Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0001594

Physical Location & Seq

Genomic Coordinates Forward (+)

10499027 .. 10502729

Gene Structure 3703 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG073700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1107 bp

ATGCCGAATCACCTTCTCCTCCGCCGCATCCTCCTCCGTCCTCCACTCTCCTCCTCCGCCGAATCCTGCAGCGATAGGCTCTTCATCTCACCTTTCCACTACTCCCGATCTTACGCCACCGCCCAACCATTTCACGAAGACAAACAAAAGCGCGGCAAAAAGTGGCTCACTCTACCTCCGTTCACTGACTCCGTAAACGGCGCCGCTTTGGGACGAGAGCTGTCTCGCAGCGTCGGCAGAGATGTGTATGCTAAACCCACAGCCGCCGCAGCCACGACGGCGCTTAAATGGGTCACCAGGTGCTGCCCTGAGATTCCCAGAAGCCTTGTCCAGAAGCTCTTTCGGTTAAGACAGGTTCGAAGAGAAGCATCTGACATGGATCAAGGTGTTCAAGCACTTAAAAGGGTGGGGGCCAAAGACTCGATGAACTTAGGAGATCGAATTTGTCTTCCTATTTCTGTGAAACAGTTCCCTGATGATAAACAAGAAGAGGGACATTGTAGTGAAGATGAAGTCAAGTTTATTCGTAGTCTCGTGTTGTATAAAGATCCAGCTATTGTTGTCATCAATAAACCCCCTGGATTGCCTGTTCAGGGCGGTATTGGAATCAAAAGGAGTTTAGATGAACTGGCTGCCACTTGTTTAAGTTACGGCTTTTCAGAACCCCCTCGTCTGGTACACAGACTTGACAGAGATTGTAGTGGTATCCTTGTGATGGGACGGACACAAACAAGTGCAACAGTTTTGCATTCCCTCTTCCGTGAGAAAACTTTTGGAGCTTCAGATGATGTTATCGACCATGCTAAAGCCACTCTGCAAAGAAGGTATTGGGCACTCGTCATTGGATCTCCCAGACAACAAGAGGGGTTAATCTCCGTGCCTTTAGGAAAGGTGGTGGTAGACAATGGTAAATCAGATAGGATCACCATTGTGAGTAAGGCACAATGTTTGCCATCTCAACATGCACTTACAAAGTACAAAGTGATTGGATCATCATGTCCTGGTTTCACATGGTTAGAGCTAATTCCACTTACTGGTCGAAAGCACCAGGTATGCATTGGAACTAAACACTTTGCAATGATTTCTTGTTTCAGCTTTATTCATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001522 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006396 GO:0006399 GO:0006400 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009451 GO:0009982 GO:0009987 GO:0010467 GO:0016070 GO:0016853 GO:0016866 GO:0031119 GO:0034470 GO:0034641 GO:0034660 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PseudoU_synth_2

Protein Analysis

368

Amino Acids

40.93

Weight (kDa)

9.61

Isoelectric Point (pI)

50.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PseudoU_synth_2	PF00849	186 - 351	2.8e-19	RNA pseudouridylate synthase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001594)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G19440 AT3G19440
fragaria_vesca	FvH4_2g05120 FvH4_2g05120 FvH4_2g05120 FvH4_2g05120
malus_domestica	MD10G1097600.v1.1
prunus_persica	Prupe.8G135400_v2.0.a1 Prupe.8G135400_v2.0.a1 Prupe.8G135400_v2.0.a1
pyrus_communis	pycom01g14220 pycom10g08370
rosa_chinensis	RchiOBHm_Chr4g0415551 RchiOBHm_Chr6g0255041
rosa_laevigata	RLG00000003460 RLG00000014859 RLG00000014868 RLG00000018864 RLG00000024043 RLG00000027684
rosa_multiflora	Rmu_ssc0000011.1_g000078
rosa_roxburghii	Rroxscaffold_2G00121110 Rroxscaffold_6G00396470 Rroxscaffold_6G00402590 Rroxscaffold_7G00210260
rosa_rugosa	Rorug03G0278700 Rorug03G0278800 Rorug03G0278900 Rorug05G0556400 Rorug05G0556500
rosa_samantha	Rh1AG091300 Rh1AG167900 Rh1DG094800 Rh2BG117700 Rh2BG330200 Rh2DG118600 Rh3BG349000 Rh4CG206700 Rh5BG449900 Rh6AG035800 Rh6AG073700 Rh6BG065900 Rh6BG066100 Rh6BG131700 Rh7AG357100 Rh7CG374500
rosa_wichuraiana	Rw2G034900 Rw6G006400 Rw6G006410 Rw6G026380

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	200
AccB7I	CCANNNNNTGG	1 cut(s)	1034
AccI	GTMKAC	1 cut(s)	900
AccII	CGCG	1 cut(s)	153
AciI	CCGC	9 cut(s)	22, 25, 57, 120, 153, 204, 264, 267, 597
AclWI	GGATC	5 cut(s)	387, 542, 853, 929, 997
AcsI	RAATTY	1 cut(s)	441
AcuI	CTGAAG	1 cut(s)	765
AcyI	GRCGYC	1 cut(s)	201
AdeI	CACNNNGTG	1 cut(s)	300
AfaI	GTAC	2 cut(s)	678, 977
AfiI	CCNNNNNNNGG	4 cut(s)	593, 673, 715, 1034
AgsI	TTSAA	1 cut(s)	392
AjnI	CCWGG	4 cut(s)	296, 577, 1000, 1047
AleI	CACNNNNGTG	1 cut(s)	929
AloI	GAACNNNNNNTCC	2 cut(s)	573, 605
AluBI	AGCT	6 cut(s)	220, 337, 554, 779, 1021, 1095
AluI	AGCT	6 cut(s)	220, 337, 554, 779, 1021, 1095
Alw26I	GTCTC	2 cut(s)	228, 536
AlwI	GGATC	5 cut(s)	387, 542, 853, 929, 997
AlwNI	CAGNNNCTG	1 cut(s)	303
AoxI	GGCC	1 cut(s)	411
ApeKI	GCWGC	5 cut(s)	69, 228, 269, 303, 632
ApoI	RAATTY	1 cut(s)	441
Asp700I	GAANNNNTTC	1 cut(s)	467
AspLEI	GCGC	3 cut(s)	153, 203, 283
AspS9I	GGNCC	1 cut(s)	411
AsuHPI	GGTGA	3 cut(s)	81, 286, 916
AsuII	TTCGAA	1 cut(s)	358
BaeGI	GKGCMC	1 cut(s)	835
BanI	GGYRCC	1 cut(s)	200
BauI	CACGAG	1 cut(s)	533
BbsI	GAAGAC	2 cut(s)	144, 440
BbvI	GCAGC	5 cut(s)	81, 240, 281, 290, 619
BccI	CCATC	2 cut(s)	709, 961
BceAI	ACGGC	3 cut(s)	214, 294, 667
BciT130I	CCWGG	4 cut(s)	298, 579, 1002, 1049
BciVI	GTATCC	1 cut(s)	716
BcoDI	GTCTC	2 cut(s)	228, 536
BfmI	CTRYAG	1 cut(s)	67
BfoI	RGCGCY	2 cut(s)	204, 284
BfuI	GTATCC	1 cut(s)	716
BglI	GCCNNNNNGGC	1 cut(s)	278
Bme1390I	CCNGG	4 cut(s)	298, 579, 1002, 1049
BmgT120I	GGNCC	1 cut(s)	411
BmiI	GGNNCC	2 cut(s)	202, 412
BmrFI	CCNGG	4 cut(s)	298, 579, 1002, 1049
BmsI	GCATC	2 cut(s)	36, 377
BpiI	GAAGAC	2 cut(s)	144, 440
Bpu14I	TTCGAA	1 cut(s)	358
BsaHI	GRCGYC	1 cut(s)	201
BsaJI	CCNNGG	1 cut(s)	577
BsaXI	ACNNNNNCTCC	2 cut(s)	160, 190
Bsc4I	CCNNNNNNNGG	4 cut(s)	593, 673, 715, 1034
Bse1I	ACTGG	2 cut(s)	633, 1039
Bse3DI	GCAATG	1 cut(s)	1083
BseBI	CCWGG	4 cut(s)	298, 579, 1002, 1049
BseDI	CCNNGG	1 cut(s)	577
BseGI	GGATG	1 cut(s)	27
BseLI	CCNNNNNNNGG	4 cut(s)	593, 673, 715, 1034
BseMI	GCAATG	1 cut(s)	1083
BseMII	CTCAG	1 cut(s)	300
BseNI	ACTGG	2 cut(s)	633, 1039
BseRI	GAGGAG	4 cut(s)	8, 23, 40, 43
BseSI	GKGCMC	1 cut(s)	835
BseXI	GCAGC	5 cut(s)	81, 240, 281, 290, 619
Bsh1236I	CGCG	1 cut(s)	153
BshFI	GGCC	1 cut(s)	413
BshNI	GGYRCC	1 cut(s)	200
BslFI	GGGAC	3 cut(s)	225, 507, 732
BslI	CCNNNNNNNGG	4 cut(s)	593, 673, 715, 1034
BsmAI	GTCTC	2 cut(s)	228, 536
BsmFI	GGGAC	3 cut(s)	225, 507, 732
BsmI	GAATGC	1 cut(s)	748
BsnI	GGCC	1 cut(s)	413
Bsp119I	TTCGAA	1 cut(s)	358
Bsp1286I	GDGCHC	1 cut(s)	835
Bsp143I	GATC	7 cut(s)	107, 379, 436, 547, 845, 921, 989
BspACI	CCGC	9 cut(s)	22, 25, 57, 120, 153, 204, 264, 267, 597
BspANI	GGCC	1 cut(s)	413
BspCNI	CTCAG	1 cut(s)	301
BspFNI	CGCG	1 cut(s)	153
BspLI	GGNNCC	2 cut(s)	202, 412
BspMAI	CTGCAG	1 cut(s)	71
BspPI	GGATC	5 cut(s)	387, 542, 853, 929, 997
BspQI	GCTCTTC	1 cut(s)	86
BspT104I	TTCGAA	1 cut(s)	358
BspT107I	GGYRCC	1 cut(s)	200
BsrDI	GCAATG	1 cut(s)	1083
BsrI	ACTGG	2 cut(s)	633, 1039
BssECI	CCNNGG	1 cut(s)	577
BssMI	GATC	7 cut(s)	107, 379, 436, 547, 845, 921, 989
BssNI	GRCGYC	1 cut(s)	201
BssSI	CACGAG	1 cut(s)	533
Bst2BI	CACGAG	1 cut(s)	533
Bst2UI	CCWGG	4 cut(s)	298, 579, 1002, 1049
Bst4CI	ACNGT	2 cut(s)	468, 742
Bst6I	CTCTTC	4 cut(s)	86, 355, 483, 761
BstACI	GRCGYC	1 cut(s)	201
BstBI	TTCGAA	1 cut(s)	358
BstDEI	CTNAG	2 cut(s)	309, 430
BstEII	GGTNACC	1 cut(s)	292
BstF5I	GGATG	1 cut(s)	27
BstFNI	CGCG	1 cut(s)	153
BstH2I	RGCGCY	2 cut(s)	204, 284
BstHHI	GCGC	3 cut(s)	153, 203, 283
BstKTI	GATC	7 cut(s)	110, 382, 439, 550, 848, 924, 992
BstMAI	GTCTC	2 cut(s)	228, 536
BstMBI	GATC	7 cut(s)	107, 379, 436, 547, 845, 921, 989
BstMWI	GCNNNNNNNGC	3 cut(s)	234, 269, 278
BstNI	CCWGG	4 cut(s)	298, 579, 1002, 1049
BstNSI	RCATGY	1 cut(s)	965
BstPI	GGTNACC	1 cut(s)	292
BstSCI	CCNGG	4 cut(s)	296, 577, 1000, 1047
BstSFI	CTRYAG	1 cut(s)	67
BstSLI	GKGCMC	1 cut(s)	835
BstUI	CGCG	1 cut(s)	153
BstV1I	GCAGC	5 cut(s)	81, 240, 281, 290, 619
BstV2I	GAAGAC	2 cut(s)	144, 440
BstX2I	RGATCY	2 cut(s)	547, 845
BstYI	RGATCY	2 cut(s)	547, 845
BsuI	GTATCC	1 cut(s)	716
BsuRI	GGCC	1 cut(s)	413
BtsCI	GGATG	1 cut(s)	27
BtsIMutI	CAGTG	1 cut(s)	183
CaiI	CAGNNNCTG	1 cut(s)	303
CfoI	GCGC	3 cut(s)	153, 203, 283
Cfr13I	GGNCC	1 cut(s)	411
CseI	GACGC	1 cut(s)	220
CsiI	ACCWGGT	2 cut(s)	296, 1047
Csp6I	GTAC	2 cut(s)	677, 976
CviAII	CATG	5 cut(s)	376, 800, 962, 996, 1011
CviQI	GTAC	2 cut(s)	677, 976
DdeI	CTNAG	2 cut(s)	309, 430
DinI	GGCGCC	1 cut(s)	202
DpnI	GATC	7 cut(s)	109, 381, 438, 549, 847, 923, 991
DpnII	GATC	7 cut(s)	107, 379, 436, 547, 845, 921, 989
DraIII	CACNNNGTG	1 cut(s)	300
Eam1104I	CTCTTC	4 cut(s)	86, 355, 483, 761
EarI	CTCTTC	4 cut(s)	86, 355, 483, 761
EciI	GGCGGA	2 cut(s)	11, 46
Eco57I	CTGAAG	1 cut(s)	765
Eco91I	GGTNACC	1 cut(s)	292
EcoO65I	GGTNACC	1 cut(s)	292
EcoRII	CCWGG	4 cut(s)	296, 577, 1000, 1047
EcoT22I	ATGCAT	1 cut(s)	1058
EgeI	GGCGCC	1 cut(s)	202
EheI	GGCGCC	1 cut(s)	202
FaeI	CATG	5 cut(s)	379, 803, 965, 999, 1014
FaiI	YATR	8 cut(s)	249, 377, 543, 801, 963, 997, 1012, 1054
FaqI	GGGAC	3 cut(s)	225, 507, 732
FatI	CATG	5 cut(s)	375, 799, 961, 995, 1010
FblI	GTMKAC	1 cut(s)	900
FokI	GGATG	1 cut(s)	14
GlaI	GCGC	3 cut(s)	152, 202, 282
HaeII	RGCGCY	2 cut(s)	204, 284
HaeIII	GGCC	1 cut(s)	413
HgaI	GACGC	1 cut(s)	220
HhaI	GCGC	3 cut(s)	153, 203, 283
Hin1I	GRCGYC	1 cut(s)	201
Hin1II	CATG	5 cut(s)	379, 803, 965, 999, 1014
Hin6I	GCGC	3 cut(s)	151, 201, 281
HinP1I	GCGC	3 cut(s)	151, 201, 281
HinfI	GANTC	6 cut(s)	7, 62, 188, 313, 419, 606
HphI	GGTGA	3 cut(s)	81, 286, 916
Hpy166II	GTNNAC	4 cut(s)	183, 196, 679, 901
Hpy188I	TCNGA	4 cut(s)	373, 661, 784, 916
Hpy188III	TCNNGA	3 cut(s)	105, 134, 331
Hpy8I	GTNNAC	4 cut(s)	183, 196, 679, 901
Hpy99I	CGWCG	2 cut(s)	236, 280
HpyAV	CCTTC	2 cut(s)	23, 816
HpyCH4III	ACNGT	2 cut(s)	468, 742
HpyCH4V	TGCA	7 cut(s)	69, 737, 748, 817, 965, 1056, 1076
HpyF10VI	GCNNNNNNNGC	3 cut(s)	234, 269, 278
HpyF3I	CTNAG	2 cut(s)	309, 430
Hsp92I	GRCGYC	1 cut(s)	201
Hsp92II	CATG	5 cut(s)	379, 803, 965, 999, 1014
HspAI	GCGC	3 cut(s)	151, 201, 281
KasI	GGCGCC	1 cut(s)	200
Kzo9I	GATC	7 cut(s)	107, 379, 436, 547, 845, 921, 989
LguI	GCTCTTC	1 cut(s)	86
LmnI	GCTCC	1 cut(s)	776
Lsp1109I	GCAGC	5 cut(s)	81, 240, 281, 290, 619
LweI	GCATC	2 cut(s)	36, 377
MabI	ACCWGGT	2 cut(s)	296, 1047
MaeIII	GTNAC	2 cut(s)	292, 647
MalI	GATC	7 cut(s)	109, 381, 438, 549, 847, 923, 991
MboI	GATC	7 cut(s)	107, 379, 436, 547, 845, 921, 989
MboII	GAAGA	7 cut(s)	73, 149, 372, 440, 500, 518, 748
MflI	RGATCY	2 cut(s)	547, 845
MhlI	GDGCHC	1 cut(s)	835
MluCI	AATT	2 cut(s)	441, 1023
Mly113I	GGCGCC	1 cut(s)	201
MlyI	GAGTC	2 cut(s)	182, 413
Mph1103I	ATGCAT	1 cut(s)	1058
MroXI	GAANNNNTTC	1 cut(s)	467
MseI	TTAA	5 cut(s)	285, 347, 399, 644, 869
MslI	CAYNNNNRTG	2 cut(s)	501, 929
MspR9I	CCNGG	4 cut(s)	298, 579, 1002, 1049
Mva1269I	GAATGC	1 cut(s)	748
MvaI	CCWGG	4 cut(s)	298, 579, 1002, 1049
MvnI	CGCG	1 cut(s)	153
MwoI	GCNNNNNNNGC	3 cut(s)	234, 269, 278
NarI	GGCGCC	1 cut(s)	201
NdeII	GATC	7 cut(s)	107, 379, 436, 547, 845, 921, 989
NlaIII	CATG	5 cut(s)	379, 803, 965, 999, 1014
NlaIV	GGNNCC	2 cut(s)	202, 412
NmuCI	GTSAC	1 cut(s)	292
NsiI	ATGCAT	1 cut(s)	1058
NspI	RCATGY	1 cut(s)	965
NspV	TTCGAA	1 cut(s)	358
OliI	CACNNNNGTG	1 cut(s)	929
PciSI	GCTCTTC	1 cut(s)	86
PctI	GAATGC	1 cut(s)	748
PdmI	GAANNNNTTC	1 cut(s)	467
PfeI	GAWTC	4 cut(s)	7, 62, 313, 606
PflMI	CCANNNNNTGG	1 cut(s)	1034
PleI	GAGTC	2 cut(s)	182, 413
PluTI	GGCGCC	1 cut(s)	204
PpsI	GAGTC	2 cut(s)	182, 413
Psp6I	CCWGG	4 cut(s)	296, 577, 1000, 1047
PspEI	GGTNACC	1 cut(s)	292
PspGI	CCWGG	4 cut(s)	296, 577, 1000, 1047
PspN4I	GGNNCC	2 cut(s)	202, 412
PspPI	GGNCC	1 cut(s)	411
PstI	CTGCAG	1 cut(s)	71
PstNI	CAGNNNCTG	1 cut(s)	303
PsuI	RGATCY	2 cut(s)	547, 845
RsaI	GTAC	2 cut(s)	678, 977
RsaNI	GTAC	2 cut(s)	677, 976
RseI	CAYNNNNRTG	2 cut(s)	501, 929
SapI	GCTCTTC	1 cut(s)	86
SaqAI	TTAA	5 cut(s)	285, 347, 399, 644, 869
Sau3AI	GATC	7 cut(s)	107, 379, 436, 547, 845, 921, 989
Sau96I	GGNCC	1 cut(s)	411
SchI	GAGTC	2 cut(s)	182, 413
ScrFI	CCNGG	4 cut(s)	298, 579, 1002, 1049
SduI	GDGCHC	1 cut(s)	835
SexAI	ACCWGGT	2 cut(s)	296, 1047
SfaNI	GCATC	2 cut(s)	36, 377
SfcI	CTRYAG	1 cut(s)	67
SfoI	GGCGCC	1 cut(s)	202
SfuI	TTCGAA	1 cut(s)	358
SmiMI	CAYNNNNRTG	2 cut(s)	501, 929
Sse9I	AATT	2 cut(s)	441, 1023
SsiI	CCGC	9 cut(s)	22, 25, 57, 120, 153, 204, 264, 267, 597
SspDI	GGCGCC	1 cut(s)	200
StyD4I	CCNGG	4 cut(s)	296, 577, 1000, 1047
TaaI	ACNGT	2 cut(s)	468, 742
TaqI	TCGA	5 cut(s)	358, 422, 439, 795, 1039
TasI	AATT	2 cut(s)	441, 1023
TatI	WGTACW	1 cut(s)	975
TauI	GCSGC	5 cut(s)	27, 156, 206, 266, 269
TfiI	GAWTC	4 cut(s)	7, 62, 313, 606
Tru1I	TTAA	5 cut(s)	285, 347, 399, 644, 869
Tru9I	TTAA	5 cut(s)	285, 347, 399, 644, 869
TscAI	CASTG	1 cut(s)	190
TseFI	GTSAC	1 cut(s)	292
TseI	GCWGC	5 cut(s)	69, 228, 269, 303, 632
Tsp45I	GTSAC	1 cut(s)	292
TspDTI	ATGAA	5 cut(s)	73, 440, 525, 639, 1091
TspGWI	ACGGA	6 cut(s)	26, 168, 181, 736, 749, 865
TspRI	CASTG	1 cut(s)	190
Van91I	CCANNNNNTGG	1 cut(s)	1034
XapI	RAATTY	1 cut(s)	441
XceI	RCATGY	1 cut(s)	965
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1055
XmiI	GTMKAC	1 cut(s)	900
XmnI	GAANNNNTTC	1 cut(s)	467
Zsp2I	ATGCAT	1 cut(s)	1058

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