Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0005202

Physical Location & Seq

Genomic Coordinates Reverse (-)

22372485 .. 22372973

Gene Structure 489 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG117100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 489 bp

ATGGTTTCGGGTTATGTTCAGAATGCTTGTTTCAACAAAGCTATTGATTTGTTTCGTGATTTCAAGCGCCGTCGTGCGAATGTGAGGTTGAAAGAGTCTCTTTTGGTTAGTGTTCTTAATGCCTGTGCTTCTGTGGGTGCATTCGAGGAAGGGAAGTGGATTCAGATGTATTTGGATGACCATGGTTTTGAGTATGGACTTGAGCTCGGTACGGCAGGAATAGGATTTTATGCAAAATGTGGATTCGTTACAGATGCTAAAGAGATATTTGATAAGATGCCGCGTAAAGATGTAACTACTTGGAGTGCTATGATCATGGGATATGCTATTAATGGTGAGAATGATACAGGGCTTGAACTTTTTGCTGAAATGGAAAAGAATGGACCTAAACCAAATGCTGTGACATTTGTTGGAGTTCTCACTGCATGTAATCACAAAACTCTTGTAAATGAAGCATGGCGAGTATTGGGACGTATGAGTAAAATTTAG

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

PPR PPR_2

Protein Analysis

162

Amino Acids

18.09

Weight (kDa)

7.64

Isoelectric Point (pI)

34.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	96 - 143	1.7e-10	PPR repeat family
PPR_3	PF13812	96 - 143	5.1e-06	Pentatricopeptide repeat domain
PPR	PF01535	100 - 128	1.4e-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

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Publication-ready

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Orthologous Genes (Group: OG0005202)

Species	Orthologous Gene IDs
malus_domestica	MD04G1188600.v1.1 MD13G1252400.v1.1
prunus_persica	Prupe.1G084600_v2.0.a1
pyrus_communis	pycom13g22560
rosa_chinensis	RchiOBHm_Chr1g0380711 RchiOBHm_Chr3g0484681 RchiOBHm_Chr4g0401751
rosa_laevigata	RLG00000009137 RLG00000023208 RLG00000026276
rosa_multiflora	Rmu_sc0001637.1_g000010 Rmu_sc0014815.1_g000014 Rmu_sc0039959.1_g000001
rosa_roxburghii	Rroxscaffold_2G00113990 Rroxscaffold_4G00279090 Rroxscaffold_5G00345080 Rroxscaffold_5G00353300 Rroxscaffold_6G00397530
rosa_rugosa	Rorug04G0031400
rosa_samantha	Rh1BG403400 Rh1CG417600 Rh1DG433700 Rh3AG263400 Rh3DG292100 Rh4AG108800 Rh4BG102500 Rh4CG117100
rosa_wichuraiana	Rw0G005870 Rw1G038990 Rw4G024940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	283
AciI	CCGC	1 cut(s)	281
AcsI	RAATTY	1 cut(s)	483
AfaI	GTAC	1 cut(s)	211
AgsI	TTSAA	4 cut(s)	34, 64, 91, 356
AluBI	AGCT	2 cut(s)	41, 205
AluI	AGCT	2 cut(s)	41, 205
Alw21I	GWGCWC	1 cut(s)	207
Alw26I	GTCTC	1 cut(s)	102
ApoI	RAATTY	1 cut(s)	483
ArsI	GACNNNNNNTTYG	2 cut(s)	170, 202
AseI	ATTAAT	1 cut(s)	330
AspLEI	GCGC	1 cut(s)	69
AspS9I	GGNCC	1 cut(s)	383
AsuHPI	GGTGA	1 cut(s)	347
AvaII	GGWCC	1 cut(s)	383
BanII	GRGCYC	1 cut(s)	207
Bbv12I	GWGCWC	1 cut(s)	207
BceAI	ACGGC	2 cut(s)	54, 228
BclI	TGATCA	1 cut(s)	312
BcoDI	GTCTC	1 cut(s)	102
BfoI	RGCGCY	1 cut(s)	70
BisI	GCNGC	1 cut(s)	281
BlsI	GCNGC	1 cut(s)	282
Bme18I	GGWCC	1 cut(s)	383
BmgT120I	GGNCC	1 cut(s)	383
BmsI	GCATC	2 cut(s)	244, 267
BpuEI	CTTGAG	1 cut(s)	221
BsaJI	CCNNGG	1 cut(s)	181
BseDI	CCNNGG	1 cut(s)	181
BseGI	GGATG	1 cut(s)	181
Bsh1236I	CGCG	1 cut(s)	283
BsiHKAI	GWGCWC	1 cut(s)	207
BslFI	GGGAC	1 cut(s)	483
BsmAI	GTCTC	1 cut(s)	102
BsmFI	GGGAC	1 cut(s)	483
BsmI	GAATGC	2 cut(s)	28, 140
Bsp1286I	GDGCHC	1 cut(s)	207
Bsp143I	GATC	1 cut(s)	312
Bsp19I	CCATGG	1 cut(s)	181
BspACI	CCGC	1 cut(s)	281
BspFNI	CGCG	1 cut(s)	283
BssECI	CCNNGG	1 cut(s)	181
BssMI	GATC	1 cut(s)	312
BssT1I	CCWWGG	1 cut(s)	181
BstDSI	CCRYGG	1 cut(s)	181
BstF5I	GGATG	1 cut(s)	181
BstFNI	CGCG	1 cut(s)	283
BstH2I	RGCGCY	1 cut(s)	70
BstHHI	GCGC	1 cut(s)	69
BstKTI	GATC	1 cut(s)	315
BstMAI	GTCTC	1 cut(s)	102
BstMBI	GATC	1 cut(s)	312
BstNSI	RCATGY	1 cut(s)	429
BstUI	CGCG	1 cut(s)	283
BtgI	CCRYGG	1 cut(s)	181
BtsCI	GGATG	1 cut(s)	181
BtsI	GCAGTG	1 cut(s)	420
BtsIMutI	CAGTG	1 cut(s)	420
CfoI	GCGC	1 cut(s)	69
Cfr13I	GGNCC	1 cut(s)	383
Csp6I	GTAC	1 cut(s)	210
CviAII	CATG	4 cut(s)	182, 316, 426, 456
CviJI	RGCY	3 cut(s)	41, 205, 352
CviKI_1	RGCY	3 cut(s)	41, 205, 352
CviQI	GTAC	1 cut(s)	210
DpnI	GATC	1 cut(s)	314
DpnII	GATC	1 cut(s)	312
Ecl136II	GAGCTC	1 cut(s)	205
Eco130I	CCWWGG	1 cut(s)	181
Eco24I	GRGCYC	1 cut(s)	207
Eco47I	GGWCC	1 cut(s)	383
Eco53kI	GAGCTC	1 cut(s)	205
EcoICRI	GAGCTC	1 cut(s)	205
EcoT14I	CCWWGG	1 cut(s)	181
EcoT38I	GRGCYC	1 cut(s)	207
ErhI	CCWWGG	1 cut(s)	181
FaeI	CATG	4 cut(s)	185, 319, 429, 459
FalI	AAGNNNNNCTT	2 cut(s)	84, 116
FaqI	GGGAC	1 cut(s)	483
FatI	CATG	4 cut(s)	181, 315, 425, 455
FbaI	TGATCA	1 cut(s)	312
Fnu4HI	GCNGC	1 cut(s)	281
FokI	GGATG	1 cut(s)	188
FriOI	GRGCYC	1 cut(s)	207
Fsp4HI	GCNGC	1 cut(s)	281
GlaI	GCGC	1 cut(s)	68
GluI	GCNGC	1 cut(s)	281
HaeII	RGCGCY	1 cut(s)	70
HhaI	GCGC	1 cut(s)	69
Hin1II	CATG	4 cut(s)	185, 319, 429, 459
Hin6I	GCGC	1 cut(s)	67
HinP1I	GCGC	1 cut(s)	67
HinfI	GANTC	3 cut(s)	95, 160, 243
HphI	GGTGA	1 cut(s)	347
Hpy188I	TCNGA	2 cut(s)	21, 165
Hpy188III	TCNNGA	1 cut(s)	56
Hpy99I	CGWCG	1 cut(s)	75
HpyAV	CCTTC	1 cut(s)	143
HpyCH4IV	ACGT	1 cut(s)	472
HpyCH4V	TGCA	3 cut(s)	140, 233, 425
HpySE526I	ACGT	1 cut(s)	472
Hsp92II	CATG	4 cut(s)	185, 319, 429, 459
HspAI	GCGC	1 cut(s)	67
Ksp22I	TGATCA	1 cut(s)	312
Kzo9I	GATC	1 cut(s)	312
LpnPI	CCDG	3 cut(s)	136, 201, 333
LweI	GCATC	2 cut(s)	244, 267
MaeII	ACGT	1 cut(s)	472
MaeIII	GTNAC	3 cut(s)	247, 292, 400
MalI	GATC	1 cut(s)	314
MboI	GATC	1 cut(s)	312
MhlI	GDGCHC	1 cut(s)	207
MluCI	AATT	1 cut(s)	483
MlyI	GAGTC	1 cut(s)	104
MmeI	TCCRAC	1 cut(s)	391
MnlI	CCTC	2 cut(s)	78, 139
MseI	TTAA	2 cut(s)	117, 330
Mva1269I	GAATGC	2 cut(s)	28, 140
MvnI	CGCG	1 cut(s)	283
NcoI	CCATGG	1 cut(s)	181
NdeII	GATC	1 cut(s)	312
NlaIII	CATG	4 cut(s)	185, 319, 429, 459
NmuCI	GTSAC	1 cut(s)	400
NspI	RCATGY	1 cut(s)	429
PctI	GAATGC	2 cut(s)	28, 140
PfeI	GAWTC	2 cut(s)	160, 243
PkrI	GCNGC	1 cut(s)	282
PleI	GAGTC	1 cut(s)	103
PpsI	GAGTC	1 cut(s)	103
PshBI	ATTAAT	1 cut(s)	330
Psp124BI	GAGCTC	1 cut(s)	207
PspPI	GGNCC	1 cut(s)	383
RsaI	GTAC	1 cut(s)	211
RsaNI	GTAC	1 cut(s)	210
SacI	GAGCTC	1 cut(s)	207
SaqAI	TTAA	2 cut(s)	117, 330
SatI	GCNGC	1 cut(s)	281
Sau3AI	GATC	1 cut(s)	312
Sau96I	GGNCC	1 cut(s)	383
SchI	GAGTC	1 cut(s)	104
SduI	GDGCHC	1 cut(s)	207
SetI	ASST	5 cut(s)	43, 89, 207, 388, 475
SfaNI	GCATC	2 cut(s)	244, 267
SinI	GGWCC	1 cut(s)	383
SmlI	CTYRAG	1 cut(s)	200
SmoI	CTYRAG	1 cut(s)	200
Sse9I	AATT	1 cut(s)	483
SsiI	CCGC	1 cut(s)	281
SstI	GAGCTC	1 cut(s)	207
StyI	CCWWGG	1 cut(s)	181
TaiI	ACGT	1 cut(s)	475
TaqI	TCGA	1 cut(s)	144
TasI	AATT	1 cut(s)	483
TauI	GCSGC	1 cut(s)	283
TfiI	GAWTC	2 cut(s)	160, 243
Tru1I	TTAA	2 cut(s)	117, 330
Tru9I	TTAA	2 cut(s)	117, 330
TscAI	CASTG	1 cut(s)	427
TseFI	GTSAC	1 cut(s)	400
Tsp45I	GTSAC	1 cut(s)	400
TspDTI	ATGAA	1 cut(s)	465
TspRI	CASTG	1 cut(s)	427
VpaK11BI	GGWCC	1 cut(s)	383
VspI	ATTAAT	1 cut(s)	330
XapI	RAATTY	1 cut(s)	483
XceI	RCATGY	1 cut(s)	429

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