Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0001526

Physical Location & Seq

Genomic Coordinates Reverse (-)

38546395 .. 38563658

Gene Structure 17264 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00029710.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 525 bp

ATGCTAGGAAAATGTAAACAACCAGAAAAAGCTGAGGAGCTTTTTCAAGCTATGATTGACGAAGGTTGTGGTGTCGGCCATGAACCTTATACTACTCTTATATCTGCCTATGGTAGGAGCAGTTTCTTTGACAAAGCATTTTCCCTCCTTGAGCAGATGAAGAATACTCCCGATTGCCAACTGACGTTTTTGCATATGACAAAGTACGAGGCTCTGCTTTCGGATATGGAAATTCAGCACATTAGACCCAACACCATCACATACAATACCACGATAGATGCTTACGGAAATCTAAAAAATATTATGCAATGTGGAACCAACCCAGGCCTGAATCTTCAACCACTTGTGTTAATCATGCAGGTCGGGATACTCGTGGCTGAAGTTGAGAAGCTGGGAAGACCAGGTTTTTTAAACTCCTGGAGCGAGAGGTTTGGGAGTTTGGATTTTGCTAACCAACTCCAGCATCTTCCGCAGCTACAACTGAAACAATCACCTTTTGAACAACTGGAGCACTTACTATTTTGA

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

174

Amino Acids

19.74

Weight (kDa)

5.31

Isoelectric Point (pI)

37.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	30 - 54	2.9e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0001526)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G48730
fragaria_vesca	FvH4_5g33190
malus_domestica	MD10G1163400.v1.1
prunus_persica	Prupe.8G201700_v2.0.a1 Prupe.8G201700_v2.0.a1 Prupe.8G201700_v2.0.a1
pyrus_communis	pycom10g14080
rosa_chinensis	RchiOBHm_Chr1g0373361 RchiOBHm_Chr7g0231531
rosa_laevigata	RLG00000001413 RLG00000008268
rosa_multiflora	Rmu_sc0001565.1_g000030 Rmu_sc0003505.1_g000027 Rmu_sc0005399.1_g000019 Rmu_sc0011314.1_g000012 Rmu_sc0012399.1_g000004 Rmu_sc0013558.1_g000012 Rmu_sc0028716.1_g000001
rosa_roxburghii	Rroxscaffold_1G00016380 Rroxscaffold_1G00029710 Rroxscaffold_3G00229090
rosa_rugosa	Rorug07G0267100 Rorug07G0267100
rosa_samantha	Rh1AG365000 Rh1CG099500 Rh2AG510800 Rh2BG430100 Rh2BG476000 Rh2CG061700 Rh2CG496000 Rh2DG388600 Rh2DG440000 Rh2DG484700 Rh4BG006500 Rh4DG135300 Rh5AG195600 Rh5AG195700 Rh5CG115300 Rh6AG146300 Rh7AG421500 Rh7BG396200 Rh7CG441800 Rh7DG259000 Rh7DG414200
rosa_wichuraiana	Rw0G012110 Rw6G012720 Rw6G032340 Rw6G045030 Rw7G034780 Rw7G034910 Rw7G034940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	349
AciI	CCGC	1 cut(s)	470
AcoI	YGGCCR	1 cut(s)	76
AcsI	RAATTY	1 cut(s)	231
AcuI	CTGAAG	1 cut(s)	399
AfaI	GTAC	1 cut(s)	206
AfiI	CCNNNNNNNGG	1 cut(s)	114
AgsI	TTSAA	3 cut(s)	47, 338, 500
AjnI	CCWGG	3 cut(s)	322, 400, 416
AluBI	AGCT	5 cut(s)	32, 40, 50, 391, 475
AluI	AGCT	5 cut(s)	32, 40, 50, 391, 475
Alw21I	GWGCWC	1 cut(s)	513
AoxI	GGCC	2 cut(s)	76, 325
ApeKI	GCWGC	1 cut(s)	472
ApoI	RAATTY	1 cut(s)	231
AsuHPI	GGTGA	1 cut(s)	483
BauI	CACGAG	1 cut(s)	371
BbsI	GAAGAC	1 cut(s)	403
Bbv12I	GWGCWC	1 cut(s)	513
BbvCI	CCTCAGC	1 cut(s)	33
BbvI	GCAGC	1 cut(s)	484
BccI	CCATC	1 cut(s)	263
BciT130I	CCWGG	3 cut(s)	324, 402, 418
BciVI	GTATCC	1 cut(s)	360
BfaI	CTAG	1 cut(s)	5
BfuAI	ACCTGC	1 cut(s)	349
BfuI	GTATCC	1 cut(s)	360
BisI	GCNGC	1 cut(s)	473
BlsI	GCNGC	1 cut(s)	474
Bme1390I	CCNGG	3 cut(s)	324, 402, 418
BmiI	GGNNCC	1 cut(s)	316
BmrFI	CCNGG	3 cut(s)	324, 402, 418
BmsI	GCATC	2 cut(s)	268, 472
BpiI	GAAGAC	1 cut(s)	403
BpmI	CTGGAG	2 cut(s)	439, 443
Bpu10I	CCTNAGC	1 cut(s)	33
BpuEI	CTTGAG	1 cut(s)	170
BsaJI	CCNNGG	1 cut(s)	322
Bsc4I	CCNNNNNNNGG	1 cut(s)	114
Bse1I	ACTGG	1 cut(s)	510
Bse3DI	GCAATG	1 cut(s)	314
BseBI	CCWGG	3 cut(s)	324, 402, 418
BseDI	CCNNGG	1 cut(s)	322
BseLI	CCNNNNNNNGG	1 cut(s)	114
BseMI	GCAATG	1 cut(s)	314
BseMII	CTCAG	1 cut(s)	24
BseNI	ACTGG	1 cut(s)	510
BseRI	GAGGAG	1 cut(s)	50
BseXI	GCAGC	1 cut(s)	484
BseYI	CCCAGC	1 cut(s)	391
BshFI	GGCC	2 cut(s)	78, 327
BsiHKAI	GWGCWC	1 cut(s)	513
BslI	CCNNNNNNNGG	1 cut(s)	114
BsnI	GGCC	2 cut(s)	78, 327
Bsp1286I	GDGCHC	1 cut(s)	513
BspACI	CCGC	1 cut(s)	470
BspANI	GGCC	2 cut(s)	78, 327
BspCNI	CTCAG	1 cut(s)	25
BspLI	GGNNCC	1 cut(s)	316
BspMI	ACCTGC	1 cut(s)	349
BsrDI	GCAATG	1 cut(s)	314
BsrI	ACTGG	1 cut(s)	510
BssECI	CCNNGG	1 cut(s)	322
BssSI	CACGAG	1 cut(s)	371
Bst2BI	CACGAG	1 cut(s)	371
Bst2UI	CCWGG	3 cut(s)	324, 402, 418
BstDEI	CTNAG	1 cut(s)	33
BstENI	CCTNNNNNAGG	1 cut(s)	112
BstMWI	GCNNNNNNNGC	1 cut(s)	469
BstNI	CCWGG	3 cut(s)	324, 402, 418
BstSCI	CCNGG	3 cut(s)	322, 400, 416
BstV1I	GCAGC	1 cut(s)	484
BstV2I	GAAGAC	1 cut(s)	403
BsuI	GTATCC	1 cut(s)	360
BsuRI	GGCC	2 cut(s)	78, 327
BveI	ACCTGC	1 cut(s)	349
CsiI	ACCWGGT	1 cut(s)	400
Csp6I	GTAC	1 cut(s)	205
CviAII	CATG	2 cut(s)	80, 355
CviJI	RGCY	9 cut(s)	32, 40, 50, 78, 212, 327, 377, 391, 475
CviKI_1	RGCY	9 cut(s)	32, 40, 50, 78, 212, 327, 377, 391, 475
CviQI	GTAC	1 cut(s)	205
DdeI	CTNAG	1 cut(s)	33
DraI	TTTAAA	1 cut(s)	411
EaeI	YGGCCR	1 cut(s)	76
Eco147I	AGGCCT	1 cut(s)	327
Eco57I	CTGAAG	1 cut(s)	399
EcoNI	CCTNNNNNAGG	1 cut(s)	112
EcoRII	CCWGG	3 cut(s)	322, 400, 416
FaeI	CATG	2 cut(s)	83, 358
FatI	CATG	2 cut(s)	79, 354
FauNDI	CATATG	1 cut(s)	195
Fnu4HI	GCNGC	1 cut(s)	473
Fsp4HI	GCNGC	1 cut(s)	473
FspBI	CTAG	1 cut(s)	5
GluI	GCNGC	1 cut(s)	473
GsaI	CCCAGC	1 cut(s)	395
GsuI	CTGGAG	2 cut(s)	439, 443
HaeIII	GGCC	2 cut(s)	78, 327
Hin1II	CATG	2 cut(s)	83, 358
HinfI	GANTC	1 cut(s)	331
HphI	GGTGA	1 cut(s)	483
Hpy166II	GTNNAC	1 cut(s)	17
Hpy188I	TCNGA	1 cut(s)	223
Hpy188III	TCNNGA	2 cut(s)	170, 364
Hpy8I	GTNNAC	1 cut(s)	17
HpyAV	CCTTC	1 cut(s)	56
HpyCH4IV	ACGT	1 cut(s)	185
HpyCH4V	TGCA	3 cut(s)	193, 307, 358
HpyF10VI	GCNNNNNNNGC	1 cut(s)	469
HpyF3I	CTNAG	1 cut(s)	33
HpySE526I	ACGT	1 cut(s)	185
Hsp92II	CATG	2 cut(s)	83, 358
LmnI	GCTCC	4 cut(s)	37, 117, 420, 508
Lsp1109I	GCAGC	1 cut(s)	484
LweI	GCATC	2 cut(s)	268, 472
MabI	ACCWGGT	1 cut(s)	400
MaeI	CTAG	1 cut(s)	5
MaeII	ACGT	1 cut(s)	185
MboII	GAAGA	4 cut(s)	172, 326, 408, 458
MhlI	GDGCHC	1 cut(s)	513
MluCI	AATT	1 cut(s)	231
MnlI	CCTC	4 cut(s)	28, 155, 202, 420
MseI	TTAA	2 cut(s)	350, 410
MspR9I	CCNGG	3 cut(s)	324, 402, 418
MvaI	CCWGG	3 cut(s)	324, 402, 418
MwoI	GCNNNNNNNGC	1 cut(s)	469
NdeI	CATATG	1 cut(s)	195
NlaIII	CATG	2 cut(s)	83, 358
NlaIV	GGNNCC	1 cut(s)	316
PceI	AGGCCT	1 cut(s)	327
PcsI	WCGNNNNNNNCGW	1 cut(s)	369
PfeI	GAWTC	1 cut(s)	331
PfoI	TCCNGGA	1 cut(s)	416
PkrI	GCNGC	1 cut(s)	474
Psp6I	CCWGG	3 cut(s)	322, 400, 416
PspFI	CCCAGC	1 cut(s)	391
PspGI	CCWGG	3 cut(s)	322, 400, 416
PspN4I	GGNNCC	1 cut(s)	316
RsaI	GTAC	1 cut(s)	206
RsaNI	GTAC	1 cut(s)	205
SaqAI	TTAA	2 cut(s)	350, 410
SatI	GCNGC	1 cut(s)	473
ScrFI	CCNGG	3 cut(s)	324, 402, 418
SduI	GDGCHC	1 cut(s)	513
SexAI	ACCWGGT	1 cut(s)	400
SfaNI	GCATC	2 cut(s)	268, 472
SmlI	CTYRAG	1 cut(s)	149
SmoI	CTYRAG	1 cut(s)	149
Sse9I	AATT	1 cut(s)	231
SseBI	AGGCCT	1 cut(s)	327
SsiI	CCGC	1 cut(s)	470
SspI	AATATT	1 cut(s)	301
SspMI	CTAG	1 cut(s)	5
StuI	AGGCCT	1 cut(s)	327
StyD4I	CCNGG	3 cut(s)	322, 400, 416
TaiI	ACGT	1 cut(s)	188
TasI	AATT	1 cut(s)	231
TfiI	GAWTC	1 cut(s)	331
Tru1I	TTAA	2 cut(s)	350, 410
Tru9I	TTAA	2 cut(s)	350, 410
TseI	GCWGC	1 cut(s)	472
TspDTI	ATGAA	2 cut(s)	96, 173
TspGWI	ACGGA	1 cut(s)	300
XagI	CCTNNNNNAGG	1 cut(s)	112
XapI	RAATTY	1 cut(s)	231
XspI	CTAG	1 cut(s)	5

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