Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0001594

Physical Location & Seq

Genomic Coordinates Reverse (-)

45694965 .. 45696339

Gene Structure 1375 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG357100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 537 bp

ATGAAGGTGGGGGCTAAAGACTCGATGAACTTAGGAGATCGAATTTGTCTTCCTAGTTCTGTGAAAGAGTTCCCTGATGATAAACAAGAAGAGGGACATTGTAGTGAAGAAGAAGTTAAGTTTATTCGTAGTCTCGTGTTGTATAAGGATCCAGCTATTGTCGTCATCAATAAACCTCCTGGATTGCCTGTTCAGGGCGGTATTGGAATCAAAAGGAGTTTAGATGAACTGGCTGCCACTTGTTTAAGTTACGGCTTTTCAGAACCCCCTCGTCTGGTACACAAACTTGACAGAGATTGTAGTGGTATCCTTGTGATGGGACGGACACAAACAAGTGCAACAGTTTTGCATTCCCTCTTCCGTGAGAAAACTTTTAGAGCTTCAGATGATGTTATCGACCATGCTAAAGCCATTCTGCAAAGAAGGTATTGGGCACTTGTCGTTGGATCTCCCAGACAACAAGAGGGGTTAATCTCCGTGCCTTTAGGAAAGGTTAGAGTACTTATGAATGTTGTCATTGTCCTACATATGCCGTAG

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

178

Amino Acids

19.72

Weight (kDa)

8.69

Isoelectric Point (pI)

49.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PseudoU_synth_2	PF00849	53 - 164	1.7e-11	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: 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)
AciI	CCGC	1 cut(s)	198
AclWI	GGATC	3 cut(s)	143, 156, 454
AcsI	RAATTY	1 cut(s)	42
AcuI	CTGAAG	1 cut(s)	366
AfaI	GTAC	2 cut(s)	279, 501
AfiI	CCNNNNNNNGG	3 cut(s)	194, 274, 316
AjnI	CCWGG	1 cut(s)	178
AloI	GAACNNNNNNTCC	2 cut(s)	174, 206
AluBI	AGCT	2 cut(s)	155, 380
AluI	AGCT	2 cut(s)	155, 380
Alw26I	GTCTC	1 cut(s)	137
AlwI	GGATC	3 cut(s)	143, 156, 454
ApeKI	GCWGC	1 cut(s)	233
ApoI	RAATTY	1 cut(s)	42
Asp700I	GAANNNNTTC	1 cut(s)	68
BaeGI	GKGCMC	1 cut(s)	436
BamHI	GGATCC	1 cut(s)	148
BauI	CACGAG	1 cut(s)	134
BbsI	GAAGAC	1 cut(s)	41
BbvI	GCAGC	1 cut(s)	220
BccI	CCATC	1 cut(s)	310
BceAI	ACGGC	2 cut(s)	268, 517
BciT130I	CCWGG	1 cut(s)	180
BciVI	GTATCC	1 cut(s)	317
BcoDI	GTCTC	1 cut(s)	137
BfaI	CTAG	1 cut(s)	54
BfuI	GTATCC	1 cut(s)	317
BisI	GCNGC	1 cut(s)	234
BlsI	GCNGC	1 cut(s)	235
BmcAI	AGTACT	1 cut(s)	501
Bme1390I	CCNGG	1 cut(s)	180
BmiI	GGNNCC	1 cut(s)	150
BmrFI	CCNGG	1 cut(s)	180
BpiI	GAAGAC	1 cut(s)	41
Bsc4I	CCNNNNNNNGG	3 cut(s)	194, 274, 316
Bse1I	ACTGG	1 cut(s)	234
BseBI	CCWGG	1 cut(s)	180
BseLI	CCNNNNNNNGG	3 cut(s)	194, 274, 316
BseNI	ACTGG	1 cut(s)	234
BseSI	GKGCMC	1 cut(s)	436
BseXI	GCAGC	1 cut(s)	220
BslFI	GGGAC	2 cut(s)	108, 333
BslI	CCNNNNNNNGG	3 cut(s)	194, 274, 316
BsmAI	GTCTC	1 cut(s)	137
BsmFI	GGGAC	2 cut(s)	108, 333
BsmI	GAATGC	1 cut(s)	349
Bsp1286I	GDGCHC	1 cut(s)	436
Bsp143I	GATC	3 cut(s)	37, 148, 446
BspACI	CCGC	1 cut(s)	198
BspLI	GGNNCC	1 cut(s)	150
BspPI	GGATC	3 cut(s)	143, 156, 454
BsrI	ACTGG	1 cut(s)	234
BssMI	GATC	3 cut(s)	37, 148, 446
BssSI	CACGAG	1 cut(s)	134
Bst2BI	CACGAG	1 cut(s)	134
Bst2UI	CCWGG	1 cut(s)	180
Bst4CI	ACNGT	1 cut(s)	343
Bst6I	CTCTTC	2 cut(s)	84, 362
BstDEI	CTNAG	1 cut(s)	31
BstKTI	GATC	3 cut(s)	40, 151, 449
BstMAI	GTCTC	1 cut(s)	137
BstMBI	GATC	3 cut(s)	37, 148, 446
BstNI	CCWGG	1 cut(s)	180
BstSCI	CCNGG	1 cut(s)	178
BstSLI	GKGCMC	1 cut(s)	436
BstV1I	GCAGC	1 cut(s)	220
BstV2I	GAAGAC	1 cut(s)	41
BstX2I	RGATCY	2 cut(s)	148, 446
BstYI	RGATCY	2 cut(s)	148, 446
BsuI	GTATCC	1 cut(s)	317
Csp6I	GTAC	2 cut(s)	278, 500
CviAII	CATG	1 cut(s)	401
CviJI	RGCY	6 cut(s)	14, 155, 233, 255, 380, 410
CviKI_1	RGCY	6 cut(s)	14, 155, 233, 255, 380, 410
CviQI	GTAC	2 cut(s)	278, 500
DdeI	CTNAG	1 cut(s)	31
DpnI	GATC	3 cut(s)	39, 150, 448
DpnII	GATC	3 cut(s)	37, 148, 446
Eam1104I	CTCTTC	2 cut(s)	84, 362
EarI	CTCTTC	2 cut(s)	84, 362
Eco57I	CTGAAG	1 cut(s)	366
EcoRII	CCWGG	1 cut(s)	178
FaeI	CATG	1 cut(s)	404
FaiI	YATR	5 cut(s)	144, 402, 506, 528, 530
FaqI	GGGAC	2 cut(s)	108, 333
FatI	CATG	1 cut(s)	400
FauNDI	CATATG	1 cut(s)	528
Fnu4HI	GCNGC	1 cut(s)	234
Fsp4HI	GCNGC	1 cut(s)	234
FspBI	CTAG	1 cut(s)	54
GluI	GCNGC	1 cut(s)	234
Hin1II	CATG	1 cut(s)	404
HinfI	GANTC	2 cut(s)	20, 207
Hpy166II	GTNNAC	1 cut(s)	280
Hpy188I	TCNGA	2 cut(s)	262, 385
Hpy8I	GTNNAC	1 cut(s)	280
HpyAV	CCTTC	1 cut(s)	417
HpyCH4III	ACNGT	1 cut(s)	343
HpyCH4V	TGCA	3 cut(s)	338, 349, 418
HpyF3I	CTNAG	1 cut(s)	31
Hsp92II	CATG	1 cut(s)	404
Kzo9I	GATC	3 cut(s)	37, 148, 446
LpnPI	CCDG	9 cut(s)	87, 165, 165, 179, 192, 201, 215, 260, 466
Lsp1109I	GCAGC	1 cut(s)	220
MaeI	CTAG	1 cut(s)	54
MaeIII	GTNAC	1 cut(s)	248
MalI	GATC	3 cut(s)	39, 150, 448
MboI	GATC	3 cut(s)	37, 148, 446
MboII	GAAGA	5 cut(s)	41, 101, 119, 122, 349
MflI	RGATCY	2 cut(s)	148, 446
MhlI	GDGCHC	1 cut(s)	436
MluCI	AATT	1 cut(s)	42
MlyI	GAGTC	1 cut(s)	14
MmeI	TCCRAC	1 cut(s)	424
MnlI	CCTC	5 cut(s)	85, 186, 279, 365, 457
MroXI	GAANNNNTTC	1 cut(s)	68
MseI	TTAA	3 cut(s)	117, 245, 470
MslI	CAYNNNNRTG	1 cut(s)	102
MspR9I	CCNGG	1 cut(s)	180
Mva1269I	GAATGC	1 cut(s)	349
MvaI	CCWGG	1 cut(s)	180
NdeI	CATATG	1 cut(s)	528
NdeII	GATC	3 cut(s)	37, 148, 446
NlaIII	CATG	1 cut(s)	404
NlaIV	GGNNCC	1 cut(s)	150
PctI	GAATGC	1 cut(s)	349
PdmI	GAANNNNTTC	1 cut(s)	68
PfeI	GAWTC	1 cut(s)	207
PfoI	TCCNGGA	1 cut(s)	178
PkrI	GCNGC	1 cut(s)	235
PleI	GAGTC	1 cut(s)	14
PpsI	GAGTC	1 cut(s)	14
Psp6I	CCWGG	1 cut(s)	178
PspGI	CCWGG	1 cut(s)	178
PspN4I	GGNNCC	1 cut(s)	150
PsuI	RGATCY	2 cut(s)	148, 446
RsaI	GTAC	2 cut(s)	279, 501
RsaNI	GTAC	2 cut(s)	278, 500
RseI	CAYNNNNRTG	1 cut(s)	102
SaqAI	TTAA	3 cut(s)	117, 245, 470
SatI	GCNGC	1 cut(s)	234
Sau3AI	GATC	3 cut(s)	37, 148, 446
ScaI	AGTACT	1 cut(s)	501
SchI	GAGTC	1 cut(s)	14
ScrFI	CCNGG	1 cut(s)	180
SduI	GDGCHC	1 cut(s)	436
SetI	ASST	6 cut(s)	9, 157, 178, 382, 428, 495
SmiMI	CAYNNNNRTG	1 cut(s)	102
Sse9I	AATT	1 cut(s)	42
SsiI	CCGC	1 cut(s)	198
SspMI	CTAG	1 cut(s)	54
StyD4I	CCNGG	1 cut(s)	178
TaaI	ACNGT	1 cut(s)	343
TaqI	TCGA	3 cut(s)	23, 40, 396
TasI	AATT	1 cut(s)	42
TatI	WGTACW	1 cut(s)	499
TfiI	GAWTC	1 cut(s)	207
Tru1I	TTAA	3 cut(s)	117, 245, 470
Tru9I	TTAA	3 cut(s)	117, 245, 470
TseI	GCWGC	1 cut(s)	233
TspDTI	ATGAA	4 cut(s)	17, 41, 240, 521
TspGWI	ACGGA	3 cut(s)	337, 350, 466
XapI	RAATTY	1 cut(s)	42
XmnI	GAANNNNTTC	1 cut(s)	68
XspI	CTAG	1 cut(s)	54
ZrmI	AGTACT	1 cut(s)	501

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