Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0008483

Physical Location & Seq

Genomic Coordinates Reverse (-)

42004158 .. 42009075

Gene Structure 4918 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00248660.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 945 bp

ATGGCGGCATTTGAAGCTGCGCTGTCTCTCCCCTCACTCTACTCTCCATGTTCCTCTAAACCCCTCTCCTTTCCTAAACCCTTAAACCTTCGAATTCCCAATTTGGTCCCTCCCATTTCTCACAACTTCCTCTTCTCTCCTCCCCCACTTATCCCCACAAGAAAACTCTCTTTCGAGCTTCTGTGCTCCGCAGTGCAGGAGATTACAGCCGGGGAAGAACAGTTGGGACAAGACTCAGTGGAAGAGAAAACCCAAAACCAGCAAAACCTCAAGAGAAAGCTGTACGTGGTGAACTTGCCTTGGTCCCTCACTGTGGTCGATATCAAGAACATCTTTGGAGAATGTGGGGATGTTAAAGACGTTGAGATTATAAAGCAACAAGATGGGAGGAACAGAGGCTTTGCATTTGTCACAATGGCTTCTGGGGAAGAAGCTCAGGCTGTCATTGATAAATTTGACTCTCAGCTTTTGTTGTATCTAGGATACCCATTTTCACTTCAAAGTTATTTGATTCAGGAGCTATCAGGTAGAACTATCAAGGTAGAGTTTGCAAAGCAATTTAAGAAACCATCTCCACGTCCTTCGACTCCCCAAGTTCAAGAGACTCGCTATAAACTTTATGTTTCCAATTTGGCATGGAAAGCAAGATCAAGCCATCTCAGAGACTTTGTCTCTTTAAATTTTAAAACTCCTGTTTCAGCCCGTGTCGTCTTTGATGGGCCTTCAGGGAAATCTGGTGGATATGGATTTGTTTCTTTTGCTACAAAGGAGGAGGCAGAGGAGGCAATTTCTGCTTTGAATGGGCAGGAATTGATGGGGCGGCCAGTGAATCTGAAATTTAGTGAGAAAAATGTAGGTGAATCTACAAGCCAAGAGGAAAACGACTCCAACCAAAATGAAAAGGAGGAGGAAGAGAAATTGGAGAGTCAGCCTGAAGAATCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009536 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko03013 ko03015 ko03018 map03013 map03015 map03018

Pfam Domains

Protein Families

RRM_1

Protein Analysis

314

Amino Acids

35.08

Weight (kDa)

5.3

Isoelectric Point (pI)

52.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	94 - 155	8.2e-15	RNA recognition motif
RRM_1	PF00076	206 - 276	1.2e-14	RNA recognition 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)

Image

Tree File

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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: OG0008483)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G35410
fragaria_vesca	FvH4_5g22330 FvH4_5g22330
malus_domestica	MD06G1035700.v1.1
prunus_persica	Prupe.5G034000_v2.0.a1 Prupe.5G034000_v2.0.a1
pyrus_communis	pycom06g02960 pycom16g24260
rosa_chinensis	RchiOBHm_Chr7g0210041
rosa_laevigata	RLG00000003069
rosa_multiflora	Rmu_sc0004509.1_g000027
rosa_roxburghii	Rroxscaffold_3G00248660 Rroxscaffold_5G00364890
rosa_rugosa	Rorug07G0118000
rosa_samantha	Rh3DG312200 Rh4DG124600 Rh5CG433700 Rh6AG038800 Rh7AG251800 Rh7BG246400 Rh7CG268600 Rh7DG258700
rosa_wichuraiana	Rw7G021380

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	371
AciI	CCGC	3 cut(s)	5, 189, 820
AcoI	YGGCCR	1 cut(s)	821
AcsI	RAATTY	4 cut(s)	93, 452, 679, 836
AcuI	CTGAAG	1 cut(s)	708
AfaI	GTAC	1 cut(s)	284
AfiI	CCNNNNNNNGG	1 cut(s)	313
AgsI	TTSAA	4 cut(s)	14, 500, 599, 799
AjiI	CACGTC	1 cut(s)	578
AluBI	AGCT	6 cut(s)	17, 178, 280, 434, 466, 520
AluI	AGCT	6 cut(s)	17, 178, 280, 434, 466, 520
Alw21I	GWGCWC	1 cut(s)	188
Alw26I	GTCTC	4 cut(s)	30, 596, 657, 676
AoxI	GGCC	2 cut(s)	719, 821
ApeKI	GCWGC	1 cut(s)	17
ApoI	RAATTY	4 cut(s)	93, 452, 679, 836
AspLEI	GCGC	1 cut(s)	22
AspS9I	GGNCC	3 cut(s)	106, 303, 719
AsuC2I	CCSGG	1 cut(s)	211
AsuHPI	GGTGA	2 cut(s)	301, 869
AsuII	TTCGAA	1 cut(s)	91
AvaII	GGWCC	2 cut(s)	106, 303
Bbv12I	GWGCWC	1 cut(s)	188
BbvI	GCAGC	1 cut(s)	4
BccI	CCATC	5 cut(s)	377, 577, 663, 710, 808
BciVI	GTATCC	1 cut(s)	476
BcnI	CCSGG	1 cut(s)	211
BcoDI	GTCTC	4 cut(s)	30, 596, 657, 676
BfaI	CTAG	1 cut(s)	479
BfuI	GTATCC	1 cut(s)	476
BisI	GCNGC	3 cut(s)	6, 18, 821
BlsI	GCNGC	3 cut(s)	7, 19, 822
Bme1390I	CCNGG	1 cut(s)	211
Bme18I	GGWCC	2 cut(s)	106, 303
BmgBI	CACGTC	1 cut(s)	578
BmgT120I	GGNCC	3 cut(s)	106, 303, 719
BmiI	GGNNCC	2 cut(s)	108, 305
BmrFI	CCNGG	1 cut(s)	211
Bpu10I	CCTNAGC	1 cut(s)	435
Bpu14I	TTCGAA	1 cut(s)	91
BpuEI	CTTGAG	1 cut(s)	254
BpuMI	CCSGG	1 cut(s)	211
BsaAI	YACGTR	1 cut(s)	286
BsaJI	CCNNGG	2 cut(s)	210, 299
Bsc4I	CCNNNNNNNGG	1 cut(s)	313
Bse1I	ACTGG	1 cut(s)	824
BseDI	CCNNGG	2 cut(s)	210, 299
BseGI	GGATG	1 cut(s)	355
BseLI	CCNNNNNNNGG	1 cut(s)	313
BseMII	CTCAG	4 cut(s)	249, 449, 476, 673
BseNI	ACTGG	1 cut(s)	824
BseRI	GAGGAG	4 cut(s)	129, 785, 794, 920
BseXI	GCAGC	1 cut(s)	4
BsgI	GTGCAG	1 cut(s)	215
BshFI	GGCC	2 cut(s)	721, 823
BsiHKAI	GWGCWC	1 cut(s)	188
BsiSI	CCGG	1 cut(s)	210
BslFI	GGGAC	3 cut(s)	92, 240, 289
BslI	CCNNNNNNNGG	1 cut(s)	313
BsmAI	GTCTC	4 cut(s)	30, 596, 657, 676
BsmFI	GGGAC	3 cut(s)	92, 240, 289
BsnI	GGCC	2 cut(s)	721, 823
Bsp119I	TTCGAA	1 cut(s)	91
Bsp1286I	GDGCHC	1 cut(s)	188
Bsp143I	GATC	1 cut(s)	647
BspACI	CCGC	3 cut(s)	5, 189, 820
BspANI	GGCC	2 cut(s)	721, 823
BspCNI	CTCAG	4 cut(s)	248, 448, 475, 672
BspLI	GGNNCC	2 cut(s)	108, 305
BspT104I	TTCGAA	1 cut(s)	91
BsrI	ACTGG	1 cut(s)	824
BssECI	CCNNGG	2 cut(s)	210, 299
BssMI	GATC	1 cut(s)	647
BssT1I	CCWWGG	1 cut(s)	299
Bst4CI	ACNGT	2 cut(s)	222, 313
Bst6I	CTCTTC	3 cut(s)	137, 237, 906
BstAPI	GCANNNNNTGC	1 cut(s)	791
BstBAI	YACGTR	1 cut(s)	286
BstBI	TTCGAA	1 cut(s)	91
BstDEI	CTNAG	4 cut(s)	235, 435, 462, 659
BstF5I	GGATG	1 cut(s)	355
BstHHI	GCGC	1 cut(s)	22
BstKTI	GATC	1 cut(s)	650
BstMAI	GTCTC	4 cut(s)	30, 596, 657, 676
BstMBI	GATC	1 cut(s)	647
BstMWI	GCNNNNNNNGC	4 cut(s)	14, 641, 782, 791
BstSCI	CCNGG	1 cut(s)	209
BstV1I	GCAGC	1 cut(s)	4
BsuI	GTATCC	1 cut(s)	476
BsuRI	GGCC	2 cut(s)	721, 823
BtrI	CACGTC	1 cut(s)	578
BtsCI	GGATG	1 cut(s)	355
BtsI	GCAGTG	1 cut(s)	198
BtsIMutI	CAGTG	4 cut(s)	198, 243, 309, 831
CfoI	GCGC	1 cut(s)	22
Cfr13I	GGNCC	3 cut(s)	106, 303, 719
Csp6I	GTAC	1 cut(s)	283
CviAII	CATG	2 cut(s)	48, 636
CviQI	GTAC	1 cut(s)	283
DdeI	CTNAG	4 cut(s)	235, 435, 462, 659
DpnI	GATC	1 cut(s)	649
DpnII	GATC	1 cut(s)	647
DraI	TTTAAA	2 cut(s)	678, 685
EaeI	YGGCCR	1 cut(s)	821
Eam1104I	CTCTTC	3 cut(s)	137, 237, 906
EarI	CTCTTC	3 cut(s)	137, 237, 906
Eco130I	CCWWGG	1 cut(s)	299
Eco32I	GATATC	1 cut(s)	322
Eco47I	GGWCC	2 cut(s)	106, 303
Eco57I	CTGAAG	1 cut(s)	708
EcoRI	GAATTC	1 cut(s)	93
EcoRV	GATATC	1 cut(s)	322
EcoT14I	CCWWGG	1 cut(s)	299
ErhI	CCWWGG	1 cut(s)	299
FaeI	CATG	2 cut(s)	51, 639
FaiI	YATR	7 cut(s)	49, 371, 612, 621, 637, 744, 943
FalI	AAGNNNNNCTT	2 cut(s)	317, 349
FaqI	GGGAC	3 cut(s)	92, 240, 289
FatI	CATG	2 cut(s)	47, 635
Fnu4HI	GCNGC	3 cut(s)	6, 18, 821
FokI	GGATG	1 cut(s)	362
Fsp4HI	GCNGC	3 cut(s)	6, 18, 821
FspBI	CTAG	1 cut(s)	479
GlaI	GCGC	1 cut(s)	21
GluI	GCNGC	3 cut(s)	6, 18, 821
HaeIII	GGCC	2 cut(s)	721, 823
HapII	CCGG	1 cut(s)	210
HhaI	GCGC	1 cut(s)	22
Hin1II	CATG	2 cut(s)	51, 639
Hin6I	GCGC	1 cut(s)	20
HinP1I	GCGC	1 cut(s)	20
HpaII	CCGG	1 cut(s)	210
HphI	GGTGA	2 cut(s)	301, 869
Hpy166II	GTNNAC	1 cut(s)	292
Hpy188I	TCNGA	2 cut(s)	662, 834
Hpy188III	TCNNGA	4 cut(s)	271, 325, 515, 599
Hpy8I	GTNNAC	1 cut(s)	292
HpyAV	CCTTC	3 cut(s)	98, 591, 732
HpyCH4III	ACNGT	2 cut(s)	222, 313
HpyCH4IV	ACGT	3 cut(s)	285, 360, 577
HpyCH4V	TGCA	3 cut(s)	196, 404, 551
HpyF10VI	GCNNNNNNNGC	4 cut(s)	14, 641, 782, 791
HpyF3I	CTNAG	4 cut(s)	235, 435, 462, 659
HpySE526I	ACGT	3 cut(s)	285, 360, 577
Hsp92II	CATG	2 cut(s)	51, 639
HspAI	GCGC	1 cut(s)	20
Kzo9I	GATC	1 cut(s)	647
LmnI	GCTCC	2 cut(s)	191, 517
Lsp1109I	GCAGC	1 cut(s)	4
MaeI	CTAG	1 cut(s)	479
MaeII	ACGT	3 cut(s)	285, 360, 577
MaeIII	GTNAC	1 cut(s)	409
MalI	GATC	1 cut(s)	649
MboI	GATC	1 cut(s)	647
MboII	GAAGA	5 cut(s)	124, 227, 254, 440, 923
MhlI	GDGCHC	1 cut(s)	188
MlyI	GAGTC	6 cut(s)	227, 452, 580, 598, 878, 934
MmeI	TCCRAC	1 cut(s)	912
MseI	TTAA	5 cut(s)	83, 354, 561, 677, 684
MspI	CCGG	1 cut(s)	210
MspR9I	CCNGG	1 cut(s)	211
MwoI	GCNNNNNNNGC	4 cut(s)	14, 641, 782, 791
NciI	CCSGG	1 cut(s)	211
NdeII	GATC	1 cut(s)	647
NlaIII	CATG	2 cut(s)	51, 639
NlaIV	GGNNCC	2 cut(s)	108, 305
NmuCI	GTSAC	1 cut(s)	409
NspV	TTCGAA	1 cut(s)	91
PfeI	GAWTC	4 cut(s)	511, 829, 860, 938
PflFI	GACNNNGTC	1 cut(s)	668
PkrI	GCNGC	3 cut(s)	7, 19, 822
PleI	GAGTC	6 cut(s)	227, 452, 580, 598, 878, 933
PpsI	GAGTC	6 cut(s)	227, 452, 580, 598, 878, 933
Ppu21I	YACGTR	1 cut(s)	286
PsiI	TTATAA	1 cut(s)	371
PspN4I	GGNNCC	2 cut(s)	108, 305
PspPI	GGNCC	3 cut(s)	106, 303, 719
PsyI	GACNNNGTC	1 cut(s)	668
RsaI	GTAC	1 cut(s)	284
RsaNI	GTAC	1 cut(s)	283
SaqAI	TTAA	5 cut(s)	83, 354, 561, 677, 684
SatI	GCNGC	3 cut(s)	6, 18, 821
Sau3AI	GATC	1 cut(s)	647
Sau96I	GGNCC	3 cut(s)	106, 303, 719
SchI	GAGTC	6 cut(s)	227, 452, 580, 598, 878, 934
ScrFI	CCNGG	1 cut(s)	211
SduI	GDGCHC	1 cut(s)	188
SfuI	TTCGAA	1 cut(s)	91
SinI	GGWCC	2 cut(s)	106, 303
SmlI	CTYRAG	1 cut(s)	269
SmoI	CTYRAG	1 cut(s)	269
SsiI	CCGC	3 cut(s)	5, 189, 820
SspMI	CTAG	1 cut(s)	479
StyD4I	CCNGG	1 cut(s)	209
StyI	CCWWGG	1 cut(s)	299
TaaI	ACNGT	2 cut(s)	222, 313
TaiI	ACGT	3 cut(s)	288, 363, 580
TaqI	TCGA	4 cut(s)	91, 174, 318, 584
TauI	GCSGC	2 cut(s)	8, 823
TfiI	GAWTC	4 cut(s)	511, 829, 860, 938
Tru1I	TTAA	5 cut(s)	83, 354, 561, 677, 684
Tru9I	TTAA	5 cut(s)	83, 354, 561, 677, 684
TscAI	CASTG	4 cut(s)	198, 243, 316, 831
TseFI	GTSAC	1 cut(s)	409
TseI	GCWGC	1 cut(s)	17
Tsp45I	GTSAC	1 cut(s)	409
TspDTI	ATGAA	1 cut(s)	912
TspRI	CASTG	4 cut(s)	198, 243, 316, 831
Tth111I	GACNNNGTC	1 cut(s)	668
VpaK11BI	GGWCC	2 cut(s)	106, 303
XapI	RAATTY	4 cut(s)	93, 452, 679, 836
XspI	CTAG	1 cut(s)	479

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