAC	1 cut(s)	249
RseI	CAYNNNNRTG	1 cut(s)	119
SalI	GTCGAC	2 cut(s)	263, 335
SaqAI	TTAA	3 cut(s)	170, 258, 279
SatI	GCNGC	2 cut(s)	27, 343
Sau3AI	GATC	1 cut(s)	325
Sau96I	GGNCC	2 cut(s)	127, 128
SchI	GAGTC	1 cut(s)	223
ScrFI	CCNGG	1 cut(s)	132
SduI	GDGCHC	2 cut(s)	131, 147
SetI	ASST	6 cut(s)	119, 169, 193, 244, 288, 350
SfcI	CTRYAG	1 cut(s)	340
SmiMI	CAYNNNNRTG	1 cut(s)	119
SmlI	CTYRAG	1 cut(s)	278
SmoI	CTYRAG	1 cut(s)	278
Sse9I	AATT	2 cut(s)	69, 309
StyD4I	CCNGG	1 cut(s)	130
TaiI	ACGT	3 cut(s)	119, 288, 350
TaqI	TCGA	3 cut(s)	96, 264, 336
TasI	AATT	2 cut(s)	69, 309
Tru1I	TTAA	3 cut(s)	170, 258, 279
Tru9I	TTAA	3 cut(s)	170, 258, 279
TscAI	CASTG	1 cut(s)	205
TseI	GCWGC	2 cut(s)	26, 342
TspRI	CASTG	1 cut(s)	205
Vha464I	CTTAAG	1 cut(s)	278
XagI	CCTNNNNNAGG	1 cut(s)	135
XapI	RAATTY	1 cut(s)	309
XceI	RCATGY	2 cut(s)	63, 179
XcmI	CCANNNNNNNNNTGG	1 cut(s)	121
XmiI	GTMKAC	2 cut(s)	264, 336
Zsp2I	ATGCAT	1 cut(s)	61

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