Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0001731

Physical Location & Seq

Genomic Coordinates Reverse (-)

8280272 .. 8282021

Gene Structure 1750 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG102200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 603 bp

ATGCAAGTGGCTTATGGTTTGTGTTTTGCACTTGAACTCAGTGATAAGATTGGATTTGTTCATCCATCCCTGTTTGTCAACTTGAATGAAGAGGCATCCTCATCATTTGATGATATTAGTAATGTGGTGTGCTCAGCAGATGGGAGTGCAGTGTTTTGGAATAGGGATCATATGTTGGGAATTTCGACGGATGTTCTTATTCCATTATATAAGGAAGCTAAGCGCGCGATGATGGCAACAAATCGACAATATAAGGCACTTAATTGCCATAGCAGGGCTATTTTGTTAGTGAGTTCTGATTTTGGCACTGCTTGGCATTCCAGGAAGATGGTGTTGTTAAAGAAGCAAGAGCTCTCAATTTTATTGGATGAACTTGTATTCTTAGCGCTTGTTCTTTCATATGCACCTAAATCTGAGCATGCTTGGAGCCACAGGCGATGGGTCATCAAGTTAATTGTTGGAAAGTGTTCAACTCTGCAAGAGATCGTCACCAAAGAGTTTGAGCTGGTGGAGAAAATAGCCGAGAGGTCAAAAATGTATTACCGTGCATGGCTGGCTTGCATGTTGCTGACCATAGTTGCTTCCATTATCGCAGACAGCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006464 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0018342 GO:0019538 GO:0032991 GO:0036211 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0071704 GO:0097354 GO:1901564 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPTA

Protein Analysis

200

Amino Acids

22.64

Weight (kDa)

7.66

Isoelectric Point (pI)

42.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPTA	PF01239	122 - 150	2.4e-07	Protein prenyltransferase alpha subunit repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0001731)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G10095 AT1G10095 AT1G10095 AT1G10095
fragaria_vesca	FvH4_6g01921 FvH4_6g01921 FvH4_6g01921 FvH4_6g01921 FvH4_6g01921 FvH4_6g01921 FvH4_6g01921 FvH4_6g01921 FvH4_6g01921 FvH4_6g01921 FvH4_6g01921
malus_domestica	MD04G1230400.v1.1 MD12G1248000.v1.1 MD12G1248100.v1.1 MD12G1248600.v1.1 MD12G1248900.v1.1
prunus_persica	Prupe.6G350300_v2.0.a1 Prupe.6G350300_v2.0.a1 Prupe.6G350300_v2.0.a1 Prupe.6G350300_v2.0.a1 Prupe.6G350300_v2.0.a1 Prupe.6G350300_v2.0.a1 Prupe.6G350300_v2.0.a1
pyrus_communis	pycom04g20430 pycom12g22820 pycom12g22870
rosa_chinensis	RchiOBHm_Chr3g0449661
rosa_laevigata	RLG00000021254 RLG00000025810
rosa_multiflora	Rmu_co8329731.1_g000001 Rmu_sc0007357.1_g000001 Rmu_sc0009629.1_g000011 Rmu_sc0010999.1_g000002
rosa_roxburghii	Rroxscaffold_6G00427560
rosa_rugosa	Rorug02G0622600
rosa_samantha	Rh2BG103900 Rh2CG106400 Rh2DG102200 Rh3AG020700 Rh3BG021400 Rh3CG019900 Rh3DG021200 Rh5CG118600
rosa_wichuraiana	Rw3G001710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	225, 227
AclWI	GGATC	1 cut(s)	174
AcsI	RAATTY	1 cut(s)	180
AfeI	AGCGCT	1 cut(s)	387
AfiI	CCNNNNNNNGG	1 cut(s)	274
AgsI	TTSAA	3 cut(s)	35, 85, 471
AjnI	CCWGG	1 cut(s)	320
AluBI	AGCT	4 cut(s)	218, 352, 505, 600
AluI	AGCT	4 cut(s)	218, 352, 505, 600
Alw21I	GWGCWC	2 cut(s)	134, 354
AlwI	GGATC	1 cut(s)	174
Aor51HI	AGCGCT	1 cut(s)	387
ApoI	RAATTY	1 cut(s)	180
Asp700I	GAANNNNTTC	1 cut(s)	466
AspLEI	GCGC	3 cut(s)	225, 227, 388
AsuHPI	GGTGA	1 cut(s)	481
BanII	GRGCYC	1 cut(s)	354
Bbv12I	GWGCWC	2 cut(s)	134, 354
BccI	CCATC	5 cut(s)	73, 134, 226, 322, 432
BciT130I	CCWGG	1 cut(s)	322
BfoI	RGCGCY	1 cut(s)	389
BlpI	GCTNAGC	2 cut(s)	133, 219
Bme1390I	CCNGG	1 cut(s)	322
BmiI	GGNNCC	1 cut(s)	428
BmrFI	CCNGG	1 cut(s)	322
BmsI	GCATC	1 cut(s)	104
BplI	GAGNNNNNCTC	2 cut(s)	83, 115
Bpu1102I	GCTNAGC	2 cut(s)	133, 219
Bsc4I	CCNNNNNNNGG	1 cut(s)	274
BseBI	CCWGG	1 cut(s)	322
BseGI	GGATG	5 cut(s)	61, 65, 95, 196, 373
BseLI	CCNNNNNNNGG	1 cut(s)	274
BseMII	CTCAG	3 cut(s)	52, 147, 405
BsePI	GCGCGC	1 cut(s)	223
BsgI	GTGCAG	1 cut(s)	168
Bsh1236I	CGCG	2 cut(s)	225, 227
BsiHKAI	GWGCWC	2 cut(s)	134, 354
BslI	CCNNNNNNNGG	1 cut(s)	274
BsmI	GAATGC	1 cut(s)	316
Bsp1286I	GDGCHC	2 cut(s)	134, 354
Bsp143I	GATC	2 cut(s)	166, 483
Bsp1720I	GCTNAGC	2 cut(s)	133, 219
BspCNI	CTCAG	3 cut(s)	51, 146, 406
BspFNI	CGCG	2 cut(s)	225, 227
BspLI	GGNNCC	1 cut(s)	428
BspPI	GGATC	1 cut(s)	174
BssHII	GCGCGC	1 cut(s)	223
BssMI	GATC	2 cut(s)	166, 483
Bst2UI	CCWGG	1 cut(s)	322
Bst4CI	ACNGT	1 cut(s)	545
Bst6I	CTCTTC	1 cut(s)	84
BstC8I	GCNNGC	4 cut(s)	225, 420, 555, 559
BstDEI	CTNAG	5 cut(s)	38, 133, 219, 382, 414
BstF5I	GGATG	5 cut(s)	61, 65, 95, 196, 373
BstFNI	CGCG	2 cut(s)	225, 227
BstH2I	RGCGCY	1 cut(s)	389
BstHHI	GCGC	3 cut(s)	225, 227, 388
BstKTI	GATC	2 cut(s)	169, 486
BstMBI	GATC	2 cut(s)	166, 483
BstMWI	GCNNNNNNNGC	3 cut(s)	224, 233, 554
BstNI	CCWGG	1 cut(s)	322
BstNSI	RCATGY	2 cut(s)	422, 565
BstSCI	CCNGG	1 cut(s)	320
BstUI	CGCG	2 cut(s)	225, 227
BstXI	CCANNNNNNTGG	1 cut(s)	328
BtgZI	GCGATG	2 cut(s)	242, 451
BtsCI	GGATG	5 cut(s)	61, 65, 95, 196, 373
BtsI	GCAGTG	2 cut(s)	156, 306
BtsIMutI	CAGTG	3 cut(s)	46, 156, 306
Cac8I	GCNNGC	4 cut(s)	225, 420, 555, 559
CfoI	GCGC	3 cut(s)	225, 227, 388
CviAII	CATG	3 cut(s)	419, 549, 562
DdeI	CTNAG	5 cut(s)	38, 133, 219, 382, 414
DpnI	GATC	2 cut(s)	168, 485
DpnII	GATC	2 cut(s)	166, 483
Eam1104I	CTCTTC	1 cut(s)	84
EarI	CTCTTC	1 cut(s)	84
Ecl136II	GAGCTC	1 cut(s)	352
Eco24I	GRGCYC	1 cut(s)	354
Eco47III	AGCGCT	1 cut(s)	387
Eco53kI	GAGCTC	1 cut(s)	352
EcoICRI	GAGCTC	1 cut(s)	352
EcoRII	CCWGG	1 cut(s)	320
EcoT38I	GRGCYC	1 cut(s)	354
FaeI	CATG	3 cut(s)	422, 552, 565
FatI	CATG	3 cut(s)	418, 548, 561
FauNDI	CATATG	2 cut(s)	171, 400
FokI	GGATG	5 cut(s)	48, 52, 82, 203, 380
FriOI	GRGCYC	1 cut(s)	354
GlaI	GCGC	3 cut(s)	224, 226, 387
HaeII	RGCGCY	1 cut(s)	389
HhaI	GCGC	3 cut(s)	225, 227, 388
Hin1II	CATG	3 cut(s)	422, 552, 565
Hin6I	GCGC	3 cut(s)	223, 225, 386
HinP1I	GCGC	3 cut(s)	223, 225, 386
HincII	GTYRAC	1 cut(s)	79
HindII	GTYRAC	1 cut(s)	79
HphI	GGTGA	1 cut(s)	481
Hpy166II	GTNNAC	1 cut(s)	79
Hpy188I	TCNGA	2 cut(s)	298, 415
Hpy8I	GTNNAC	1 cut(s)	79
Hpy99I	CGWCG	1 cut(s)	190
HpyCH4III	ACNGT	1 cut(s)	545
HpyCH4V	TGCA	7 cut(s)	4, 29, 149, 404, 478, 548, 561
HpyF10VI	GCNNNNNNNGC	3 cut(s)	224, 233, 554
HpyF3I	CTNAG	5 cut(s)	38, 133, 219, 382, 414
Hsp92II	CATG	3 cut(s)	422, 552, 565
HspAI	GCGC	3 cut(s)	223, 225, 386
Kzo9I	GATC	2 cut(s)	166, 483
LmnI	GCTCC	1 cut(s)	426
LpnPI	CCDG	7 cut(s)	83, 259, 307, 334, 418, 491, 539
LweI	GCATC	1 cut(s)	104
MaeIII	GTNAC	1 cut(s)	487
MalI	GATC	2 cut(s)	168, 485
MboI	GATC	2 cut(s)	166, 483
MboII	GAAGA	2 cut(s)	101, 337
MhlI	GDGCHC	2 cut(s)	134, 354
MluCI	AATT	4 cut(s)	180, 262, 357, 453
MmeI	TCCRAC	1 cut(s)	439
MnlI	CCTC	3 cut(s)	85, 109, 519
MroXI	GAANNNNTTC	1 cut(s)	466
MseI	TTAA	3 cut(s)	261, 338, 452
MspR9I	CCNGG	1 cut(s)	322
Mva1269I	GAATGC	1 cut(s)	316
MvaI	CCWGG	1 cut(s)	322
MvnI	CGCG	2 cut(s)	225, 227
MwoI	GCNNNNNNNGC	3 cut(s)	224, 233, 554
NdeI	CATATG	2 cut(s)	171, 400
NdeII	GATC	2 cut(s)	166, 483
NlaIII	CATG	3 cut(s)	422, 552, 565
NlaIV	GGNNCC	1 cut(s)	428
NmeAIII	GCCGAG	1 cut(s)	547
NmuCI	GTSAC	1 cut(s)	487
NspI	RCATGY	2 cut(s)	422, 565
PaeI	GCATGC	1 cut(s)	422
PauI	GCGCGC	1 cut(s)	223
PctI	GAATGC	1 cut(s)	316
PdmI	GAANNNNTTC	1 cut(s)	466
PfoI	TCCNGGA	1 cut(s)	320
Psp124BI	GAGCTC	1 cut(s)	354
Psp6I	CCWGG	1 cut(s)	320
PspGI	CCWGG	1 cut(s)	320
PspN4I	GGNNCC	1 cut(s)	428
PteI	GCGCGC	1 cut(s)	223
SacI	GAGCTC	1 cut(s)	354
SaqAI	TTAA	3 cut(s)	261, 338, 452
Sau3AI	GATC	2 cut(s)	166, 483
ScrFI	CCNGG	1 cut(s)	322
SduI	GDGCHC	2 cut(s)	134, 354
SetI	ASST	6 cut(s)	220, 354, 409, 507, 530, 602
SfaNI	GCATC	1 cut(s)	104
SphI	GCATGC	1 cut(s)	422
Sse9I	AATT	4 cut(s)	180, 262, 357, 453
SstI	GAGCTC	1 cut(s)	354
StyD4I	CCNGG	1 cut(s)	320
TaaI	ACNGT	1 cut(s)	545
TaqI	TCGA	2 cut(s)	185, 244
TasI	AATT	4 cut(s)	180, 262, 357, 453
Tru1I	TTAA	3 cut(s)	261, 338, 452
Tru9I	TTAA	3 cut(s)	261, 338, 452
TscAI	CASTG	3 cut(s)	46, 156, 313
TseFI	GTSAC	1 cut(s)	487
Tsp45I	GTSAC	1 cut(s)	487
TspDTI	ATGAA	4 cut(s)	50, 102, 384, 387
TspGWI	ACGGA	1 cut(s)	203
TspRI	CASTG	3 cut(s)	46, 156, 313
XapI	RAATTY	1 cut(s)	180
XceI	RCATGY	2 cut(s)	422, 565
XmnI	GAANNNNTTC	1 cut(s)	466

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