Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0004839

Physical Location & Seq

Genomic Coordinates Reverse (-)

45534165 .. 45534892

Gene Structure 728 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG314700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 366 bp

ATGGAGAACAAAATGGCTTCCCTCTTGGCTTTGGCCTTGGCGATGACCATTGTCCTCAATGCTTCTCCCACAAATGGGGATATCACCTGTCAAGATGCCTTGCGTGATTTGATACCATGTCAGCCTTACTTGGAGAGCTCCGGCCCGCCGACCCCTAGCGTTCCCTGTTGTGAAGGTGTTCGAAATGTGAACGCTAATGCTACCACTACCGAGATTCGCAGGAGCCTCTGCGAATGCTTTAAGAAGGCTGCTGCTAGCATGCCAATTGACCCTCAGAAACTTATGAAGCTTCCTCAATTCTGCCAGGTCTCCGTTCCTGTTACTCTTGACCCCAAAGTCGACTGTAGCAAGATTTCTTTATTTTAA

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

121

Amino Acids

13.03

Weight (kDa)

6.17

Isoelectric Point (pI)

45.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	18 - 107	2e-10	Probable lipid transfer
Tryp_alpha_amyl	PF00234	30 - 115	1.1e-10	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)

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Publication-ready

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Orthologous Genes (Group: OG0004839)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g02840 FvH4_3g01190
malus_domestica	MD10G1328900.v1.1
prunus_persica	Prupe.4G013200_v2.0.a1 Prupe.4G217000_v2.0.a1
pyrus_communis	pycom10g27860
rosa_chinensis	RchiOBHm_Chr5g0047311 RchiOBHm_Chr5g0075671 RchiOBHm_Chr6g0247621
rosa_laevigata	RLG00000015189 RLG00000034489
rosa_multiflora	Rmu_sc0000580.1_g000125 Rmu_sc0003092.1_g000052 Rmu_sc0003441.1_g000086
rosa_roxburghii	Rroxscaffold_1G00034040 Rroxscaffold_7G00213830
rosa_rugosa	Rorug05G0235600 Rorug05G0527600
rosa_samantha	Rh5AG314700 Rh5DG334200 Rh6AG040900 Rh6AG041200 Rh6AG041900 Rh6BG036300 Rh6BG036500 Rh6BG036800 Rh6CG036200
rosa_wichuraiana	Rw5G029420 Rw5G046240 Rw6G003590 Rw6G003610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	335
AccI	GTMKAC	1 cut(s)	339
AciI	CCGC	1 cut(s)	146
AfiI	CCNNNNNNNGG	2 cut(s)	74, 75
AjnI	CCWGG	1 cut(s)	303
AluBI	AGCT	2 cut(s)	138, 289
AluI	AGCT	2 cut(s)	138, 289
Alw21I	GWGCWC	1 cut(s)	140
Alw26I	GTCTC	1 cut(s)	313
AoxI	GGCC	2 cut(s)	33, 142
ApeKI	GCWGC	2 cut(s)	248, 251
Asp700I	GAANNNNTTC	1 cut(s)	177
AspS9I	GGNCC	1 cut(s)	143
AsuHPI	GGTGA	1 cut(s)	76
AsuII	TTCGAA	1 cut(s)	181
AsuNHI	GCTAGC	1 cut(s)	254
BanII	GRGCYC	1 cut(s)	140
Bbv12I	GWGCWC	1 cut(s)	140
BbvI	GCAGC	2 cut(s)	235, 238
BciT130I	CCWGG	1 cut(s)	305
BcoDI	GTCTC	1 cut(s)	313
BfaI	CTAG	2 cut(s)	156, 255
BfmI	CTRYAG	1 cut(s)	343
BisI	GCNGC	2 cut(s)	249, 252
BlsI	GCNGC	2 cut(s)	250, 253
Bme1390I	CCNGG	1 cut(s)	305
BmgT120I	GGNCC	1 cut(s)	143
BmiI	GGNNCC	1 cut(s)	224
BmrFI	CCNGG	1 cut(s)	305
BmsI	GCATC	1 cut(s)	85
BmtI	GCTAGC	1 cut(s)	258
BoxI	GACNNNNGTC	1 cut(s)	50
Bpu14I	TTCGAA	1 cut(s)	181
BsaI	GGTCTC	1 cut(s)	313
BsaJI	CCNNGG	1 cut(s)	36
Bsc4I	CCNNNNNNNGG	2 cut(s)	74, 75
BseBI	CCWGG	1 cut(s)	305
BseDI	CCNNGG	1 cut(s)	36
BseLI	CCNNNNNNNGG	2 cut(s)	74, 75
BseMII	CTCAG	1 cut(s)	287
BseXI	GCAGC	2 cut(s)	235, 238
BshFI	GGCC	2 cut(s)	35, 144
BsiHKAI	GWGCWC	1 cut(s)	140
BsiSI	CCGG	1 cut(s)	141
BslI	CCNNNNNNNGG	2 cut(s)	74, 75
BsmAI	GTCTC	1 cut(s)	313
BsmI	GAATGC	1 cut(s)	239
BsnI	GGCC	2 cut(s)	35, 144
Bso31I	GGTCTC	1 cut(s)	313
Bsp119I	TTCGAA	1 cut(s)	181
Bsp1286I	GDGCHC	1 cut(s)	140
BspACI	CCGC	1 cut(s)	146
BspANI	GGCC	2 cut(s)	35, 144
BspCNI	CTCAG	1 cut(s)	286
BspLI	GGNNCC	1 cut(s)	224
BspOI	GCTAGC	1 cut(s)	258
BspT104I	TTCGAA	1 cut(s)	181
BspTNI	GGTCTC	1 cut(s)	313
BssECI	CCNNGG	1 cut(s)	36
BssT1I	CCWWGG	1 cut(s)	36
Bst2UI	CCWGG	1 cut(s)	305
Bst4CI	ACNGT	1 cut(s)	344
BstBI	TTCGAA	1 cut(s)	181
BstC8I	GCNNGC	3 cut(s)	146, 256, 260
BstDEI	CTNAG	1 cut(s)	273
BstMAI	GTCTC	1 cut(s)	313
BstNI	CCWGG	1 cut(s)	305
BstNSI	RCATGY	1 cut(s)	262
BstPAI	GACNNNNGTC	1 cut(s)	50
BstSCI	CCNGG	1 cut(s)	303
BstSFI	CTRYAG	1 cut(s)	343
BstV1I	GCAGC	2 cut(s)	235, 238
BsuRI	GGCC	2 cut(s)	35, 144
BtgZI	GCGATG	1 cut(s)	56
Cac8I	GCNNGC	3 cut(s)	146, 256, 260
Cfr13I	GGNCC	1 cut(s)	143
CviAII	CATG	2 cut(s)	117, 259
CviJI	RGCY	9 cut(s)	17, 29, 35, 124, 138, 144, 225, 248, 289
CviKI_1	RGCY	9 cut(s)	17, 29, 35, 124, 138, 144, 225, 248, 289
DdeI	CTNAG	1 cut(s)	273
DrdI	GACNNNNNNGTC	1 cut(s)	335
DseDI	GACNNNNNNGTC	1 cut(s)	335
Ecl136II	GAGCTC	1 cut(s)	138
Eco130I	CCWWGG	1 cut(s)	36
Eco24I	GRGCYC	1 cut(s)	140
Eco31I	GGTCTC	1 cut(s)	313
Eco32I	GATATC	1 cut(s)	82
Eco53kI	GAGCTC	1 cut(s)	138
EcoICRI	GAGCTC	1 cut(s)	138
EcoRII	CCWGG	1 cut(s)	303
EcoRV	GATATC	1 cut(s)	82
EcoT14I	CCWWGG	1 cut(s)	36
EcoT38I	GRGCYC	1 cut(s)	140
ErhI	CCWWGG	1 cut(s)	36
FaeI	CATG	2 cut(s)	120, 262
FaiI	YATR	3 cut(s)	118, 260, 284
FatI	CATG	2 cut(s)	116, 258
FauI	CCCGC	1 cut(s)	153
FblI	GTMKAC	1 cut(s)	339
Fnu4HI	GCNGC	2 cut(s)	249, 252
FriOI	GRGCYC	1 cut(s)	140
Fsp4HI	GCNGC	2 cut(s)	249, 252
FspBI	CTAG	2 cut(s)	156, 255
GluI	GCNGC	2 cut(s)	249, 252
HaeIII	GGCC	2 cut(s)	35, 144
HapII	CCGG	1 cut(s)	141
Hin1II	CATG	2 cut(s)	120, 262
HincII	GTYRAC	1 cut(s)	340
HindII	GTYRAC	1 cut(s)	340
HindIII	AAGCTT	1 cut(s)	287
HinfI	GANTC	1 cut(s)	214
HpaII	CCGG	1 cut(s)	141
HphI	GGTGA	1 cut(s)	76
Hpy166II	GTNNAC	2 cut(s)	190, 340
Hpy188I	TCNGA	1 cut(s)	276
Hpy188III	TCNNGA	2 cut(s)	92, 326
Hpy8I	GTNNAC	2 cut(s)	190, 340
HpyAV	CCTTC	2 cut(s)	167, 238
HpyCH4III	ACNGT	1 cut(s)	344
HpyF3I	CTNAG	1 cut(s)	273
Hsp92II	CATG	2 cut(s)	120, 262
LmnI	GCTCC	2 cut(s)	143, 222
LpnPI	CCDG	7 cut(s)	100, 154, 178, 205, 290, 317, 330
Lsp1109I	GCAGC	2 cut(s)	235, 238
LweI	GCATC	1 cut(s)	85
MaeI	CTAG	2 cut(s)	156, 255
MaeIII	GTNAC	1 cut(s)	319
MfeI	CAATTG	1 cut(s)	264
MhlI	GDGCHC	1 cut(s)	140
MluCI	AATT	2 cut(s)	264, 296
MnlI	CCTC	5 cut(s)	32, 65, 236, 282, 303
MroXI	GAANNNNTTC	1 cut(s)	177
MseI	TTAA	2 cut(s)	240, 364
MspI	CCGG	1 cut(s)	141
MspR9I	CCNGG	1 cut(s)	305
MunI	CAATTG	1 cut(s)	264
Mva1269I	GAATGC	1 cut(s)	239
MvaI	CCWGG	1 cut(s)	305
NheI	GCTAGC	1 cut(s)	254
NlaIII	CATG	2 cut(s)	120, 262
NlaIV	GGNNCC	1 cut(s)	224
NspI	RCATGY	1 cut(s)	262
NspV	TTCGAA	1 cut(s)	181
PaeI	GCATGC	1 cut(s)	262
PctI	GAATGC	1 cut(s)	239
PdmI	GAANNNNTTC	1 cut(s)	177
PfeI	GAWTC	1 cut(s)	214
PkrI	GCNGC	2 cut(s)	250, 253
PshAI	GACNNNNGTC	1 cut(s)	50
Psp124BI	GAGCTC	1 cut(s)	140
Psp6I	CCWGG	1 cut(s)	303
PspGI	CCWGG	1 cut(s)	303
PspN4I	GGNNCC	1 cut(s)	224
PspPI	GGNCC	1 cut(s)	143
SacI	GAGCTC	1 cut(s)	140
SalI	GTCGAC	1 cut(s)	338
SaqAI	TTAA	2 cut(s)	240, 364
SatI	GCNGC	2 cut(s)	249, 252
Sau96I	GGNCC	1 cut(s)	143
ScrFI	CCNGG	1 cut(s)	305
SduI	GDGCHC	1 cut(s)	140
SetI	ASST	5 cut(s)	89, 140, 178, 291, 309
SfaNI	GCATC	1 cut(s)	85
SfcI	CTRYAG	1 cut(s)	343
SfuI	TTCGAA	1 cut(s)	181
SphI	GCATGC	1 cut(s)	262
Sse9I	AATT	2 cut(s)	264, 296
SsiI	CCGC	1 cut(s)	146
SspMI	CTAG	2 cut(s)	156, 255
SstI	GAGCTC	1 cut(s)	140
StyD4I	CCNGG	1 cut(s)	303
StyI	CCWWGG	1 cut(s)	36
TaaI	ACNGT	1 cut(s)	344
TaqI	TCGA	2 cut(s)	181, 339
TasI	AATT	2 cut(s)	264, 296
TfiI	GAWTC	1 cut(s)	214
Tru1I	TTAA	2 cut(s)	240, 364
Tru9I	TTAA	2 cut(s)	240, 364
TseI	GCWGC	2 cut(s)	248, 251
TspDTI	ATGAA	1 cut(s)	299
TspGWI	ACGGA	1 cut(s)	301
XceI	RCATGY	1 cut(s)	262
XmiI	GTMKAC	1 cut(s)	339
XmnI	GAANNNNTTC	1 cut(s)	177
XspI	CTAG	2 cut(s)	156, 255

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