Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0001833

Physical Location & Seq

Genomic Coordinates Reverse (-)

55541087 .. 55543032

Gene Structure 1946 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00261210.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 807 bp

ATGGAACGGCAAGTTCCAAATGATGATTGGGAAGGAAGGGAAGCGAAACGCATGAGAAAGATTAGGCCTAGTGAGGTAATGGAGGAAGGTGCAAGAGTACATGTACCCGTATCGATTGCGGAGAGTAAAGTTTCAAGGAGATTCGACTGCATTCCGAGTGAGACATTTTACCCAAATGCGGATGAGATTGACTACTTGCAAAGGCTTGTCAAGTACAAAGTTCATCGGCTTGAAAGAGAGAGCAGTGGCCTCCTTTTAATGGGAAGAACAAAAGACAGTGTATCTCTTCTGCATTCGTTATATACTGACATCAATATTGGTGAATCATCATGCAGGGTGCTTCTTGACGATGGGATGAAAGAGAGGGTCATCTTGTCTCATCAGTCAGGATTAGAAGCTTCCCAATCGGCTCTAACTCAATATCGGGTTCTTGGTCCTACGATAAATGGATGCTCATGGATTAAATTACAACCACTCACTAGCCGAAAGCATCAGTTTGCTCACCGGAGATGGAAACAAATGCCTCAAGTCGATATTGAACCGGCAACTGGGCAACAATACAAGTTGCGGAGGCCAGCAGGTCTGGATGTACAGAAGGGAACTGTCCTATCAAAAGTCCCTCTTTTACATCTACACTGTAGAGAGCTCGTTCTCCCCAATATTGCTGAGTTCCTTGTTTTATTGGATCAGAAGTCAGACAACCGGCATCCTGTGGATAGTTTGAAGCCAGATATTCTTCGGTTTGTGGCATCGATGCCAACCCACATGAAACTTAGTTGGAATCTCATGTCATCTTATTTGGTGTAG

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

268

Amino Acids

30.82

Weight (kDa)

9.24

Isoelectric Point (pI)

57.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PseudoU_synth_2	PF00849	67 - 165	9.9e-08	RNA pseudouridylate 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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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: OG0001833)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G78910 AT1G78910
fragaria_vesca	FvH4_5g04730 FvH4_5g04730 FvH4_5g04730 FvH4_5g04730
malus_domestica	MD06G1108500.v1.1
prunus_persica	Prupe.5G121100_v2.0.a1 Prupe.5G121100_v2.0.a1 Prupe.5G121100_v2.0.a1 Prupe.5G121100_v2.0.a1 Prupe.5G121100_v2.0.a1 Prupe.5G121100_v2.0.a1 Prupe.5G121100_v2.0.a1 Prupe.5G121100_v2.0.a1 Prupe.5G121100_v2.0.a1 Prupe.5G121100_v2.0.a1 Prupe.5G121100_v2.0.a1 Prupe.5G121100_v2.0.a1 Prupe.5G121100_v2.0.a1 Prupe.5G121100_v2.0.a1 Prupe.5G121100_v2.0.a1
pyrus_communis	pycom06g10190
rosa_chinensis	RchiOBHm_Chr1g0363621 RchiOBHm_Chr6g0299231 RchiOBHm_Chr7g0194671
rosa_laevigata	RLG00000004184 RLG00000011451
rosa_multiflora	Rmu_sc0000548.1_g000009 Rmu_sc0015513.1_g000002
rosa_roxburghii	Rroxscaffold_3G00261180 Rroxscaffold_3G00261210 Rroxscaffold_7G00168890
rosa_rugosa	Rorug01G0308200 Rorug01G0308200 Rorug06G0286400 Rorug07G0016600 Rorug07G0016700
rosa_samantha	Rh1AG317100 Rh6CG412300 Rh6DG399000 Rh7BG144500 Rh7CG148400 Rh7DG145800
rosa_wichuraiana	Rw1G028120 Rw6G034810 Rw7G012340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	569
AciI	CCGC	3 cut(s)	119, 179, 568
AclWI	GGATC	1 cut(s)	693
AfaI	GTAC	4 cut(s)	99, 105, 215, 591
AfiI	CCNNNNNNNGG	3 cut(s)	178, 259, 548
AflIII	ACRYGT	1 cut(s)	100
AgsI	TTSAA	4 cut(s)	135, 233, 539, 724
AluBI	AGCT	2 cut(s)	398, 646
AluI	AGCT	2 cut(s)	398, 646
Alw21I	GWGCWC	1 cut(s)	648
Alw26I	GTCTC	2 cut(s)	155, 381
AlwI	GGATC	1 cut(s)	693
AoxI	GGCC	3 cut(s)	65, 247, 572
AspS9I	GGNCC	1 cut(s)	434
AsuHPI	GGTGA	2 cut(s)	332, 494
AvaII	GGWCC	1 cut(s)	434
BanII	GRGCYC	1 cut(s)	648
Bbv12I	GWGCWC	1 cut(s)	648
BccI	CCATC	2 cut(s)	344, 504
BceAI	ACGGC	1 cut(s)	23
BcoDI	GTCTC	2 cut(s)	155, 381
BfaI	CTAG	2 cut(s)	69, 480
BfmI	CTRYAG	1 cut(s)	637
BfuAI	ACCTGC	1 cut(s)	569
Bme18I	GGWCC	1 cut(s)	434
BmgT120I	GGNCC	1 cut(s)	434
BmrI	ACTGGG	1 cut(s)	558
BmsI	GCATC	5 cut(s)	440, 499, 715, 744, 758
BmuI	ACTGGG	1 cut(s)	558
BpuEI	CTTGAG	1 cut(s)	510
Bsa29I	ATCGAT	2 cut(s)	113, 752
BsaWI	WCCGGW	1 cut(s)	504
Bsc4I	CCNNNNNNNGG	3 cut(s)	178, 259, 548
Bse118I	RCCGGY	2 cut(s)	541, 702
Bse1I	ACTGG	1 cut(s)	553
BseCI	ATCGAT	2 cut(s)	113, 752
BseGI	GGATG	5 cut(s)	187, 360, 455, 592, 706
BseLI	CCNNNNNNNGG	3 cut(s)	178, 259, 548
BseMII	CTCAG	1 cut(s)	657
BseNI	ACTGG	1 cut(s)	553
BshFI	GGCC	3 cut(s)	67, 249, 574
BshVI	ATCGAT	2 cut(s)	113, 752
BsiHKAI	GWGCWC	1 cut(s)	648
BsiSI	CCGG	3 cut(s)	505, 542, 703
BslFI	GGGAC	1 cut(s)	602
BslI	CCNNNNNNNGG	3 cut(s)	178, 259, 548
BsmAI	GTCTC	2 cut(s)	155, 381
BsmFI	GGGAC	1 cut(s)	602
BsmI	GAATGC	2 cut(s)	150, 292
BsnI	GGCC	3 cut(s)	67, 249, 574
Bsp1286I	GDGCHC	1 cut(s)	648
Bsp1407I	TGTACA	1 cut(s)	589
Bsp143I	GATC	1 cut(s)	685
BspACI	CCGC	3 cut(s)	119, 179, 568
BspANI	GGCC	3 cut(s)	67, 249, 574
BspCNI	CTCAG	1 cut(s)	658
BspDI	ATCGAT	2 cut(s)	113, 752
BspMI	ACCTGC	1 cut(s)	569
BspPI	GGATC	1 cut(s)	693
BsrFI	RCCGGY	2 cut(s)	541, 702
BsrGI	TGTACA	1 cut(s)	589
BsrI	ACTGG	1 cut(s)	553
BssAI	RCCGGY	2 cut(s)	541, 702
BssMI	GATC	1 cut(s)	685
Bst4CI	ACNGT	3 cut(s)	278, 604, 638
Bst6I	CTCTTC	1 cut(s)	291
BstAUI	TGTACA	1 cut(s)	589
BstC8I	GCNNGC	1 cut(s)	576
BstDEI	CTNAG	2 cut(s)	666, 773
BstF5I	GGATG	5 cut(s)	187, 360, 455, 592, 706
BstKTI	GATC	1 cut(s)	688
BstMAI	GTCTC	2 cut(s)	155, 381
BstMBI	GATC	1 cut(s)	685
BstNSI	RCATGY	1 cut(s)	104
BstSFI	CTRYAG	1 cut(s)	637
Bsu15I	ATCGAT	2 cut(s)	113, 752
BsuRI	GGCC	3 cut(s)	67, 249, 574
BsuTUI	ATCGAT	2 cut(s)	113, 752
BtsCI	GGATG	5 cut(s)	187, 360, 455, 592, 706
BtsI	GCAGTG	1 cut(s)	250
BtsIMutI	CAGTG	3 cut(s)	250, 283, 634
BveI	ACCTGC	1 cut(s)	569
Cac8I	GCNNGC	1 cut(s)	576
Cfr10I	RCCGGY	2 cut(s)	541, 702
Cfr13I	GGNCC	1 cut(s)	434
ClaI	ATCGAT	2 cut(s)	113, 752
Csp6I	GTAC	4 cut(s)	98, 104, 214, 590
CviAII	CATG	6 cut(s)	52, 101, 330, 456, 766, 787
CviQI	GTAC	4 cut(s)	98, 104, 214, 590
DdeI	CTNAG	2 cut(s)	666, 773
DpnI	GATC	1 cut(s)	687
DpnII	GATC	1 cut(s)	685
Eam1104I	CTCTTC	1 cut(s)	291
EarI	CTCTTC	1 cut(s)	291
Ecl136II	GAGCTC	1 cut(s)	646
Eco147I	AGGCCT	1 cut(s)	67
Eco24I	GRGCYC	1 cut(s)	648
Eco47I	GGWCC	1 cut(s)	434
Eco53kI	GAGCTC	1 cut(s)	646
EcoICRI	GAGCTC	1 cut(s)	646
EcoT38I	GRGCYC	1 cut(s)	648
FaeI	CATG	6 cut(s)	55, 104, 333, 459, 769, 790
FaiI	YATR	8 cut(s)	53, 102, 301, 303, 331, 457, 767, 788
FalI	AAGNNNNNCTT	2 cut(s)	606, 638
FaqI	GGGAC	1 cut(s)	602
FatI	CATG	6 cut(s)	51, 100, 329, 455, 765, 786
FokI	GGATG	5 cut(s)	194, 367, 462, 599, 693
FriOI	GRGCYC	1 cut(s)	648
FspBI	CTAG	2 cut(s)	69, 480
HaeIII	GGCC	3 cut(s)	67, 249, 574
HapII	CCGG	3 cut(s)	505, 542, 703
Hin1II	CATG	6 cut(s)	55, 104, 333, 459, 769, 790
HindIII	AAGCTT	1 cut(s)	396
HinfI	GANTC	3 cut(s)	141, 323, 781
HpaII	CCGG	3 cut(s)	505, 542, 703
HphI	GGTGA	2 cut(s)	332, 494
Hpy188I	TCNGA	3 cut(s)	156, 690, 697
Hpy188III	TCNNGA	3 cut(s)	344, 387, 584
HpyAV	CCTTC	4 cut(s)	26, 30, 80, 589
HpyCH4III	ACNGT	3 cut(s)	278, 604, 638
HpyCH4V	TGCA	5 cut(s)	92, 150, 199, 292, 333
HpyF3I	CTNAG	2 cut(s)	666, 773
Hsp92II	CATG	6 cut(s)	55, 104, 333, 459, 769, 790
Kzo9I	GATC	1 cut(s)	685
LweI	GCATC	5 cut(s)	440, 499, 715, 744, 758
MaeI	CTAG	2 cut(s)	69, 480
MalI	GATC	1 cut(s)	687
MboI	GATC	1 cut(s)	685
MboII	GAAGA	3 cut(s)	276, 278, 728
MhlI	GDGCHC	1 cut(s)	648
MluCI	AATT	1 cut(s)	464
MmeI	TCCRAC	1 cut(s)	758
MnlI	CCTC	7 cut(s)	67, 76, 260, 357, 534, 564, 630
MseI	TTAA	2 cut(s)	257, 462
MspI	CCGG	3 cut(s)	505, 542, 703
Mva1269I	GAATGC	2 cut(s)	150, 292
NdeII	GATC	1 cut(s)	685
NlaIII	CATG	6 cut(s)	55, 104, 333, 459, 769, 790
NspI	RCATGY	1 cut(s)	104
PceI	AGGCCT	1 cut(s)	67
PciI	ACATGT	1 cut(s)	100
PctI	GAATGC	2 cut(s)	150, 292
PfeI	GAWTC	3 cut(s)	141, 323, 781
PscI	ACATGT	1 cut(s)	100
Psp124BI	GAGCTC	1 cut(s)	648
PspPI	GGNCC	1 cut(s)	434
RsaI	GTAC	4 cut(s)	99, 105, 215, 591
RsaNI	GTAC	4 cut(s)	98, 104, 214, 590
SacI	GAGCTC	1 cut(s)	648
SaqAI	TTAA	2 cut(s)	257, 462
Sau3AI	GATC	1 cut(s)	685
Sau96I	GGNCC	1 cut(s)	434
SduI	GDGCHC	1 cut(s)	648
SetI	ASST	5 cut(s)	78, 91, 400, 583, 648
SfaNI	GCATC	5 cut(s)	440, 499, 715, 744, 758
SfcI	CTRYAG	1 cut(s)	637
SinI	GGWCC	1 cut(s)	434
SmlI	CTYRAG	1 cut(s)	525
SmoI	CTYRAG	1 cut(s)	525
Sse9I	AATT	1 cut(s)	464
SseBI	AGGCCT	1 cut(s)	67
SsiI	CCGC	3 cut(s)	119, 179, 568
SspI	AATATT	2 cut(s)	316, 661
SspMI	CTAG	2 cut(s)	69, 480
SstI	GAGCTC	1 cut(s)	648
StuI	AGGCCT	1 cut(s)	67
TaaI	ACNGT	3 cut(s)	278, 604, 638
TaqI	TCGA	4 cut(s)	113, 144, 531, 752
TasI	AATT	1 cut(s)	464
TatI	WGTACW	3 cut(s)	97, 213, 589
TfiI	GAWTC	3 cut(s)	141, 323, 781
Tru1I	TTAA	2 cut(s)	257, 462
Tru9I	TTAA	2 cut(s)	257, 462
TscAI	CASTG	3 cut(s)	250, 283, 641
TspDTI	ATGAA	3 cut(s)	212, 371, 782
TspRI	CASTG	3 cut(s)	250, 283, 641
VpaK11BI	GGWCC	1 cut(s)	434
XceI	RCATGY	1 cut(s)	104
XcmI	CCANNNNNNNNNTGG	1 cut(s)	24
XspI	CTAG	2 cut(s)	69, 480

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