Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0004839

Physical Location & Seq

Genomic Coordinates Reverse (-)

6082242 .. 6087079

Gene Structure 4838 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG041200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 504 bp

ATGACTAGCTGCTGGTCTCTCTTGGCTTTTGGTATTGTGATCATGGTGTTGATGATCAGTCCATATCCTGCAAATGGCCTCACATGTGATGAGACCGCAGGCATTTTGAATCCCTGTCAAGATTTTTTGGTTGGAAATGGCCCTCCAACTCCTAGCACTTCTTGCTGTGGAGCTGTGAAAGAATTGGTTTCTAAAGTTACATCCAGACAAGTACGTAGAGATCTATGTGAATGTATGAAGCAGATTATTCTTGCCTTTCATATTGACGTCGGAAAACTTCAATACATCATTCCACAGTATTGCAAGATCACAATTCCTGTACCTCTTGATCCCAACGTAGACTGCAGCAAAGTAACCAAACAGAGCATTGGGGAGGAAGAGATCGGCGACGAAACTCTAGATTTCGCATCACTGGTGGACTTGTTGGCTTCTCTTGATTCGAACTTAATCAAATCAGTGGCTGTAATCTCTTGCTTCGTCCGACCCGGCGAGTACCCTCTGTAA

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

167

Amino Acids

18.11

Weight (kDa)

4.67

Isoelectric Point (pI)

44.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	19 - 106	1.1e-07	Probable lipid transfer
Tryp_alpha_amyl	PF00234	29 - 115	3.4e-06	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

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: 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)
AatII	GACGTC	1 cut(s)	270
AccI	GTMKAC	1 cut(s)	339
AciI	CCGC	1 cut(s)	96
AclWI	GGATC	1 cut(s)	323
AcyI	GRCGYC	1 cut(s)	267
AfaI	GTAC	3 cut(s)	213, 321, 494
AfiI	CCNNNNNNNGG	1 cut(s)	74
AflIII	ACRYGT	1 cut(s)	83
AgsI	TTSAA	2 cut(s)	109, 281
AluBI	AGCT	2 cut(s)	9, 173
AluI	AGCT	2 cut(s)	9, 173
Alw26I	GTCTC	2 cut(s)	21, 86
AlwI	GGATC	1 cut(s)	323
AlwNI	CAGNNNCTG	1 cut(s)	461
AoxI	GGCC	2 cut(s)	76, 139
ApeKI	GCWGC	2 cut(s)	9, 345
AspS9I	GGNCC	1 cut(s)	140
AsuC2I	CCSGG	1 cut(s)	486
AsuII	TTCGAA	1 cut(s)	440
BbvI	GCAGC	1 cut(s)	357
BclI	TGATCA	2 cut(s)	39, 54
BcnI	CCSGG	1 cut(s)	486
BcoDI	GTCTC	2 cut(s)	21, 86
BfaI	CTAG	3 cut(s)	6, 153, 398
BfmI	CTRYAG	1 cut(s)	343
BglII	AGATCT	1 cut(s)	220
BisI	GCNGC	2 cut(s)	10, 346
BlsI	GCNGC	2 cut(s)	11, 347
Bme1390I	CCNGG	1 cut(s)	486
BmgT120I	GGNCC	1 cut(s)	140
BmrFI	CCNGG	1 cut(s)	486
BmsI	GCATC	1 cut(s)	416
Bpu14I	TTCGAA	1 cut(s)	440
BpuMI	CCSGG	1 cut(s)	486
BsaAI	YACGTR	1 cut(s)	215
BsaHI	GRCGYC	1 cut(s)	267
BsaI	GGTCTC	2 cut(s)	21, 86
Bsc4I	CCNNNNNNNGG	1 cut(s)	74
Bse1I	ACTGG	1 cut(s)	417
BseGI	GGATG	1 cut(s)	200
BseLI	CCNNNNNNNGG	1 cut(s)	74
BseNI	ACTGG	1 cut(s)	417
BseXI	GCAGC	1 cut(s)	357
BshFI	GGCC	2 cut(s)	78, 141
BsiSI	CCGG	1 cut(s)	486
BslI	CCNNNNNNNGG	1 cut(s)	74
BsmAI	GTCTC	2 cut(s)	21, 86
BsnI	GGCC	2 cut(s)	78, 141
Bso31I	GGTCTC	2 cut(s)	21, 86
Bsp119I	TTCGAA	1 cut(s)	440
Bsp143I	GATC	6 cut(s)	39, 54, 220, 306, 328, 381
BspACI	CCGC	1 cut(s)	96
BspANI	GGCC	2 cut(s)	78, 141
BspMAI	CTGCAG	1 cut(s)	347
BspPI	GGATC	1 cut(s)	323
BspT104I	TTCGAA	1 cut(s)	440
BspTNI	GGTCTC	2 cut(s)	21, 86
BsrI	ACTGG	1 cut(s)	417
BssMI	GATC	6 cut(s)	39, 54, 220, 306, 328, 381
BssNI	GRCGYC	1 cut(s)	267
Bst4CI	ACNGT	1 cut(s)	297
Bst6I	CTCTTC	1 cut(s)	372
BstACI	GRCGYC	1 cut(s)	267
BstAPI	GCANNNNNTGC	1 cut(s)	162
BstBAI	YACGTR	1 cut(s)	215
BstBI	TTCGAA	1 cut(s)	440
BstC8I	GCNNGC	1 cut(s)	100
BstF5I	GGATG	1 cut(s)	200
BstKTI	GATC	6 cut(s)	42, 57, 223, 309, 331, 384
BstMAI	GTCTC	2 cut(s)	21, 86
BstMBI	GATC	6 cut(s)	39, 54, 220, 306, 328, 381
BstMWI	GCNNNNNNNGC	1 cut(s)	162
BstNSI	RCATGY	1 cut(s)	87
BstSCI	CCNGG	1 cut(s)	484
BstSFI	CTRYAG	1 cut(s)	343
BstSNI	TACGTA	1 cut(s)	215
BstV1I	GCAGC	1 cut(s)	357
BstX2I	RGATCY	1 cut(s)	220
BstYI	RGATCY	1 cut(s)	220
BsuRI	GGCC	2 cut(s)	78, 141
BtsCI	GGATG	1 cut(s)	200
BtsIMutI	CAGTG	2 cut(s)	410, 462
Cac8I	GCNNGC	1 cut(s)	100
CaiI	CAGNNNCTG	1 cut(s)	461
Cfr13I	GGNCC	1 cut(s)	140
Csp6I	GTAC	3 cut(s)	212, 320, 493
CviAII	CATG	2 cut(s)	43, 84
CviJI	RGCY	7 cut(s)	9, 26, 78, 141, 173, 428, 461
CviKI_1	RGCY	7 cut(s)	9, 26, 78, 141, 173, 428, 461
CviQI	GTAC	3 cut(s)	212, 320, 493
DpnI	GATC	6 cut(s)	41, 56, 222, 308, 330, 383
DpnII	GATC	6 cut(s)	39, 54, 220, 306, 328, 381
Eam1104I	CTCTTC	1 cut(s)	372
EarI	CTCTTC	1 cut(s)	372
Eco105I	TACGTA	1 cut(s)	215
Eco31I	GGTCTC	2 cut(s)	21, 86
FaeI	CATG	2 cut(s)	46, 87
FaiI	YATR	6 cut(s)	44, 64, 85, 226, 236, 261
FatI	CATG	2 cut(s)	42, 83
FbaI	TGATCA	2 cut(s)	39, 54
FblI	GTMKAC	1 cut(s)	339
Fnu4HI	GCNGC	2 cut(s)	10, 346
FokI	GGATG	1 cut(s)	187
Fsp4HI	GCNGC	2 cut(s)	10, 346
FspBI	CTAG	3 cut(s)	6, 153, 398
GluI	GCNGC	2 cut(s)	10, 346
HaeIII	GGCC	2 cut(s)	78, 141
HapII	CCGG	1 cut(s)	486
Hin1I	GRCGYC	1 cut(s)	267
Hin1II	CATG	2 cut(s)	46, 87
HinfI	GANTC	2 cut(s)	109, 437
HpaII	CCGG	1 cut(s)	486
Hpy166II	GTNNAC	2 cut(s)	340, 418
Hpy188I	TCNGA	2 cut(s)	272, 482
Hpy188III	TCNNGA	5 cut(s)	119, 204, 326, 398, 434
Hpy8I	GTNNAC	2 cut(s)	340, 418
Hpy99I	CGWCG	2 cut(s)	272, 392
HpyCH4III	ACNGT	1 cut(s)	297
HpyCH4IV	ACGT	3 cut(s)	214, 267, 336
HpyCH4V	TGCA	3 cut(s)	71, 303, 345
HpyF10VI	GCNNNNNNNGC	1 cut(s)	162
HpySE526I	ACGT	3 cut(s)	214, 267, 336
Hsp92I	GRCGYC	1 cut(s)	267
Hsp92II	CATG	2 cut(s)	46, 87
Ksp22I	TGATCA	2 cut(s)	39, 54
Kzo9I	GATC	6 cut(s)	39, 54, 220, 306, 328, 381
LmnI	GCTCC	1 cut(s)	170
LpnPI	CCDG	7 cut(s)	81, 84, 127, 217, 330, 398, 499
Lsp1109I	GCAGC	1 cut(s)	357
LweI	GCATC	1 cut(s)	416
MaeI	CTAG	3 cut(s)	6, 153, 398
MaeII	ACGT	3 cut(s)	214, 267, 336
MaeIII	GTNAC	2 cut(s)	196, 352
MalI	GATC	6 cut(s)	41, 56, 222, 308, 330, 383
MboI	GATC	6 cut(s)	39, 54, 220, 306, 328, 381
MboII	GAAGA	1 cut(s)	389
MflI	RGATCY	1 cut(s)	220
MluCI	AATT	2 cut(s)	182, 312
MmeI	TCCRAC	3 cut(s)	112, 170, 250
MnlI	CCTC	4 cut(s)	89, 153, 333, 367
MseI	TTAA	1 cut(s)	446
MspI	CCGG	1 cut(s)	486
MspR9I	CCNGG	1 cut(s)	486
MwoI	GCNNNNNNNGC	1 cut(s)	162
NciI	CCSGG	1 cut(s)	486
NdeII	GATC	6 cut(s)	39, 54, 220, 306, 328, 381
NlaIII	CATG	2 cut(s)	46, 87
NspI	RCATGY	1 cut(s)	87
NspV	TTCGAA	1 cut(s)	440
PciI	ACATGT	1 cut(s)	83
PfeI	GAWTC	2 cut(s)	109, 437
PkrI	GCNGC	2 cut(s)	11, 347
Ppu21I	YACGTR	1 cut(s)	215
PscI	ACATGT	1 cut(s)	83
PspPI	GGNCC	1 cut(s)	140
PstI	CTGCAG	1 cut(s)	347
PstNI	CAGNNNCTG	1 cut(s)	461
PsuI	RGATCY	1 cut(s)	220
RsaI	GTAC	3 cut(s)	213, 321, 494
RsaNI	GTAC	3 cut(s)	212, 320, 493
SaqAI	TTAA	1 cut(s)	446
SatI	GCNGC	2 cut(s)	10, 346
Sau3AI	GATC	6 cut(s)	39, 54, 220, 306, 328, 381
Sau96I	GGNCC	1 cut(s)	140
ScrFI	CCNGG	1 cut(s)	486
SetI	ASST	6 cut(s)	11, 175, 217, 270, 325, 339
SfaNI	GCATC	1 cut(s)	416
SfcI	CTRYAG	1 cut(s)	343
SfuI	TTCGAA	1 cut(s)	440
SnaBI	TACGTA	1 cut(s)	215
Sse9I	AATT	2 cut(s)	182, 312
SsiI	CCGC	1 cut(s)	96
SspMI	CTAG	3 cut(s)	6, 153, 398
StyD4I	CCNGG	1 cut(s)	484
TaaI	ACNGT	1 cut(s)	297
TaiI	ACGT	3 cut(s)	217, 270, 339
TaqI	TCGA	1 cut(s)	440
TasI	AATT	2 cut(s)	182, 312
TfiI	GAWTC	2 cut(s)	109, 437
Tru1I	TTAA	1 cut(s)	446
Tru9I	TTAA	1 cut(s)	446
TscAI	CASTG	2 cut(s)	417, 462
TseI	GCWGC	2 cut(s)	9, 345
TspDTI	ATGAA	2 cut(s)	248, 251
TspRI	CASTG	2 cut(s)	417, 462
XbaI	TCTAGA	1 cut(s)	397
XceI	RCATGY	1 cut(s)	87
XmiI	GTMKAC	1 cut(s)	339
XspI	CTAG	3 cut(s)	6, 153, 398
ZraI	GACGTC	1 cut(s)	268

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