Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0002015

Physical Location & Seq

Genomic Coordinates Reverse (-)

30393378 .. 30400072

Gene Structure 6695 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG144300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1002 bp

ATGAAGCTGGATGTGGATGTGTTGAGATACCTCACTAAAGAGGATTTCAGGGTTTTAACCGCTGTCGAAATGGGAATGAGAAATCATGAAATCGTACCCGCTGAACTGGTGGAGCGTATAGCTGCGCTCAAGCATGGTGGCACTTACAAAGTTATGAAAAATCTGCTCAAGCATAAGCTCTTGCACCACGACGCCTCTAAATATGATGGGTTTCGGCTAACGTACCTCGGTTATGATTTTCTTGCAATTAAGACTTTGGTCAACCGTGGAGTCTTTTCAGCCGTTGGTCGCCAACTTGGTGTTGGAAAAGAGTCTGATATTTTTGAGGTGGCCACCGAAGATGGTACAGTGATGGCAATGAAATTGCACAGGCTTGGTAGAACTTCTTTCAGGGCCGTCAAGTCTAAGCGTGATTACTTAAAACATCGTAGCAGTTTCAATTGGCTATACTTGTCCCGTCTTGCTGCACTCAGAGAATTTTCTTTTATGAAGGCTTTAGAAGAGCATGGTTTTCCTGTTCCAAATGCAGTAGATTGTAACAGGCATTGTGTGATTATGTCACTAGTACCAGGCTACCCCCTTGTGCAGGTGAAGCAATTGGAAAATCCTGAGACAGTTTTCAATACTATCATTGGGCTCGTTGTTCGTCTGGCAGAACATGGTTTGATTCACTGTGACTTCAATGAATTTAACATTATGATTGATGATGACGAGAAGGTCACCATGATTGATTTTCCCCAAATGGTCTCTGTATCACATCGTAATGCACAAATGTACTTTGATCGTGATGTGGAATGTGTCTTTAAGTTTTTCAGCAAGAGATTCAACATGTCTTTCCATGAATGCACAGCTGATATTGATGGAACAGCGGTGGACACAGATGATAGTGGCAGGCCTTCGTTTACTTCAATAGCAAAAGATACTGGTTTTCTTGACAAGGAACTTTCTGCTAGTGGGTTTACTAGGAAGGATCAGGAAGAAATTGCTAAGGTATTGTGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004672 GO:0006464 GO:0006468 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0016301 GO:0016310 GO:0016740 GO:0016772 GO:0016773 GO:0019538 GO:0036211 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0071704 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko03008 map03008

Pfam Domains

Protein Families

RIO1 Rio2_N

Protein Analysis

333

Amino Acids

38.03

Weight (kDa)

6.68

Isoelectric Point (pI)

30.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rio2_N	PF09202	8 - 89	3.6e-34	Rio2, N-terminal
RIO1	PF01163	106 - 280	2.4e-55	RIO domain
ABC1	PF03109	170 - 260	1.3e-07	ABC1 atypical kinase-like domain

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: OG0002015)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G51270 AT3G51270 AT3G51270 AT3G51270
fragaria_vesca	FvH4_4g10760 FvH4_4g10760 FvH4_4g10760 FvH4_4g10760 FvH4_7g06440 FvH4_7g06440
malus_domestica	MD01G1035500.v1.1 MD02G1001000.v1.1 MD15G1320300.v1.1
prunus_persica	Prupe.5G084300_v2.0.a1 Prupe.5G084300_v2.0.a1 Prupe.5G084300_v2.0.a1 Prupe.5G084300_v2.0.a1
pyrus_communis	pycom01g06260 pycom15g28140
rosa_chinensis	RchiOBHm_Chr1g0334711 RchiOBHm_Chr7g0210541
rosa_laevigata	RLG00000026279 RLG00000029431
rosa_multiflora	Rmu_sc0002295.1_g000002 Rmu_sc0006031.1_g000024
rosa_roxburghii	Rroxscaffold_3G00236050 Rroxscaffold_4G00279110 Rroxscaffold_4G00316660
rosa_rugosa	Rorug01G0115100 Rorug01G0115200 Rorug07G0122000 Rorug07G0122100 Rorug07G0122100 Rorug07G0122200 Rorug07G0122200
rosa_samantha	Rh1AG140300 Rh1BG107400 Rh1CG132200 Rh1DG144300 Rh7AG254300 Rh7BG249600 Rh7CG271200 Rh7DG262000
rosa_wichuraiana	Rw1G011570 Rw7G021730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	577
AasI	GACNNNNNNGTC	1 cut(s)	716
Acc36I	ACCTGC	1 cut(s)	577
AciI	CCGC	3 cut(s)	60, 99, 869
AclWI	GGATC	1 cut(s)	978
AcoI	YGGCCR	1 cut(s)	330
AcsI	RAATTY	2 cut(s)	476, 686
AcyI	GRCGYC	1 cut(s)	192
AfaI	GTAC	5 cut(s)	96, 224, 346, 567, 776
AfiI	CCNNNNNNNGG	1 cut(s)	586
AflIII	ACRYGT	1 cut(s)	828
AgsI	TTSAA	5 cut(s)	439, 622, 682, 826, 909
AhlI	ACTAGT	1 cut(s)	562
AjnI	CCWGG	1 cut(s)	568
AluBI	AGCT	4 cut(s)	7, 122, 178, 851
AluI	AGCT	4 cut(s)	7, 122, 178, 851
Alw26I	GTCTC	2 cut(s)	605, 751
AlwI	GGATC	1 cut(s)	978
AoxI	GGCC	3 cut(s)	330, 393, 893
ApeKI	GCWGC	2 cut(s)	122, 464
ApoI	RAATTY	2 cut(s)	476, 686
AspLEI	GCGC	1 cut(s)	127
AspS9I	GGNCC	1 cut(s)	393
AsuHPI	GGTGA	2 cut(s)	601, 712
BalI	TGGCCA	1 cut(s)	332
BanII	GRGCYC	1 cut(s)	639
BbvI	GCAGC	2 cut(s)	109, 451
BccI	CCATC	4 cut(s)	200, 335, 346, 854
BceAI	ACGGC	2 cut(s)	266, 380
BciT130I	CCWGG	1 cut(s)	570
BcoDI	GTCTC	2 cut(s)	605, 751
BcuI	ACTAGT	1 cut(s)	562
BfaI	CTAG	3 cut(s)	563, 951, 963
BfuAI	ACCTGC	1 cut(s)	577
BisI	GCNGC	2 cut(s)	123, 465
BlsI	GCNGC	2 cut(s)	124, 466
Bme1390I	CCNGG	1 cut(s)	570
BmgT120I	GGNCC	1 cut(s)	393
BmrFI	CCNGG	1 cut(s)	570
BoxI	GACNNNNGTC	1 cut(s)	257
Bpu10I	CCTNAGC	1 cut(s)	987
BpuEI	CTTGAG	2 cut(s)	113, 152
BsaHI	GRCGYC	1 cut(s)	192
BsaI	GGTCTC	1 cut(s)	751
BsaJI	CCNNGG	2 cut(s)	226, 265
Bsc4I	CCNNNNNNNGG	1 cut(s)	586
Bse1I	ACTGG	2 cut(s)	111, 928
Bse3DI	GCAATG	1 cut(s)	363
BseBI	CCWGG	1 cut(s)	570
BseDI	CCNNGG	2 cut(s)	226, 265
BseGI	GGATG	2 cut(s)	16, 22
BseLI	CCNNNNNNNGG	1 cut(s)	586
BseMI	GCAATG	1 cut(s)	363
BseMII	CTCAG	2 cut(s)	484, 600
BseNI	ACTGG	2 cut(s)	111, 928
BseXI	GCAGC	2 cut(s)	109, 451
BsgI	GTGCAG	2 cut(s)	450, 605
BshFI	GGCC	3 cut(s)	332, 395, 895
BslFI	GGGAC	1 cut(s)	439
BslI	CCNNNNNNNGG	1 cut(s)	586
BsmAI	GTCTC	2 cut(s)	605, 751
BsmFI	GGGAC	1 cut(s)	439
BsmI	GAATGC	1 cut(s)	848
BsnI	GGCC	3 cut(s)	332, 395, 895
Bso31I	GGTCTC	1 cut(s)	751
Bsp1286I	GDGCHC	1 cut(s)	639
Bsp143I	GATC	2 cut(s)	781, 970
BspACI	CCGC	3 cut(s)	60, 99, 869
BspANI	GGCC	3 cut(s)	332, 395, 895
BspCNI	CTCAG	2 cut(s)	483, 601
BspHI	TCATGA	1 cut(s)	85
BspMI	ACCTGC	1 cut(s)	577
BspPI	GGATC	1 cut(s)	978
BspQI	GCTCTTC	1 cut(s)	495
BspTNI	GGTCTC	1 cut(s)	751
BsrDI	GCAATG	1 cut(s)	363
BsrI	ACTGG	2 cut(s)	111, 928
BssECI	CCNNGG	2 cut(s)	226, 265
BssMI	GATC	2 cut(s)	781, 970
BssNI	GRCGYC	1 cut(s)	192
Bst2UI	CCWGG	1 cut(s)	570
Bst4CI	ACNGT	4 cut(s)	266, 349, 616, 674
Bst6I	CTCTTC	1 cut(s)	495
BstACI	GRCGYC	1 cut(s)	192
BstC8I	GCNNGC	1 cut(s)	893
BstDEI	CTNAG	4 cut(s)	405, 470, 609, 987
BstDSI	CCRYGG	1 cut(s)	265
BstEII	GGTNACC	1 cut(s)	718
BstENI	CCTNNNNNAGG	1 cut(s)	584
BstF5I	GGATG	2 cut(s)	16, 22
BstHHI	GCGC	1 cut(s)	127
BstKTI	GATC	2 cut(s)	784, 973
BstMAI	GTCTC	2 cut(s)	605, 751
BstMBI	GATC	2 cut(s)	781, 970
BstMWI	GCNNNNNNNGC	1 cut(s)	592
BstNI	CCWGG	1 cut(s)	570
BstNSI	RCATGY	1 cut(s)	832
BstPAI	GACNNNNGTC	1 cut(s)	257
BstPI	GGTNACC	1 cut(s)	718
BstSCI	CCNGG	1 cut(s)	568
BstV1I	GCAGC	2 cut(s)	109, 451
BsuRI	GGCC	3 cut(s)	332, 395, 895
BtgI	CCRYGG	1 cut(s)	265
BtsCI	GGATG	2 cut(s)	16, 22
BtsIMutI	CAGTG	2 cut(s)	354, 670
BveI	ACCTGC	1 cut(s)	577
Cac8I	GCNNGC	1 cut(s)	893
CciI	TCATGA	1 cut(s)	85
CfoI	GCGC	1 cut(s)	127
Cfr13I	GGNCC	1 cut(s)	393
CseI	GACGC	1 cut(s)	200
Csp6I	GTAC	5 cut(s)	95, 223, 345, 566, 775
CspCI	CAANNNNNGTGG	2 cut(s)	118, 153
CviAII	CATG	7 cut(s)	86, 134, 506, 659, 724, 829, 839
CviQI	GTAC	5 cut(s)	95, 223, 345, 566, 775
DdeI	CTNAG	4 cut(s)	405, 470, 609, 987
DpnI	GATC	2 cut(s)	783, 972
DpnII	GATC	2 cut(s)	781, 970
DrdI	GACNNNNNNGTC	1 cut(s)	716
DseDI	GACNNNNNNGTC	1 cut(s)	716
EaeI	YGGCCR	1 cut(s)	330
Eam1104I	CTCTTC	1 cut(s)	495
EarI	CTCTTC	1 cut(s)	495
Eco147I	AGGCCT	1 cut(s)	895
Eco24I	GRGCYC	1 cut(s)	639
Eco31I	GGTCTC	1 cut(s)	751
Eco91I	GGTNACC	1 cut(s)	718
EcoNI	CCTNNNNNAGG	1 cut(s)	584
EcoO65I	GGTNACC	1 cut(s)	718
EcoRII	CCWGG	1 cut(s)	568
EcoT38I	GRGCYC	1 cut(s)	639
FaeI	CATG	7 cut(s)	89, 137, 509, 662, 727, 832, 842
FaqI	GGGAC	1 cut(s)	439
FatI	CATG	7 cut(s)	85, 133, 505, 658, 723, 828, 838
FauI	CCCGC	1 cut(s)	106
Fnu4HI	GCNGC	2 cut(s)	123, 465
FokI	GGATG	2 cut(s)	23, 29
FriOI	GRGCYC	1 cut(s)	639
Fsp4HI	GCNGC	2 cut(s)	123, 465
FspBI	CTAG	3 cut(s)	563, 951, 963
GlaI	GCGC	1 cut(s)	126
GluI	GCNGC	2 cut(s)	123, 465
HaeIII	GGCC	3 cut(s)	332, 395, 895
HgaI	GACGC	1 cut(s)	200
HhaI	GCGC	1 cut(s)	127
Hin1I	GRCGYC	1 cut(s)	192
Hin1II	CATG	7 cut(s)	89, 137, 509, 662, 727, 832, 842
Hin6I	GCGC	1 cut(s)	125
HinP1I	GCGC	1 cut(s)	125
HincII	GTYRAC	1 cut(s)	262
HindII	GTYRAC	1 cut(s)	262
HinfI	GANTC	4 cut(s)	270, 311, 667, 822
HphI	GGTGA	2 cut(s)	601, 712
Hpy166II	GTNNAC	4 cut(s)	262, 874, 903, 960
Hpy188I	TCNGA	2 cut(s)	316, 473
Hpy188III	TCNNGA	5 cut(s)	86, 608, 785, 932, 974
Hpy8I	GTNNAC	4 cut(s)	262, 874, 903, 960
Hpy99I	CGWCG	1 cut(s)	194
HpyAV	CCTTC	4 cut(s)	484, 709, 906, 961
HpyCH4III	ACNGT	4 cut(s)	266, 349, 616, 674
HpyCH4IV	ACGT	1 cut(s)	221
HpyCH4V	TGCA	8 cut(s)	184, 245, 367, 467, 527, 586, 767, 846
HpyF10VI	GCNNNNNNNGC	1 cut(s)	592
HpyF3I	CTNAG	4 cut(s)	405, 470, 609, 987
HpySE526I	ACGT	1 cut(s)	221
Hsp92I	GRCGYC	1 cut(s)	192
Hsp92II	CATG	7 cut(s)	89, 137, 509, 662, 727, 832, 842
HspAI	GCGC	1 cut(s)	125
Kzo9I	GATC	2 cut(s)	781, 970
LguI	GCTCTTC	1 cut(s)	495
LmnI	GCTCC	1 cut(s)	112
Lsp1109I	GCAGC	2 cut(s)	109, 451
MaeI	CTAG	3 cut(s)	563, 951, 963
MaeII	ACGT	1 cut(s)	221
MaeIII	GTNAC	4 cut(s)	536, 558, 674, 718
MalI	GATC	2 cut(s)	783, 972
MboI	GATC	2 cut(s)	781, 970
MboII	GAAGA	3 cut(s)	350, 512, 989
MfeI	CAATTG	2 cut(s)	439, 596
MhlI	GDGCHC	1 cut(s)	639
MlsI	TGGCCA	1 cut(s)	332
MluCI	AATT	7 cut(s)	246, 362, 439, 476, 596, 686, 981
MluNI	TGGCCA	1 cut(s)	332
MlyI	GAGTC	2 cut(s)	279, 320
MmeI	TCCRAC	1 cut(s)	283
MnlI	CCTC	5 cut(s)	34, 41, 205, 236, 319
Mox20I	TGGCCA	1 cut(s)	332
MscI	TGGCCA	1 cut(s)	332
MseI	TTAA	5 cut(s)	56, 249, 419, 690, 804
MslI	CAYNNNNRTG	1 cut(s)	762
Msp20I	TGGCCA	1 cut(s)	332
MspA1I	CMGCKG	4 cut(s)	62, 101, 851, 869
MspR9I	CCNGG	1 cut(s)	570
MunI	CAATTG	2 cut(s)	439, 596
Mva1269I	GAATGC	1 cut(s)	848
MvaI	CCWGG	1 cut(s)	570
MwoI	GCNNNNNNNGC	1 cut(s)	592
NdeII	GATC	2 cut(s)	781, 970
NlaIII	CATG	7 cut(s)	89, 137, 509, 662, 727, 832, 842
NmuCI	GTSAC	3 cut(s)	558, 674, 718
NspI	RCATGY	1 cut(s)	832
PagI	TCATGA	1 cut(s)	85
PaqCI	CACCTGC	1 cut(s)	577
PceI	AGGCCT	1 cut(s)	895
PciI	ACATGT	1 cut(s)	828
PciSI	GCTCTTC	1 cut(s)	495
PctI	GAATGC	1 cut(s)	848
PfeI	GAWTC	2 cut(s)	667, 822
PkrI	GCNGC	2 cut(s)	124, 466
PleI	GAGTC	2 cut(s)	278, 319
PpsI	GAGTC	2 cut(s)	278, 319
PscI	ACATGT	1 cut(s)	828
PshAI	GACNNNNGTC	1 cut(s)	257
Psp6I	CCWGG	1 cut(s)	568
PspEI	GGTNACC	1 cut(s)	718
PspGI	CCWGG	1 cut(s)	568
PspPI	GGNCC	1 cut(s)	393
PvuII	CAGCTG	1 cut(s)	851
RsaI	GTAC	5 cut(s)	96, 224, 346, 567, 776
RsaNI	GTAC	5 cut(s)	95, 223, 345, 566, 775
RseI	CAYNNNNRTG	1 cut(s)	762
SapI	GCTCTTC	1 cut(s)	495
SaqAI	TTAA	5 cut(s)	56, 249, 419, 690, 804
SatI	GCNGC	2 cut(s)	123, 465
Sau3AI	GATC	2 cut(s)	781, 970
Sau96I	GGNCC	1 cut(s)	393
SchI	GAGTC	2 cut(s)	279, 320
ScrFI	CCNGG	1 cut(s)	570
SduI	GDGCHC	1 cut(s)	639
SmiMI	CAYNNNNRTG	1 cut(s)	762
SmlI	CTYRAG	2 cut(s)	128, 167
SmoI	CTYRAG	2 cut(s)	128, 167
SpeI	ACTAGT	1 cut(s)	562
Sse9I	AATT	7 cut(s)	246, 362, 439, 476, 596, 686, 981
SseBI	AGGCCT	1 cut(s)	895
SsiI	CCGC	3 cut(s)	60, 99, 869
SspMI	CTAG	3 cut(s)	563, 951, 963
StuI	AGGCCT	1 cut(s)	895
StyD4I	CCNGG	1 cut(s)	568
TaaI	ACNGT	4 cut(s)	266, 349, 616, 674
TaiI	ACGT	1 cut(s)	224
TaqI	TCGA	1 cut(s)	66
TasI	AATT	7 cut(s)	246, 362, 439, 476, 596, 686, 981
TatI	WGTACW	1 cut(s)	774
TfiI	GAWTC	2 cut(s)	667, 822
Tru1I	TTAA	5 cut(s)	56, 249, 419, 690, 804
Tru9I	TTAA	5 cut(s)	56, 249, 419, 690, 804
TscAI	CASTG	2 cut(s)	354, 677
TseFI	GTSAC	3 cut(s)	558, 674, 718
TseI	GCWGC	2 cut(s)	122, 464
Tsp45I	GTSAC	3 cut(s)	558, 674, 718
TspDTI	ATGAA	7 cut(s)	17, 102, 170, 374, 503, 699, 855
TspRI	CASTG	2 cut(s)	354, 677
XagI	CCTNNNNNAGG	1 cut(s)	584
XapI	RAATTY	2 cut(s)	476, 686
XceI	RCATGY	1 cut(s)	832
XcmI	CCANNNNNNNNNTGG	1 cut(s)	299
XspI	CTAG	3 cut(s)	563, 951, 963

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