Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0000530

Physical Location & Seq

Genomic Coordinates Forward (+)

30974813 .. 30976276

Gene Structure 1464 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00353270.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 315 bp

ATGTGCCCGAATTCTTTTACATATAATGTATTGATCAAAGGATTCTGTAAGATTGGAAAAGCAAAGGAGGGAATTAGGATTTTGGACGAGATGTTCGAAAAAGGCTGTTTGCCAAACAAGTCTACTTATGCTATGTTCATTGAGGGGCTCTGTGACTCGGGAGAGGAAGCTGAAATCACTAGAGTAATATCTATGGCAATGTCAAGTGGAGACATTGGCAGTGATTCCTGGGATCTTTTCCTTACTAAGGTTGTTGGCGATTTGGATACTGGGGAAAGTGTTCTAAACAGAATATTACTGGAGAATGCTGATTAG

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_1 PPR_2 PPR_3

Protein Analysis

104

Amino Acids

11.41

Weight (kDa)

4.49

Isoelectric Point (pI)

36.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	1 - 31	1.1e-10	PPR repeat
PPR_2	PF13041	3 - 52	8.2e-17	PPR repeat family
PPR_3	PF13812	3 - 47	4.7e-06	Pentatricopeptide repeat domain
PPR	PF01535	6 - 36	6.7e-09	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)

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Publication-ready

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Orthologous Genes (Group: OG0000530)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G16420 AT5G16420 AT5G16420 AT5G16420
fragaria_vesca	FvH4_7g08341 FvH4_7g08360
malus_domestica	MD02G1232100.v1.1 MD07G1081300.v1.1
prunus_persica	Prupe.2G106500_v2.0.a1
pyrus_communis	pycom02g20040
rosa_chinensis	RchiOBHm_Chr1g0340331 RchiOBHm_Chr1g0340431 RchiOBHm_Chr1g0340441 RchiOBHm_Chr1g0340491 RchiOBHm_Chr1g0340531 RchiOBHm_Chr1g0340541 RchiOBHm_Chr1g0340561 RchiOBHm_Chr1g0340621 RchiOBHm_Chr1g0340661 RchiOBHm_Chr1g0340691
rosa_laevigata	RLG00000029013 RLG00000029018 RLG00000029020 RLG00000029024 RLG00000029026 RLG00000029029 RLG00000029030 RLG00000029032 RLG00000029033
rosa_multiflora	Rmu_sc0000566.1_g000026 Rmu_sc0000566.1_g000034 Rmu_sc0000566.1_g000054 Rmu_sc0001836.1_g000016 Rmu_sc0001836.1_g000022 Rmu_sc0001836.1_g000023 Rmu_sc0001836.1_g000028 Rmu_sc0001836.1_g000058 Rmu_sc0001946.1_g000004 Rmu_sc0002595.1_g000001 Rmu_sc0002595.1_g000005 Rmu_sc0005167.1_g000003 Rmu_sc0005167.1_g000009 Rmu_sc0005167.1_g000018 Rmu_sc0024761.1_g000004
rosa_roxburghii	Rroxscaffold_4G00311170 Rroxscaffold_4G00311190 Rroxscaffold_4G00311250 Rroxscaffold_4G00315930 Rroxscaffold_4G00315960 Rroxscaffold_5G00353270
rosa_rugosa	Rorug01G0162000.1 Rorug01G0162500.1 Rorug01G0162800.1 Rorug01G0163000.1 Rorug01G0163400.1 Rorug01G0163700.1 Rorug01G0164100.1 Rorug01G0164300 Rorug05G0484800
rosa_samantha	Rh1AG177800 Rh1AG178000 Rh1AG178300 Rh1AG178600 Rh1AG178900 Rh1BG145300 Rh1BG145600 Rh1BG145800 Rh1BG145900 Rh1BG146000 Rh1BG146700 Rh1CG165100 Rh1CG165200 Rh1CG165400 Rh1CG165600 Rh1CG165700 Rh1CG165900 Rh1DG177500 Rh1DG177600 Rh1DG177800 Rh1DG177900 Rh1DG178000 Rh1DG178800
rosa_wichuraiana	Rw0G006210 Rw1G014800 Rw1G014890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	122
AclWI	GGATC	1 cut(s)	240
AcsI	RAATTY	1 cut(s)	10
AfiI	CCNNNNNNNGG	1 cut(s)	247
AjnI	CCWGG	1 cut(s)	227
AloI	GAACNNNNNNTCC	2 cut(s)	77, 109
AluBI	AGCT	1 cut(s)	170
AluI	AGCT	1 cut(s)	170
Alw26I	GTCTC	1 cut(s)	204
AlwI	GGATC	1 cut(s)	240
Ama87I	CYCGRG	1 cut(s)	157
ApoI	RAATTY	1 cut(s)	10
ArsI	GACNNNNNNTTYG	2 cut(s)	77, 109
Asp700I	GAANNNNTTC	1 cut(s)	279
AsuII	TTCGAA	1 cut(s)	96
AvaI	CYCGRG	1 cut(s)	157
BaeGI	GKGCMC	1 cut(s)	8
BanII	GRGCYC	1 cut(s)	150
BciT130I	CCWGG	1 cut(s)	229
BciVI	GTATCC	1 cut(s)	259
BclI	TGATCA	1 cut(s)	33
BcoDI	GTCTC	1 cut(s)	204
BfaI	CTAG	1 cut(s)	180
BfuI	GTATCC	1 cut(s)	259
Bme1390I	CCNGG	1 cut(s)	229
BmeT110I	CYCGRG	1 cut(s)	157
BmrFI	CCNGG	1 cut(s)	229
BmrI	ACTGGG	1 cut(s)	279
BmuI	ACTGGG	1 cut(s)	279
Bpu14I	TTCGAA	1 cut(s)	96
BsaJI	CCNNGG	1 cut(s)	228
Bsc4I	CCNNNNNNNGG	1 cut(s)	247
Bse1I	ACTGG	2 cut(s)	274, 303
Bse3DI	GCAATG	1 cut(s)	204
BseBI	CCWGG	1 cut(s)	229
BseDI	CCNNGG	1 cut(s)	228
BseLI	CCNNNNNNNGG	1 cut(s)	247
BseMI	GCAATG	1 cut(s)	204
BseNI	ACTGG	2 cut(s)	274, 303
BseSI	GKGCMC	1 cut(s)	8
BsiHKCI	CYCGRG	1 cut(s)	157
BslI	CCNNNNNNNGG	1 cut(s)	247
BsmAI	GTCTC	1 cut(s)	204
BsmI	GAATGC	1 cut(s)	310
BsoBI	CYCGRG	1 cut(s)	157
Bsp119I	TTCGAA	1 cut(s)	96
Bsp1286I	GDGCHC	2 cut(s)	8, 150
Bsp143I	GATC	2 cut(s)	33, 232
BspPI	GGATC	1 cut(s)	240
BspT104I	TTCGAA	1 cut(s)	96
BsrDI	GCAATG	1 cut(s)	204
BsrI	ACTGG	2 cut(s)	274, 303
BssECI	CCNNGG	1 cut(s)	228
BssMI	GATC	2 cut(s)	33, 232
Bst2UI	CCWGG	1 cut(s)	229
BstBI	TTCGAA	1 cut(s)	96
BstDEI	CTNAG	1 cut(s)	246
BstENI	CCTNNNNNAGG	1 cut(s)	245
BstKTI	GATC	2 cut(s)	36, 235
BstMAI	GTCTC	1 cut(s)	204
BstMBI	GATC	2 cut(s)	33, 232
BstNI	CCWGG	1 cut(s)	229
BstSCI	CCNGG	1 cut(s)	227
BstSLI	GKGCMC	1 cut(s)	8
BstX2I	RGATCY	1 cut(s)	232
BstYI	RGATCY	1 cut(s)	232
BsuI	GTATCC	1 cut(s)	259
BtsI	GCAGTG	1 cut(s)	226
BtsIMutI	CAGTG	1 cut(s)	226
CviJI	RGCY	3 cut(s)	105, 148, 170
CviKI_1	RGCY	3 cut(s)	105, 148, 170
DdeI	CTNAG	1 cut(s)	246
DpnI	GATC	2 cut(s)	35, 234
DpnII	GATC	2 cut(s)	33, 232
Eco24I	GRGCYC	1 cut(s)	150
Eco88I	CYCGRG	1 cut(s)	157
EcoNI	CCTNNNNNAGG	1 cut(s)	245
EcoRI	GAATTC	1 cut(s)	10
EcoRII	CCWGG	1 cut(s)	227
EcoT38I	GRGCYC	1 cut(s)	150
FaiI	YATR	5 cut(s)	22, 24, 129, 134, 194
FbaI	TGATCA	1 cut(s)	33
FblI	GTMKAC	1 cut(s)	122
FriOI	GRGCYC	1 cut(s)	150
FspBI	CTAG	1 cut(s)	180
HinfI	GANTC	3 cut(s)	42, 155, 224
Hpy166II	GTNNAC	1 cut(s)	123
Hpy188III	TCNNGA	1 cut(s)	159
Hpy8I	GTNNAC	1 cut(s)	123
HpyF3I	CTNAG	1 cut(s)	246
Ksp22I	TGATCA	1 cut(s)	33
Kzo9I	GATC	2 cut(s)	33, 232
LpnPI	CCDG	4 cut(s)	214, 241, 255, 284
MaeI	CTAG	1 cut(s)	180
MaeIII	GTNAC	1 cut(s)	152
MalI	GATC	2 cut(s)	35, 234
MboI	GATC	2 cut(s)	33, 232
MflI	RGATCY	1 cut(s)	232
MhlI	GDGCHC	2 cut(s)	8, 150
MluCI	AATT	2 cut(s)	10, 72
MlyI	GAGTC	1 cut(s)	149
MnlI	CCTC	3 cut(s)	61, 136, 157
MroXI	GAANNNNTTC	1 cut(s)	279
MspR9I	CCNGG	1 cut(s)	229
Mva1269I	GAATGC	1 cut(s)	310
MvaI	CCWGG	1 cut(s)	229
NdeII	GATC	2 cut(s)	33, 232
NmuCI	GTSAC	1 cut(s)	152
NspV	TTCGAA	1 cut(s)	96
PcsI	WCGNNNNNNNCGW	1 cut(s)	93
PctI	GAATGC	1 cut(s)	310
PdmI	GAANNNNTTC	1 cut(s)	279
PfeI	GAWTC	2 cut(s)	42, 224
PleI	GAGTC	1 cut(s)	149
PpsI	GAGTC	1 cut(s)	149
Psp6I	CCWGG	1 cut(s)	227
PspGI	CCWGG	1 cut(s)	227
PsuI	RGATCY	1 cut(s)	232
Sau3AI	GATC	2 cut(s)	33, 232
SchI	GAGTC	1 cut(s)	149
ScrFI	CCNGG	1 cut(s)	229
SduI	GDGCHC	2 cut(s)	8, 150
SetI	ASST	2 cut(s)	172, 252
SfuI	TTCGAA	1 cut(s)	96
Sse9I	AATT	2 cut(s)	10, 72
SspI	AATATT	1 cut(s)	294
SspMI	CTAG	1 cut(s)	180
StyD4I	CCNGG	1 cut(s)	227
TaqI	TCGA	1 cut(s)	96
TasI	AATT	2 cut(s)	10, 72
TfiI	GAWTC	2 cut(s)	42, 224
TscAI	CASTG	1 cut(s)	226
TseFI	GTSAC	1 cut(s)	152
Tsp45I	GTSAC	1 cut(s)	152
TspDTI	ATGAA	1 cut(s)	127
TspRI	CASTG	1 cut(s)	226
XagI	CCTNNNNNAGG	1 cut(s)	245
XapI	RAATTY	1 cut(s)	10
XmiI	GTMKAC	1 cut(s)	122
XmnI	GAANNNNTTC	1 cut(s)	279
XspI	CTAG	1 cut(s)	180

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