Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0001419.1

Orthogroup ID

OG0003550

Physical Location & Seq

Genomic Coordinates Forward (+)

1 .. 4376

Gene Structure 4376 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 785 bp

aaggtgaaatcgattatgtgagggtgctgaatcgagtccttccggatgatattcgagtttttggttggtgtcctgtaccattgggtttcagtgcgaggtttagctgtctaagcagggagtattattatttattttggggagaaaatctgaatttcttggctatggagactgctggtaggaaatttgttggtgaacatgacttcagaaacttctgtaagatggacgctcttaatgtgcacaactacaggcggaaaatcacttcatttgcaatgtcgccttgtgatgtgaggtttgaggggaaccagctttgggcatttaaaatcaaaggtagtgctttcctttggcatcaggtccgatgcatggttgctgtactactcttgattggccaaggtcatgaatctcctgatgtgatagatgcattactggatactgacagaattccgagaaaacctcaatatggcatggcgccagagattccgttggttcttcaatcctgtgaatttgagggtctcaagttcatttgctcttcagatgccagacaagctttgcgcatacacttggctcatgaatgtcgaaactatcatctccaagccgcaatttttaatgaggctctaaaatgctgttttccagtagaaaaaggtgctgaagatcagcgctccttggataatggaacaatgaagaagaaatcttcccatgttccactcatgtcgcgcccaactgagccatcgtatgaagagagacgtgcgaaattaaacacgagagcgtgcagactgaagagtttatga

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001522 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 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:0016071 GO:0016556 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:0044464 GO:0046483 GO:0071704 GO:0090304 GO:1901360 GO:1990481

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PseudoU_synth_1

Protein Analysis

260

Amino Acids

29.97

Weight (kDa)

8.74

Isoelectric Point (pI)

48.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PseudoU_synth_1	PF01416	59 - 168	2e-30	tRNA pseudouridine synthase

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

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Orthologous Genes (Group: OG0003550)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G34150
fragaria_vesca	FvH4_2g12780 FvH4_2g12780 FvH4_2g12780 FvH4_2g12780 FvH4_2g12780 FvH4_2g12780 FvH4_2g12780 FvH4_2g12780 FvH4_2g12780 FvH4_2g12780 FvH4_2g12780 FvH4_2g12780 FvH4_2g12780 FvH4_2g12780 FvH4_2g12780
malus_domestica	MD05G1036800.v1.1 MD05G1036900.v1.1
prunus_persica	Prupe.8G045000_v2.0.a1 Prupe.8G045000_v2.0.a1
pyrus_communis	pycom05g02710 pycom05g02720
rosa_chinensis	RchiOBHm_Chr6g0273621
rosa_laevigata	RLG00000013608
rosa_multiflora	Rmu_sc0001419.1_g000001 Rmu_sc0015671.1_g000001
rosa_roxburghii	Rroxscaffold_7G00195210
rosa_rugosa	Rorug06G0076200 Rorug06G0076300 Rorug06G0076400
rosa_samantha	Rh6AG190900 Rh6BG194400 Rh6CG194300 Rh6DG186200
rosa_wichuraiana	Rw6G016710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	550
AccB1I	GGYRCC	1 cut(s)	465
AccII	CGCG	1 cut(s)	711
AccIII	TCCGGA	1 cut(s)	42
AciI	CCGC	2 cut(s)	249, 593
AcoI	YGGCCR	1 cut(s)	384
AcsI	RAATTY	4 cut(s)	150, 181, 437, 499
AcuI	CTGAAG	3 cut(s)	186, 512, 665
AcyI	GRCGYC	1 cut(s)	466
AfaI	GTAC	2 cut(s)	77, 371
AfeI	AGCGCT	1 cut(s)	655
AfiI	CCNNNNNNNGG	3 cut(s)	309, 360, 457
AgsI	TTSAA	1 cut(s)	490
AjiI	CACGTC	1 cut(s)	742
AluBI	AGCT	3 cut(s)	104, 306, 544
AluI	AGCT	3 cut(s)	104, 306, 544
Alw21I	GWGCWC	1 cut(s)	239
Alw26I	GTCTC	3 cut(s)	160, 514, 732
Alw44I	GTGCAC	1 cut(s)	235
Aor13HI	TCCGGA	1 cut(s)	42
Aor51HI	AGCGCT	1 cut(s)	655
AoxI	GGCC	1 cut(s)	384
ApaLI	GTGCAC	1 cut(s)	235
ApoI	RAATTY	4 cut(s)	150, 181, 437, 499
AspLEI	GCGC	4 cut(s)	468, 551, 656, 713
AspS9I	GGNCC	1 cut(s)	351
AsuHPI	GGTGA	2 cut(s)	16, 202
AvaII	GGWCC	1 cut(s)	351
BaeGI	GKGCMC	1 cut(s)	239
BalI	TGGCCA	1 cut(s)	386
BanI	GGYRCC	1 cut(s)	465
BauI	CACGAG	1 cut(s)	756
Bbv12I	GWGCWC	1 cut(s)	239
BccI	CCATC	2 cut(s)	213, 732
BciVI	GTATCC	1 cut(s)	420
BcoDI	GTCTC	3 cut(s)	160, 514, 732
BfmI	CTRYAG	1 cut(s)	243
BfoI	RGCGCY	2 cut(s)	469, 657
BfuI	GTATCC	1 cut(s)	420
BisI	GCNGC	1 cut(s)	593
BlsI	GCNGC	1 cut(s)	594
Bme18I	GGWCC	1 cut(s)	351
BmgBI	CACGTC	1 cut(s)	742
BmgT120I	GGNCC	1 cut(s)	351
BmiI	GGNNCC	2 cut(s)	301, 467
BmsI	GCATC	4 cut(s)	346, 354, 405, 522
BplI	GAGNNNNNCTC	2 cut(s)	435, 467
BpuEI	CTTGAG	1 cut(s)	496
Bsa29I	ATCGAT	1 cut(s)	11
BsaHI	GRCGYC	1 cut(s)	466
BsaI	GGTCTC	1 cut(s)	514
BsaJI	CCNNGG	2 cut(s)	387, 659
BsaWI	WCCGGW	1 cut(s)	42
Bsc4I	CCNNNNNNNGG	3 cut(s)	309, 360, 457
Bse1I	ACTGG	2 cut(s)	428, 628
Bse3DI	GCAATG	1 cut(s)	275
BseAI	TCCGGA	1 cut(s)	42
BseCI	ATCGAT	1 cut(s)	11
BseDI	CCNNGG	2 cut(s)	387, 659
BseGI	GGATG	1 cut(s)	51
BseLI	CCNNNNNNNGG	3 cut(s)	309, 360, 457
BseMI	GCAATG	1 cut(s)	275
BseMII	CTCAG	1 cut(s)	710
BseNI	ACTGG	2 cut(s)	428, 628
BseSI	GKGCMC	1 cut(s)	239
Bsh1236I	CGCG	1 cut(s)	711
BshFI	GGCC	1 cut(s)	386
BshNI	GGYRCC	1 cut(s)	465
BshVI	ATCGAT	1 cut(s)	11
BsiHKAI	GWGCWC	1 cut(s)	239
BsiSI	CCGG	1 cut(s)	43
BslI	CCNNNNNNNGG	3 cut(s)	309, 360, 457
BsmAI	GTCTC	3 cut(s)	160, 514, 732
BsmBI	CGTCTC	1 cut(s)	732
BsnI	GGCC	1 cut(s)	386
Bso31I	GGTCTC	1 cut(s)	514
Bsp1286I	GDGCHC	1 cut(s)	239
Bsp13I	TCCGGA	1 cut(s)	42
Bsp143I	GATC	1 cut(s)	648
BspACI	CCGC	2 cut(s)	249, 593
BspANI	GGCC	1 cut(s)	386
BspCNI	CTCAG	1 cut(s)	711
BspDI	ATCGAT	1 cut(s)	11
BspEI	TCCGGA	1 cut(s)	42
BspFNI	CGCG	1 cut(s)	711
BspHI	TCATGA	2 cut(s)	393, 564
BspLI	GGNNCC	2 cut(s)	301, 467
BspQI	GCTCTTC	1 cut(s)	531
BspT107I	GGYRCC	1 cut(s)	465
BspTNI	GGTCTC	1 cut(s)	514
BsrDI	GCAATG	1 cut(s)	275
BsrI	ACTGG	2 cut(s)	428, 628
BssECI	CCNNGG	2 cut(s)	387, 659
BssMI	GATC	1 cut(s)	648
BssNI	GRCGYC	1 cut(s)	466
BssSI	CACGAG	1 cut(s)	756
BssT1I	CCWWGG	2 cut(s)	387, 659
Bst2BI	CACGAG	1 cut(s)	756
Bst6I	CTCTTC	3 cut(s)	531, 728, 769
BstACI	GRCGYC	1 cut(s)	466
BstC8I	GCNNGC	1 cut(s)	765
BstDEI	CTNAG	2 cut(s)	109, 719
BstF5I	GGATG	1 cut(s)	51
BstFNI	CGCG	1 cut(s)	711
BstH2I	RGCGCY	2 cut(s)	469, 657
BstHHI	GCGC	4 cut(s)	468, 551, 656, 713
BstKTI	GATC	1 cut(s)	651
BstMAI	GTCTC	3 cut(s)	160, 514, 732
BstMBI	GATC	1 cut(s)	648
BstMWI	GCNNNNNNNGC	2 cut(s)	110, 541
BstSFI	CTRYAG	1 cut(s)	243
BstSLI	GKGCMC	1 cut(s)	239
BstUI	CGCG	1 cut(s)	711
Bsu15I	ATCGAT	1 cut(s)	11
BsuI	GTATCC	1 cut(s)	420
BsuRI	GGCC	1 cut(s)	386
BsuTUI	ATCGAT	1 cut(s)	11
BtrI	CACGTC	1 cut(s)	742
BtsCI	GGATG	1 cut(s)	51
BtsIMutI	CAGTG	1 cut(s)	96
Cac8I	GCNNGC	1 cut(s)	765
CciI	TCATGA	2 cut(s)	393, 564
CfoI	GCGC	4 cut(s)	468, 551, 656, 713
Cfr13I	GGNCC	1 cut(s)	351
ClaI	ATCGAT	1 cut(s)	11
CseI	GACGC	1 cut(s)	232
Csp6I	GTAC	2 cut(s)	76, 370
CviAII	CATG	7 cut(s)	196, 360, 394, 462, 565, 694, 705
CviJI	RGCY	9 cut(s)	104, 160, 306, 386, 544, 562, 592, 610, 723
CviKI_1	RGCY	9 cut(s)	104, 160, 306, 386, 544, 562, 592, 610, 723
CviQI	GTAC	2 cut(s)	76, 370
DdeI	CTNAG	2 cut(s)	109, 719
DinI	GGCGCC	1 cut(s)	467
DpnI	GATC	1 cut(s)	650
DpnII	GATC	1 cut(s)	648
DraI	TTTAAA	1 cut(s)	318
EaeI	YGGCCR	1 cut(s)	384
Eam1104I	CTCTTC	3 cut(s)	531, 728, 769
EarI	CTCTTC	3 cut(s)	531, 728, 769
EciI	GGCGGA	1 cut(s)	264
Eco130I	CCWWGG	2 cut(s)	387, 659
Eco31I	GGTCTC	1 cut(s)	514
Eco47I	GGWCC	1 cut(s)	351
Eco47III	AGCGCT	1 cut(s)	655
Eco57I	CTGAAG	3 cut(s)	186, 512, 665
EcoRI	GAATTC	1 cut(s)	437
EcoT14I	CCWWGG	2 cut(s)	387, 659
EcoT22I	ATGCAT	2 cut(s)	361, 420
EgeI	GGCGCC	1 cut(s)	467
EheI	GGCGCC	1 cut(s)	467
ErhI	CCWWGG	2 cut(s)	387, 659
Esp3I	CGTCTC	1 cut(s)	732
FaeI	CATG	7 cut(s)	199, 363, 397, 465, 568, 697, 708
FatI	CATG	7 cut(s)	195, 359, 393, 461, 564, 693, 704
Fnu4HI	GCNGC	1 cut(s)	593
FokI	GGATG	1 cut(s)	58
Fsp4HI	GCNGC	1 cut(s)	593
FspI	TGCGCA	1 cut(s)	550
GlaI	GCGC	4 cut(s)	467, 550, 655, 712
GluI	GCNGC	1 cut(s)	593
HaeII	RGCGCY	2 cut(s)	469, 657
HaeIII	GGCC	1 cut(s)	386
HapII	CCGG	1 cut(s)	43
HgaI	GACGC	1 cut(s)	232
HhaI	GCGC	4 cut(s)	468, 551, 656, 713
Hin1I	GRCGYC	1 cut(s)	466
Hin1II	CATG	7 cut(s)	199, 363, 397, 465, 568, 697, 708
Hin6I	GCGC	4 cut(s)	466, 549, 654, 711
HinP1I	GCGC	4 cut(s)	466, 549, 654, 711
HindIII	AAGCTT	1 cut(s)	542
HinfI	GANTC	4 cut(s)	30, 35, 397, 474
HpaII	CCGG	1 cut(s)	43
HphI	GGTGA	2 cut(s)	16, 202
Hpy166II	GTNNAC	2 cut(s)	193, 237
Hpy188I	TCNGA	5 cut(s)	149, 205, 355, 443, 531
Hpy188III	TCNNGA	5 cut(s)	43, 378, 394, 403, 565
Hpy8I	GTNNAC	2 cut(s)	193, 237
HpyAV	CCTTC	1 cut(s)	49
HpyCH4IV	ACGT	1 cut(s)	741
HpyCH4V	TGCA	5 cut(s)	237, 268, 359, 418, 767
HpyF10VI	GCNNNNNNNGC	2 cut(s)	110, 541
HpyF3I	CTNAG	2 cut(s)	109, 719
HpySE526I	ACGT	1 cut(s)	741
Hsp92I	GRCGYC	1 cut(s)	466
Hsp92II	CATG	7 cut(s)	199, 363, 397, 465, 568, 697, 708
HspAI	GCGC	4 cut(s)	466, 549, 654, 711
KasI	GGCGCC	1 cut(s)	465
Kpn2I	TCCGGA	1 cut(s)	42
Kzo9I	GATC	1 cut(s)	648
LguI	GCTCTTC	1 cut(s)	531
LmnI	GCTCC	1 cut(s)	661
LweI	GCATC	4 cut(s)	346, 354, 405, 522
MaeII	ACGT	1 cut(s)	741
MalI	GATC	1 cut(s)	650
MboI	GATC	1 cut(s)	648
MboII	GAAGA	7 cut(s)	478, 518, 658, 680, 690, 693, 745
MhlI	GDGCHC	1 cut(s)	239
MlsI	TGGCCA	1 cut(s)	386
MluCI	AATT	6 cut(s)	150, 181, 437, 499, 596, 748
MluNI	TGGCCA	1 cut(s)	386
Mly113I	GGCGCC	1 cut(s)	466
MlyI	GAGTC	1 cut(s)	44
MnlI	CCTC	7 cut(s)	14, 89, 281, 288, 461, 498, 600
Mox20I	TGGCCA	1 cut(s)	386
Mph1103I	ATGCAT	2 cut(s)	361, 420
MroI	TCCGGA	1 cut(s)	42
MscI	TGGCCA	1 cut(s)	386
MseI	TTAA	4 cut(s)	230, 317, 602, 751
Msp20I	TGGCCA	1 cut(s)	386
MspI	CCGG	1 cut(s)	43
MvnI	CGCG	1 cut(s)	711
MwoI	GCNNNNNNNGC	2 cut(s)	110, 541
NarI	GGCGCC	1 cut(s)	466
NdeII	GATC	1 cut(s)	648
NlaIII	CATG	7 cut(s)	199, 363, 397, 465, 568, 697, 708
NlaIV	GGNNCC	2 cut(s)	301, 467
NsbI	TGCGCA	1 cut(s)	550
NsiI	ATGCAT	2 cut(s)	361, 420
PagI	TCATGA	2 cut(s)	393, 564
PciSI	GCTCTTC	1 cut(s)	531
PfeI	GAWTC	3 cut(s)	30, 397, 474
PkrI	GCNGC	1 cut(s)	594
PleI	GAGTC	1 cut(s)	43
PluTI	GGCGCC	1 cut(s)	469
PpsI	GAGTC	1 cut(s)	43
PspN4I	GGNNCC	2 cut(s)	301, 467
PspPI	GGNCC	1 cut(s)	351
RsaI	GTAC	2 cut(s)	77, 371
RsaNI	GTAC	2 cut(s)	76, 370
SapI	GCTCTTC	1 cut(s)	531
SaqAI	TTAA	4 cut(s)	230, 317, 602, 751
SatI	GCNGC	1 cut(s)	593
Sau3AI	GATC	1 cut(s)	648
Sau96I	GGNCC	1 cut(s)	351
SchI	GAGTC	1 cut(s)	44
SduI	GDGCHC	1 cut(s)	239
SfaNI	GCATC	4 cut(s)	346, 354, 405, 522
SfcI	CTRYAG	1 cut(s)	243
SfoI	GGCGCC	1 cut(s)	467
SinI	GGWCC	1 cut(s)	351
SmlI	CTYRAG	1 cut(s)	511
SmoI	CTYRAG	1 cut(s)	511
Sse9I	AATT	6 cut(s)	150, 181, 437, 499, 596, 748
SsiI	CCGC	2 cut(s)	249, 593
SspDI	GGCGCC	1 cut(s)	465
StyI	CCWWGG	2 cut(s)	387, 659
TaiI	ACGT	1 cut(s)	744
TaqI	TCGA	4 cut(s)	11, 33, 54, 573
TasI	AATT	6 cut(s)	150, 181, 437, 499, 596, 748
TatI	WGTACW	1 cut(s)	369
TauI	GCSGC	1 cut(s)	595
TfiI	GAWTC	3 cut(s)	30, 397, 474
Tru1I	TTAA	4 cut(s)	230, 317, 602, 751
Tru9I	TTAA	4 cut(s)	230, 317, 602, 751
TscAI	CASTG	1 cut(s)	96
TspDTI	ATGAA	6 cut(s)	251, 410, 507, 581, 691, 746
TspGWI	ACGGA	1 cut(s)	467
TspRI	CASTG	1 cut(s)	96
VneI	GTGCAC	1 cut(s)	235
VpaK11BI	GGWCC	1 cut(s)	351
XapI	RAATTY	4 cut(s)	150, 181, 437, 499
Zsp2I	ATGCAT	2 cut(s)	361, 420

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