Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0004839

Physical Location & Seq

Genomic Coordinates Reverse (-)

6110587 .. 6110964

Gene Structure 378 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG036800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 378 bp

ATGACTAGCTGCTGGTCTCTCTTGGCTTTTGGTATTGTGATCACGGTGTTGATGATCAGTCCATATCCTGCAAATGGCCTCACATGCGATGAGACCGCAGGCATTATGAATCCCTGTCAAGATTTTTTGGTTGGAAATGGCGCTCCAACTCCTAGCGCTTCTTGCTGTGGAGCTGTGAAAGAATTGGTTTCTAAAGTTACATCTAGACAAGTACGTAGAGATCTGTGTGAATGTTTGAAGCAGATTATTCTTGCCTTTCATATTGACGTTGGAAAACTTCAATACATCATTCCTCAGTATTGCAAGGTCACAATTCCTGTACCTCTTGATCCCAACGCAGACTGCAGCAAGTACGCAATTTTTTTCTCTTCAAATTAA

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

125

Amino Acids

13.55

Weight (kDa)

6.51

Isoelectric Point (pI)

41.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	17 - 106	3.4e-08	Probable lipid transfer
Tryp_alpha_amyl	PF00234	29 - 115	9.3e-07	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)
AciI	CCGC	1 cut(s)	96
AclWI	GGATC	1 cut(s)	323
AfaI	GTAC	3 cut(s)	213, 321, 353
AfeI	AGCGCT	1 cut(s)	157
AfiI	CCNNNNNNNGG	1 cut(s)	74
AgsI	TTSAA	3 cut(s)	238, 281, 372
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
Aor51HI	AGCGCT	1 cut(s)	157
AoxI	GGCC	1 cut(s)	76
ApeKI	GCWGC	2 cut(s)	9, 345
AspLEI	GCGC	2 cut(s)	143, 158
BbvI	GCAGC	1 cut(s)	357
BclI	TGATCA	2 cut(s)	39, 54
BcoDI	GTCTC	2 cut(s)	21, 86
BfaI	CTAG	3 cut(s)	6, 153, 204
BfmI	CTRYAG	1 cut(s)	343
BfoI	RGCGCY	2 cut(s)	144, 159
BglII	AGATCT	1 cut(s)	220
BisI	GCNGC	2 cut(s)	10, 346
BlsI	GCNGC	2 cut(s)	11, 347
BsaAI	YACGTR	1 cut(s)	215
BsaI	GGTCTC	2 cut(s)	21, 86
Bsc4I	CCNNNNNNNGG	1 cut(s)	74
BseLI	CCNNNNNNNGG	1 cut(s)	74
BseMII	CTCAG	1 cut(s)	308
BseXI	GCAGC	1 cut(s)	357
BshFI	GGCC	1 cut(s)	78
BslI	CCNNNNNNNGG	1 cut(s)	74
BsmAI	GTCTC	2 cut(s)	21, 86
BsnI	GGCC	1 cut(s)	78
Bso31I	GGTCTC	2 cut(s)	21, 86
Bsp143I	GATC	4 cut(s)	39, 54, 220, 328
BspACI	CCGC	1 cut(s)	96
BspANI	GGCC	1 cut(s)	78
BspCNI	CTCAG	1 cut(s)	307
BspMAI	CTGCAG	1 cut(s)	347
BspPI	GGATC	1 cut(s)	323
BspTNI	GGTCTC	2 cut(s)	21, 86
BssMI	GATC	4 cut(s)	39, 54, 220, 328
Bst4CI	ACNGT	1 cut(s)	46
Bst6I	CTCTTC	1 cut(s)	373
BstBAI	YACGTR	1 cut(s)	215
BstC8I	GCNNGC	1 cut(s)	100
BstDEI	CTNAG	1 cut(s)	294
BstH2I	RGCGCY	2 cut(s)	144, 159
BstHHI	GCGC	2 cut(s)	143, 158
BstKTI	GATC	4 cut(s)	42, 57, 223, 331
BstMAI	GTCTC	2 cut(s)	21, 86
BstMBI	GATC	4 cut(s)	39, 54, 220, 328
BstMWI	GCNNNNNNNGC	2 cut(s)	84, 162
BstNSI	RCATGY	1 cut(s)	87
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	1 cut(s)	78
BtgZI	GCGATG	1 cut(s)	102
Cac8I	GCNNGC	1 cut(s)	100
CfoI	GCGC	2 cut(s)	143, 158
Csp6I	GTAC	3 cut(s)	212, 320, 352
CviAII	CATG	1 cut(s)	84
CviJI	RGCY	4 cut(s)	9, 26, 78, 173
CviKI_1	RGCY	4 cut(s)	9, 26, 78, 173
CviQI	GTAC	3 cut(s)	212, 320, 352
DdeI	CTNAG	1 cut(s)	294
DpnI	GATC	4 cut(s)	41, 56, 222, 330
DpnII	GATC	4 cut(s)	39, 54, 220, 328
Eam1104I	CTCTTC	1 cut(s)	373
EarI	CTCTTC	1 cut(s)	373
Eco105I	TACGTA	1 cut(s)	215
Eco31I	GGTCTC	2 cut(s)	21, 86
Eco47III	AGCGCT	1 cut(s)	157
FaeI	CATG	1 cut(s)	87
FaiI	YATR	4 cut(s)	64, 85, 107, 261
FatI	CATG	1 cut(s)	83
FbaI	TGATCA	2 cut(s)	39, 54
Fnu4HI	GCNGC	2 cut(s)	10, 346
Fsp4HI	GCNGC	2 cut(s)	10, 346
FspBI	CTAG	3 cut(s)	6, 153, 204
GlaI	GCGC	2 cut(s)	142, 157
GluI	GCNGC	2 cut(s)	10, 346
HaeII	RGCGCY	2 cut(s)	144, 159
HaeIII	GGCC	1 cut(s)	78
HhaI	GCGC	2 cut(s)	143, 158
Hin1II	CATG	1 cut(s)	87
Hin6I	GCGC	2 cut(s)	141, 156
HinP1I	GCGC	2 cut(s)	141, 156
HinfI	GANTC	1 cut(s)	109
Hpy188III	TCNNGA	3 cut(s)	119, 204, 326
HpyCH4III	ACNGT	1 cut(s)	46
HpyCH4IV	ACGT	2 cut(s)	214, 267
HpyCH4V	TGCA	3 cut(s)	71, 303, 345
HpyF10VI	GCNNNNNNNGC	2 cut(s)	84, 162
HpyF3I	CTNAG	1 cut(s)	294
HpySE526I	ACGT	2 cut(s)	214, 267
Hsp92II	CATG	1 cut(s)	87
HspAI	GCGC	2 cut(s)	141, 156
Ksp22I	TGATCA	2 cut(s)	39, 54
Kzo9I	GATC	4 cut(s)	39, 54, 220, 328
LmnI	GCTCC	2 cut(s)	148, 170
LpnPI	CCDG	4 cut(s)	81, 84, 127, 330
Lsp1109I	GCAGC	1 cut(s)	357
MaeI	CTAG	3 cut(s)	6, 153, 204
MaeII	ACGT	2 cut(s)	214, 267
MaeIII	GTNAC	2 cut(s)	196, 307
MalI	GATC	4 cut(s)	41, 56, 222, 330
MboI	GATC	4 cut(s)	39, 54, 220, 328
MboII	GAAGA	1 cut(s)	360
MflI	RGATCY	1 cut(s)	220
MluCI	AATT	4 cut(s)	182, 312, 357, 373
MmeI	TCCRAC	3 cut(s)	112, 170, 250
MnlI	CCTC	3 cut(s)	89, 303, 333
MseI	TTAA	1 cut(s)	376
MwoI	GCNNNNNNNGC	2 cut(s)	84, 162
NdeII	GATC	4 cut(s)	39, 54, 220, 328
NlaIII	CATG	1 cut(s)	87
NmuCI	GTSAC	1 cut(s)	307
NspI	RCATGY	1 cut(s)	87
PfeI	GAWTC	1 cut(s)	109
PkrI	GCNGC	2 cut(s)	11, 347
Ppu21I	YACGTR	1 cut(s)	215
PstI	CTGCAG	1 cut(s)	347
PsuI	RGATCY	1 cut(s)	220
RsaI	GTAC	3 cut(s)	213, 321, 353
RsaNI	GTAC	3 cut(s)	212, 320, 352
SaqAI	TTAA	1 cut(s)	376
SatI	GCNGC	2 cut(s)	10, 346
Sau3AI	GATC	4 cut(s)	39, 54, 220, 328
SetI	ASST	6 cut(s)	11, 175, 217, 270, 309, 325
SfcI	CTRYAG	1 cut(s)	343
SnaBI	TACGTA	1 cut(s)	215
Sse9I	AATT	4 cut(s)	182, 312, 357, 373
SsiI	CCGC	1 cut(s)	96
SspMI	CTAG	3 cut(s)	6, 153, 204
TaaI	ACNGT	1 cut(s)	46
TaiI	ACGT	2 cut(s)	217, 270
TasI	AATT	4 cut(s)	182, 312, 357, 373
TfiI	GAWTC	1 cut(s)	109
Tru1I	TTAA	1 cut(s)	376
Tru9I	TTAA	1 cut(s)	376
TseFI	GTSAC	1 cut(s)	307
TseI	GCWGC	2 cut(s)	9, 345
Tsp45I	GTSAC	1 cut(s)	307
TspDTI	ATGAA	2 cut(s)	122, 248
XbaI	TCTAGA	1 cut(s)	203
XceI	RCATGY	1 cut(s)	87
XspI	CTAG	3 cut(s)	6, 153, 204

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