Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr6

Orthogroup ID

OG0001594

Physical Location & Seq

Genomic Coordinates Reverse (-)

49720499 .. 49722590

Gene Structure 2092 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw6G026380.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 582 bp

ATGATAAACAAGAAGAGGGACATTGCATGTAGTGAAGAAGAAGTTAAGTTTATTCGTAGTCTCGTGTTGTATAAGGATCCAGCTATTGTCGTCATCAATAAACCTCCTGGATTGCCTGTTCAGGGCGGTATTGGAATCAAAAGGAGTTTAGATGAACTGGCTGCCACTTGTTTAAGTTACCGCTTTTCAGAACCCCCTCATCTGGTACACAGACTTGACAGAGATTGTAGTGGTATCCTTGTGATGGGACGGACACAAATAAGTGCAACAGTTTTGCATTCCCTCTTCCGTGAGAAAACTTTTGGAGTTTCAGATGATGTTATCGACCATGCTAAAGCCATTATGCAAAGAAGGTATTGGGCACTCGTCGTTGGATCTCCCAGACAACAAAAGGGGTTAATCTCCGTGCCTTTAGGAAAGGTGGTGGTAGACAATGGTAAATCAGATAGGATCACCATTGTGAATAAGGCACAATGTTTTCCATCTCAACATGCACTTACAAAGTACGAAGTGATTGGATCATCATGTCCTGTGCTACCATTTTGCCCAAAGAACAATGACGTTTACATCTATGCAATCTAA

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

193

Amino Acids

21.45

Weight (kDa)

9.26

Isoelectric Point (pI)

45.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PseudoU_synth_2	PF00849	29 - 175	9.4e-14	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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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)
AccI	GTMKAC	1 cut(s)	429
AciI	CCGC	2 cut(s)	126, 181
AclWI	GGATC	5 cut(s)	71, 84, 382, 458, 526
AfaI	GTAC	2 cut(s)	207, 506
AfiI	CCNNNNNNNGG	3 cut(s)	122, 202, 244
AjnI	CCWGG	1 cut(s)	106
AleI	CACNNNNGTG	1 cut(s)	458
AloI	GAACNNNNNNTCC	2 cut(s)	102, 134
AluBI	AGCT	1 cut(s)	83
AluI	AGCT	1 cut(s)	83
Alw26I	GTCTC	1 cut(s)	65
AlwI	GGATC	5 cut(s)	71, 84, 382, 458, 526
ApeKI	GCWGC	1 cut(s)	161
AsuHPI	GGTGA	1 cut(s)	445
BaeGI	GKGCMC	1 cut(s)	364
BamHI	GGATCC	1 cut(s)	76
BauI	CACGAG	1 cut(s)	62
BbvI	GCAGC	1 cut(s)	148
BccI	CCATC	2 cut(s)	238, 490
BciT130I	CCWGG	1 cut(s)	108
BciVI	GTATCC	1 cut(s)	245
BcoDI	GTCTC	1 cut(s)	65
BfuI	GTATCC	1 cut(s)	245
BisI	GCNGC	1 cut(s)	162
BlsI	GCNGC	1 cut(s)	163
Bme1390I	CCNGG	1 cut(s)	108
BmiI	GGNNCC	1 cut(s)	78
BmrFI	CCNGG	1 cut(s)	108
Bsc4I	CCNNNNNNNGG	3 cut(s)	122, 202, 244
Bse1I	ACTGG	1 cut(s)	162
Bse3DI	GCAATG	1 cut(s)	21
BseBI	CCWGG	1 cut(s)	108
BseLI	CCNNNNNNNGG	3 cut(s)	122, 202, 244
BseMI	GCAATG	1 cut(s)	21
BseNI	ACTGG	1 cut(s)	162
BseSI	GKGCMC	1 cut(s)	364
BseXI	GCAGC	1 cut(s)	148
BslFI	GGGAC	2 cut(s)	32, 261
BslI	CCNNNNNNNGG	3 cut(s)	122, 202, 244
BsmAI	GTCTC	1 cut(s)	65
BsmFI	GGGAC	2 cut(s)	32, 261
BsmI	GAATGC	1 cut(s)	277
Bsp1286I	GDGCHC	1 cut(s)	364
Bsp143I	GATC	4 cut(s)	76, 374, 450, 518
BspACI	CCGC	2 cut(s)	126, 181
BspLI	GGNNCC	1 cut(s)	78
BspPI	GGATC	5 cut(s)	71, 84, 382, 458, 526
BsrDI	GCAATG	1 cut(s)	21
BsrI	ACTGG	1 cut(s)	162
BssMI	GATC	4 cut(s)	76, 374, 450, 518
BssSI	CACGAG	1 cut(s)	62
Bst2BI	CACGAG	1 cut(s)	62
Bst2UI	CCWGG	1 cut(s)	108
Bst4CI	ACNGT	1 cut(s)	271
Bst6I	CTCTTC	2 cut(s)	8, 290
BstKTI	GATC	4 cut(s)	79, 377, 453, 521
BstMAI	GTCTC	1 cut(s)	65
BstMBI	GATC	4 cut(s)	76, 374, 450, 518
BstNI	CCWGG	1 cut(s)	108
BstNSI	RCATGY	2 cut(s)	30, 494
BstSCI	CCNGG	1 cut(s)	106
BstSLI	GKGCMC	1 cut(s)	364
BstV1I	GCAGC	1 cut(s)	148
BstX2I	RGATCY	2 cut(s)	76, 374
BstYI	RGATCY	2 cut(s)	76, 374
BsuI	GTATCC	1 cut(s)	245
Csp6I	GTAC	2 cut(s)	206, 505
CviAII	CATG	4 cut(s)	27, 329, 491, 525
CviJI	RGCY	3 cut(s)	83, 161, 338
CviKI_1	RGCY	3 cut(s)	83, 161, 338
CviQI	GTAC	2 cut(s)	206, 505
DpnI	GATC	4 cut(s)	78, 376, 452, 520
DpnII	GATC	4 cut(s)	76, 374, 450, 518
Eam1104I	CTCTTC	2 cut(s)	8, 290
EarI	CTCTTC	2 cut(s)	8, 290
EcoRII	CCWGG	1 cut(s)	106
FaeI	CATG	4 cut(s)	30, 332, 494, 528
FaiI	YATR	7 cut(s)	28, 72, 330, 344, 492, 526, 573
FaqI	GGGAC	2 cut(s)	32, 261
FatI	CATG	4 cut(s)	26, 328, 490, 524
FblI	GTMKAC	1 cut(s)	429
Fnu4HI	GCNGC	1 cut(s)	162
Fsp4HI	GCNGC	1 cut(s)	162
GluI	GCNGC	1 cut(s)	162
Hin1II	CATG	4 cut(s)	30, 332, 494, 528
HinfI	GANTC	1 cut(s)	135
HphI	GGTGA	1 cut(s)	445
Hpy166II	GTNNAC	3 cut(s)	208, 430, 565
Hpy188I	TCNGA	3 cut(s)	190, 313, 445
Hpy8I	GTNNAC	3 cut(s)	208, 430, 565
Hpy99I	CGWCG	1 cut(s)	371
HpyAV	CCTTC	1 cut(s)	345
HpyCH4III	ACNGT	1 cut(s)	271
HpyCH4IV	ACGT	1 cut(s)	561
HpyCH4V	TGCA	6 cut(s)	26, 266, 277, 346, 494, 575
HpySE526I	ACGT	1 cut(s)	561
Hsp92II	CATG	4 cut(s)	30, 332, 494, 528
Kzo9I	GATC	4 cut(s)	76, 374, 450, 518
LpnPI	CCDG	9 cut(s)	93, 93, 107, 120, 129, 143, 188, 394, 543
Lsp1109I	GCAGC	1 cut(s)	148
MaeII	ACGT	1 cut(s)	561
MaeIII	GTNAC	1 cut(s)	176
MalI	GATC	4 cut(s)	78, 376, 452, 520
MboI	GATC	4 cut(s)	76, 374, 450, 518
MboII	GAAGA	4 cut(s)	25, 47, 50, 277
MflI	RGATCY	2 cut(s)	76, 374
MhlI	GDGCHC	1 cut(s)	364
MmeI	TCCRAC	1 cut(s)	352
MnlI	CCTC	4 cut(s)	9, 114, 207, 293
MseI	TTAA	3 cut(s)	45, 173, 398
MslI	CAYNNNNRTG	1 cut(s)	458
MspR9I	CCNGG	1 cut(s)	108
Mva1269I	GAATGC	1 cut(s)	277
MvaI	CCWGG	1 cut(s)	108
NdeII	GATC	4 cut(s)	76, 374, 450, 518
NlaIII	CATG	4 cut(s)	30, 332, 494, 528
NlaIV	GGNNCC	1 cut(s)	78
NspI	RCATGY	2 cut(s)	30, 494
OliI	CACNNNNGTG	1 cut(s)	458
PctI	GAATGC	1 cut(s)	277
PfeI	GAWTC	1 cut(s)	135
PfoI	TCCNGGA	1 cut(s)	106
PkrI	GCNGC	1 cut(s)	163
Psp6I	CCWGG	1 cut(s)	106
PspGI	CCWGG	1 cut(s)	106
PspN4I	GGNNCC	1 cut(s)	78
PsuI	RGATCY	2 cut(s)	76, 374
RsaI	GTAC	2 cut(s)	207, 506
RsaNI	GTAC	2 cut(s)	206, 505
RseI	CAYNNNNRTG	1 cut(s)	458
SaqAI	TTAA	3 cut(s)	45, 173, 398
SatI	GCNGC	1 cut(s)	162
Sau3AI	GATC	4 cut(s)	76, 374, 450, 518
ScrFI	CCNGG	1 cut(s)	108
SduI	GDGCHC	1 cut(s)	364
SetI	ASST	5 cut(s)	85, 106, 356, 423, 564
SmiMI	CAYNNNNRTG	1 cut(s)	458
SsiI	CCGC	2 cut(s)	126, 181
StyD4I	CCNGG	1 cut(s)	106
TaaI	ACNGT	1 cut(s)	271
TaiI	ACGT	1 cut(s)	564
TaqI	TCGA	1 cut(s)	324
TfiI	GAWTC	1 cut(s)	135
Tru1I	TTAA	3 cut(s)	45, 173, 398
Tru9I	TTAA	3 cut(s)	45, 173, 398
TseI	GCWGC	1 cut(s)	161
TspDTI	ATGAA	1 cut(s)	168
TspGWI	ACGGA	3 cut(s)	265, 278, 394
XceI	RCATGY	2 cut(s)	30, 494
XmiI	GTMKAC	1 cut(s)	429

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