Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0001363

Physical Location & Seq

Genomic Coordinates Forward (+)

58696638 .. 58697864

Gene Structure 1227 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00326520.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 723 bp

ATGAGGGAATGGGAGCTTATTAGGCTGGCTCATGGGCAGGTTTTGGTTGCTGGGTTTTTGTCGAATGTGGTGCTTTCGAGTTCGGTGGTGGATGCTTATGCCAAGTGTGGAGAGATGGTAGATGCTAGGAGATTGTTCGATGAGATGGCTGTGAGGGATGTTCTTTCTTGGACCACACTGGTTTCGGGATATGCCAAGTGGGGTGATATGAAATCAGCTAGTGAGTTGTTTGATCGGATGCCTGAGAAGAACCCGGTGTCATGGACATCTATGATTTCGGGGTATGCTAGGAATGGATTGGGGCATGTAGCGCTTGCATTGTTTGCAGAGATGATGCTGTTTCAACTCAGGCCTGATCAGTTTACCTTTAGTAGTTGCCTTTGTGCTTGTGCTAGTATAGCTTCGCTTAAGCATGAGCTGGGAAGAAAAGTGGCCAAACACCTTATTGAGTTGGAGCCTCAATCTTCTGCTCCCTATGTTTTGCTTTCGAGCATATATGCTGAAGAAGGTAGATGGGAGCGGGTAGAGAAGGTGAGACGGCTTATGGATGAGAGACATGTGAGGAAAGAGCGGGCCATTAGTTGGGTAGCAGTTGAAAGTAGAGTGCATGCTTTCACTGTATCAGACCAGCTGCATCCTCTGAAAGAGGAAATATACTCAGTTTTGAAACAGTTAGCTGACCAGATGGAAGAAGATGCTTCAGTAACTGACGCCGAGAATTAG

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

Protein Analysis

240

Amino Acids

27.19

Weight (kDa)

5.7

Isoelectric Point (pI)

41.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	56 - 84	1.3e-07	PPR repeat
PPR_2	PF13041	84 - 131	5.3e-10	PPR repeat family
PPR	PF01535	86 - 112	3.1e-07	PPR repeat
E_motif	PF20431	138 - 196	2.2e-15	E motif

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

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

Orthologous Genes (Group: OG0001363)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G21090
fragaria_vesca	FvH4_1g26660
malus_domestica	MD05G1117900.v1.1 MD10G1120900.v1.1
prunus_persica	Prupe.8G162400_v2.0.a1
pyrus_communis	pycom05g11190 pycom10g10410 pycom10g10420
rosa_chinensis	RchiOBHm_Chr1g0323421 RchiOBHm_Chr1g0323511 RchiOBHm_Chr1g0323621 RchiOBHm_Chr1g0323681 RchiOBHm_Chr1g0323771
rosa_laevigata	RLG00000030297 RLG00000030299 RLG00000030300 RLG00000030302 RLG00000030317 RLG00000030324
rosa_multiflora	Rmu_sc0000252.1_g000001 Rmu_sc0000252.1_g000002 Rmu_sc0000252.1_g000009 Rmu_sc0000252.1_g000012 Rmu_sc0000252.1_g000023 Rmu_sc0000252.1_g000030 Rmu_sc0000804.1_g000006 Rmu_sc0002634.1_g000016 Rmu_sc0002634.1_g000019 Rmu_sc0008902.1_g000002 Rmu_sc0036879.1_g000001 Rmu_sc0036879.1_g000002
rosa_roxburghii	Rroxscaffold_4G00326420 Rroxscaffold_4G00326490 Rroxscaffold_4G00326520 Rroxscaffold_4G00326590
rosa_rugosa	Rorug01G0038100 Rorug01G0038200 Rorug01G0038300 Rorug01G0039100.1 Rorug01G0039200 Rorug01G0039500
rosa_samantha	Rh1AG055800 Rh1AG055900 Rh1AG056300 Rh1AG056400 Rh1AG056500 Rh1AG056700 Rh1BG047700 Rh1CG056700 Rh1CG058000 Rh1DG061800
rosa_wichuraiana	Rw1G004810 Rw1G004820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	28
AccB7I	CCANNNNNTGG	1 cut(s)	582
AccBSI	CCGCTC	2 cut(s)	520, 571
AciI	CCGC	2 cut(s)	520, 571
AcoI	YGGCCR	1 cut(s)	432
AcuI	CTGAAG	2 cut(s)	522, 684
AcyI	GRCGYC	1 cut(s)	711
AfeI	AGCGCT	1 cut(s)	312
AfiI	CCNNNNNNNGG	1 cut(s)	582
AflII	CTTAAG	1 cut(s)	407
AflIII	ACRYGT	1 cut(s)	556
AgsI	TTSAA	3 cut(s)	344, 596, 667
AluBI	AGCT	6 cut(s)	16, 218, 401, 418, 631, 677
AluI	AGCT	6 cut(s)	16, 218, 401, 418, 631, 677
Alw26I	GTCTC	2 cut(s)	529, 547
AlwNI	CAGNNNCTG	1 cut(s)	707
Aor51HI	AGCGCT	1 cut(s)	312
AoxI	GGCC	3 cut(s)	350, 432, 573
ApeKI	GCWGC	1 cut(s)	631
AspLEI	GCGC	1 cut(s)	313
AspS9I	GGNCC	2 cut(s)	171, 573
AsuC2I	CCSGG	1 cut(s)	254
AsuHPI	GGTGA	2 cut(s)	215, 544
AvaII	GGWCC	1 cut(s)	171
BalI	TGGCCA	1 cut(s)	434
BbvI	GCAGC	1 cut(s)	618
BccI	CCATC	4 cut(s)	109, 139, 507, 679
BceAI	ACGGC	1 cut(s)	554
BcgI	CGANNNNNNTGC	2 cut(s)	52, 86
BclI	TGATCA	1 cut(s)	355
BcnI	CCSGG	1 cut(s)	254
BcoDI	GTCTC	2 cut(s)	529, 547
BfaI	CTAG	4 cut(s)	126, 219, 288, 393
BfoI	RGCGCY	1 cut(s)	314
BfrI	CTTAAG	1 cut(s)	407
BfuAI	ACCTGC	1 cut(s)	28
BisI	GCNGC	1 cut(s)	632
BlsI	GCNGC	1 cut(s)	633
Bme1390I	CCNGG	1 cut(s)	254
Bme18I	GGWCC	1 cut(s)	171
BmgT120I	GGNCC	2 cut(s)	171, 573
BmiI	GGNNCC	1 cut(s)	456
BmrFI	CCNGG	1 cut(s)	254
BmsI	GCATC	6 cut(s)	82, 112, 228, 324, 643, 685
BpuMI	CCSGG	1 cut(s)	254
BsaHI	GRCGYC	1 cut(s)	711
BsaXI	ACNNNNNCTCC	2 cut(s)	102, 132
Bsc4I	CCNNNNNNNGG	1 cut(s)	582
Bse1I	ACTGG	1 cut(s)	183
BseGI	GGATG	5 cut(s)	97, 163, 243, 553, 634
BseLI	CCNNNNNNNGG	1 cut(s)	582
BseMII	CTCAG	3 cut(s)	234, 361, 672
BseNI	ACTGG	1 cut(s)	183
BseXI	GCAGC	1 cut(s)	618
BseYI	CCCAGC	2 cut(s)	50, 418
BshFI	GGCC	3 cut(s)	352, 434, 575
BsiSI	CCGG	1 cut(s)	254
BslI	CCNNNNNNNGG	1 cut(s)	582
BsmAI	GTCTC	2 cut(s)	529, 547
BsmBI	CGTCTC	1 cut(s)	529
BsnI	GGCC	3 cut(s)	352, 434, 575
Bsp143I	GATC	2 cut(s)	232, 355
BspACI	CCGC	2 cut(s)	520, 571
BspANI	GGCC	3 cut(s)	352, 434, 575
BspCNI	CTCAG	3 cut(s)	235, 360, 671
BspLI	GGNNCC	1 cut(s)	456
BspMI	ACCTGC	1 cut(s)	28
BspTI	CTTAAG	1 cut(s)	407
BsrBI	CCGCTC	2 cut(s)	520, 571
BsrI	ACTGG	1 cut(s)	183
BssMI	GATC	2 cut(s)	232, 355
BssNI	GRCGYC	1 cut(s)	711
Bst4CI	ACNGT	2 cut(s)	619, 672
BstACI	GRCGYC	1 cut(s)	711
BstAFI	CTTAAG	1 cut(s)	407
BstAPI	GCANNNNNTGC	1 cut(s)	323
BstC8I	GCNNGC	4 cut(s)	27, 315, 573, 609
BstDEI	CTNAG	3 cut(s)	243, 347, 658
BstF5I	GGATG	5 cut(s)	97, 163, 243, 553, 634
BstH2I	RGCGCY	1 cut(s)	314
BstHHI	GCGC	1 cut(s)	313
BstKTI	GATC	2 cut(s)	235, 358
BstMAI	GTCTC	2 cut(s)	529, 547
BstMBI	GATC	2 cut(s)	232, 355
BstMWI	GCNNNNNNNGC	4 cut(s)	22, 310, 323, 398
BstNSI	RCATGY	3 cut(s)	308, 560, 611
BstSCI	CCNGG	1 cut(s)	252
BstV1I	GCAGC	1 cut(s)	618
BsuRI	GGCC	3 cut(s)	352, 434, 575
BtsCI	GGATG	5 cut(s)	97, 163, 243, 553, 634
BtsIMutI	CAGTG	2 cut(s)	176, 615
BveI	ACCTGC	1 cut(s)	28
Cac8I	GCNNGC	4 cut(s)	27, 315, 573, 609
CaiI	CAGNNNCTG	1 cut(s)	707
CfoI	GCGC	1 cut(s)	313
Cfr13I	GGNCC	2 cut(s)	171, 573
CviAII	CATG	6 cut(s)	32, 261, 305, 413, 557, 608
DdeI	CTNAG	3 cut(s)	243, 347, 658
DpnI	GATC	2 cut(s)	234, 357
DpnII	GATC	2 cut(s)	232, 355
EaeI	YGGCCR	1 cut(s)	432
Eco147I	AGGCCT	1 cut(s)	352
Eco47I	GGWCC	1 cut(s)	171
Eco47III	AGCGCT	1 cut(s)	312
Eco57I	CTGAAG	2 cut(s)	522, 684
Esp3I	CGTCTC	1 cut(s)	529
FaeI	CATG	6 cut(s)	35, 264, 308, 416, 560, 611
FatI	CATG	6 cut(s)	31, 260, 304, 412, 556, 607
FauI	CCCGC	2 cut(s)	513, 564
FbaI	TGATCA	1 cut(s)	355
Fnu4HI	GCNGC	1 cut(s)	632
FokI	GGATG	5 cut(s)	104, 170, 250, 560, 621
Fsp4HI	GCNGC	1 cut(s)	632
FspBI	CTAG	4 cut(s)	126, 219, 288, 393
GlaI	GCGC	1 cut(s)	312
GluI	GCNGC	1 cut(s)	632
GsaI	CCCAGC	2 cut(s)	54, 422
HaeII	RGCGCY	1 cut(s)	314
HaeIII	GGCC	3 cut(s)	352, 434, 575
HapII	CCGG	1 cut(s)	254
HhaI	GCGC	1 cut(s)	313
Hin1I	GRCGYC	1 cut(s)	711
Hin1II	CATG	6 cut(s)	35, 264, 308, 416, 560, 611
Hin6I	GCGC	1 cut(s)	311
HinP1I	GCGC	1 cut(s)	311
HpaII	CCGG	1 cut(s)	254
HphI	GGTGA	2 cut(s)	215, 544
Hpy166II	GTNNAC	1 cut(s)	363
Hpy188I	TCNGA	3 cut(s)	237, 625, 642
Hpy188III	TCNNGA	1 cut(s)	186
Hpy8I	GTNNAC	1 cut(s)	363
HpyAV	CCTTC	2 cut(s)	500, 523
HpyCH4III	ACNGT	2 cut(s)	619, 672
HpyCH4V	TGCA	4 cut(s)	317, 326, 607, 634
HpyF10VI	GCNNNNNNNGC	4 cut(s)	22, 310, 323, 398
HpyF3I	CTNAG	3 cut(s)	243, 347, 658
Hsp92I	GRCGYC	1 cut(s)	711
Hsp92II	CATG	6 cut(s)	35, 264, 308, 416, 560, 611
HspAI	GCGC	1 cut(s)	311
Ksp22I	TGATCA	1 cut(s)	355
Kzo9I	GATC	2 cut(s)	232, 355
LmnI	GCTCC	4 cut(s)	13, 454, 475, 517
Lsp1109I	GCAGC	1 cut(s)	618
LweI	GCATC	6 cut(s)	82, 112, 228, 324, 643, 685
MaeI	CTAG	4 cut(s)	126, 219, 288, 393
MaeIII	GTNAC	1 cut(s)	703
MalI	GATC	2 cut(s)	234, 357
MbiI	CCGCTC	2 cut(s)	520, 571
MboI	GATC	2 cut(s)	232, 355
MboII	GAAGA	6 cut(s)	259, 435, 456, 515, 701, 704
MlsI	TGGCCA	1 cut(s)	434
MluCI	AATT	1 cut(s)	718
MluNI	TGGCCA	1 cut(s)	434
MmeI	TCCRAC	1 cut(s)	432
MnlI	CCTC	5 cut(s)	147, 468, 555, 640, 648
Mox20I	TGGCCA	1 cut(s)	434
MscI	TGGCCA	1 cut(s)	434
MseI	TTAA	1 cut(s)	408
Msp20I	TGGCCA	1 cut(s)	434
MspA1I	CMGCKG	1 cut(s)	631
MspCI	CTTAAG	1 cut(s)	407
MspI	CCGG	1 cut(s)	254
MspR9I	CCNGG	1 cut(s)	254
MwoI	GCNNNNNNNGC	4 cut(s)	22, 310, 323, 398
NciI	CCSGG	1 cut(s)	254
NdeII	GATC	2 cut(s)	232, 355
NlaIII	CATG	6 cut(s)	35, 264, 308, 416, 560, 611
NlaIV	GGNNCC	1 cut(s)	456
NspI	RCATGY	3 cut(s)	308, 560, 611
PaeI	GCATGC	1 cut(s)	611
PceI	AGGCCT	1 cut(s)	352
PciI	ACATGT	1 cut(s)	556
PflMI	CCANNNNNTGG	1 cut(s)	582
PkrI	GCNGC	1 cut(s)	633
PscI	ACATGT	1 cut(s)	556
PspFI	CCCAGC	2 cut(s)	50, 418
PspN4I	GGNNCC	1 cut(s)	456
PspPI	GGNCC	2 cut(s)	171, 573
PstNI	CAGNNNCTG	1 cut(s)	707
PvuII	CAGCTG	1 cut(s)	631
SaqAI	TTAA	1 cut(s)	408
SatI	GCNGC	1 cut(s)	632
Sau3AI	GATC	2 cut(s)	232, 355
Sau96I	GGNCC	2 cut(s)	171, 573
ScrFI	CCNGG	1 cut(s)	254
SfaNI	GCATC	6 cut(s)	82, 112, 228, 324, 643, 685
SinI	GGWCC	1 cut(s)	171
SmlI	CTYRAG	1 cut(s)	407
SmoI	CTYRAG	1 cut(s)	407
SphI	GCATGC	1 cut(s)	611
Sse9I	AATT	1 cut(s)	718
SseBI	AGGCCT	1 cut(s)	352
SsiI	CCGC	2 cut(s)	520, 571
SspMI	CTAG	4 cut(s)	126, 219, 288, 393
StuI	AGGCCT	1 cut(s)	352
StyD4I	CCNGG	1 cut(s)	252
TaaI	ACNGT	2 cut(s)	619, 672
TaqI	TCGA	4 cut(s)	62, 77, 138, 488
TasI	AATT	1 cut(s)	718
Tru1I	TTAA	1 cut(s)	408
Tru9I	TTAA	1 cut(s)	408
TscAI	CASTG	2 cut(s)	183, 622
TseI	GCWGC	1 cut(s)	631
TspDTI	ATGAA	1 cut(s)	224
TspRI	CASTG	2 cut(s)	183, 622
Van91I	CCANNNNNTGG	1 cut(s)	582
Vha464I	CTTAAG	1 cut(s)	407
VpaK11BI	GGWCC	1 cut(s)	171
XceI	RCATGY	3 cut(s)	308, 560, 611
XspI	CTAG	4 cut(s)	126, 219, 288, 393

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