Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0000530

Physical Location & Seq

Genomic Coordinates Reverse (-)

33502037 .. 33502842

Gene Structure 806 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00311190.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 771 bp

ATGGATGGGTATGTGAAGCAGGGGAAGCTGGTTGAGGCTATTAAGGTTATGGATGAGATGGAGGATAATGGGGTTGGCGCCAATGAGGTTACTTATGGGGTTATGATTGAAGCTTATTGTAAGGAAAAGAAGTCAGGCGAAGCGGTTAATTTGCTTGATGATATGGTGGAGAAGAGGTATATACCGAGCTCGGCGCTCTGTTGTAAGGTGATTGATGTTTTGTGTTGCGAAGGGAAGGTGGAGGATGCTTGTGTACTGTGGAAGAGGCTTTTGAAGAAGAATTGTACACCGGATAATGCGAAGGGAGAAGTATGGGAAGCCAGGAAATTGTTTGATCAGTTTGAGACGAGTGAGCCTCCGGATGTCATGACTTACAACGTGCTTATTTCTGGAATGTGTGATGTGGGGGAGTTGTGTGAGGCAGGGAGGTTGTGGGATGACATGGTGGAGAAAGGATATTCTCCGAATTCTTTTACATATAATGTATTGATCAAAGGATTCTGTAAGATTGGAAAAGCAAAGGAGGGAATTAGGATTTTGGACGAGATGTTGCAAAAAGGCTGTTTGCCAAACAAGTCTACTTATGCTATGTTGATTGAGGGGCTCTGTGACTCAGGAGAGGAAGCTGAAATCACTAGAGTAATATCTATGGCAATGTCAAGTGGAGACATTGACAGTGATTCCTGGGATCTTTTCCTTACAAAGGTTATTGGTGATTTGGATTCTGGGGAAAGTGTTCTAAACAGAATACTGCTGGAGAATGCTGATTAG

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

256

Amino Acids

28.4

Weight (kDa)

4.5

Isoelectric Point (pI)

32.94

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	1 - 41	2.2e-11	PPR repeat family
PPR_1	PF12854	24 - 56	9.1e-07	PPR repeat
PPR_2	PF13041	28 - 64	1.8e-07	PPR repeat family
PPR	PF01535	30 - 59	8.7e-07	PPR repeat
PPR_2	PF13041	120 - 169	1.4e-19	PPR repeat family
PPR_1	PF12854	120 - 149	5.3e-08	PPR repeat
PPR_3	PF13812	120 - 167	4.1e-07	Pentatricopeptide repeat domain
PPR_3	PF13812	143 - 200	2.1e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	151 - 183	3.8e-11	PPR repeat
PPR_2	PF13041	158 - 204	2.1e-15	PPR repeat family
PPR	PF01535	158 - 188	1.6e-08	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: 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)
AccB1I	GGYRCC	1 cut(s)	77
AccI	GTMKAC	1 cut(s)	578
AccIII	TCCGGA	1 cut(s)	358
AciI	CCGC	1 cut(s)	143
AclWI	GGATC	1 cut(s)	696
AcsI	RAATTY	1 cut(s)	466
AcyI	GRCGYC	1 cut(s)	78
AfaI	GTAC	2 cut(s)	255, 286
AfiI	CCNNNNNNNGG	1 cut(s)	703
AgsI	TTSAA	2 cut(s)	110, 274
AjnI	CCWGG	2 cut(s)	320, 683
AluBI	AGCT	4 cut(s)	28, 113, 189, 626
AluI	AGCT	4 cut(s)	28, 113, 189, 626
Alw21I	GWGCWC	1 cut(s)	191
Alw26I	GTCTC	2 cut(s)	338, 660
AlwI	GGATC	1 cut(s)	696
Aor13HI	TCCGGA	1 cut(s)	358
ApoI	RAATTY	1 cut(s)	466
Asp700I	GAANNNNTTC	1 cut(s)	735
AspLEI	GCGC	2 cut(s)	80, 196
AsuHPI	GGTGA	2 cut(s)	220, 725
BanI	GGYRCC	1 cut(s)	77
BanII	GRGCYC	2 cut(s)	191, 606
Bbv12I	GWGCWC	1 cut(s)	191
BccI	CCATC	1 cut(s)	52
BciT130I	CCWGG	2 cut(s)	322, 685
BclI	TGATCA	2 cut(s)	334, 489
BcoDI	GTCTC	2 cut(s)	338, 660
BfaI	CTAG	1 cut(s)	636
BfoI	RGCGCY	2 cut(s)	81, 197
Bme1390I	CCNGG	2 cut(s)	322, 685
BmiI	GGNNCC	1 cut(s)	79
BmrFI	CCNGG	2 cut(s)	322, 685
BmsI	GCATC	1 cut(s)	235
BplI	GAGNNNNNCTC	2 cut(s)	340, 372
BsaHI	GRCGYC	1 cut(s)	78
BsaJI	CCNNGG	1 cut(s)	684
BsaWI	WCCGGW	2 cut(s)	289, 358
BsaXI	ACNNNNNCTCC	2 cut(s)	161, 191
Bsc4I	CCNNNNNNNGG	1 cut(s)	703
Bse3DI	GCAATG	1 cut(s)	660
BseAI	TCCGGA	1 cut(s)	358
BseBI	CCWGG	2 cut(s)	322, 685
BseDI	CCNNGG	1 cut(s)	684
BseGI	GGATG	5 cut(s)	10, 58, 250, 367, 442
BseLI	CCNNNNNNNGG	1 cut(s)	703
BseMI	GCAATG	1 cut(s)	660
BseMII	CTCAG	1 cut(s)	627
BshNI	GGYRCC	1 cut(s)	77
BsiHKAI	GWGCWC	1 cut(s)	191
BsiSI	CCGG	2 cut(s)	290, 359
BslI	CCNNNNNNNGG	1 cut(s)	703
BsmAI	GTCTC	2 cut(s)	338, 660
BsmBI	CGTCTC	1 cut(s)	338
BsmI	GAATGC	1 cut(s)	766
Bsp1286I	GDGCHC	2 cut(s)	191, 606
Bsp13I	TCCGGA	1 cut(s)	358
Bsp1407I	TGTACA	1 cut(s)	284
Bsp143I	GATC	3 cut(s)	334, 489, 688
BspACI	CCGC	1 cut(s)	143
BspCNI	CTCAG	1 cut(s)	626
BspEI	TCCGGA	1 cut(s)	358
BspHI	TCATGA	1 cut(s)	366
BspLI	GGNNCC	1 cut(s)	79
BspPI	GGATC	1 cut(s)	696
BspT107I	GGYRCC	1 cut(s)	77
BsrDI	GCAATG	1 cut(s)	660
BsrGI	TGTACA	1 cut(s)	284
BssECI	CCNNGG	1 cut(s)	684
BssMI	GATC	3 cut(s)	334, 489, 688
BssNI	GRCGYC	1 cut(s)	78
Bst2UI	CCWGG	2 cut(s)	322, 685
Bst4CI	ACNGT	2 cut(s)	258, 677
Bst6I	CTCTTC	2 cut(s)	167, 257
BstACI	GRCGYC	1 cut(s)	78
BstAUI	TGTACA	1 cut(s)	284
BstDEI	CTNAG	1 cut(s)	613
BstENI	CCTNNNNNAGG	1 cut(s)	701
BstF5I	GGATG	5 cut(s)	10, 58, 250, 367, 442
BstH2I	RGCGCY	2 cut(s)	81, 197
BstHHI	GCGC	2 cut(s)	80, 196
BstKTI	GATC	3 cut(s)	337, 492, 691
BstMAI	GTCTC	2 cut(s)	338, 660
BstMBI	GATC	3 cut(s)	334, 489, 688
BstMWI	GCNNNNNNNGC	1 cut(s)	25
BstNI	CCWGG	2 cut(s)	322, 685
BstSCI	CCNGG	2 cut(s)	320, 683
BstX2I	RGATCY	1 cut(s)	688
BstYI	RGATCY	1 cut(s)	688
BtsCI	GGATG	5 cut(s)	10, 58, 250, 367, 442
BtsIMutI	CAGTG	1 cut(s)	682
CciI	TCATGA	1 cut(s)	366
CfoI	GCGC	2 cut(s)	80, 196
Csp6I	GTAC	2 cut(s)	254, 285
CviAII	CATG	2 cut(s)	367, 442
CviQI	GTAC	2 cut(s)	254, 285
DdeI	CTNAG	1 cut(s)	613
DinI	GGCGCC	1 cut(s)	79
DpnI	GATC	3 cut(s)	336, 491, 690
DpnII	GATC	3 cut(s)	334, 489, 688
Eam1104I	CTCTTC	2 cut(s)	167, 257
EarI	CTCTTC	2 cut(s)	167, 257
Ecl136II	GAGCTC	1 cut(s)	189
Eco24I	GRGCYC	2 cut(s)	191, 606
Eco53kI	GAGCTC	1 cut(s)	189
EcoICRI	GAGCTC	1 cut(s)	189
EcoNI	CCTNNNNNAGG	1 cut(s)	701
EcoRI	GAATTC	1 cut(s)	466
EcoRII	CCWGG	2 cut(s)	320, 683
EcoT38I	GRGCYC	2 cut(s)	191, 606
EgeI	GGCGCC	1 cut(s)	79
EheI	GGCGCC	1 cut(s)	79
Esp3I	CGTCTC	1 cut(s)	338
FaeI	CATG	2 cut(s)	370, 445
FatI	CATG	2 cut(s)	366, 441
FbaI	TGATCA	2 cut(s)	334, 489
FblI	GTMKAC	1 cut(s)	578
FokI	GGATG	5 cut(s)	17, 65, 257, 374, 449
FriOI	GRGCYC	2 cut(s)	191, 606
FspBI	CTAG	1 cut(s)	636
GlaI	GCGC	2 cut(s)	79, 195
HaeII	RGCGCY	2 cut(s)	81, 197
HapII	CCGG	2 cut(s)	290, 359
HhaI	GCGC	2 cut(s)	80, 196
Hin1I	GRCGYC	1 cut(s)	78
Hin1II	CATG	2 cut(s)	370, 445
Hin6I	GCGC	2 cut(s)	78, 194
HinP1I	GCGC	2 cut(s)	78, 194
HindIII	AAGCTT	1 cut(s)	111
HinfI	GANTC	4 cut(s)	498, 611, 680, 722
HpaII	CCGG	2 cut(s)	290, 359
HphI	GGTGA	2 cut(s)	220, 725
Hpy166II	GTNNAC	3 cut(s)	254, 287, 579
Hpy188I	TCNGA	1 cut(s)	465
Hpy188III	TCNNGA	4 cut(s)	359, 367, 390, 615
Hpy8I	GTNNAC	3 cut(s)	254, 287, 579
HpyAV	CCTTC	3 cut(s)	224, 229, 295
HpyCH4III	ACNGT	2 cut(s)	258, 677
HpyCH4IV	ACGT	1 cut(s)	378
HpyCH4V	TGCA	1 cut(s)	553
HpyF10VI	GCNNNNNNNGC	1 cut(s)	25
HpyF3I	CTNAG	1 cut(s)	613
HpySE526I	ACGT	1 cut(s)	378
Hsp92I	GRCGYC	1 cut(s)	78
Hsp92II	CATG	2 cut(s)	370, 445
HspAI	GCGC	2 cut(s)	78, 194
KasI	GGCGCC	1 cut(s)	77
Kpn2I	TCCGGA	1 cut(s)	358
Ksp22I	TGATCA	2 cut(s)	334, 489
Kzo9I	GATC	3 cut(s)	334, 489, 688
LweI	GCATC	1 cut(s)	235
MaeI	CTAG	1 cut(s)	636
MaeII	ACGT	1 cut(s)	378
MaeIII	GTNAC	2 cut(s)	88, 608
MalI	GATC	3 cut(s)	336, 491, 690
MboI	GATC	3 cut(s)	334, 489, 688
MboII	GAAGA	4 cut(s)	184, 274, 286, 289
MflI	RGATCY	1 cut(s)	688
MhlI	GDGCHC	2 cut(s)	191, 606
MluCI	AATT	5 cut(s)	148, 280, 326, 466, 528
Mly113I	GGCGCC	1 cut(s)	78
MlyI	GAGTC	1 cut(s)	605
MroI	TCCGGA	1 cut(s)	358
MroXI	GAANNNNTTC	1 cut(s)	735
MseI	TTAA	2 cut(s)	42, 147
MspI	CCGG	2 cut(s)	290, 359
MspR9I	CCNGG	2 cut(s)	322, 685
Mva1269I	GAATGC	1 cut(s)	766
MvaI	CCWGG	2 cut(s)	322, 685
MwoI	GCNNNNNNNGC	1 cut(s)	25
NarI	GGCGCC	1 cut(s)	78
NdeII	GATC	3 cut(s)	334, 489, 688
NlaIII	CATG	2 cut(s)	370, 445
NlaIV	GGNNCC	1 cut(s)	79
NmeAIII	GCCGAG	1 cut(s)	170
NmuCI	GTSAC	1 cut(s)	608
PagI	TCATGA	1 cut(s)	366
PctI	GAATGC	1 cut(s)	766
PdmI	GAANNNNTTC	1 cut(s)	735
PfeI	GAWTC	3 cut(s)	498, 680, 722
PleI	GAGTC	1 cut(s)	605
PluTI	GGCGCC	1 cut(s)	81
PpsI	GAGTC	1 cut(s)	605
Psp124BI	GAGCTC	1 cut(s)	191
Psp6I	CCWGG	2 cut(s)	320, 683
PspGI	CCWGG	2 cut(s)	320, 683
PspN4I	GGNNCC	1 cut(s)	79
PsuI	RGATCY	1 cut(s)	688
RsaI	GTAC	2 cut(s)	255, 286
RsaNI	GTAC	2 cut(s)	254, 285
SacI	GAGCTC	1 cut(s)	191
SaqAI	TTAA	2 cut(s)	42, 147
Sau3AI	GATC	3 cut(s)	334, 489, 688
SchI	GAGTC	1 cut(s)	605
ScrFI	CCNGG	2 cut(s)	322, 685
SduI	GDGCHC	2 cut(s)	191, 606
SfaNI	GCATC	1 cut(s)	235
SfoI	GGCGCC	1 cut(s)	79
Sse9I	AATT	5 cut(s)	148, 280, 326, 466, 528
SsiI	CCGC	1 cut(s)	143
SspDI	GGCGCC	1 cut(s)	77
SspMI	CTAG	1 cut(s)	636
SstI	GAGCTC	1 cut(s)	191
StyD4I	CCNGG	2 cut(s)	320, 683
TaaI	ACNGT	2 cut(s)	258, 677
TaiI	ACGT	1 cut(s)	381
TasI	AATT	5 cut(s)	148, 280, 326, 466, 528
TatI	WGTACW	2 cut(s)	253, 284
TfiI	GAWTC	3 cut(s)	498, 680, 722
Tru1I	TTAA	2 cut(s)	42, 147
Tru9I	TTAA	2 cut(s)	42, 147
TscAI	CASTG	1 cut(s)	682
TseFI	GTSAC	1 cut(s)	608
Tsp45I	GTSAC	1 cut(s)	608
TspRI	CASTG	1 cut(s)	682
XagI	CCTNNNNNAGG	1 cut(s)	701
XapI	RAATTY	1 cut(s)	466
XmiI	GTMKAC	1 cut(s)	578
XmnI	GAANNNNTTC	1 cut(s)	735
XspI	CTAG	1 cut(s)	636

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