Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0005968

Physical Location & Seq

Genomic Coordinates Reverse (-)

8671524 .. 8684008

Gene Structure 12485 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG107700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 339 bp

ATGGCCGGAACACTAGCTAAGCTGGTTTGTGTGCTCGTGATGTGCATGGTGGTCGCCGAAGCGGCCATGACATGCAACCAGATCCAGGGCGGGATGGCACCGTGCCTGGGCTACCTCACCAAAGGTGGGATCCCCAGTGCGGGGTGTTGCACCAACCTAAGAAACATGGTCAACTCGGCGAGGACCACCGCTGACCGCAAGAATGCTTGCAAGTGCTTGAAAGCAGCTGCTGCTAAATTCCAAGGGATCAACCCAACCAACGCTGCTAGGCTCCCTTCCAACTGCAAGGTCAACATTCCTTACAAGATCAGCGTCTCCACTAATTGCGCCAGGGAATAA

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

Tryp_alpha_amyl

Protein Analysis

112

Amino Acids

11.67

Weight (kDa)

9.38

Isoelectric Point (pI)

25.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	17 - 101	3.1e-07	Probable lipid transfer
Tryp_alpha_amyl	PF00234	25 - 109	4.8e-13	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

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Orthologous Genes (Group: OG0005968)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G15050 AT2G15050 AT2G15050 AT2G38530 AT2G38540 AT3G51600 AT5G59310 AT5G59320
fragaria_vesca	FvH4_6g09990
malus_domestica	MD04G1173500.v1.1 MD12G1187000.v1.1
prunus_persica	Prupe.6G292500_v2.0.a1
pyrus_communis	pycom12g17530
rosa_chinensis	RchiOBHm_Chr3g0460661
rosa_multiflora	Rmu_co8170460.1_g000001 Rmu_sc0001256.1_g000011 Rmu_sc0011069.1_g000011
rosa_roxburghii	Rroxscaffold_6G00419320
rosa_rugosa	Rorug03G0044600 Rorug03G0044700 Rorug03G0044800 Rorug03G0044900
rosa_samantha	Rh3AG102500 Rh3BG106200 Rh3CG108100 Rh3DG107700
rosa_wichuraiana	Rw3G008720

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	97
AciI	CCGC	5 cut(s)	62, 90, 140, 189, 196
AclWI	GGATC	4 cut(s)	76, 124, 137, 254
AcoI	YGGCCR	2 cut(s)	3, 63
AcsI	RAATTY	1 cut(s)	236
AfiI	CCNNNNNNNGG	6 cut(s)	85, 107, 126, 139, 140, 141
AgsI	TTSAA	1 cut(s)	220
AjnI	CCWGG	3 cut(s)	84, 105, 329
AluBI	AGCT	3 cut(s)	17, 22, 227
AluI	AGCT	3 cut(s)	17, 22, 227
Alw21I	GWGCWC	1 cut(s)	36
Alw26I	GTCTC	1 cut(s)	319
AlwI	GGATC	4 cut(s)	76, 124, 137, 254
AlwNI	CAGNNNCTG	1 cut(s)	230
AoxI	GGCC	2 cut(s)	3, 63
ApeKI	GCWGC	4 cut(s)	224, 227, 230, 263
ApoI	RAATTY	1 cut(s)	236
AspLEI	GCGC	1 cut(s)	329
AspS9I	GGNCC	1 cut(s)	183
AsuHPI	GGTGA	1 cut(s)	109
AvaII	GGWCC	1 cut(s)	183
BamHI	GGATCC	1 cut(s)	129
BanI	GGYRCC	1 cut(s)	97
BauI	CACGAG	1 cut(s)	35
Bbv12I	GWGCWC	1 cut(s)	36
BbvI	GCAGC	4 cut(s)	214, 217, 236, 250
BccI	CCATC	1 cut(s)	88
BcgI	CGANNNNNNTGC	2 cut(s)	34, 68
BciT130I	CCWGG	3 cut(s)	86, 107, 331
BcoDI	GTCTC	1 cut(s)	319
BfaI	CTAG	2 cut(s)	14, 267
BglI	GCCNNNNNGGC	1 cut(s)	62
BisI	GCNGC	5 cut(s)	63, 225, 228, 231, 264
BlpI	GCTNAGC	1 cut(s)	18
BlsI	GCNGC	5 cut(s)	64, 226, 229, 232, 265
Bme1390I	CCNGG	3 cut(s)	86, 107, 331
Bme18I	GGWCC	1 cut(s)	183
BmgT120I	GGNCC	1 cut(s)	183
BmiI	GGNNCC	3 cut(s)	99, 131, 272
BmrFI	CCNGG	3 cut(s)	86, 107, 331
BmrI	ACTGGG	1 cut(s)	129
BmuI	ACTGGG	1 cut(s)	129
Bpu1102I	GCTNAGC	1 cut(s)	18
BsaJI	CCNNGG	4 cut(s)	85, 106, 241, 330
Bsc4I	CCNNNNNNNGG	6 cut(s)	85, 107, 126, 139, 140, 141
Bse1I	ACTGG	1 cut(s)	135
BseBI	CCWGG	3 cut(s)	86, 107, 331
BseDI	CCNNGG	4 cut(s)	85, 106, 241, 330
BseGI	GGATG	1 cut(s)	99
BseLI	CCNNNNNNNGG	6 cut(s)	85, 107, 126, 139, 140, 141
BseNI	ACTGG	1 cut(s)	135
BseXI	GCAGC	4 cut(s)	214, 217, 236, 250
BshFI	GGCC	2 cut(s)	5, 65
BshNI	GGYRCC	1 cut(s)	97
BsiHKAI	GWGCWC	1 cut(s)	36
BsiSI	CCGG	1 cut(s)	6
BslI	CCNNNNNNNGG	6 cut(s)	85, 107, 126, 139, 140, 141
BsmAI	GTCTC	1 cut(s)	319
BsmBI	CGTCTC	1 cut(s)	319
BsmI	GAATGC	1 cut(s)	208
BsnI	GGCC	2 cut(s)	5, 65
Bsp1286I	GDGCHC	1 cut(s)	36
Bsp143I	GATC	4 cut(s)	81, 129, 246, 306
Bsp1720I	GCTNAGC	1 cut(s)	18
BspACI	CCGC	5 cut(s)	62, 90, 140, 189, 196
BspANI	GGCC	2 cut(s)	5, 65
BspLI	GGNNCC	3 cut(s)	99, 131, 272
BspPI	GGATC	4 cut(s)	76, 124, 137, 254
BspT107I	GGYRCC	1 cut(s)	97
BsrI	ACTGG	1 cut(s)	135
BssECI	CCNNGG	4 cut(s)	85, 106, 241, 330
BssMI	GATC	4 cut(s)	81, 129, 246, 306
BssSI	CACGAG	1 cut(s)	35
BssT1I	CCWWGG	1 cut(s)	241
Bst2BI	CACGAG	1 cut(s)	35
Bst2UI	CCWGG	3 cut(s)	86, 107, 331
Bst4CI	ACNGT	1 cut(s)	102
BstAPI	GCANNNNNTGC	1 cut(s)	230
BstC8I	GCNNGC	1 cut(s)	208
BstDEI	CTNAG	2 cut(s)	18, 158
BstF5I	GGATG	1 cut(s)	99
BstHHI	GCGC	1 cut(s)	329
BstKTI	GATC	4 cut(s)	84, 132, 249, 309
BstMAI	GTCTC	1 cut(s)	319
BstMBI	GATC	4 cut(s)	81, 129, 246, 306
BstMWI	GCNNNNNNNGC	2 cut(s)	62, 230
BstNI	CCWGG	3 cut(s)	86, 107, 331
BstNSI	RCATGY	1 cut(s)	75
BstSCI	CCNGG	3 cut(s)	84, 105, 329
BstV1I	GCAGC	4 cut(s)	214, 217, 236, 250
BstX2I	RGATCY	2 cut(s)	81, 129
BstYI	RGATCY	2 cut(s)	81, 129
BsuRI	GGCC	2 cut(s)	5, 65
BtsCI	GGATG	1 cut(s)	99
BtsIMutI	CAGTG	1 cut(s)	142
Cac8I	GCNNGC	1 cut(s)	208
CaiI	CAGNNNCTG	1 cut(s)	230
CfoI	GCGC	1 cut(s)	329
Cfr13I	GGNCC	1 cut(s)	183
CseI	GACGC	1 cut(s)	301
CviAII	CATG	4 cut(s)	46, 67, 72, 166
CviJI	RGCY	7 cut(s)	5, 17, 22, 65, 111, 227, 271
CviKI_1	RGCY	7 cut(s)	5, 17, 22, 65, 111, 227, 271
DdeI	CTNAG	2 cut(s)	18, 158
DpnI	GATC	4 cut(s)	83, 131, 248, 308
DpnII	GATC	4 cut(s)	81, 129, 246, 306
EaeI	YGGCCR	2 cut(s)	3, 63
Eco130I	CCWWGG	1 cut(s)	241
Eco47I	GGWCC	1 cut(s)	183
EcoRII	CCWGG	3 cut(s)	84, 105, 329
EcoT14I	CCWWGG	1 cut(s)	241
ErhI	CCWWGG	1 cut(s)	241
Esp3I	CGTCTC	1 cut(s)	319
FaeI	CATG	4 cut(s)	49, 70, 75, 169
FaiI	YATR	4 cut(s)	47, 68, 73, 167
FatI	CATG	4 cut(s)	45, 66, 71, 165
FauI	CCCGC	2 cut(s)	83, 133
Fnu4HI	GCNGC	5 cut(s)	63, 225, 228, 231, 264
FokI	GGATG	1 cut(s)	106
Fsp4HI	GCNGC	5 cut(s)	63, 225, 228, 231, 264
FspBI	CTAG	2 cut(s)	14, 267
GlaI	GCGC	1 cut(s)	328
GluI	GCNGC	5 cut(s)	63, 225, 228, 231, 264
HaeIII	GGCC	2 cut(s)	5, 65
HapII	CCGG	1 cut(s)	6
HgaI	GACGC	1 cut(s)	301
HhaI	GCGC	1 cut(s)	329
Hin1II	CATG	4 cut(s)	49, 70, 75, 169
Hin6I	GCGC	1 cut(s)	327
HinP1I	GCGC	1 cut(s)	327
HincII	GTYRAC	2 cut(s)	172, 292
HindII	GTYRAC	2 cut(s)	172, 292
HpaII	CCGG	1 cut(s)	6
HphI	GGTGA	1 cut(s)	109
Hpy166II	GTNNAC	2 cut(s)	172, 292
Hpy188III	TCNNGA	1 cut(s)	37
Hpy8I	GTNNAC	2 cut(s)	172, 292
HpyAV	CCTTC	1 cut(s)	285
HpyCH4III	ACNGT	1 cut(s)	102
HpyCH4V	TGCA	5 cut(s)	45, 75, 150, 210, 285
HpyF10VI	GCNNNNNNNGC	2 cut(s)	62, 230
HpyF3I	CTNAG	2 cut(s)	18, 158
Hsp92II	CATG	4 cut(s)	49, 70, 75, 169
HspAI	GCGC	1 cut(s)	327
Kzo9I	GATC	4 cut(s)	81, 129, 246, 306
LmnI	GCTCC	1 cut(s)	276
LpnPI	CCDG	9 cut(s)	8, 19, 71, 92, 92, 98, 119, 148, 316
Lsp1109I	GCAGC	4 cut(s)	214, 217, 236, 250
MaeI	CTAG	2 cut(s)	14, 267
MalI	GATC	4 cut(s)	83, 131, 248, 308
MboI	GATC	4 cut(s)	81, 129, 246, 306
MflI	RGATCY	2 cut(s)	81, 129
MhlI	GDGCHC	1 cut(s)	36
MluCI	AATT	2 cut(s)	236, 322
MmeI	TCCRAC	1 cut(s)	303
MnlI	CCTC	2 cut(s)	125, 174
MspA1I	CMGCKG	2 cut(s)	191, 227
MspI	CCGG	1 cut(s)	6
MspR9I	CCNGG	3 cut(s)	86, 107, 331
Mva1269I	GAATGC	1 cut(s)	208
MvaI	CCWGG	3 cut(s)	86, 107, 331
MwoI	GCNNNNNNNGC	2 cut(s)	62, 230
NdeII	GATC	4 cut(s)	81, 129, 246, 306
NlaIII	CATG	4 cut(s)	49, 70, 75, 169
NlaIV	GGNNCC	3 cut(s)	99, 131, 272
NmeAIII	GCCGAG	1 cut(s)	155
NspI	RCATGY	1 cut(s)	75
PctI	GAATGC	1 cut(s)	208
PkrI	GCNGC	5 cut(s)	64, 226, 229, 232, 265
Psp6I	CCWGG	3 cut(s)	84, 105, 329
PspGI	CCWGG	3 cut(s)	84, 105, 329
PspN4I	GGNNCC	3 cut(s)	99, 131, 272
PspPI	GGNCC	1 cut(s)	183
PstNI	CAGNNNCTG	1 cut(s)	230
PsuI	RGATCY	2 cut(s)	81, 129
PvuII	CAGCTG	1 cut(s)	227
SatI	GCNGC	5 cut(s)	63, 225, 228, 231, 264
Sau3AI	GATC	4 cut(s)	81, 129, 246, 306
Sau96I	GGNCC	1 cut(s)	183
ScrFI	CCNGG	3 cut(s)	86, 107, 331
SduI	GDGCHC	1 cut(s)	36
SetI	ASST	7 cut(s)	19, 24, 117, 127, 159, 229, 291
SinI	GGWCC	1 cut(s)	183
Sse9I	AATT	2 cut(s)	236, 322
SsiI	CCGC	5 cut(s)	62, 90, 140, 189, 196
SspMI	CTAG	2 cut(s)	14, 267
StyD4I	CCNGG	3 cut(s)	84, 105, 329
StyI	CCWWGG	1 cut(s)	241
TaaI	ACNGT	1 cut(s)	102
TasI	AATT	2 cut(s)	236, 322
TauI	GCSGC	1 cut(s)	65
TscAI	CASTG	1 cut(s)	142
TseI	GCWGC	4 cut(s)	224, 227, 230, 263
TspRI	CASTG	1 cut(s)	142
VpaK11BI	GGWCC	1 cut(s)	183
XapI	RAATTY	1 cut(s)	236
XceI	RCATGY	1 cut(s)	75
XspI	CTAG	2 cut(s)	14, 267

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