Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0002143

Physical Location & Seq

Genomic Coordinates Forward (+)

70506533 .. 70507934

Gene Structure 1402 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG529300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1047 bp

ATGGCGCTGAGGAGAAAATTGGGGGAGAGTTCGAATTTCAGCTGCAAAATGATGTTGAGCTTTTCGAGGTATTACAGCTCAAACAAAGTGGACTTAAAGAAGCTGAGGCCTATGATTCTGAAGAGAATCCAGGACCGAGCTAAGGACTATCCGGTGCAGAGCATGATACCAGTGGCCGAGGAGGTCCTTAATTCCCGGAGGCTTCTTATTCAAGGCATCTCTACCCTTCTCAAAGTGATCCCAGTTGTGGCCTGCAAGTTCTGTCCAGAAGTACACACTAGCGATAAAGGTCACTTAATTCAAACTTGTTGTGGTTTCAAACGTCGTGGCAGAAATCGGGTTCATGAGTGGATAACTGGTAGTTTGAAAGATGTACTTGTTCCAGTAGAGGCATTTCACTTGAAGCACATGTTCCAGGGTGTTATCAAACATAACCAAAGGTTTGATTATGACCGTGTTCCTGCAGTTGTTGAGCTGTGCTGGCAAGCAGGGGCAAATGATGAAAATCTGTATTCCGGTACTTGGAACCCAGAAAGTGATTGTGTTGCTGTTGAAGGAGCTGAGTCATTGTCACCTGCTGAACTCACTCTGGTTGCCAATGGAACTTTGAGGGCCTGGGAAATACTTAGAAATGGCGTGAAGAAACTGTTGATGGTTTATCCAGCAAAAGTGTGTAAAGACTGTTCAGAAGTCCATGTTGGGCCATCTGGGCATAAGGCGAGGCTTTGTGGACTTTTTAAGTATGAGCGTTGGCAAGGAACCCACTTTTGGAGAAAAGCATCTGTAAATGATCTTGTTCCTCCAAACATTGTATGGCGGAGGCGGCGTCAAGATCCTCCTGTGCTTTTGAATGAAGGAAGGGGCTATTACGGGCATGCTCCAGCCGTAGTAGAACTATGCACACAGGCAGGAGCTATTGTGCCTTCAAAGTATCGTTGTATGATGAAAGTGGAGGGTTTAACTTCAGTTGTAAATCAAGGTTTACCCCCTCCGCCATTTAACCTGACAGAACCATACAGGTTACTCCATCCGAAAGATCATTACTAA

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

39.56

Weight (kDa)

9.46

Isoelectric Point (pI)

51.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
APO_RNA-bind	PF05634	28 - 166	4.3e-42	APO RNA-binding
APO_RNA-bind	PF05634	194 - 308	5.4e-20	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
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	1 cut(s)	34
AcuI	CTGAAG	2 cut(s)	140, 948
AcyI	GRCGYC	1 cut(s)	826
AfaI	GTAC	3 cut(s)	273, 375, 520
AfiI	CCNNNNNNNGG	4 cut(s)	142, 247, 522, 768
AflIII	ACRYGT	1 cut(s)	408
AgsI	TTSAA	8 cut(s)	212, 302, 319, 367, 403, 554, 850, 927
AjnI	CCWGG	3 cut(s)	129, 414, 614
AjuI	GAANNNNNNNTTGG	4 cut(s)	681, 713, 751, 783
AluBI	AGCT	8 cut(s)	42, 60, 78, 103, 140, 475, 560, 914
AluI	AGCT	8 cut(s)	42, 60, 78, 103, 140, 475, 560, 914
AlwI	GGATC	2 cut(s)	232, 827
AoxI	GGCC	5 cut(s)	107, 174, 249, 612, 701
ApeKI	GCWGC	1 cut(s)	42
ApoI	RAATTY	1 cut(s)	34
AspLEI	GCGC	1 cut(s)	7
AspS9I	GGNCC	4 cut(s)	133, 184, 612, 701
AsuC2I	CCSGG	1 cut(s)	196
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
BbvI	GCAGC	1 cut(s)	29
BccI	CCATC	3 cut(s)	646, 712, 1035
BceAI	ACGGC	1 cut(s)	869
BciT130I	CCWGG	3 cut(s)	131, 416, 616
BcnI	CCSGG	1 cut(s)	196
BfaI	CTAG	1 cut(s)	279
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	2 cut(s)	43, 824
BlsI	GCNGC	2 cut(s)	44, 825
Bme1390I	CCNGG	4 cut(s)	131, 196, 416, 616
Bme18I	GGWCC	2 cut(s)	133, 184
BmgT120I	GGNCC	4 cut(s)	133, 184, 612, 701
BmiI	GGNNCC	2 cut(s)	527, 760
BmrFI	CCNGG	4 cut(s)	131, 196, 416, 616
BmrI	ACTGGG	1 cut(s)	236
BmsI	GCATC	2 cut(s)	225, 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	1 cut(s)	196
BsaBI	GATNNNNATC	1 cut(s)	504
BsaHI	GRCGYC	1 cut(s)	826
BsaJI	CCNNGG	3 cut(s)	177, 415, 615
BsaWI	WCCGGW	2 cut(s)	151, 515
BsaXI	ACNNNNNCTCC	4 cut(s)	811, 841, 903, 933
Bsc4I	CCNNNNNNNGG	4 cut(s)	142, 247, 522, 768
Bse1I	ACTGG	4 cut(s)	170, 242, 361, 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	4 cut(s)	142, 247, 522, 768
BseMII	CTCAG	2 cut(s)	95, 552
BseNI	ACTGG	4 cut(s)	170, 242, 361, 383
BseRI	GAGGAG	2 cut(s)	25, 194
BseXI	GCAGC	1 cut(s)	29
BsgI	GTGCAG	1 cut(s)	176
BshFI	GGCC	5 cut(s)	109, 176, 251, 614, 703
BsiSI	CCGG	3 cut(s)	152, 196, 516
BslI	CCNNNNNNNGG	4 cut(s)	142, 247, 522, 768
BsnI	GGCC	5 cut(s)	109, 176, 251, 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	5 cut(s)	109, 176, 251, 614, 703
BspCNI	CTCAG	2 cut(s)	96, 553
BspHI	TCATGA	1 cut(s)	343
BspLI	GGNNCC	2 cut(s)	527, 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	4 cut(s)	170, 242, 361, 383
BssECI	CCNNGG	3 cut(s)	177, 415, 615
BssMI	GATC	4 cut(s)	237, 790, 832, 1036
BssNI	GRCGYC	1 cut(s)	826
Bst2UI	CCWGG	3 cut(s)	131, 416, 616
Bst4CI	ACNGT	3 cut(s)	455, 648, 683
Bst6I	CTCTTC	1 cut(s)	116
BstACI	GRCGYC	1 cut(s)	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	1 cut(s)	7
BstKTI	GATC	4 cut(s)	240, 793, 835, 1039
BstMBI	GATC	4 cut(s)	237, 790, 832, 1036
BstMWI	GCNNNNNNNGC	3 cut(s)	481, 709, 823
BstNI	CCWGG	3 cut(s)	131, 416, 616
BstNSI	RCATGY	2 cut(s)	412, 878
BstSCI	CCNGG	4 cut(s)	129, 194, 414, 614
BstSFI	CTRYAG	1 cut(s)	462
BstV1I	GCAGC	1 cut(s)	29
BstX2I	RGATCY	1 cut(s)	832
BstYI	RGATCY	1 cut(s)	832
BsuRI	GGCC	5 cut(s)	109, 176, 251, 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	1 cut(s)	7
Cfr13I	GGNCC	4 cut(s)	133, 184, 612, 701
CseI	GACGC	1 cut(s)	815
Csp6I	GTAC	3 cut(s)	272, 374, 519
CspCI	CAANNNNNGTGG	4 cut(s)	69, 104, 307, 342
CviAII	CATG	5 cut(s)	163, 344, 409, 695, 875
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
FaeI	CATG	5 cut(s)	166, 347, 412, 698, 878
FalI	AAGNNNNNCTT	2 cut(s)	360, 392
FatI	CATG	5 cut(s)	162, 343, 408, 694, 874
Fnu4HI	GCNGC	2 cut(s)	43, 824
FokI	GGATG	1 cut(s)	1014
Fsp4HI	GCNGC	2 cut(s)	43, 824
FspBI	CTAG	1 cut(s)	279
GlaI	GCGC	1 cut(s)	6
GluI	GCNGC	2 cut(s)	43, 824
GsuI	CTGGAG	1 cut(s)	864
HaeII	RGCGCY	1 cut(s)	8
HaeIII	GGCC	5 cut(s)	109, 176, 251, 614, 703
HapII	CCGG	3 cut(s)	152, 196, 516
HgaI	GACGC	1 cut(s)	815
HhaI	GCGC	1 cut(s)	7
Hin1I	GRCGYC	1 cut(s)	826
Hin1II	CATG	5 cut(s)	166, 347, 412, 698, 878
Hin6I	GCGC	1 cut(s)	5
HinP1I	GCGC	1 cut(s)	5
HinfI	GANTC	3 cut(s)	115, 126, 563
HpaII	CCGG	3 cut(s)	152, 196, 516
HphI	GGTGA	1 cut(s)	564
Hpy166II	GTNNAC	4 cut(s)	91, 274, 731, 983
Hpy188I	TCNGA	3 cut(s)	120, 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	5 cut(s)	236, 548, 848, 852, 933
HpyCH4III	ACNGT	3 cut(s)	455, 648, 683
HpyCH4IV	ACGT	1 cut(s)	322
HpyCH4V	TGCA	5 cut(s)	45, 157, 255, 464, 900
HpyF10VI	GCNNNNNNNGC	3 cut(s)	481, 709, 823
HpyF3I	CTNAG	5 cut(s)	8, 104, 141, 561, 626
HpySE526I	ACGT	1 cut(s)	322
Hsp92I	GRCGYC	1 cut(s)	826
Hsp92II	CATG	5 cut(s)	166, 347, 412, 698, 878
HspAI	GCGC	1 cut(s)	5
Kzo9I	GATC	4 cut(s)	237, 790, 832, 1036
LmnI	GCTCC	3 cut(s)	557, 883, 911
Lsp1109I	GCAGC	1 cut(s)	29
LweI	GCATC	2 cut(s)	225, 788
MaeI	CTAG	1 cut(s)	279
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	4 cut(s)	17, 34, 190, 297
MlyI	GAGTC	1 cut(s)	572
MseI	TTAA	6 cut(s)	95, 189, 296, 738, 959, 999
MspA1I	CMGCKG	1 cut(s)	42
MspI	CCGG	3 cut(s)	152, 196, 516
MspR9I	CCNGG	4 cut(s)	131, 196, 416, 616
MvaI	CCWGG	3 cut(s)	131, 416, 616
MwoI	GCNNNNNNNGC	3 cut(s)	481, 709, 823
NciI	CCSGG	1 cut(s)	196
NdeII	GATC	4 cut(s)	237, 790, 832, 1036
NlaIII	CATG	5 cut(s)	166, 347, 412, 698, 878
NlaIV	GGNNCC	2 cut(s)	527, 760
NmeAIII	GCCGAG	1 cut(s)	202
NmuCI	GTSAC	2 cut(s)	290, 570
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	2 cut(s)	115, 126
PfoI	TCCNGGA	2 cut(s)	129, 194
PkrI	GCNGC	2 cut(s)	44, 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	2 cut(s)	527, 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
PvuII	CAGCTG	1 cut(s)	42
RsaI	GTAC	3 cut(s)	273, 375, 520
RsaNI	GTAC	3 cut(s)	272, 374, 519
SaqAI	TTAA	6 cut(s)	95, 189, 296, 738, 959, 999
SatI	GCNGC	2 cut(s)	43, 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	4 cut(s)	131, 196, 416, 616
SfaNI	GCATC	2 cut(s)	225, 788
SfcI	CTRYAG	1 cut(s)	462
SfuI	TTCGAA	1 cut(s)	32
SinI	GGWCC	2 cut(s)	133, 184
SphI	GCATGC	1 cut(s)	878
Sse9I	AATT	4 cut(s)	17, 34, 190, 297
SseBI	AGGCCT	1 cut(s)	109
SsiI	CCGC	3 cut(s)	817, 823, 992
SspMI	CTAG	1 cut(s)	279
StuI	AGGCCT	1 cut(s)	109
StyD4I	CCNGG	4 cut(s)	129, 194, 414, 614
TaaI	ACNGT	3 cut(s)	455, 648, 683
TaiI	ACGT	1 cut(s)	325
TaqI	TCGA	2 cut(s)	32, 65
TaqII	GACCGA	1 cut(s)	150
TasI	AATT	4 cut(s)	17, 34, 190, 297
TatI	WGTACW	2 cut(s)	271, 373
TauI	GCSGC	1 cut(s)	826
TfiI	GAWTC	2 cut(s)	115, 126
Tru1I	TTAA	6 cut(s)	95, 189, 296, 738, 959, 999
Tru9I	TTAA	6 cut(s)	95, 189, 296, 738, 959, 999
TscAI	CASTG	1 cut(s)	177
TseFI	GTSAC	2 cut(s)	290, 570
TseI	GCWGC	1 cut(s)	42
Tsp45I	GTSAC	2 cut(s)	290, 570
TspDTI	ATGAA	4 cut(s)	332, 516, 867, 959
TspRI	CASTG	1 cut(s)	177
VpaK11BI	GGWCC	2 cut(s)	133, 184
XapI	RAATTY	1 cut(s)	34
XceI	RCATGY	2 cut(s)	412, 878
XcmI	CCANNNNNNNNNTGG	1 cut(s)	810
XspI	CTAG	1 cut(s)	279

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