Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0002143

Physical Location & Seq

Genomic Coordinates Reverse (-)

41080542 .. 41087450

Gene Structure 6909 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G028060.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1047 bp

ATGGCGCTGAGGAGAAAATTGGGGGAGAGTTCGAATTTCAGTTGCAAAATGATGTTGAGCTTTTCGAGGTATTACAGCTCAAACAAAGTGGACTTAAAGAAGCTGAGGCCTATGATTCTGAAGAGAATCCAGGACCGAGCTAAGGACTATCCGGTGCAGAGCATGATACCAGTGGCCGAGGAGGTCCTTAATTCCCGGAGGCTTCTTATTCAAGGCGTCTCTACCCTCCTCAAAGTGATCCCAGTTGTGGCTTGCAAATTCTGTCCAGAAGTACACATTAGCGATAAAGGTCACTTAATTCAGACTTGTTGTGGTTTCAAACGTCGTGGCAGAAACCGGGTTCATGAGTGGATAACTAGTAGTTTGAAAGATGTACTTGTTCCAGTAGAGGCATTTCACTTGAAGCACATGTTCCAGGGTGTTATCAAACATAACCAAAGGTTTGATTATGACCGTGTTCCTGCAGTTGTTGAGTTGTGCTGGCAAGCAAGGGCAAATGATGAGAATCTGTATTCTGGTACTATGAACCTAGAAAGTGATTGTGTTGCTGTTGAAGGAGCTGAGTCATTGTCACCTGCTGAACTCACTCTGGTTGCCAATGGAACTTTGAGGGCCTGGGAAATACTTAGAAATGGCGTGAAGAAATTGTTGATGGTTTATCCAGCAAAAGTGTGTAAAGACTGTTCAGAAGTCCATGTTGGGCCATCTGGGCATAAGGCGAGGCTTTGTGGACTTTTTAAGTATGAGCGTTGGCAAGGAACCCTCTTTTGGAGAAAAGCATCTGTAAATGATCTTGTTCCTCCAAACATTGTATGGCGGAGGCGGCGTCAAGATCCTCCTGTGCTTTTGAATGAAGGAAGGGGCTATTACGGGCATGCTCCAGCAGTAGTAGAACTATGCGCACAGTCAGGTGCTATTGTGCCTTCAAAGTATCGTTGTATGATGAAAGTGGAGGGTTTAACTTCAGTTGTAAATCAAGGTTTACCCCCTCCGCCATTTAACCTGACAGAACCATACAGGTTACTCCATCCGAAAGATCATGTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

APO_RNA-bind

Protein Analysis

348

Amino Acids

39.55

Weight (kDa)

9.52

Isoelectric Point (pI)

53.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
APO_RNA-bind	PF05634	28 - 164	2.8e-41	APO RNA-binding
APO_RNA-bind	PF05634	194 - 308	1e-17	APO RNA-binding

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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: OG0002143)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G21740
fragaria_vesca	FvH4_6g43470 FvH4_6g43470
malus_domestica	MD01G1026000.v1.1 MD09G1106100.v1.1 MD09G1106200.v1.1 MD12G1177800.v1.1 MD12G1178000.v1.1 MD17G1094000.v1.1
prunus_persica	Prupe.3G219400_v2.0.a1 Prupe.3G219400_v2.0.a1 Prupe.8G006000_v2.0.a1
pyrus_communis	pycom01g05430 pycom09g02880 pycom09g04290 pycom12g16820 pycom17g09080
rosa_chinensis	RchiOBHm_Chr2g0159941 RchiOBHm_Chr5g0074711
rosa_laevigata	RLG00000021186 RLG00000022621 RLG00000036499
rosa_multiflora	Rmu_sc0000909.1_g000025 Rmu_sc0002508.1_g000037 Rmu_sc0012797.1_g000002 Rmu_sc0019386.1_g000001 Rmu_sc0029076.1_g000003
rosa_roxburghii	Rroxscaffold_1G00006850 Rroxscaffold_2G00090140
rosa_rugosa	Rorug02G0479200 Rorug02G0479200 Rorug02G0479300
rosa_samantha	Rh2AG545900 Rh2BG559200 Rh2CG529300 Rh2DG567900 Rh3BG356500 Rh5AG490900 Rh5BG512200 Rh5CG535900 Rh5DG524600
rosa_wichuraiana	Rw2G045150 Rw3G028060 Rw5G045480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	583
Acc16I	TGCGCA	1 cut(s)	901
Acc36I	ACCTGC	1 cut(s)	583
AciI	CCGC	3 cut(s)	817, 823, 992
AclWI	GGATC	2 cut(s)	232, 827
AcoI	YGGCCR	1 cut(s)	174
AcsI	RAATTY	2 cut(s)	34, 257
AcuI	CTGAAG	2 cut(s)	140, 948
AcyI	GRCGYC	2 cut(s)	216, 826
AfaI	GTAC	3 cut(s)	273, 375, 520
AfiI	CCNNNNNNNGG	3 cut(s)	142, 247, 768
AflIII	ACRYGT	1 cut(s)	408
AgsI	TTSAA	7 cut(s)	212, 319, 367, 403, 554, 850, 927
AhlI	ACTAGT	1 cut(s)	356
AjnI	CCWGG	3 cut(s)	129, 414, 614
AjuI	GAANNNNNNNTTGG	4 cut(s)	681, 713, 751, 783
AluBI	AGCT	5 cut(s)	60, 78, 103, 140, 560
AluI	AGCT	5 cut(s)	60, 78, 103, 140, 560
Alw26I	GTCTC	1 cut(s)	223
AlwI	GGATC	2 cut(s)	232, 827
AoxI	GGCC	4 cut(s)	107, 174, 612, 701
ApoI	RAATTY	2 cut(s)	34, 257
AspLEI	GCGC	2 cut(s)	7, 902
AspS9I	GGNCC	4 cut(s)	133, 184, 612, 701
AsuC2I	CCSGG	2 cut(s)	196, 338
AsuHPI	GGTGA	1 cut(s)	564
AsuII	TTCGAA	1 cut(s)	32
AvaII	GGWCC	2 cut(s)	133, 184
BbvCI	CCTCAGC	2 cut(s)	8, 104
BccI	CCATC	3 cut(s)	646, 712, 1035
BciT130I	CCWGG	3 cut(s)	131, 416, 616
BcnI	CCSGG	2 cut(s)	196, 338
BcoDI	GTCTC	1 cut(s)	223
BcuI	ACTAGT	1 cut(s)	356
BfaI	CTAG	2 cut(s)	357, 530
BfmI	CTRYAG	1 cut(s)	462
BfoI	RGCGCY	1 cut(s)	8
BfuAI	ACCTGC	1 cut(s)	583
BglI	GCCNNNNNGGC	1 cut(s)	709
BisI	GCNGC	1 cut(s)	824
BlsI	GCNGC	1 cut(s)	825
Bme1390I	CCNGG	5 cut(s)	131, 196, 338, 416, 616
Bme18I	GGWCC	2 cut(s)	133, 184
BmgT120I	GGNCC	4 cut(s)	133, 184, 612, 701
BmiI	GGNNCC	1 cut(s)	760
BmrFI	CCNGG	5 cut(s)	131, 196, 338, 416, 616
BmrI	ACTGGG	1 cut(s)	236
BmsI	GCATC	1 cut(s)	788
BmuI	ACTGGG	1 cut(s)	236
BpmI	CTGGAG	1 cut(s)	864
Bpu10I	CCTNAGC	3 cut(s)	8, 104, 141
Bpu14I	TTCGAA	1 cut(s)	32
BpuMI	CCSGG	2 cut(s)	196, 338
BsaBI	GATNNNNATC	1 cut(s)	504
BsaHI	GRCGYC	2 cut(s)	216, 826
BsaJI	CCNNGG	3 cut(s)	177, 415, 615
BsaWI	WCCGGW	1 cut(s)	151
BsaXI	ACNNNNNCTCC	2 cut(s)	811, 841
Bsc4I	CCNNNNNNNGG	3 cut(s)	142, 247, 768
Bse1I	ACTGG	3 cut(s)	170, 242, 383
Bse8I	GATNNNNATC	1 cut(s)	504
BseBI	CCWGG	3 cut(s)	131, 416, 616
BseDI	CCNNGG	3 cut(s)	177, 415, 615
BseGI	GGATG	1 cut(s)	1027
BseJI	GATNNNNATC	1 cut(s)	504
BseLI	CCNNNNNNNGG	3 cut(s)	142, 247, 768
BseMII	CTCAG	2 cut(s)	95, 552
BseNI	ACTGG	3 cut(s)	170, 242, 383
BseRI	GAGGAG	3 cut(s)	25, 194, 218
BsgI	GTGCAG	1 cut(s)	176
BshFI	GGCC	4 cut(s)	109, 176, 614, 703
BsiSI	CCGG	3 cut(s)	152, 196, 337
BslI	CCNNNNNNNGG	3 cut(s)	142, 247, 768
BsmAI	GTCTC	1 cut(s)	223
BsmBI	CGTCTC	1 cut(s)	223
BsnI	GGCC	4 cut(s)	109, 176, 614, 703
Bsp119I	TTCGAA	1 cut(s)	32
Bsp143I	GATC	4 cut(s)	237, 790, 832, 1036
BspACI	CCGC	3 cut(s)	817, 823, 992
BspANI	GGCC	4 cut(s)	109, 176, 614, 703
BspCNI	CTCAG	2 cut(s)	96, 553
BspHI	TCATGA	1 cut(s)	343
BspLI	GGNNCC	1 cut(s)	760
BspMAI	CTGCAG	1 cut(s)	466
BspMI	ACCTGC	1 cut(s)	583
BspPI	GGATC	2 cut(s)	232, 827
BspT104I	TTCGAA	1 cut(s)	32
BsrI	ACTGG	3 cut(s)	170, 242, 383
BssECI	CCNNGG	3 cut(s)	177, 415, 615
BssMI	GATC	4 cut(s)	237, 790, 832, 1036
BssNI	GRCGYC	2 cut(s)	216, 826
Bst2UI	CCWGG	3 cut(s)	131, 416, 616
Bst4CI	ACNGT	3 cut(s)	455, 683, 906
Bst6I	CTCTTC	1 cut(s)	116
BstACI	GRCGYC	2 cut(s)	216, 826
BstBI	TTCGAA	1 cut(s)	32
BstC8I	GCNNGC	4 cut(s)	253, 482, 486, 876
BstDEI	CTNAG	5 cut(s)	8, 104, 141, 561, 626
BstF5I	GGATG	1 cut(s)	1027
BstH2I	RGCGCY	1 cut(s)	8
BstHHI	GCGC	2 cut(s)	7, 902
BstKTI	GATC	4 cut(s)	240, 793, 835, 1039
BstMAI	GTCTC	1 cut(s)	223
BstMBI	GATC	4 cut(s)	237, 790, 832, 1036
BstMWI	GCNNNNNNNGC	2 cut(s)	709, 823
BstNI	CCWGG	3 cut(s)	131, 416, 616
BstNSI	RCATGY	2 cut(s)	412, 878
BstSCI	CCNGG	5 cut(s)	129, 194, 336, 414, 614
BstSFI	CTRYAG	1 cut(s)	462
BstX2I	RGATCY	1 cut(s)	832
BstYI	RGATCY	1 cut(s)	832
BsuRI	GGCC	4 cut(s)	109, 176, 614, 703
BtsCI	GGATG	1 cut(s)	1027
BtsIMutI	CAGTG	1 cut(s)	177
BveI	ACCTGC	1 cut(s)	583
Cac8I	GCNNGC	4 cut(s)	253, 482, 486, 876
CciI	TCATGA	1 cut(s)	343
CfoI	GCGC	2 cut(s)	7, 902
Cfr13I	GGNCC	4 cut(s)	133, 184, 612, 701
CseI	GACGC	2 cut(s)	205, 815
Csp6I	GTAC	3 cut(s)	272, 374, 519
CspCI	CAANNNNNGTGG	4 cut(s)	69, 104, 307, 342
CviAII	CATG	6 cut(s)	163, 344, 409, 695, 875, 1040
CviQI	GTAC	3 cut(s)	272, 374, 519
DdeI	CTNAG	5 cut(s)	8, 104, 141, 561, 626
DpnI	GATC	4 cut(s)	239, 792, 834, 1038
DpnII	GATC	4 cut(s)	237, 790, 832, 1036
EaeI	YGGCCR	1 cut(s)	174
Eam1104I	CTCTTC	1 cut(s)	116
EarI	CTCTTC	1 cut(s)	116
EciI	GGCGGA	2 cut(s)	832, 981
Eco147I	AGGCCT	1 cut(s)	109
Eco47I	GGWCC	2 cut(s)	133, 184
Eco57I	CTGAAG	2 cut(s)	140, 948
EcoO109I	RGGNCCY	2 cut(s)	184, 612
EcoRII	CCWGG	3 cut(s)	129, 414, 614
Esp3I	CGTCTC	1 cut(s)	223
FaeI	CATG	6 cut(s)	166, 347, 412, 698, 878, 1043
FalI	AAGNNNNNCTT	2 cut(s)	360, 392
FatI	CATG	6 cut(s)	162, 343, 408, 694, 874, 1039
Fnu4HI	GCNGC	1 cut(s)	824
FokI	GGATG	1 cut(s)	1014
Fsp4HI	GCNGC	1 cut(s)	824
FspAI	RTGCGCAY	1 cut(s)	901
FspBI	CTAG	2 cut(s)	357, 530
FspI	TGCGCA	1 cut(s)	901
GlaI	GCGC	2 cut(s)	6, 901
GluI	GCNGC	1 cut(s)	824
GsuI	CTGGAG	1 cut(s)	864
HaeII	RGCGCY	1 cut(s)	8
HaeIII	GGCC	4 cut(s)	109, 176, 614, 703
HapII	CCGG	3 cut(s)	152, 196, 337
HgaI	GACGC	2 cut(s)	205, 815
HhaI	GCGC	2 cut(s)	7, 902
Hin1I	GRCGYC	2 cut(s)	216, 826
Hin1II	CATG	6 cut(s)	166, 347, 412, 698, 878, 1043
Hin6I	GCGC	2 cut(s)	5, 900
HinP1I	GCGC	2 cut(s)	5, 900
HinfI	GANTC	4 cut(s)	115, 126, 505, 563
HpaII	CCGG	3 cut(s)	152, 196, 337
HphI	GGTGA	1 cut(s)	564
Hpy166II	GTNNAC	4 cut(s)	91, 274, 731, 983
Hpy188I	TCNGA	4 cut(s)	120, 303, 688, 1032
Hpy188III	TCNNGA	3 cut(s)	266, 344, 830
Hpy8I	GTNNAC	4 cut(s)	91, 274, 731, 983
Hpy99I	CGWCG	1 cut(s)	327
HpyAV	CCTTC	4 cut(s)	548, 848, 852, 933
HpyCH4III	ACNGT	3 cut(s)	455, 683, 906
HpyCH4IV	ACGT	1 cut(s)	322
HpyCH4V	TGCA	4 cut(s)	45, 157, 255, 464
HpyF10VI	GCNNNNNNNGC	2 cut(s)	709, 823
HpyF3I	CTNAG	5 cut(s)	8, 104, 141, 561, 626
HpySE526I	ACGT	1 cut(s)	322
Hsp92I	GRCGYC	2 cut(s)	216, 826
Hsp92II	CATG	6 cut(s)	166, 347, 412, 698, 878, 1043
HspAI	GCGC	2 cut(s)	5, 900
Kzo9I	GATC	4 cut(s)	237, 790, 832, 1036
LmnI	GCTCC	2 cut(s)	557, 883
LweI	GCATC	1 cut(s)	788
MaeI	CTAG	2 cut(s)	357, 530
MaeII	ACGT	1 cut(s)	322
MaeIII	GTNAC	3 cut(s)	290, 570, 1020
MalI	GATC	4 cut(s)	239, 792, 834, 1038
MboI	GATC	4 cut(s)	237, 790, 832, 1036
MboII	GAAGA	2 cut(s)	133, 652
MflI	RGATCY	1 cut(s)	832
MluCI	AATT	6 cut(s)	17, 34, 190, 257, 297, 644
MlyI	GAGTC	1 cut(s)	572
MseI	TTAA	7 cut(s)	95, 189, 296, 738, 959, 999, 1045
MspI	CCGG	3 cut(s)	152, 196, 337
MspR9I	CCNGG	5 cut(s)	131, 196, 338, 416, 616
MvaI	CCWGG	3 cut(s)	131, 416, 616
MwoI	GCNNNNNNNGC	2 cut(s)	709, 823
NciI	CCSGG	2 cut(s)	196, 338
NdeII	GATC	4 cut(s)	237, 790, 832, 1036
NlaIII	CATG	6 cut(s)	166, 347, 412, 698, 878, 1043
NlaIV	GGNNCC	1 cut(s)	760
NmeAIII	GCCGAG	1 cut(s)	202
NmuCI	GTSAC	2 cut(s)	290, 570
NsbI	TGCGCA	1 cut(s)	901
NspI	RCATGY	2 cut(s)	412, 878
NspV	TTCGAA	1 cut(s)	32
PaeI	GCATGC	1 cut(s)	878
PagI	TCATGA	1 cut(s)	343
PaqCI	CACCTGC	1 cut(s)	583
PceI	AGGCCT	1 cut(s)	109
PciI	ACATGT	1 cut(s)	408
PfeI	GAWTC	3 cut(s)	115, 126, 505
PfoI	TCCNGGA	2 cut(s)	129, 194
PkrI	GCNGC	1 cut(s)	825
PleI	GAGTC	1 cut(s)	571
PpsI	GAGTC	1 cut(s)	571
PpuMI	RGGWCCY	1 cut(s)	184
PscI	ACATGT	1 cut(s)	408
Psp5II	RGGWCCY	1 cut(s)	184
Psp6I	CCWGG	3 cut(s)	129, 414, 614
PspGI	CCWGG	3 cut(s)	129, 414, 614
PspN4I	GGNNCC	1 cut(s)	760
PspPI	GGNCC	4 cut(s)	133, 184, 612, 701
PspPPI	RGGWCCY	1 cut(s)	184
PsrI	GAACNNNNNNTAC	2 cut(s)	667, 699
PstI	CTGCAG	1 cut(s)	466
PsuI	RGATCY	1 cut(s)	832
RsaI	GTAC	3 cut(s)	273, 375, 520
RsaNI	GTAC	3 cut(s)	272, 374, 519
SaqAI	TTAA	7 cut(s)	95, 189, 296, 738, 959, 999, 1045
SatI	GCNGC	1 cut(s)	824
Sau3AI	GATC	4 cut(s)	237, 790, 832, 1036
Sau96I	GGNCC	4 cut(s)	133, 184, 612, 701
SchI	GAGTC	1 cut(s)	572
ScrFI	CCNGG	5 cut(s)	131, 196, 338, 416, 616
SfaNI	GCATC	1 cut(s)	788
SfcI	CTRYAG	1 cut(s)	462
SfuI	TTCGAA	1 cut(s)	32
SinI	GGWCC	2 cut(s)	133, 184
SpeI	ACTAGT	1 cut(s)	356
SphI	GCATGC	1 cut(s)	878
Sse9I	AATT	6 cut(s)	17, 34, 190, 257, 297, 644
SseBI	AGGCCT	1 cut(s)	109
SsiI	CCGC	3 cut(s)	817, 823, 992
SspMI	CTAG	2 cut(s)	357, 530
StuI	AGGCCT	1 cut(s)	109
StyD4I	CCNGG	5 cut(s)	129, 194, 336, 414, 614
TaaI	ACNGT	3 cut(s)	455, 683, 906
TaiI	ACGT	1 cut(s)	325
TaqI	TCGA	2 cut(s)	32, 65
TaqII	GACCGA	1 cut(s)	150
TasI	AATT	6 cut(s)	17, 34, 190, 257, 297, 644
TatI	WGTACW	2 cut(s)	271, 373
TauI	GCSGC	1 cut(s)	826
TfiI	GAWTC	3 cut(s)	115, 126, 505
Tru1I	TTAA	7 cut(s)	95, 189, 296, 738, 959, 999, 1045
Tru9I	TTAA	7 cut(s)	95, 189, 296, 738, 959, 999, 1045
TscAI	CASTG	1 cut(s)	177
TseFI	GTSAC	2 cut(s)	290, 570
Tsp45I	GTSAC	2 cut(s)	290, 570
TspDTI	ATGAA	4 cut(s)	332, 539, 867, 959
TspRI	CASTG	1 cut(s)	177
VpaK11BI	GGWCC	2 cut(s)	133, 184
XapI	RAATTY	2 cut(s)	34, 257
XceI	RCATGY	2 cut(s)	412, 878
XcmI	CCANNNNNNNNNTGG	1 cut(s)	810
XspI	CTAG	2 cut(s)	357, 530

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