Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0000089

Physical Location & Seq

Genomic Coordinates Reverse (-)

9751390 .. 9751966

Gene Structure 577 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG058400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 384 bp

ATGCAGGACAGGATAAATCATTTGGAGAACTTGGTCAATAAATTAGTGAAAAATAAGATTCAACAAAGTGAGGAAGAGGAGAAATCATCTCCAATGAGCGTCAACACCAACTCATTGAATAAGTGCAAGCTACTAGATTGGAGCGGAACAGAGGACATTGTTGCTGAAGGTCGTTGGGTTTCAAGTGATCCAGAAGAGTCTGTCAATGAAATTCCCTTAGGACCTAATGCAATGAAAGTCTTGGTTGATATCTCAAATAAACCAGATGCTTTTCTTTGGAGGCCTACATCTAATATGTTTTATTTTCAACATGCTCAAGGTAAAACAATAGCATGGCCTGCTGACAGAGTTATTTTTCAAATGGATCAGCAGTCTGAGGAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000280 GO:0003674 GO:0003676 GO:0003677 GO:0003824 GO:0004518 GO:0004519 GO:0004520 GO:0004527 GO:0004536 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006281 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0007059 GO:0007127 GO:0007129 GO:0008150 GO:0008152 GO:0008409 GO:0009987 GO:0016043 GO:0016787 GO:0016788 GO:0016888 GO:0016893 GO:0017108 GO:0022402 GO:0022414 GO:0033554 GO:0034641 GO:0036297 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044464 GO:0045132 GO:0045143 GO:0046483 GO:0048256 GO:0048285 GO:0050896 GO:0051276 GO:0051321 GO:0051716 GO:0061982 GO:0070192 GO:0070336 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:0098813 GO:0140013 GO:0140097 GO:1901360 GO:1901363 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko03460 map03460

Pfam Domains

Protein Families

HIRAN VRR_NUC

Protein Analysis

127

Amino Acids

14.56

Weight (kDa)

4.83

Isoelectric Point (pI)

61.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DUF8039	PF26133	37 - 119	4e-06	Domain of unknown function (DUF8039)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0000089)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G42700
fragaria_vesca	FvH4_1g29233 FvH4_1g29373 FvH4_2g07142 FvH4_2g08144 FvH4_3g21852 FvH4_3g29221 FvH4_3g32731 FvH4_3g45091 FvH4_4g01311 FvH4_4g03220 FvH4_4g06631 FvH4_4g10040 FvH4_4g10363 FvH4_4g12371 FvH4_4g15323 FvH4_4g15580 FvH4_4g16173 FvH4_5g18843 FvH4_5g23172 FvH4_5g27660 FvH4_5g37213 FvH4_6g17382 FvH4_6g20172 FvH4_6g20173 FvH4_6g21082 FvH4_6g35541
malus_domestica	MD02G1251500.v1.1 MD02G1252300.v1.1
pyrus_communis	pycom01g02580 pycom01g08340 pycom01g08610 pycom11g01520 pycom12g04790
rosa_chinensis	RchiOBHm_Chr0c16g0499821 RchiOBHm_Chr0c16g0499871 RchiOBHm_Chr0c28g0501051 RchiOBHm_Chr1g0313071 RchiOBHm_Chr1g0315701 RchiOBHm_Chr1g0318841 RchiOBHm_Chr1g0326261 RchiOBHm_Chr1g0357501 RchiOBHm_Chr2g0133581 RchiOBHm_Chr2g0134701 RchiOBHm_Chr2g0152521 RchiOBHm_Chr3g0455961 RchiOBHm_Chr3g0458231 RchiOBHm_Chr3g0460621 RchiOBHm_Chr3g0492791 RchiOBHm_Chr3g0492801 RchiOBHm_Chr3g0496631 RchiOBHm_Chr3g0496641 RchiOBHm_Chr4g0386541 RchiOBHm_Chr4g0415851 RchiOBHm_Chr4g0420561 RchiOBHm_Chr4g0422721 RchiOBHm_Chr4g0433611 RchiOBHm_Chr4g0444771 RchiOBHm_Chr5g0033771 RchiOBHm_Chr5g0059371 RchiOBHm_Chr5g0060161 RchiOBHm_Chr5g0064791 RchiOBHm_Chr5g0064801 RchiOBHm_Chr6g0269851 RchiOBHm_Chr6g0280321 RchiOBHm_Chr6g0287111 RchiOBHm_Chr7g0177401 RchiOBHm_Chr7g0200581 RchiOBHm_Chr7g0200591 RchiOBHm_Chr7g0231331
rosa_laevigata	RLG00000001052 RLG00000001162 RLG00000002271 RLG00000002679 RLG00000007743 RLG00000009828 RLG00000009891 RLG00000009895 RLG00000009898 RLG00000017129 RLG00000018019 RLG00000018832 RLG00000018849 RLG00000019409 RLG00000019469 RLG00000019633 RLG00000019682 RLG00000020304 RLG00000024132 RLG00000027333 RLG00000028566 RLG00000031685 RLG00000031699 RLG00000034060 RLG00000034663 RLG00000035858 RLG00000036314
rosa_multiflora	Rmu_sc0000178.1_g000001 Rmu_sc0000847.1_g000010 Rmu_sc0000861.1_g000033 Rmu_sc0001043.1_g000008 Rmu_sc0001499.1_g000050 Rmu_sc0001572.1_g000045 Rmu_sc0001768.1_g000043 Rmu_sc0001824.1_g000038 Rmu_sc0002037.1_g000022 Rmu_sc0002042.1_g000011 Rmu_sc0002322.1_g000001 Rmu_sc0002401.1_g000002 Rmu_sc0002438.1_g000018 Rmu_sc0002648.1_g000010 Rmu_sc0002784.1_g000047 Rmu_sc0003776.1_g000004 Rmu_sc0003780.1_g000005 Rmu_sc0004140.1_g000039 Rmu_sc0004596.1_g000033 Rmu_sc0004866.1_g000040 Rmu_sc0004964.1_g000011 Rmu_sc0005065.1_g000039 Rmu_sc0005137.1_g000032 Rmu_sc0005294.1_g000031 Rmu_sc0005426.1_g000005 Rmu_sc0005789.1_g000017 Rmu_sc0007891.1_g000008 Rmu_sc0008554.1_g000002 Rmu_sc0011363.1_g000002 Rmu_sc0020081.1_g000001 Rmu_ssc0000079.1_g000015
rosa_roxburghii	Rroxscaffold_1G00010060 Rroxscaffold_1G00013840 Rroxscaffold_1G00031540 Rroxscaffold_1G00039640 Rroxscaffold_1G00048530 Rroxscaffold_2G00093720 Rroxscaffold_2G00093730 Rroxscaffold_2G00109830 Rroxscaffold_2G00109890 Rroxscaffold_2G00149920 Rroxscaffold_3G00274720 Rroxscaffold_4G00300310 Rroxscaffold_5G00347510 Rroxscaffold_5G00360920 Rroxscaffold_5G00362090 Rroxscaffold_5G00368170 Rroxscaffold_6G00391580 Rroxscaffold_7G00181720 Rroxscaffold_7G00209870
rosa_rugosa	Rorug01G0071800 Rorug01G0071900 Rorug01G0072000 Rorug01G0072100 Rorug01G0084700 Rorug01G0104500 Rorug01G0104500 Rorug01G0134900.1 Rorug01G0135000.1 Rorug01G0183500 Rorug01G0256500 Rorug01G0312300 Rorug01G0312400 Rorug01G0351500 Rorug01G0384100 Rorug02G0039300 Rorug02G0319100 Rorug02G0319200 Rorug02G0319300 Rorug02G0461700 Rorug02G0531700 Rorug02G0617600 Rorug03G0155300 Rorug03G0190400 Rorug03G0248900 Rorug03G0249000 Rorug05G0141900 Rorug05G0325500 Rorug05G0325600 Rorug05G0369600 Rorug05G0490000 Rorug05G0490100.1 Rorug06G0009300 Rorug06G0035500 Rorug06G0082200 Rorug06G0133600 Rorug06G0133700 Rorug06G0149500 Rorug06G0149600 Rorug06G0149700 Rorug06G0351300 Rorug06G0443300 Rorug06G0443400 Rorug06G0443500 Rorug06G0443500 Rorug06G0443500 Rorug06G0480000 Rorug07G0260700 Rorug07G0260800 Rorug07G0289600 Rorug07G0289700 Rorug07G0319200 Rorug07G0319300
rosa_samantha	Rh1AG098300 Rh1BG003900 Rh1BG262700 Rh1CG054000 Rh1CG054100 Rh1CG054200 Rh1CG232800 Rh1DG058300 Rh1DG058400 Rh1DG058500 Rh1DG085300 Rh1DG137700 Rh2AG234800 Rh2BG248300 Rh2CG045400 Rh2CG239300 Rh2CG239400 Rh2CG326600 Rh2CG349000 Rh2CG355400 Rh2CG402000 Rh2DG001000 Rh2DG242300 Rh3AG001600 Rh3AG306500 Rh3BG373600 Rh3CG001300 Rh3CG365600 Rh4AG013600 Rh4AG178000 Rh4AG198400 Rh4AG198600 Rh4AG416100 Rh4AG416300 Rh4BG029700 Rh4BG138600 Rh4BG150700 Rh4BG196400 Rh4BG427400 Rh4BG427600 Rh4CG442400 Rh4CG442500 Rh4DG171400 Rh4DG171500 Rh4DG171600 Rh4DG196200 Rh4DG423300 Rh4DG423400 Rh5AG490200 Rh5CG422300 Rh5CG428400 Rh5CG513400 Rh5CG519500 Rh5CG579300 Rh6AG225400 Rh6BG053200 Rh6BG195500 Rh6BG245600 Rh6DG161700 Rh6DG238400 Rh7AG348200 Rh7AG396700 Rh7AG396800 Rh7AG410600 Rh7BG445300 Rh7CG255900 Rh7CG365800 Rh7CG415100 Rh7CG415200 Rh7DG191000 Rh7DG191100 Rh7DG362700
rosa_wichuraiana	Rw1G003060 Rw2G017950 Rw2G019900 Rw2G038280 Rw2G048340 Rw3G026970 Rw4G006460 Rw4G009350 Rw4G016820 Rw5G034510 Rw5G049530 Rw6G004160 Rw7G032270

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	144
AciI	CCGC	1 cut(s)	144
AclWI	GGATC	2 cut(s)	182, 372
AcsI	RAATTY	1 cut(s)	210
AcuI	CTGAAG	1 cut(s)	186
AgsI	TTSAA	5 cut(s)	62, 118, 183, 308, 359
AluBI	AGCT	1 cut(s)	130
AluI	AGCT	1 cut(s)	130
AlwI	GGATC	2 cut(s)	182, 372
AoxI	GGCC	2 cut(s)	281, 335
ApoI	RAATTY	1 cut(s)	210
AspS9I	GGNCC	1 cut(s)	221
AvaII	GGWCC	1 cut(s)	221
AxyI	CCTNAGG	1 cut(s)	217
BfaI	CTAG	1 cut(s)	134
Bme18I	GGWCC	1 cut(s)	221
BmgT120I	GGNCC	1 cut(s)	221
BmsI	GCATC	1 cut(s)	256
BpuEI	CTTGAG	1 cut(s)	300
Bse21I	CCTNAGG	1 cut(s)	217
Bse3DI	GCAATG	1 cut(s)	237
BseMI	GCAATG	1 cut(s)	237
BseMII	CTCAG	1 cut(s)	366
BseRI	GAGGAG	1 cut(s)	92
BshFI	GGCC	2 cut(s)	283, 337
BsnI	GGCC	2 cut(s)	283, 337
Bsp143I	GATC	2 cut(s)	187, 364
BspACI	CCGC	1 cut(s)	144
BspANI	GGCC	2 cut(s)	283, 337
BspCNI	CTCAG	1 cut(s)	367
BspPI	GGATC	2 cut(s)	182, 372
BsrBI	CCGCTC	1 cut(s)	144
BsrDI	GCAATG	1 cut(s)	237
BssMI	GATC	2 cut(s)	187, 364
Bst6I	CTCTTC	2 cut(s)	69, 189
BstAPI	GCANNNNNTGC	1 cut(s)	338
BstC8I	GCNNGC	2 cut(s)	128, 339
BstDEI	CTNAG	2 cut(s)	217, 375
BstKTI	GATC	2 cut(s)	190, 367
BstMBI	GATC	2 cut(s)	187, 364
BstMWI	GCNNNNNNNGC	1 cut(s)	338
BstNSI	RCATGY	1 cut(s)	314
Bsu36I	CCTNAGG	1 cut(s)	217
BsuRI	GGCC	2 cut(s)	283, 337
Cac8I	GCNNGC	2 cut(s)	128, 339
Cfr13I	GGNCC	1 cut(s)	221
CseI	GACGC	1 cut(s)	88
CviAII	CATG	2 cut(s)	311, 333
CviJI	RGCY	3 cut(s)	130, 283, 337
CviKI_1	RGCY	3 cut(s)	130, 283, 337
DdeI	CTNAG	2 cut(s)	217, 375
DpnI	GATC	2 cut(s)	189, 366
DpnII	GATC	2 cut(s)	187, 364
Eam1104I	CTCTTC	2 cut(s)	69, 189
EarI	CTCTTC	2 cut(s)	69, 189
Eco147I	AGGCCT	1 cut(s)	283
Eco32I	GATATC	1 cut(s)	250
Eco47I	GGWCC	1 cut(s)	221
Eco57I	CTGAAG	1 cut(s)	186
Eco81I	CCTNAGG	1 cut(s)	217
EcoO109I	RGGNCCY	1 cut(s)	221
EcoRV	GATATC	1 cut(s)	250
FaeI	CATG	2 cut(s)	314, 336
FaiI	YATR	3 cut(s)	296, 312, 334
FatI	CATG	2 cut(s)	310, 332
FspBI	CTAG	1 cut(s)	134
HaeIII	GGCC	2 cut(s)	283, 337
HgaI	GACGC	1 cut(s)	88
Hin1II	CATG	2 cut(s)	314, 336
HincII	GTYRAC	1 cut(s)	103
HindII	GTYRAC	1 cut(s)	103
HinfI	GANTC	2 cut(s)	58, 197
Hpy166II	GTNNAC	1 cut(s)	103
Hpy188I	TCNGA	1 cut(s)	376
Hpy188III	TCNNGA	1 cut(s)	191
Hpy8I	GTNNAC	1 cut(s)	103
HpyAV	CCTTC	1 cut(s)	161
HpyCH4V	TGCA	3 cut(s)	4, 126, 230
HpyF10VI	GCNNNNNNNGC	1 cut(s)	338
HpyF3I	CTNAG	2 cut(s)	217, 375
Hsp92II	CATG	2 cut(s)	314, 336
Kzo9I	GATC	2 cut(s)	187, 364
LmnI	GCTCC	1 cut(s)	141
LpnPI	CCDG	3 cut(s)	204, 276, 351
LweI	GCATC	1 cut(s)	256
MaeI	CTAG	1 cut(s)	134
MalI	GATC	2 cut(s)	189, 366
MbiI	CCGCTC	1 cut(s)	144
MboI	GATC	2 cut(s)	187, 364
MboII	GAAGA	2 cut(s)	86, 206
MluCI	AATT	2 cut(s)	41, 210
MlyI	GAGTC	1 cut(s)	206
MnlI	CCTC	5 cut(s)	64, 70, 145, 273, 370
MwoI	GCNNNNNNNGC	1 cut(s)	338
NdeII	GATC	2 cut(s)	187, 364
NlaIII	CATG	2 cut(s)	314, 336
NspI	RCATGY	1 cut(s)	314
PceI	AGGCCT	1 cut(s)	283
PfeI	GAWTC	1 cut(s)	58
PleI	GAGTC	1 cut(s)	205
PpsI	GAGTC	1 cut(s)	205
PpuMI	RGGWCCY	1 cut(s)	221
Psp5II	RGGWCCY	1 cut(s)	221
PspPI	GGNCC	1 cut(s)	221
PspPPI	RGGWCCY	1 cut(s)	221
Sau3AI	GATC	2 cut(s)	187, 364
Sau96I	GGNCC	1 cut(s)	221
SchI	GAGTC	1 cut(s)	206
SetI	ASST	4 cut(s)	132, 172, 226, 322
SfaNI	GCATC	1 cut(s)	256
SinI	GGWCC	1 cut(s)	221
SmlI	CTYRAG	1 cut(s)	315
SmoI	CTYRAG	1 cut(s)	315
Sse9I	AATT	2 cut(s)	41, 210
SseBI	AGGCCT	1 cut(s)	283
SsiI	CCGC	1 cut(s)	144
SspMI	CTAG	1 cut(s)	134
StuI	AGGCCT	1 cut(s)	283
TasI	AATT	2 cut(s)	41, 210
TfiI	GAWTC	1 cut(s)	58
TspDTI	ATGAA	2 cut(s)	222, 248
VpaK11BI	GGWCC	1 cut(s)	221
XapI	RAATTY	1 cut(s)	210
XceI	RCATGY	1 cut(s)	314
XspI	CTAG	1 cut(s)	134

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