Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0004698

Physical Location & Seq

Genomic Coordinates Forward (+)

60213851 .. 60217228

Gene Structure 3378 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000030372

Sequence Viewer

CDS Protein Promoter (2k)

Length: 525 bp

ATGAACATCTGCTTTGGAAATTTACAGCATTGCTTTGTTGGTCTACAGATAACAGTTGATGGAGAAGTTATTAGAGACTCGAATACGATCCTCAGGGTTGGTTCACAATTGTATGAAGATGATGATATGATTGCTTTGAATAAGCCAGGCGGGATACAAGTTTTACCTGGAGGTCTTTTCCAGCAACGGACAGTTCTAACACAGCTCCTATGGCGGCAAACTCAGAAGATCCATCACTTAGCATGCCAAAAATCACATCTTGTTCCTGTTCATCGCCTAGGAAGGGGCACTTCAGGAATACTGCTATGTGCAAAGATAAATCATGCCAAAAAGCAACTTGCAGCATATTTTGCTGATGGGACATCCCATATTGGAGATGACAGGTTCTACAAGGTCGTAGGAAATAAGATTTTGATATGGTTTCAGCTTTGCCATGGAATGATTTTTAATCACAAGCCGCCTGGATGTGTTGATTGCTCGCACACATGCAGTGAAAAATTCTATGCAAACTCTAAAGGCAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000154 GO:0000455 GO:0001522 GO:0003674 GO:0003824 GO:0006139 GO:0006364 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:0016072 GO:0016853 GO:0016866 GO:0022613 GO:0031118 GO:0031119 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0043170 GO:0043412 GO:0044085 GO:0044237 GO:0044238 GO:0046483 GO:0071704 GO:0071840 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PseudoU_synth_2

Protein Analysis

175

Amino Acids

19.44

Weight (kDa)

9.07

Isoelectric Point (pI)

36.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PseudoU_synth_2	PF00849	43 - 119	4.5e-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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Publication-ready

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Orthologous Genes (Group: OG0004698)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G52260 AT3G52260 AT3G52260 AT3G52260
fragaria_vesca	FvH4_7g19860
malus_domestica	MD07G1176900.v1.1
prunus_persica	Prupe.2G215700_v2.0.a1 Prupe.2G215700_v2.0.a1
pyrus_communis	pycom07g17100
rosa_chinensis	RchiOBHm_Chr1g0363851 RchiOBHm_Chr2g0104231 RchiOBHm_Chr2g0110391 RchiOBHm_Chr5g0046841
rosa_laevigata	RLG00000027541 RLG00000030372
rosa_multiflora	Rmu_sc0002474.1_g000014
rosa_roxburghii	Rroxscaffold_4G00292920
rosa_rugosa	Rorug01G0309800 Rorug01G0309900
rosa_samantha	Rh1AG318300 Rh1BG281500 Rh1CG297900 Rh1DG312800 Rh3CG345100 Rh4AG103100 Rh4CG111400 Rh5AG515700 Rh5BG320500 Rh5DG331200
rosa_wichuraiana	Rw1G028250 Rw5G039760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	43
AciI	CCGC	3 cut(s)	150, 214, 458
AclWI	GGATC	2 cut(s)	82, 223
AcsI	RAATTY	2 cut(s)	19, 497
AcuI	CTGAAG	1 cut(s)	276
AfiI	CCNNNNNNNGG	1 cut(s)	283
AgsI	TTSAA	1 cut(s)	139
AjnI	CCWGG	3 cut(s)	145, 166, 460
AluBI	AGCT	2 cut(s)	205, 427
AluI	AGCT	2 cut(s)	205, 427
Alw26I	GTCTC	1 cut(s)	69
AlwI	GGATC	2 cut(s)	82, 223
ApeKI	GCWGC	1 cut(s)	341
ApoI	RAATTY	2 cut(s)	19, 497
AspA2I	CCTAGG	1 cut(s)	277
AvrII	CCTAGG	1 cut(s)	277
AxyI	CCTNAGG	1 cut(s)	92
BaeGI	GKGCMC	1 cut(s)	290
BbvI	GCAGC	1 cut(s)	353
BccI	CCATC	3 cut(s)	53, 240, 350
BciT130I	CCWGG	3 cut(s)	147, 168, 462
BciVI	GTATCC	1 cut(s)	147
BcoDI	GTCTC	1 cut(s)	69
BfaI	CTAG	1 cut(s)	278
BfmI	CTRYAG	1 cut(s)	44
BfuI	GTATCC	1 cut(s)	147
BisI	GCNGC	3 cut(s)	215, 342, 458
BlnI	CCTAGG	1 cut(s)	277
BlsI	GCNGC	3 cut(s)	216, 343, 459
Bme1390I	CCNGG	3 cut(s)	147, 168, 462
BmrFI	CCNGG	3 cut(s)	147, 168, 462
BpmI	CTGGAG	1 cut(s)	189
BsaJI	CCNNGG	2 cut(s)	277, 433
Bsc4I	CCNNNNNNNGG	1 cut(s)	283
Bse21I	CCTNAGG	1 cut(s)	92
Bse3DI	GCAATG	1 cut(s)	28
BseBI	CCWGG	3 cut(s)	147, 168, 462
BseDI	CCNNGG	2 cut(s)	277, 433
BseGI	GGATG	2 cut(s)	362, 470
BseLI	CCNNNNNNNGG	1 cut(s)	283
BseMI	GCAATG	1 cut(s)	28
BseMII	CTCAG	2 cut(s)	106, 236
BseSI	GKGCMC	1 cut(s)	290
BseXI	GCAGC	1 cut(s)	353
BslFI	GGGAC	1 cut(s)	373
BslI	CCNNNNNNNGG	1 cut(s)	283
BsmAI	GTCTC	1 cut(s)	69
BsmFI	GGGAC	1 cut(s)	373
Bsp1286I	GDGCHC	1 cut(s)	290
Bsp143I	GATC	2 cut(s)	87, 228
Bsp19I	CCATGG	1 cut(s)	433
BspACI	CCGC	3 cut(s)	150, 214, 458
BspCNI	CTCAG	2 cut(s)	105, 235
BspPI	GGATC	2 cut(s)	82, 223
BsrDI	GCAATG	1 cut(s)	28
BssECI	CCNNGG	2 cut(s)	277, 433
BssMI	GATC	2 cut(s)	87, 228
BssT1I	CCWWGG	2 cut(s)	277, 433
Bst2UI	CCWGG	3 cut(s)	147, 168, 462
Bst4CI	ACNGT	2 cut(s)	55, 193
BstAPI	GCANNNNNTGC	1 cut(s)	350
BstC8I	GCNNGC	2 cut(s)	244, 479
BstDEI	CTNAG	3 cut(s)	92, 222, 238
BstDSI	CCRYGG	1 cut(s)	433
BstF5I	GGATG	2 cut(s)	362, 470
BstKTI	GATC	2 cut(s)	90, 231
BstMAI	GTCTC	1 cut(s)	69
BstMBI	GATC	2 cut(s)	87, 228
BstMWI	GCNNNNNNNGC	2 cut(s)	211, 350
BstNI	CCWGG	3 cut(s)	147, 168, 462
BstNSI	RCATGY	2 cut(s)	246, 489
BstSCI	CCNGG	3 cut(s)	145, 166, 460
BstSFI	CTRYAG	1 cut(s)	44
BstSLI	GKGCMC	1 cut(s)	290
BstV1I	GCAGC	1 cut(s)	353
BstX2I	RGATCY	1 cut(s)	228
BstYI	RGATCY	1 cut(s)	228
Bsu36I	CCTNAGG	1 cut(s)	92
BsuI	GTATCC	1 cut(s)	147
BtgI	CCRYGG	1 cut(s)	433
BtgZI	GCGATG	1 cut(s)	257
BtsCI	GGATG	2 cut(s)	362, 470
BtsI	GCAGTG	1 cut(s)	496
BtsIMutI	CAGTG	1 cut(s)	496
Cac8I	GCNNGC	2 cut(s)	244, 479
CviAII	CATG	4 cut(s)	243, 323, 434, 486
CviJI	RGCY	4 cut(s)	145, 205, 427, 457
CviKI_1	RGCY	4 cut(s)	145, 205, 427, 457
DdeI	CTNAG	3 cut(s)	92, 222, 238
DpnI	GATC	2 cut(s)	89, 230
DpnII	GATC	2 cut(s)	87, 228
Eco130I	CCWWGG	2 cut(s)	277, 433
Eco57I	CTGAAG	1 cut(s)	276
Eco81I	CCTNAGG	1 cut(s)	92
EcoRII	CCWGG	3 cut(s)	145, 166, 460
EcoT14I	CCWWGG	2 cut(s)	277, 433
ErhI	CCWWGG	2 cut(s)	277, 433
FaeI	CATG	4 cut(s)	246, 326, 437, 489
FalI	AAGNNNNNCTT	2 cut(s)	274, 306
FaqI	GGGAC	1 cut(s)	373
FatI	CATG	4 cut(s)	242, 322, 433, 485
FauI	CCCGC	1 cut(s)	143
FblI	GTMKAC	1 cut(s)	43
Fnu4HI	GCNGC	3 cut(s)	215, 342, 458
FokI	GGATG	2 cut(s)	349, 477
Fsp4HI	GCNGC	3 cut(s)	215, 342, 458
FspBI	CTAG	1 cut(s)	278
GluI	GCNGC	3 cut(s)	215, 342, 458
GsuI	CTGGAG	1 cut(s)	189
Hin1II	CATG	4 cut(s)	246, 326, 437, 489
HinfI	GANTC	1 cut(s)	77
Hpy166II	GTNNAC	2 cut(s)	44, 104
Hpy188I	TCNGA	1 cut(s)	225
Hpy188III	TCNNGA	1 cut(s)	294
Hpy8I	GTNNAC	2 cut(s)	44, 104
HpyAV	CCTTC	1 cut(s)	276
HpyCH4III	ACNGT	2 cut(s)	55, 193
HpyCH4V	TGCA	4 cut(s)	311, 341, 489, 506
HpyF10VI	GCNNNNNNNGC	2 cut(s)	211, 350
HpyF3I	CTNAG	3 cut(s)	92, 222, 238
Hsp92II	CATG	4 cut(s)	246, 326, 437, 489
Kzo9I	GATC	2 cut(s)	87, 228
LmnI	GCTCC	1 cut(s)	210
Lsp1109I	GCAGC	1 cut(s)	353
MaeI	CTAG	1 cut(s)	278
MalI	GATC	2 cut(s)	89, 230
MboI	GATC	2 cut(s)	87, 228
MboII	GAAGA	2 cut(s)	128, 238
MfeI	CAATTG	1 cut(s)	107
MflI	RGATCY	1 cut(s)	228
MhlI	GDGCHC	1 cut(s)	290
MluCI	AATT	3 cut(s)	19, 107, 497
MlyI	GAGTC	1 cut(s)	71
MnlI	CCTC	2 cut(s)	101, 164
MseI	TTAA	1 cut(s)	447
MspR9I	CCNGG	3 cut(s)	147, 168, 462
MunI	CAATTG	1 cut(s)	107
MvaI	CCWGG	3 cut(s)	147, 168, 462
MwoI	GCNNNNNNNGC	2 cut(s)	211, 350
NcoI	CCATGG	1 cut(s)	433
NdeII	GATC	2 cut(s)	87, 228
NlaIII	CATG	4 cut(s)	246, 326, 437, 489
NspI	RCATGY	2 cut(s)	246, 489
PaeI	GCATGC	1 cut(s)	246
PkrI	GCNGC	3 cut(s)	216, 343, 459
PleI	GAGTC	1 cut(s)	71
PpsI	GAGTC	1 cut(s)	71
Psp6I	CCWGG	3 cut(s)	145, 166, 460
PspGI	CCWGG	3 cut(s)	145, 166, 460
PsuI	RGATCY	1 cut(s)	228
SaqAI	TTAA	1 cut(s)	447
SatI	GCNGC	3 cut(s)	215, 342, 458
Sau3AI	GATC	2 cut(s)	87, 228
SchI	GAGTC	1 cut(s)	71
ScrFI	CCNGG	3 cut(s)	147, 168, 462
SduI	GDGCHC	1 cut(s)	290
SetI	ASST	6 cut(s)	169, 175, 207, 386, 396, 429
SfcI	CTRYAG	1 cut(s)	44
SphI	GCATGC	1 cut(s)	246
Sse9I	AATT	3 cut(s)	19, 107, 497
SsiI	CCGC	3 cut(s)	150, 214, 458
SspMI	CTAG	1 cut(s)	278
StyD4I	CCNGG	3 cut(s)	145, 166, 460
StyI	CCWWGG	2 cut(s)	277, 433
TaaI	ACNGT	2 cut(s)	55, 193
TaqI	TCGA	1 cut(s)	80
TasI	AATT	3 cut(s)	19, 107, 497
TauI	GCSGC	2 cut(s)	217, 460
Tru1I	TTAA	1 cut(s)	447
Tru9I	TTAA	1 cut(s)	447
TscAI	CASTG	1 cut(s)	496
TseI	GCWGC	1 cut(s)	341
TspDTI	ATGAA	3 cut(s)	17, 129, 260
TspGWI	ACGGA	1 cut(s)	202
TspRI	CASTG	1 cut(s)	496
XapI	RAATTY	2 cut(s)	19, 497
XceI	RCATGY	2 cut(s)	246, 489
XmaJI	CCTAGG	1 cut(s)	277
XmiI	GTMKAC	1 cut(s)	43
XspI	CTAG	1 cut(s)	278

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