Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0006403

Physical Location & Seq

Genomic Coordinates Reverse (-)

46568819 .. 46570634

Gene Structure 1816 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG293800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 546 bp

ATGTCTGGCTCTGATGATGACATAAAGTTTTCAAATGAGGACTTGAGGGGACTTGAAGTCCCACACAACGATGCACTTGTTGTGAGCATGATGGTGGCAAACACTAGGCTGGACAAGATTTTCTGTACCACGGGCTTCTCCCACAGTATCATTTATCTTTCCACTCTGAAGCGATTGGGGATCAGCAAGAAAGATCTTCGCCCCCAGAAAGAGACTGTGCGAGGTGCCTTGGGGGAAGAACACAAGTCGGTGGGGAAAGTAACTCTCAATGTCACAGCTGGTGATAGGCCCCGATTCCGTACATTCATGGTGGAATTTGTGGTGATGGACAAGCCTTCAGCATATGACATCATTTTTGGAATGAAAGGGTTAGCTGAGATGGGGGCAGTAATCTCAGGATATCATCTACTCATCCGCTTCAGGACTGAAGCTGGAATTGGAGAGGTCAGAGGAAGTCAACAGATAGCTAGAGACTGTGAGAAGGCTATCTTGGAAGAAGCAAGGCGCAAGGACCCTTCAATCAAAAAGGTGGCAGTGGTTATGTAG

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

Retrotrans_gag

Protein Analysis

181

Amino Acids

20.12

Weight (kDa)

9.1

Isoelectric Point (pI)

28.42

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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

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Orthologous Genes (Group: OG0006403)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g05724 FvH4_4g22761 FvH4_4g22761 FvH4_4g22761 FvH4_4g22761
prunus_persica	Prupe.1G216400_v2.0.a1 Prupe.6G166600_v2.0.a1
pyrus_communis	pycom13g06290 pycom16g14440
rosa_laevigata	RLG00000007107
rosa_multiflora	Rmu_sc0000145.1_g000003 Rmu_sc0000588.1_g000009
rosa_roxburghii	Rroxscaffold_3G00242120 Rroxscaffold_3G00242200 Rroxscaffold_3G00251940 Rroxscaffold_5G00346840
rosa_samantha	Rh4AG287800 Rh4BG293800 Rh4CG309400
rosa_wichuraiana	Rw0G009200 Rw1G013120 Rw1G021060 Rw2G026690 Rw2G028100 Rw2G038560 Rw6G016440 Rw7G015580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	224
AciI	CCGC	1 cut(s)	415
AclWI	GGATC	1 cut(s)	188
AcsI	RAATTY	1 cut(s)	314
AcuI	CTGAAG	4 cut(s)	188, 321, 403, 447
AfaI	GTAC	2 cut(s)	127, 301
AgsI	TTSAA	3 cut(s)	33, 56, 519
AhdI	GACNNNNNGTC	1 cut(s)	56
AjuI	GAANNNNNNNTTGG	4 cut(s)	420, 452, 473, 505
AluBI	AGCT	4 cut(s)	278, 374, 431, 467
AluI	AGCT	4 cut(s)	278, 374, 431, 467
Alw26I	GTCTC	2 cut(s)	206, 465
AlwI	GGATC	1 cut(s)	188
AoxI	GGCC	1 cut(s)	287
ApoI	RAATTY	1 cut(s)	314
ArsI	GACNNNNNNTTYG	2 cut(s)	338, 370
AspLEI	GCGC	1 cut(s)	507
AspS9I	GGNCC	2 cut(s)	288, 511
AsuHPI	GGTGA	2 cut(s)	293, 334
AvaII	GGWCC	1 cut(s)	511
BanI	GGYRCC	1 cut(s)	224
BccI	CCATC	3 cut(s)	85, 319, 373
BcoDI	GTCTC	2 cut(s)	206, 465
BfaI	CTAG	2 cut(s)	105, 468
BglII	AGATCT	1 cut(s)	193
Bme18I	GGWCC	1 cut(s)	511
BmeRI	GACNNNNNGTC	1 cut(s)	56
BmgT120I	GGNCC	2 cut(s)	288, 511
BmiI	GGNNCC	3 cut(s)	226, 290, 513
BmsI	GCATC	1 cut(s)	61
BpuEI	CTTGAG	1 cut(s)	64
BsaJI	CCNNGG	2 cut(s)	129, 228
BseDI	CCNNGG	2 cut(s)	129, 228
BseGI	GGATG	1 cut(s)	411
BseMII	CTCAG	2 cut(s)	366, 408
BshFI	GGCC	1 cut(s)	289
BshNI	GGYRCC	1 cut(s)	224
BslFI	GGGAC	2 cut(s)	44, 63
BsmAI	GTCTC	2 cut(s)	206, 465
BsmFI	GGGAC	2 cut(s)	44, 63
BsnI	GGCC	1 cut(s)	289
Bsp143I	GATC	2 cut(s)	180, 193
BspACI	CCGC	1 cut(s)	415
BspANI	GGCC	1 cut(s)	289
BspCNI	CTCAG	2 cut(s)	367, 407
BspLI	GGNNCC	3 cut(s)	226, 290, 513
BspPI	GGATC	1 cut(s)	188
BspT107I	GGYRCC	1 cut(s)	224
BssECI	CCNNGG	2 cut(s)	129, 228
BssMI	GATC	2 cut(s)	180, 193
BssT1I	CCWWGG	1 cut(s)	228
Bst4CI	ACNGT	3 cut(s)	146, 217, 476
BstDEI	CTNAG	2 cut(s)	375, 394
BstDSI	CCRYGG	1 cut(s)	129
BstF5I	GGATG	1 cut(s)	411
BstHHI	GCGC	1 cut(s)	507
BstKTI	GATC	2 cut(s)	183, 196
BstMAI	GTCTC	2 cut(s)	206, 465
BstMBI	GATC	2 cut(s)	180, 193
BstX2I	RGATCY	1 cut(s)	193
BstYI	RGATCY	1 cut(s)	193
BsuRI	GGCC	1 cut(s)	289
BtgI	CCRYGG	1 cut(s)	129
BtsCI	GGATG	1 cut(s)	411
BtsI	GCAGTG	1 cut(s)	540
BtsIMutI	CAGTG	1 cut(s)	540
CfoI	GCGC	1 cut(s)	507
Cfr13I	GGNCC	2 cut(s)	288, 511
Csp6I	GTAC	2 cut(s)	126, 300
CviAII	CATG	2 cut(s)	88, 307
CviQI	GTAC	2 cut(s)	126, 300
DdeI	CTNAG	2 cut(s)	375, 394
DpnI	GATC	2 cut(s)	182, 195
DpnII	GATC	2 cut(s)	180, 193
DriI	GACNNNNNGTC	1 cut(s)	56
Eam1105I	GACNNNNNGTC	1 cut(s)	56
Eco130I	CCWWGG	1 cut(s)	228
Eco32I	GATATC	1 cut(s)	401
Eco47I	GGWCC	1 cut(s)	511
Eco57I	CTGAAG	4 cut(s)	188, 321, 403, 447
EcoO109I	RGGNCCY	2 cut(s)	288, 511
EcoRV	GATATC	1 cut(s)	401
EcoT14I	CCWWGG	1 cut(s)	228
ErhI	CCWWGG	1 cut(s)	228
FaeI	CATG	2 cut(s)	91, 310
FaiI	YATR	6 cut(s)	23, 89, 308, 343, 345, 542
FalI	AAGNNNNNCTT	2 cut(s)	473, 505
FaqI	GGGAC	2 cut(s)	44, 63
FatI	CATG	2 cut(s)	87, 306
FauNDI	CATATG	1 cut(s)	343
FokI	GGATG	1 cut(s)	398
FspBI	CTAG	2 cut(s)	105, 468
GlaI	GCGC	1 cut(s)	506
HaeIII	GGCC	1 cut(s)	289
HhaI	GCGC	1 cut(s)	507
Hin1II	CATG	2 cut(s)	91, 310
Hin6I	GCGC	1 cut(s)	505
HinP1I	GCGC	1 cut(s)	505
HincII	GTYRAC	1 cut(s)	458
HindII	GTYRAC	1 cut(s)	458
HinfI	GANTC	1 cut(s)	294
HphI	GGTGA	2 cut(s)	293, 334
Hpy166II	GTNNAC	1 cut(s)	458
Hpy188I	TCNGA	3 cut(s)	13, 168, 449
Hpy188III	TCNNGA	2 cut(s)	396, 421
Hpy8I	GTNNAC	1 cut(s)	458
HpyAV	CCTTC	3 cut(s)	345, 475, 525
HpyCH4III	ACNGT	3 cut(s)	146, 217, 476
HpyCH4V	TGCA	1 cut(s)	74
HpyF3I	CTNAG	2 cut(s)	375, 394
Hsp92II	CATG	2 cut(s)	91, 310
HspAI	GCGC	1 cut(s)	505
Kzo9I	GATC	2 cut(s)	180, 193
LpnPI	CCDG	6 cut(s)	95, 218, 264, 381, 406, 417
LweI	GCATC	1 cut(s)	61
MaeI	CTAG	2 cut(s)	105, 468
MaeIII	GTNAC	2 cut(s)	259, 271
MalI	GATC	2 cut(s)	182, 195
MboI	GATC	2 cut(s)	180, 193
MboII	GAAGA	3 cut(s)	188, 248, 506
MflI	RGATCY	1 cut(s)	193
MluCI	AATT	2 cut(s)	314, 435
MnlI	CCTC	5 cut(s)	31, 39, 215, 436, 443
MslI	CAYNNNNRTG	2 cut(s)	69, 92
MspA1I	CMGCKG	1 cut(s)	278
NdeI	CATATG	1 cut(s)	343
NdeII	GATC	2 cut(s)	180, 193
NlaIII	CATG	2 cut(s)	91, 310
NlaIV	GGNNCC	3 cut(s)	226, 290, 513
NmuCI	GTSAC	1 cut(s)	271
PfeI	GAWTC	1 cut(s)	294
PpuMI	RGGWCCY	1 cut(s)	511
Psp5II	RGGWCCY	1 cut(s)	511
PspN4I	GGNNCC	3 cut(s)	226, 290, 513
PspPI	GGNCC	2 cut(s)	288, 511
PspPPI	RGGWCCY	1 cut(s)	511
PsuI	RGATCY	1 cut(s)	193
PvuII	CAGCTG	1 cut(s)	278
RsaI	GTAC	2 cut(s)	127, 301
RsaNI	GTAC	2 cut(s)	126, 300
RseI	CAYNNNNRTG	2 cut(s)	69, 92
Sau3AI	GATC	2 cut(s)	180, 193
Sau96I	GGNCC	2 cut(s)	288, 511
SetI	ASST	7 cut(s)	226, 280, 376, 433, 447, 469, 531
SfaNI	GCATC	1 cut(s)	61
SinI	GGWCC	1 cut(s)	511
SmiMI	CAYNNNNRTG	2 cut(s)	69, 92
SmlI	CTYRAG	1 cut(s)	43
SmoI	CTYRAG	1 cut(s)	43
Sse9I	AATT	2 cut(s)	314, 435
SsiI	CCGC	1 cut(s)	415
SspMI	CTAG	2 cut(s)	105, 468
StyI	CCWWGG	1 cut(s)	228
TaaI	ACNGT	3 cut(s)	146, 217, 476
TasI	AATT	2 cut(s)	314, 435
TfiI	GAWTC	1 cut(s)	294
TscAI	CASTG	1 cut(s)	540
TseFI	GTSAC	1 cut(s)	271
Tsp45I	GTSAC	1 cut(s)	271
TspDTI	ATGAA	2 cut(s)	295, 377
TspGWI	ACGGA	1 cut(s)	287
TspRI	CASTG	1 cut(s)	540
VpaK11BI	GGWCC	1 cut(s)	511
XapI	RAATTY	1 cut(s)	314
XspI	CTAG	2 cut(s)	105, 468

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