Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0001542

Physical Location & Seq

Genomic Coordinates Forward (+)

30592263 .. 30592716

Gene Structure 454 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00408080.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 435 bp

ATGTGGGCACGTCGATTATGCCCTCAAGGTTTTCGACCAAATGTCTCACCGAAACTTGGTTTCCTGGACTGCATGGTCACTGGGTTTTCTCAGAACTTGAGGTTCTCCGAGAGTTTCAAGGCCTTTTCCCAGATGAGAAGTGCTGGGGAGAGCCCGACCCAGTTTGCATTTGCAAGTGTCATCAGAGCTTGTGTGGTTCTTGGGTCGGTTGAGATTGGGAGGCAGCTGCATTCTCTTGCTTTGAAATTGGGTGGCTTTAACTTGGCGGATATGTATTTGAAATGTGGGTTCATGGTTGAGGCTTGTAAGGTTTTCGAGAAAATGCCGAGTACGGATGCTGTGTCATGGACTTCGATGATTGATGGTTATGCAAAGAGTGGGGATTTGGGGGCAGCTTTACTGAGTTATCAGAGGATGATCAATGATGGGATTTGA

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

DYW_deaminase PPR PPR_2

Protein Analysis

144

Amino Acids

15.81

Weight (kDa)

8.91

Isoelectric Point (pI)

44.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	114 - 144	6.9e-07	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

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Orthologous Genes (Group: OG0001542)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g18620
malus_domestica	MD12G1035700.v1.1
prunus_persica	Prupe.7G110800_v2.0.a1
pyrus_communis	pycom12g02350
rosa_chinensis	RchiOBHm_Chr3g0473201 RchiOBHm_Chr3g0473271 RchiOBHm_Chr3g0473331 RchiOBHm_Chr3g0473361 RchiOBHm_Chr3g0473371 RchiOBHm_Chr3g0473431 RchiOBHm_Chr3g0473471 RchiOBHm_Chr3g0473501 RchiOBHm_Chr3g0473511 RchiOBHm_Chr3g0473551 RchiOBHm_Chr7g0233141
rosa_laevigata	RLG00000001293 RLG00000024007 RLG00000024017
rosa_multiflora	Rmu_sc0000908.1_g000014 Rmu_sc0000908.1_g000027 Rmu_sc0003069.1_g000052 Rmu_sc0003069.1_g000057 Rmu_sc0004463.1_g000001 Rmu_sc0010262.1_g000001 Rmu_sc0016164.1_g000017
rosa_roxburghii	Rroxscaffold_6G00408080 Rroxscaffold_6G00408190 Rroxscaffold_6G00408210
rosa_rugosa	Rorug03G0132200 Rorug03G0132500 Rorug07G0278700
rosa_samantha	Rh3BG210400 Rh3BG210700 Rh3BG211000 Rh3BG211100 Rh3BG211300 Rh3BG211900 Rh3BG212100 Rh3BG212300 Rh3CG207600 Rh3CG207800 Rh3CG208300 Rh3CG208400 Rh3CG208600 Rh3CG208800 Rh3DG207500 Rh3DG207900 Rh7BG406800 Rh7BG406900
rosa_wichuraiana	Rw0G008140 Rw0G014770

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	74
AciI	CCGC	1 cut(s)	266
AfaI	GTAC	1 cut(s)	331
AfiI	CCNNNNNNNGG	1 cut(s)	56
AgsI	TTSAA	3 cut(s)	118, 244, 280
AhdI	GACNNNNNGTC	1 cut(s)	41
AjiI	CACGTC	1 cut(s)	11
AjnI	CCWGG	1 cut(s)	63
AluBI	AGCT	3 cut(s)	188, 226, 395
AluI	AGCT	3 cut(s)	188, 226, 395
Alw26I	GTCTC	1 cut(s)	49
AoxI	GGCC	1 cut(s)	120
ApeKI	GCWGC	3 cut(s)	223, 226, 392
AsuHPI	GGTGA	1 cut(s)	39
BaeGI	GKGCMC	1 cut(s)	10
BanII	GRGCYC	1 cut(s)	155
BbvI	GCAGC	3 cut(s)	213, 235, 404
BccI	CCATC	2 cut(s)	356, 419
BciT130I	CCWGG	1 cut(s)	65
BclI	TGATCA	1 cut(s)	417
BcoDI	GTCTC	1 cut(s)	49
BisI	GCNGC	3 cut(s)	224, 227, 393
BlsI	GCNGC	3 cut(s)	225, 228, 394
Bme1390I	CCNGG	1 cut(s)	65
BmeRI	GACNNNNNGTC	1 cut(s)	41
BmgBI	CACGTC	1 cut(s)	11
BmrFI	CCNGG	1 cut(s)	65
BmrI	ACTGGG	2 cut(s)	90, 154
BmsI	GCATC	1 cut(s)	325
BmuI	ACTGGG	2 cut(s)	90, 154
BpuEI	CTTGAG	2 cut(s)	9, 118
Bsc4I	CCNNNNNNNGG	1 cut(s)	56
Bse1I	ACTGG	2 cut(s)	85, 160
BseBI	CCWGG	1 cut(s)	65
BseGI	GGATG	2 cut(s)	340, 420
BseLI	CCNNNNNNNGG	1 cut(s)	56
BseMII	CTCAG	2 cut(s)	104, 392
BseNI	ACTGG	2 cut(s)	85, 160
BseSI	GKGCMC	1 cut(s)	10
BseXI	GCAGC	3 cut(s)	213, 235, 404
BseYI	CCCAGC	1 cut(s)	143
BshFI	GGCC	1 cut(s)	122
BslI	CCNNNNNNNGG	1 cut(s)	56
BsmAI	GTCTC	1 cut(s)	49
BsmI	GAATGC	1 cut(s)	229
BsnI	GGCC	1 cut(s)	122
Bsp1286I	GDGCHC	2 cut(s)	10, 155
Bsp143I	GATC	1 cut(s)	417
BspACI	CCGC	1 cut(s)	266
BspANI	GGCC	1 cut(s)	122
BspCNI	CTCAG	2 cut(s)	103, 393
BsrI	ACTGG	2 cut(s)	85, 160
BssMI	GATC	1 cut(s)	417
Bst2UI	CCWGG	1 cut(s)	65
BstDEI	CTNAG	2 cut(s)	90, 401
BstF5I	GGATG	2 cut(s)	340, 420
BstKTI	GATC	1 cut(s)	420
BstMAI	GTCTC	1 cut(s)	49
BstMBI	GATC	1 cut(s)	417
BstNI	CCWGG	1 cut(s)	65
BstSCI	CCNGG	1 cut(s)	63
BstSLI	GKGCMC	1 cut(s)	10
BstV1I	GCAGC	3 cut(s)	213, 235, 404
BsuRI	GGCC	1 cut(s)	122
BtrI	CACGTC	1 cut(s)	11
BtsCI	GGATG	2 cut(s)	340, 420
BtsIMutI	CAGTG	1 cut(s)	78
Csp6I	GTAC	1 cut(s)	330
CviAII	CATG	3 cut(s)	73, 292, 345
CviJI	RGCY	7 cut(s)	122, 153, 188, 226, 255, 302, 395
CviKI_1	RGCY	7 cut(s)	122, 153, 188, 226, 255, 302, 395
CviQI	GTAC	1 cut(s)	330
DdeI	CTNAG	2 cut(s)	90, 401
DpnI	GATC	1 cut(s)	419
DpnII	GATC	1 cut(s)	417
DrdI	GACNNNNNNGTC	1 cut(s)	74
DriI	GACNNNNNGTC	1 cut(s)	41
DseDI	GACNNNNNNGTC	1 cut(s)	74
Eam1105I	GACNNNNNGTC	1 cut(s)	41
EciI	GGCGGA	1 cut(s)	281
Eco147I	AGGCCT	1 cut(s)	122
Eco24I	GRGCYC	1 cut(s)	155
EcoRII	CCWGG	1 cut(s)	63
EcoT38I	GRGCYC	1 cut(s)	155
FaeI	CATG	3 cut(s)	76, 295, 348
FaiI	YATR	6 cut(s)	19, 74, 272, 293, 346, 369
FatI	CATG	3 cut(s)	72, 291, 344
FbaI	TGATCA	1 cut(s)	417
Fnu4HI	GCNGC	3 cut(s)	224, 227, 393
FokI	GGATG	2 cut(s)	347, 427
FriOI	GRGCYC	1 cut(s)	155
Fsp4HI	GCNGC	3 cut(s)	224, 227, 393
GluI	GCNGC	3 cut(s)	224, 227, 393
GsaI	CCCAGC	1 cut(s)	147
HaeIII	GGCC	1 cut(s)	122
Hin1II	CATG	3 cut(s)	76, 295, 348
HphI	GGTGA	1 cut(s)	39
Hpy188I	TCNGA	4 cut(s)	93, 109, 185, 411
Hpy188III	TCNNGA	1 cut(s)	316
Hpy99I	CGWCG	1 cut(s)	15
HpyCH4IV	ACGT	1 cut(s)	10
HpyCH4V	TGCA	5 cut(s)	72, 167, 173, 229, 371
HpyF3I	CTNAG	2 cut(s)	90, 401
HpySE526I	ACGT	1 cut(s)	10
Hsp92II	CATG	3 cut(s)	76, 295, 348
Ksp22I	TGATCA	1 cut(s)	417
Kzo9I	GATC	1 cut(s)	417
LpnPI	CCDG	6 cut(s)	50, 66, 77, 129, 143, 173
Lsp1109I	GCAGC	3 cut(s)	213, 235, 404
LweI	GCATC	1 cut(s)	325
MaeII	ACGT	1 cut(s)	10
MaeIII	GTNAC	1 cut(s)	76
MalI	GATC	1 cut(s)	419
MboI	GATC	1 cut(s)	417
MhlI	GDGCHC	2 cut(s)	10, 155
MluCI	AATT	1 cut(s)	245
MnlI	CCTC	5 cut(s)	33, 93, 213, 292, 405
MseI	TTAA	1 cut(s)	258
MspA1I	CMGCKG	1 cut(s)	226
MspR9I	CCNGG	1 cut(s)	65
Mva1269I	GAATGC	1 cut(s)	229
MvaI	CCWGG	1 cut(s)	65
NdeII	GATC	1 cut(s)	417
NlaIII	CATG	3 cut(s)	76, 295, 348
NmeAIII	GCCGAG	1 cut(s)	351
NmuCI	GTSAC	1 cut(s)	76
PceI	AGGCCT	1 cut(s)	122
PctI	GAATGC	1 cut(s)	229
PfoI	TCCNGGA	1 cut(s)	63
PkrI	GCNGC	3 cut(s)	225, 228, 394
Psp6I	CCWGG	1 cut(s)	63
PspFI	CCCAGC	1 cut(s)	143
PspGI	CCWGG	1 cut(s)	63
PvuII	CAGCTG	1 cut(s)	226
RsaI	GTAC	1 cut(s)	331
RsaNI	GTAC	1 cut(s)	330
SaqAI	TTAA	1 cut(s)	258
SatI	GCNGC	3 cut(s)	224, 227, 393
Sau3AI	GATC	1 cut(s)	417
ScrFI	CCNGG	1 cut(s)	65
SduI	GDGCHC	2 cut(s)	10, 155
SetI	ASST	7 cut(s)	13, 31, 104, 190, 228, 312, 397
SfaNI	GCATC	1 cut(s)	325
SmlI	CTYRAG	2 cut(s)	24, 97
SmoI	CTYRAG	2 cut(s)	24, 97
Sse9I	AATT	1 cut(s)	245
SseBI	AGGCCT	1 cut(s)	122
SsiI	CCGC	1 cut(s)	266
StuI	AGGCCT	1 cut(s)	122
StyD4I	CCNGG	1 cut(s)	63
TaiI	ACGT	1 cut(s)	13
TaqI	TCGA	4 cut(s)	13, 34, 315, 353
TasI	AATT	1 cut(s)	245
Tru1I	TTAA	1 cut(s)	258
Tru9I	TTAA	1 cut(s)	258
TscAI	CASTG	1 cut(s)	85
TseFI	GTSAC	1 cut(s)	76
TseI	GCWGC	3 cut(s)	223, 226, 392
Tsp45I	GTSAC	1 cut(s)	76
TspDTI	ATGAA	1 cut(s)	280
TspGWI	ACGGA	1 cut(s)	347
TspRI	CASTG	1 cut(s)	85

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