Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0006793

Physical Location & Seq

Genomic Coordinates Forward (+)

51129129 .. 51131201

Gene Structure 2073 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00369310.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 912 bp

ATGGGTGAAAGTCTTGAGCAGAACACAAAGGATGGAGACAATTTGGTAATGAAGGTTGATGGGTTTAACTGGCGTTTGGTTATAGCTTACGACGGCACCCGTTATGCAGGATGGCAATATCAGAGTTCACCACCTACCATACAGCGCTATGTGGAGAAAGCTCTAATGGGAGCAACGAAGCTGGAAAGGAAGGATCTTCATTTGGTTGGTGCAAGTAGGACAGATAAGGGTGTGCATGCTTGGGGTCAGGTTGCCCACTTTGTCACGCCATTCAACTATGACAGAATAGAAAGCATTCATGCAGCTCTCAATGGTACTCTTCCGGAGGATATCCGTGTTAGGGAAATTAGTCCTGCTGTACCTGAATTCCATGCTCGTTTTTCAGCCCAAAGGAAGGTGTATCATTACAGAATATATAATGACACATTCATGGACCCATTTCAGCGTCACAATGCTTACCATAGTGCTCATAAGTTGAACCCTGCTGTTATGAGAGAAGCTGCGAAGTATTTTATTGGAAAGCATGATTTCTCTGCTTTTGTAAATGCATCCCAGAAGGAGCGAGTGCGGGATCCGGTAAAGGATATATTCCGTTTTGATGTTGTCCAAATGGGGGCTCTTTTACAGCTTGAAGTTGAAGGCTCGGGATTCTTATATAGACAAGTCCGGAACATGGTCGCTCTGCTCCTTCAAATCGGAAGGGAAGCGGTTCCCCCTGACATTGTACCCAAGATATTGGCAACACGAAATCGAAGGGAGCTTGCTAAATATTCCTTGTTGGCTCCACCCCAAGGGCTTTGTCTTATGGCAGTCGAGTATAACGAGGACCATCTACGGCTTCCATCTGGTTCCCCTAACCCCAGTTTTGGTAGGCATTATACCATAAAATCTTGTAAGCTTCCATTCTACTAA

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

PseudoU_synth_1

Protein Analysis

303

Amino Acids

34.71

Weight (kDa)

9.34

Isoelectric Point (pI)

43.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PseudoU_synth_1	PF01416	28 - 127	1.9e-08	tRNA pseudouridine synthase
PseudoU_synth_1	PF01416	167 - 274	2.3e-26	tRNA pseudouridine synthase

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)

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Publication-ready

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Orthologous Genes (Group: OG0006793)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G06950
fragaria_vesca	FvH4_4g21570 FvH4_4g21570 FvH4_4g21570
malus_domestica	MD13G1140300.v1.1 MD16G1135500.v1.1
prunus_persica	Prupe.1G104700_v2.0.a1 Prupe.1G104700_v2.0.a1 Prupe.1G104700_v2.0.a1 Prupe.1G104700_v2.0.a1
pyrus_communis	pycom13g12200 pycom16g11950
rosa_chinensis	RchiOBHm_Chr4g0427681
rosa_laevigata	RLG00000007217
rosa_multiflora	Rmu_sc0003399.1_g000003 Rmu_sc0016038.1_g000001
rosa_roxburghii	Rroxscaffold_5G00369310
rosa_rugosa	Rorug04G0219100 Rorug04G0219200 Rorug04G0219300 Rorug04G0219400
rosa_samantha	Rh4AG275600 Rh4BG281600 Rh4CG297100 Rh4DG279000
rosa_wichuraiana	Rw4G023920

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	95
AccIII	TCCGGA	2 cut(s)	322, 666
AciI	CCGC	2 cut(s)	568, 707
AclWI	GGATC	3 cut(s)	201, 566, 579
AcsI	RAATTY	1 cut(s)	365
AfaI	GTAC	3 cut(s)	316, 360, 726
AfeI	AGCGCT	1 cut(s)	146
AfiI	CCNNNNNNNGG	6 cut(s)	340, 394, 613, 673, 791, 866
AgsI	TTSAA	5 cut(s)	274, 478, 632, 638, 692
AluBI	AGCT	8 cut(s)	86, 161, 181, 305, 500, 628, 760, 898
AluI	AGCT	8 cut(s)	86, 161, 181, 305, 500, 628, 760, 898
Alw21I	GWGCWC	1 cut(s)	469
Alw26I	GTCTC	1 cut(s)	30
AlwI	GGATC	3 cut(s)	201, 566, 579
Ama87I	CYCGRG	1 cut(s)	643
Aor13HI	TCCGGA	2 cut(s)	322, 666
Aor51HI	AGCGCT	1 cut(s)	146
ApeKI	GCWGC	2 cut(s)	302, 500
ApoI	RAATTY	1 cut(s)	365
Asp700I	GAANNNNTTC	2 cut(s)	294, 708
AspLEI	GCGC	1 cut(s)	147
AspS9I	GGNCC	2 cut(s)	433, 826
AsuHPI	GGTGA	2 cut(s)	17, 120
AvaI	CYCGRG	1 cut(s)	643
AvaII	GGWCC	2 cut(s)	433, 826
BamHI	GGATCC	1 cut(s)	571
BanI	GGYRCC	1 cut(s)	95
BanII	GRGCYC	1 cut(s)	619
Bbv12I	GWGCWC	1 cut(s)	469
BbvI	GCAGC	2 cut(s)	314, 487
BccI	CCATC	5 cut(s)	26, 53, 105, 837, 850
BceAI	ACGGC	2 cut(s)	109, 851
BcoDI	GTCTC	1 cut(s)	30
BfoI	RGCGCY	1 cut(s)	148
BisI	GCNGC	2 cut(s)	303, 501
BlsI	GCNGC	2 cut(s)	304, 502
Bme18I	GGWCC	2 cut(s)	433, 826
BmeT110I	CYCGRG	1 cut(s)	643
BmgT120I	GGNCC	2 cut(s)	433, 826
BmiI	GGNNCC	6 cut(s)	97, 435, 573, 711, 783, 850
BmrI	ACTGGG	1 cut(s)	855
BmsI	GCATC	1 cut(s)	557
BmuI	ACTGGG	1 cut(s)	855
BpuEI	CTTGAG	1 cut(s)	35
BsaJI	CCNNGG	1 cut(s)	790
BsaWI	WCCGGW	3 cut(s)	322, 574, 666
Bsc4I	CCNNNNNNNGG	6 cut(s)	340, 394, 613, 673, 791, 866
Bse1I	ACTGG	2 cut(s)	74, 861
BseAI	TCCGGA	2 cut(s)	322, 666
BseDI	CCNNGG	1 cut(s)	790
BseGI	GGATG	3 cut(s)	37, 116, 548
BseLI	CCNNNNNNNGG	6 cut(s)	340, 394, 613, 673, 791, 866
BseNI	ACTGG	2 cut(s)	74, 861
BseXI	GCAGC	2 cut(s)	314, 487
BshNI	GGYRCC	1 cut(s)	95
BsiHKAI	GWGCWC	1 cut(s)	469
BsiHKCI	CYCGRG	1 cut(s)	643
BsiSI	CCGG	3 cut(s)	323, 575, 667
BslI	CCNNNNNNNGG	6 cut(s)	340, 394, 613, 673, 791, 866
BsmAI	GTCTC	1 cut(s)	30
BsmI	GAATGC	1 cut(s)	294
BsoBI	CYCGRG	1 cut(s)	643
Bsp1286I	GDGCHC	2 cut(s)	469, 619
Bsp13I	TCCGGA	2 cut(s)	322, 666
Bsp143I	GATC	2 cut(s)	193, 571
BspACI	CCGC	2 cut(s)	568, 707
BspEI	TCCGGA	2 cut(s)	322, 666
BspLI	GGNNCC	6 cut(s)	97, 435, 573, 711, 783, 850
BspPI	GGATC	3 cut(s)	201, 566, 579
BspT107I	GGYRCC	1 cut(s)	95
BsrI	ACTGG	2 cut(s)	74, 861
BssECI	CCNNGG	1 cut(s)	790
BssMI	GATC	2 cut(s)	193, 571
BssT1I	CCWWGG	1 cut(s)	790
Bst6I	CTCTTC	1 cut(s)	324
BstC8I	GCNNGC	2 cut(s)	237, 762
BstF5I	GGATG	3 cut(s)	37, 116, 548
BstH2I	RGCGCY	1 cut(s)	148
BstHHI	GCGC	1 cut(s)	147
BstKTI	GATC	2 cut(s)	196, 574
BstMAI	GTCTC	1 cut(s)	30
BstMBI	GATC	2 cut(s)	193, 571
BstNSI	RCATGY	1 cut(s)	239
BstV1I	GCAGC	2 cut(s)	314, 487
BstX2I	RGATCY	2 cut(s)	193, 571
BstXI	CCANNNNNNTGG	1 cut(s)	736
BstYI	RGATCY	2 cut(s)	193, 571
BtsCI	GGATG	3 cut(s)	37, 116, 548
Cac8I	GCNNGC	2 cut(s)	237, 762
CfoI	GCGC	1 cut(s)	147
Cfr13I	GGNCC	2 cut(s)	433, 826
CseI	GACGC	1 cut(s)	434
Csp6I	GTAC	3 cut(s)	315, 359, 725
CviAII	CATG	6 cut(s)	236, 299, 371, 430, 524, 673
CviQI	GTAC	3 cut(s)	315, 359, 725
DpnI	GATC	2 cut(s)	195, 573
DpnII	GATC	2 cut(s)	193, 571
Eam1104I	CTCTTC	1 cut(s)	324
EarI	CTCTTC	1 cut(s)	324
Eco130I	CCWWGG	1 cut(s)	790
Eco24I	GRGCYC	1 cut(s)	619
Eco32I	GATATC	1 cut(s)	331
Eco47I	GGWCC	2 cut(s)	433, 826
Eco47III	AGCGCT	1 cut(s)	146
Eco88I	CYCGRG	1 cut(s)	643
EcoRI	GAATTC	1 cut(s)	365
EcoRV	GATATC	1 cut(s)	331
EcoT14I	CCWWGG	1 cut(s)	790
EcoT22I	ATGCAT	1 cut(s)	550
EcoT38I	GRGCYC	1 cut(s)	619
ErhI	CCWWGG	1 cut(s)	790
FaeI	CATG	6 cut(s)	239, 302, 374, 433, 527, 676
FatI	CATG	6 cut(s)	235, 298, 370, 429, 523, 672
FauI	CCCGC	1 cut(s)	561
Fnu4HI	GCNGC	2 cut(s)	303, 501
FokI	GGATG	3 cut(s)	44, 123, 535
FriOI	GRGCYC	1 cut(s)	619
Fsp4HI	GCNGC	2 cut(s)	303, 501
GlaI	GCGC	1 cut(s)	146
GluI	GCNGC	2 cut(s)	303, 501
HaeII	RGCGCY	1 cut(s)	148
HapII	CCGG	3 cut(s)	323, 575, 667
HgaI	GACGC	1 cut(s)	434
HhaI	GCGC	1 cut(s)	147
Hin1II	CATG	6 cut(s)	239, 302, 374, 433, 527, 676
Hin6I	GCGC	1 cut(s)	145
HinP1I	GCGC	1 cut(s)	145
HindIII	AAGCTT	1 cut(s)	896
HinfI	GANTC	1 cut(s)	648
HpaII	CCGG	3 cut(s)	323, 575, 667
HphI	GGTGA	2 cut(s)	17, 120
Hpy166II	GTNNAC	1 cut(s)	128
Hpy188I	TCNGA	2 cut(s)	123, 698
Hpy188III	TCNNGA	4 cut(s)	14, 323, 645, 667
Hpy8I	GTNNAC	1 cut(s)	128
Hpy99I	CGWCG	1 cut(s)	95
HpyAV	CCTTC	8 cut(s)	46, 184, 388, 550, 632, 693, 698, 747
HpyCH4V	TGCA	5 cut(s)	107, 212, 235, 302, 548
Hsp92II	CATG	6 cut(s)	239, 302, 374, 433, 527, 676
HspAI	GCGC	1 cut(s)	145
Kpn2I	TCCGGA	2 cut(s)	322, 666
Kzo9I	GATC	2 cut(s)	193, 571
LmnI	GCTCC	5 cut(s)	170, 559, 690, 757, 787
Lsp1109I	GCAGC	2 cut(s)	314, 487
LweI	GCATC	1 cut(s)	557
MaeIII	GTNAC	2 cut(s)	262, 446
MalI	GATC	2 cut(s)	195, 573
MboI	GATC	2 cut(s)	193, 571
MboII	GAAGA	2 cut(s)	188, 311
MflI	RGATCY	2 cut(s)	193, 571
MhlI	GDGCHC	2 cut(s)	469, 619
MluCI	AATT	3 cut(s)	40, 345, 365
MnlI	CCTC	2 cut(s)	319, 817
Mph1103I	ATGCAT	1 cut(s)	550
MroI	TCCGGA	2 cut(s)	322, 666
MroXI	GAANNNNTTC	2 cut(s)	294, 708
MseI	TTAA	1 cut(s)	66
MslI	CAYNNNNRTG	1 cut(s)	428
MspI	CCGG	3 cut(s)	323, 575, 667
Mva1269I	GAATGC	1 cut(s)	294
NdeII	GATC	2 cut(s)	193, 571
NlaIII	CATG	6 cut(s)	239, 302, 374, 433, 527, 676
NlaIV	GGNNCC	6 cut(s)	97, 435, 573, 711, 783, 850
NmuCI	GTSAC	2 cut(s)	262, 446
NsiI	ATGCAT	1 cut(s)	550
NspI	RCATGY	1 cut(s)	239
PaeI	GCATGC	1 cut(s)	239
PcsI	WCGNNNNNNNCGW	1 cut(s)	819
PctI	GAATGC	1 cut(s)	294
PdmI	GAANNNNTTC	2 cut(s)	294, 708
PfeI	GAWTC	1 cut(s)	648
PkrI	GCNGC	2 cut(s)	304, 502
PspN4I	GGNNCC	6 cut(s)	97, 435, 573, 711, 783, 850
PspPI	GGNCC	2 cut(s)	433, 826
PsuI	RGATCY	2 cut(s)	193, 571
RsaI	GTAC	3 cut(s)	316, 360, 726
RsaNI	GTAC	3 cut(s)	315, 359, 725
RseI	CAYNNNNRTG	1 cut(s)	428
SaqAI	TTAA	1 cut(s)	66
SatI	GCNGC	2 cut(s)	303, 501
Sau3AI	GATC	2 cut(s)	193, 571
Sau96I	GGNCC	2 cut(s)	433, 826
SduI	GDGCHC	2 cut(s)	469, 619
SfaNI	GCATC	1 cut(s)	557
SinI	GGWCC	2 cut(s)	433, 826
SmiMI	CAYNNNNRTG	1 cut(s)	428
SmlI	CTYRAG	1 cut(s)	14
SmoI	CTYRAG	1 cut(s)	14
SphI	GCATGC	1 cut(s)	239
Sse9I	AATT	3 cut(s)	40, 345, 365
SsiI	CCGC	2 cut(s)	568, 707
SspI	AATATT	1 cut(s)	770
StyI	CCWWGG	1 cut(s)	790
TaqI	TCGA	2 cut(s)	751, 813
TasI	AATT	3 cut(s)	40, 345, 365
TfiI	GAWTC	1 cut(s)	648
Tru1I	TTAA	1 cut(s)	66
Tru9I	TTAA	1 cut(s)	66
TseFI	GTSAC	2 cut(s)	262, 446
TseI	GCWGC	2 cut(s)	302, 500
Tsp45I	GTSAC	2 cut(s)	262, 446
TspDTI	ATGAA	4 cut(s)	65, 188, 287, 418
TspGWI	ACGGA	2 cut(s)	323, 581
VpaK11BI	GGWCC	2 cut(s)	433, 826
XapI	RAATTY	1 cut(s)	365
XceI	RCATGY	1 cut(s)	239
XmnI	GAANNNNTTC	2 cut(s)	294, 708
Zsp2I	ATGCAT	1 cut(s)	550

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