Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0001513

Physical Location & Seq

Genomic Coordinates Reverse (-)

33961292 .. 33962092

Gene Structure 801 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG153400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 729 bp

ATGTTATCCGCTTCCTCAAGGCGTTTCCGATGCCACAGAGCAGCAGAGCTATTCAAACCCCCTCTGGGTCCCGACCCATTTCCCATTCGGATTCAGAAATCTCCACCACTTCCCGACCCGAACAACCGGCCATCCTTCACCACCGTAACTTCATCCATCAACCACACTCACCCCTCTTCCCAATCACAACAACAAACACTAGTGACCCAAATTCTCTCCACCATTGAAAACGCCCCTACATTACTTCAATCCCTACACAACAAACGCATCTTCCTAACCCCAAAATCTTTCAACCGCGTTTTGATCTCAGCCGGTCAAAGAAACCATCTTTACCTCGTAACCCAAATCTTCAAGCTCGCAATTGCTTCCAAAATCCAACCTTTAAACTCAGATTGCTATCTCACTGTAGCCAAAGCCTTTGCAAGAGCAGATGATTGTGTTGTGGAGCTGCTCAGTTTTACCGAGCAAGTATTGGAATTGACCCAACCGAGCATGACAGTGAAAGATCGAAACTTTACTCCGGATATGTACACATACAACACTGTTCTTGAGATATTGGGCCGGGCGGGTCGGACAGGTGAGATGCTGGGGCTGTTTGGGGAAATGAAGGAAGCTGGGATTGACCCGGATTTGGTTTCTTACAATACAGTGATAAACCATGTCAGGAAGTTTGGGGAAGTTGATATGTGCTTGTTGTATTTCAAGGAAATGTGTGAAAAGGGTGTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3

Protein Analysis

242

Amino Acids

27.23

Weight (kDa)

8.8

Isoelectric Point (pI)

35.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	167 - 220	1.7e-09	Pentatricopeptide repeat domain
PPR_2	PF13041	174 - 220	2e-11	PPR repeat family
PPR	PF01535	177 - 207	2.6e-06	PPR repeat

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001513)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G11900
fragaria_vesca	FvH4_6g24020 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44670 FvH4_6g44670 FvH4_6g44670
malus_domestica	MD14G1065400.v1.1 MD17G1084400.v1.1
prunus_persica	Prupe.3G231200_v2.0.a1
pyrus_communis	pycom17g08150
rosa_chinensis	RchiOBHm_Chr1g0342741 RchiOBHm_Chr1g0342831 RchiOBHm_Chr2g0161831
rosa_laevigata	RLG00000021301 RLG00000029118 RLG00000029172 RLG00000029191
rosa_multiflora	Rmu_co8023038.1_g000001 Rmu_sc0001993.1_g000024 Rmu_sc0004502.1_g000002 Rmu_sc0011563.1_g000011
rosa_roxburghii	Rroxscaffold_2G00088520 Rroxscaffold_2G00088540 Rroxscaffold_2G00118030 Rroxscaffold_3G00231880 Rroxscaffold_4G00313190 Rroxscaffold_4G00313220 Rroxscaffold_7G00197130
rosa_rugosa	Rorug01G0146200.1 Rorug02G0492600
rosa_samantha	Rh1AG162400 Rh1AG162900 Rh1AG163800 Rh1AG164600 Rh1BG129700 Rh1CG152900 Rh1CG153400 Rh2AG558200 Rh2AG558300 Rh2CG541900 Rh2CG542300 Rh2DG581000 Rh2DG581900 Rh3CG249700
rosa_wichuraiana	Rw1G013300 Rw1G013340 Rw1G013680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	297
AccIII	TCCGGA	1 cut(s)	520
AciI	CCGC	3 cut(s)	9, 295, 566
AcoI	YGGCCR	1 cut(s)	128
AcsI	RAATTY	1 cut(s)	210
AfaI	GTAC	1 cut(s)	530
AfiI	CCNNNNNNNGG	2 cut(s)	65, 631
AgsI	TTSAA	6 cut(s)	55, 227, 248, 292, 352, 703
AhlI	ACTAGT	1 cut(s)	199
AluBI	AGCT	4 cut(s)	49, 355, 448, 614
AluI	AGCT	4 cut(s)	49, 355, 448, 614
Aor13HI	TCCGGA	1 cut(s)	520
AoxI	GGCC	2 cut(s)	128, 559
ApeKI	GCWGC	2 cut(s)	41, 448
ApoI	RAATTY	1 cut(s)	210
AspS9I	GGNCC	2 cut(s)	68, 559
AsuC2I	CCSGG	2 cut(s)	563, 626
AsuHPI	GGTGA	3 cut(s)	130, 161, 590
AvaII	GGWCC	1 cut(s)	68
BbvI	GCAGC	2 cut(s)	53, 435
BccI	CCATC	3 cut(s)	139, 164, 333
BcnI	CCSGG	2 cut(s)	563, 626
BcuI	ACTAGT	1 cut(s)	199
BfaI	CTAG	1 cut(s)	200
BfmI	CTRYAG	1 cut(s)	405
BisI	GCNGC	2 cut(s)	42, 449
BlsI	GCNGC	2 cut(s)	43, 450
Bme1390I	CCNGG	2 cut(s)	563, 626
Bme18I	GGWCC	1 cut(s)	68
BmgT120I	GGNCC	2 cut(s)	68, 559
BmiI	GGNNCC	2 cut(s)	69, 70
BmrFI	CCNGG	2 cut(s)	563, 626
BmsI	GCATC	3 cut(s)	20, 276, 573
BpuEI	CTTGAG	1 cut(s)	569
BpuMI	CCSGG	2 cut(s)	563, 626
BsaBI	GATNNNNATC	1 cut(s)	396
BsaWI	WCCGGW	1 cut(s)	520
Bsc4I	CCNNNNNNNGG	2 cut(s)	65, 631
Bse118I	RCCGGY	2 cut(s)	126, 311
Bse8I	GATNNNNATC	1 cut(s)	396
BseAI	TCCGGA	1 cut(s)	520
BseGI	GGATG	2 cut(s)	131, 152
BseJI	GATNNNNATC	1 cut(s)	396
BseLI	CCNNNNNNNGG	2 cut(s)	65, 631
BseMII	CTCAG	3 cut(s)	321, 402, 466
BseXI	GCAGC	2 cut(s)	53, 435
BseYI	CCCAGC	2 cut(s)	586, 614
Bsh1236I	CGCG	1 cut(s)	297
BshFI	GGCC	2 cut(s)	130, 561
BsiSI	CCGG	5 cut(s)	127, 312, 521, 562, 626
BslFI	GGGAC	1 cut(s)	54
BslI	CCNNNNNNNGG	2 cut(s)	65, 631
BsmFI	GGGAC	1 cut(s)	54
BsnI	GGCC	2 cut(s)	130, 561
Bsp13I	TCCGGA	1 cut(s)	520
Bsp1407I	TGTACA	1 cut(s)	528
Bsp143I	GATC	2 cut(s)	303, 505
BspACI	CCGC	3 cut(s)	9, 295, 566
BspANI	GGCC	2 cut(s)	130, 561
BspCNI	CTCAG	3 cut(s)	320, 401, 465
BspEI	TCCGGA	1 cut(s)	520
BspFNI	CGCG	1 cut(s)	297
BspLI	GGNNCC	2 cut(s)	69, 70
BsrFI	RCCGGY	2 cut(s)	126, 311
BsrGI	TGTACA	1 cut(s)	528
BssAI	RCCGGY	2 cut(s)	126, 311
BssMI	GATC	2 cut(s)	303, 505
Bst4CI	ACNGT	5 cut(s)	145, 406, 499, 544, 649
Bst6I	CTCTTC	1 cut(s)	181
BstAUI	TGTACA	1 cut(s)	528
BstC8I	GCNNGC	1 cut(s)	357
BstDEI	CTNAG	3 cut(s)	307, 388, 452
BstF5I	GGATG	2 cut(s)	131, 152
BstFNI	CGCG	1 cut(s)	297
BstKTI	GATC	2 cut(s)	306, 508
BstMBI	GATC	2 cut(s)	303, 505
BstSCI	CCNGG	2 cut(s)	561, 624
BstSFI	CTRYAG	1 cut(s)	405
BstUI	CGCG	1 cut(s)	297
BstV1I	GCAGC	2 cut(s)	53, 435
BsuRI	GGCC	2 cut(s)	130, 561
BtsCI	GGATG	2 cut(s)	131, 152
BtsIMutI	CAGTG	4 cut(s)	402, 504, 540, 654
Cac8I	GCNNGC	1 cut(s)	357
Cfr10I	RCCGGY	2 cut(s)	126, 311
Cfr13I	GGNCC	2 cut(s)	68, 559
Csp6I	GTAC	1 cut(s)	529
CviAII	CATG	2 cut(s)	493, 659
CviQI	GTAC	1 cut(s)	529
DdeI	CTNAG	3 cut(s)	307, 388, 452
DpnI	GATC	2 cut(s)	305, 507
DpnII	GATC	2 cut(s)	303, 505
DraI	TTTAAA	1 cut(s)	384
EaeI	YGGCCR	1 cut(s)	128
Eam1104I	CTCTTC	1 cut(s)	181
EarI	CTCTTC	1 cut(s)	181
Eco47I	GGWCC	1 cut(s)	68
EcoO109I	RGGNCCY	1 cut(s)	68
FaeI	CATG	2 cut(s)	496, 662
FaiI	YATR	5 cut(s)	494, 527, 535, 660, 686
FaqI	GGGAC	1 cut(s)	54
FatI	CATG	2 cut(s)	492, 658
FauI	CCCGC	1 cut(s)	559
Fnu4HI	GCNGC	2 cut(s)	42, 449
FokI	GGATG	2 cut(s)	118, 139
Fsp4HI	GCNGC	2 cut(s)	42, 449
FspBI	CTAG	1 cut(s)	200
GluI	GCNGC	2 cut(s)	42, 449
GsaI	CCCAGC	2 cut(s)	590, 618
HaeIII	GGCC	2 cut(s)	130, 561
HapII	CCGG	5 cut(s)	127, 312, 521, 562, 626
Hin1II	CATG	2 cut(s)	496, 662
HinfI	GANTC	1 cut(s)	91
HpaII	CCGG	5 cut(s)	127, 312, 521, 562, 626
HphI	GGTGA	3 cut(s)	130, 161, 590
Hpy166II	GTNNAC	1 cut(s)	531
Hpy188I	TCNGA	5 cut(s)	29, 90, 96, 391, 573
Hpy188III	TCNNGA	5 cut(s)	71, 113, 521, 548, 664
Hpy8I	GTNNAC	1 cut(s)	531
HpyAV	CCTTC	2 cut(s)	145, 601
HpyCH4III	ACNGT	5 cut(s)	145, 406, 499, 544, 649
HpyCH4V	TGCA	1 cut(s)	422
HpyF3I	CTNAG	3 cut(s)	307, 388, 452
Hsp92II	CATG	2 cut(s)	496, 662
KflI	GGGWCCC	1 cut(s)	68
Kpn2I	TCCGGA	1 cut(s)	520
Kzo9I	GATC	2 cut(s)	303, 505
LmnI	GCTCC	1 cut(s)	445
Lsp1109I	GCAGC	2 cut(s)	53, 435
LweI	GCATC	3 cut(s)	20, 276, 573
MaeI	CTAG	1 cut(s)	200
MaeIII	GTNAC	3 cut(s)	145, 202, 337
MalI	GATC	2 cut(s)	305, 507
MboI	GATC	2 cut(s)	303, 505
MboII	GAAGA	3 cut(s)	168, 262, 340
MfeI	CAATTG	1 cut(s)	360
MluCI	AATT	3 cut(s)	210, 360, 476
MmeI	TCCRAC	2 cut(s)	400, 551
MnlI	CCTC	4 cut(s)	25, 72, 184, 344
MroI	TCCGGA	1 cut(s)	520
MseI	TTAA	1 cut(s)	383
MslI	CAYNNNNRTG	1 cut(s)	497
MspI	CCGG	5 cut(s)	127, 312, 521, 562, 626
MspR9I	CCNGG	2 cut(s)	563, 626
MunI	CAATTG	1 cut(s)	360
MvnI	CGCG	1 cut(s)	297
NciI	CCSGG	2 cut(s)	563, 626
NdeII	GATC	2 cut(s)	303, 505
NlaIII	CATG	2 cut(s)	496, 662
NlaIV	GGNNCC	2 cut(s)	69, 70
NmuCI	GTSAC	1 cut(s)	202
PfeI	GAWTC	1 cut(s)	91
PkrI	GCNGC	2 cut(s)	43, 450
PpuMI	RGGWCCY	1 cut(s)	68
Psp5II	RGGWCCY	1 cut(s)	68
PspFI	CCCAGC	2 cut(s)	586, 614
PspN4I	GGNNCC	2 cut(s)	69, 70
PspPI	GGNCC	2 cut(s)	68, 559
PspPPI	RGGWCCY	1 cut(s)	68
RsaI	GTAC	1 cut(s)	530
RsaNI	GTAC	1 cut(s)	529
RseI	CAYNNNNRTG	1 cut(s)	497
SaqAI	TTAA	1 cut(s)	383
SatI	GCNGC	2 cut(s)	42, 449
Sau3AI	GATC	2 cut(s)	303, 505
Sau96I	GGNCC	2 cut(s)	68, 559
ScrFI	CCNGG	2 cut(s)	563, 626
SetI	ASST	7 cut(s)	51, 336, 357, 382, 450, 580, 616
SfaNI	GCATC	3 cut(s)	20, 276, 573
SfcI	CTRYAG	1 cut(s)	405
SinI	GGWCC	1 cut(s)	68
SmiMI	CAYNNNNRTG	1 cut(s)	497
SmlI	CTYRAG	2 cut(s)	16, 548
SmoI	CTYRAG	2 cut(s)	16, 548
SpeI	ACTAGT	1 cut(s)	199
Sse9I	AATT	3 cut(s)	210, 360, 476
SsiI	CCGC	3 cut(s)	9, 295, 566
SspMI	CTAG	1 cut(s)	200
StyD4I	CCNGG	2 cut(s)	561, 624
TaaI	ACNGT	5 cut(s)	145, 406, 499, 544, 649
TaqI	TCGA	1 cut(s)	508
TasI	AATT	3 cut(s)	210, 360, 476
TatI	WGTACW	1 cut(s)	528
TfiI	GAWTC	1 cut(s)	91
Tru1I	TTAA	1 cut(s)	383
Tru9I	TTAA	1 cut(s)	383
TscAI	CASTG	4 cut(s)	409, 504, 547, 654
TseFI	GTSAC	1 cut(s)	202
TseI	GCWGC	2 cut(s)	41, 448
Tsp45I	GTSAC	1 cut(s)	202
TspDTI	ATGAA	2 cut(s)	141, 620
TspRI	CASTG	4 cut(s)	409, 504, 547, 654
VpaK11BI	GGWCC	1 cut(s)	68
XapI	RAATTY	1 cut(s)	210
XspI	CTAG	1 cut(s)	200

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