Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0002397

Physical Location & Seq

Genomic Coordinates Reverse (-)

47223377 .. 47226989

Gene Structure 3613 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0297300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 537 bp

ATGTTCGAAGCACACGTCCTCCATTTGCTTAGAAGATATTTGGGGGAATATGTTGAAGGACTCTCTGTCGAAGCTTTAAGAATAAGTGTTTGGCAAGGTGATGTTGTTCTCAAAGATTTGAAATTAAAGGCAGAGGCCCTAAATTCACTAAAACTTCCAGTCACTGTAAAAGCTGGTTTTATTGGTACCATTACATTAAAGGTTCCATGGAAAAGTGTGGGCAAAGAACCTGTGATTGTTCTCATTGACCGTGTATTCATCCTTGCTCATCCTGTTACTGATGACAGGACTCTCAAGCAATCTAATGGAAATTCATGGCTAGGTTCCCTTATTGCTACTATTATTGGGAATCTAAAGATATCAATTAGCAATGTACATATAAGATATGAGGATTTGTCAGGACATCCTTTTTGTTCGGGTGCCACTTTAGCCAAACTTGCTGCTGTTACGATGGATGAAGAAGGGAATGAAACATTTGATACCAGTGGTGCTCTTGATAAGTTGCGAAAGGTTAGCCTTGTCACTTTTATCTGCTGA

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

No domains found.

Protein Analysis

178

Amino Acids

19.54

Weight (kDa)

7.8

Isoelectric Point (pI)

17.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
VPS13_N	PF12624	1 - 94	7.2e-38	VPS13-like family N-terminal region
ATG2_CAD	PF13329	8 - 101	3.6e-09	Autophagy-related protein 2
VPS13_N	PF12624	99 - 159	1.8e-11	VPS13-like family N-terminal region

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0002397)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g16320 FvH4_2g18400 FvH4_3g43980 FvH4_4g33840 FvH4_5g24170 FvH4_5g26770 FvH4_5g26770 FvH4_5g26770 FvH4_5g26770 FvH4_5g26770 FvH4_5g26770 FvH4_6g31070 FvH4_6g34392 FvH4_6g39960 FvH4_6g54252 FvH4_7g14550
rosa_multiflora	Rmu_sc0000493.1_g000079
rosa_roxburghii	Rroxscaffold_156G00440260 Rroxscaffold_1G00012010 Rroxscaffold_3G00245190 Rroxscaffold_5G00364260 Rroxscaffold_6G00394000
rosa_rugosa	Rorug02G0526600 Rorug04G0297300 Rorug05G0393500 Rorug06G0196700
rosa_samantha	Rh1BG304600 Rh2CG414500 Rh2CG442900 Rh3AG287600 Rh3DG234900 Rh3DG253000 Rh3DG371300 Rh4BG116300 Rh4BG181700 Rh4BG256900 Rh4BG360600 Rh5CG403100 Rh5CG480500 Rh6DG117000 Rh6DG266300 Rh6DG307200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	185
AccB1I	GGYRCC	2 cut(s)	185, 419
AcsI	RAATTY	2 cut(s)	142, 310
AfaI	GTAC	2 cut(s)	187, 375
AflIII	ACRYGT	1 cut(s)	13
AgsI	TTSAA	2 cut(s)	56, 121
AhdI	GACNNNNNGTC	1 cut(s)	65
AjiI	CACGTC	1 cut(s)	16
AjuI	GAANNNNNNNTTGG	2 cut(s)	73, 105
AluBI	AGCT	2 cut(s)	74, 173
AluI	AGCT	2 cut(s)	74, 173
Alw21I	GWGCWC	1 cut(s)	493
AlwNI	CAGNNNCTG	1 cut(s)	164
AoxI	GGCC	1 cut(s)	135
ApeKI	GCWGC	1 cut(s)	440
ApoI	RAATTY	2 cut(s)	142, 310
ArsI	GACNNNNNNTTYG	3 cut(s)	32, 393, 425
Asp718I	GGTACC	1 cut(s)	185
AspS9I	GGNCC	1 cut(s)	136
AsuHPI	GGTGA	1 cut(s)	110
AsuII	TTCGAA	1 cut(s)	6
BanI	GGYRCC	2 cut(s)	185, 419
Bbv12I	GWGCWC	1 cut(s)	493
BbvI	GCAGC	1 cut(s)	427
BccI	CCATC	1 cut(s)	445
BfaI	CTAG	1 cut(s)	320
BisI	GCNGC	1 cut(s)	441
BlsI	GCNGC	1 cut(s)	442
BmeRI	GACNNNNNGTC	1 cut(s)	65
BmgBI	CACGTC	1 cut(s)	16
BmgT120I	GGNCC	1 cut(s)	136
BmiI	GGNNCC	4 cut(s)	187, 204, 325, 421
Bpu14I	TTCGAA	1 cut(s)	6
BpuEI	CTTGAG	1 cut(s)	278
BsaJI	CCNNGG	1 cut(s)	206
BsaXI	ACNNNNNCTCC	1 cut(s)	33
Bse1I	ACTGG	2 cut(s)	158, 483
Bse3DI	GCAATG	1 cut(s)	376
BseDI	CCNNGG	1 cut(s)	206
BseGI	GGATG	4 cut(s)	258, 268, 403, 460
BseMI	GCAATG	1 cut(s)	376
BseNI	ACTGG	2 cut(s)	158, 483
BseXI	GCAGC	1 cut(s)	427
BshFI	GGCC	1 cut(s)	137
BshNI	GGYRCC	2 cut(s)	185, 419
BsiHKAI	GWGCWC	1 cut(s)	493
BsnI	GGCC	1 cut(s)	137
Bsp119I	TTCGAA	1 cut(s)	6
Bsp1286I	GDGCHC	1 cut(s)	493
Bsp1407I	TGTACA	1 cut(s)	373
Bsp19I	CCATGG	1 cut(s)	206
BspANI	GGCC	1 cut(s)	137
BspLI	GGNNCC	4 cut(s)	187, 204, 325, 421
BspT104I	TTCGAA	1 cut(s)	6
BspT107I	GGYRCC	2 cut(s)	185, 419
BsrDI	GCAATG	1 cut(s)	376
BsrGI	TGTACA	1 cut(s)	373
BsrI	ACTGG	2 cut(s)	158, 483
BssECI	CCNNGG	1 cut(s)	206
BssT1I	CCWWGG	1 cut(s)	206
Bst4CI	ACNGT	2 cut(s)	166, 251
BstAUI	TGTACA	1 cut(s)	373
BstBI	TTCGAA	1 cut(s)	6
BstDEI	CTNAG	1 cut(s)	29
BstDSI	CCRYGG	1 cut(s)	206
BstF5I	GGATG	4 cut(s)	258, 268, 403, 460
BstMWI	GCNNNNNNNGC	2 cut(s)	428, 437
BstV1I	GCAGC	1 cut(s)	427
BsuRI	GGCC	1 cut(s)	137
BtgI	CCRYGG	1 cut(s)	206
BtrI	CACGTC	1 cut(s)	16
BtsCI	GGATG	4 cut(s)	258, 268, 403, 460
BtsIMutI	CAGTG	2 cut(s)	162, 490
CaiI	CAGNNNCTG	1 cut(s)	164
Cfr13I	GGNCC	1 cut(s)	136
Csp6I	GTAC	2 cut(s)	186, 374
CviAII	CATG	2 cut(s)	207, 315
CviJI	RGCY	6 cut(s)	74, 137, 173, 319, 431, 516
CviKI_1	RGCY	6 cut(s)	74, 137, 173, 319, 431, 516
CviQI	GTAC	2 cut(s)	186, 374
DdeI	CTNAG	1 cut(s)	29
DriI	GACNNNNNGTC	1 cut(s)	65
Eam1105I	GACNNNNNGTC	1 cut(s)	65
Eco130I	CCWWGG	1 cut(s)	206
Eco32I	GATATC	1 cut(s)	360
EcoO109I	RGGNCCY	1 cut(s)	136
EcoRV	GATATC	1 cut(s)	360
EcoT14I	CCWWGG	1 cut(s)	206
ErhI	CCWWGG	1 cut(s)	206
FaeI	CATG	2 cut(s)	210, 318
FaiI	YATR	6 cut(s)	51, 208, 316, 378, 380, 387
FatI	CATG	2 cut(s)	206, 314
Fnu4HI	GCNGC	1 cut(s)	441
FokI	GGATG	4 cut(s)	245, 255, 390, 467
Fsp4HI	GCNGC	1 cut(s)	441
FspBI	CTAG	1 cut(s)	320
GluI	GCNGC	1 cut(s)	441
HaeIII	GGCC	1 cut(s)	137
Hin1II	CATG	2 cut(s)	210, 318
HindIII	AAGCTT	1 cut(s)	72
HinfI	GANTC	3 cut(s)	60, 289, 349
HphI	GGTGA	1 cut(s)	110
Hpy188III	TCNNGA	2 cut(s)	399, 494
HpyAV	CCTTC	2 cut(s)	50, 455
HpyCH4III	ACNGT	2 cut(s)	166, 251
HpyCH4IV	ACGT	1 cut(s)	15
HpyF10VI	GCNNNNNNNGC	2 cut(s)	428, 437
HpyF3I	CTNAG	1 cut(s)	29
HpySE526I	ACGT	1 cut(s)	15
Hsp92II	CATG	2 cut(s)	210, 318
KpnI	GGTACC	1 cut(s)	189
LpnPI	CCDG	7 cut(s)	159, 171, 243, 271, 285, 384, 496
Lsp1109I	GCAGC	1 cut(s)	427
MaeI	CTAG	1 cut(s)	320
MaeII	ACGT	1 cut(s)	15
MaeIII	GTNAC	4 cut(s)	160, 274, 445, 520
MboII	GAAGA	2 cut(s)	45, 470
MhlI	GDGCHC	1 cut(s)	493
MluCI	AATT	4 cut(s)	122, 142, 310, 363
MlyI	GAGTC	2 cut(s)	54, 283
MnlI	CCTC	3 cut(s)	29, 127, 382
MseI	TTAA	3 cut(s)	77, 125, 197
MwoI	GCNNNNNNNGC	2 cut(s)	428, 437
NcoI	CCATGG	1 cut(s)	206
NlaIII	CATG	2 cut(s)	210, 318
NlaIV	GGNNCC	4 cut(s)	187, 204, 325, 421
NmuCI	GTSAC	2 cut(s)	160, 520
NspV	TTCGAA	1 cut(s)	6
PcsI	WCGNNNNNNNCGW	1 cut(s)	12
PfeI	GAWTC	1 cut(s)	349
PkrI	GCNGC	1 cut(s)	442
PleI	GAGTC	2 cut(s)	54, 283
PpsI	GAGTC	2 cut(s)	54, 283
PspN4I	GGNNCC	4 cut(s)	187, 204, 325, 421
PspPI	GGNCC	1 cut(s)	136
PstNI	CAGNNNCTG	1 cut(s)	164
RsaI	GTAC	2 cut(s)	187, 375
RsaNI	GTAC	2 cut(s)	186, 374
SaqAI	TTAA	3 cut(s)	77, 125, 197
SatI	GCNGC	1 cut(s)	441
Sau96I	GGNCC	1 cut(s)	136
SchI	GAGTC	2 cut(s)	54, 283
SduI	GDGCHC	1 cut(s)	493
SetI	ASST	8 cut(s)	18, 76, 100, 175, 204, 232, 325, 513
SfuI	TTCGAA	1 cut(s)	6
SmlI	CTYRAG	1 cut(s)	293
SmoI	CTYRAG	1 cut(s)	293
Sse9I	AATT	4 cut(s)	122, 142, 310, 363
SspMI	CTAG	1 cut(s)	320
StyI	CCWWGG	1 cut(s)	206
TaaI	ACNGT	2 cut(s)	166, 251
TaiI	ACGT	1 cut(s)	18
TaqI	TCGA	2 cut(s)	6, 69
TasI	AATT	4 cut(s)	122, 142, 310, 363
TatI	WGTACW	1 cut(s)	373
TfiI	GAWTC	1 cut(s)	349
Tru1I	TTAA	3 cut(s)	77, 125, 197
Tru9I	TTAA	3 cut(s)	77, 125, 197
TscAI	CASTG	2 cut(s)	169, 490
TseFI	GTSAC	2 cut(s)	160, 520
TseI	GCWGC	1 cut(s)	440
Tsp45I	GTSAC	2 cut(s)	160, 520
TspDTI	ATGAA	4 cut(s)	247, 303, 471, 483
TspRI	CASTG	2 cut(s)	169, 490
XapI	RAATTY	2 cut(s)	142, 310
XspI	CTAG	1 cut(s)	320

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