Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000006

Orthogroup ID

OG0003794

Physical Location & Seq

Genomic Coordinates Reverse (-)

49033083 .. 49033586

Gene Structure 504 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug06G0338500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 504 bp

ATGCAGCTTGATCCTCGCTACTTTGGTAACAATCTCCGTGAAAATCTAGTGACGCAGCTCATGGAAGATGTTAATAAAGGAATTTGCAGCAGTCAACATGGGGTTGTGGTTGCAATAACGGGAATAGAGAACATTGGGAAAGGGCTGATTGTTAATGGGACGGGGTTTGCCTCATTTCCAGTGAGATACCAGTGTGTTGTTTGCAGACCATTTAAAGGAGAGATCTTAGAAGCTGTGGTTACAATGGTGAACAAGATGGGATTTTTCGCTGAGGCCGGTCTGGTTCAAATCTTCGTTTCCAACCATTTGATACCGGATGATATGGAGTTCCAGTGTGGAGATATGCCAATCTATACCACATCTGACGGATTGGTTAAGATTCAGATAGATAGCGAAGTGCGGTTGAAGATAATTGGAACTCAAGTAGACCGCACACAAATTTTCTGCGTTGGTACCATCAAAGATGATTTCTTGGGTGTCATAAACGATCCTGCGAGTGTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Glyco_tranf_2_3 Glyco_trans_2_3

Protein Analysis

167

Amino Acids

18.35

Weight (kDa)

4.81

Isoelectric Point (pI)

16.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SHS2_Rpb7-N	PF03876	2 - 55	1.9e-09	SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397
S1	PF00575	70 - 147	7e-13	S1 RNA binding domain

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: OG0003794)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G24630 AT2G24630 AT4G31590
fragaria_vesca	FvH4_2g36610 FvH4_6g37310
malus_domestica	MD08G1126200.v1.1 MD09G1158600.v1.1 MD17G1144800.v1.1
prunus_persica	Prupe.1G457800_v2.0.a1 Prupe.3G167200_v2.0.a1 Prupe.3G167200_v2.0.a1 Prupe.3G167200_v2.0.a1
pyrus_communis	pycom08g10550 pycom09g07720 pycom17g13790
rosa_chinensis	RchiOBHm_Chr2g0150131 RchiOBHm_Chr6g0305191
rosa_laevigata	RLG00000010909 RLG00000020469
rosa_multiflora	Rmu_co8519745.1_g000001 Rmu_sc0000061.1_g000006
rosa_roxburghii	Rroxscaffold_2G00097420 Rroxscaffold_7G00163050
rosa_rugosa	Rorug02G0419400 Rorug06G0338300 Rorug06G0338400 Rorug06G0338500
rosa_samantha	Rh2AG478000 Rh2CG464200 Rh6AG450100 Rh6CG463900 Rh6DG450700
rosa_wichuraiana	Rw2G039020 Rw6G039230

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	452
AccB1I	GGYRCC	1 cut(s)	452
AccI	GTMKAC	1 cut(s)	426
AciI	CCGC	2 cut(s)	400, 430
AclWI	GGATC	2 cut(s)	5, 482
AcsI	RAATTY	2 cut(s)	81, 438
AfaI	GTAC	1 cut(s)	454
AfiI	CCNNNNNNNGG	1 cut(s)	215
AgsI	TTSAA	2 cut(s)	287, 406
AluBI	AGCT	3 cut(s)	7, 58, 233
AluI	AGCT	3 cut(s)	7, 58, 233
AlwI	GGATC	2 cut(s)	5, 482
AoxI	GGCC	1 cut(s)	273
ApeKI	GCWGC	3 cut(s)	4, 55, 87
ApoI	RAATTY	2 cut(s)	81, 438
Asp718I	GGTACC	1 cut(s)	452
AsuHPI	GGTGA	1 cut(s)	259
BaeI	ACNNNNGTAYC	2 cut(s)	178, 211
BanI	GGYRCC	1 cut(s)	452
BbvCI	CCTCAGC	1 cut(s)	270
BbvI	GCAGC	3 cut(s)	16, 67, 99
BccI	CCATC	2 cut(s)	250, 464
BfaI	CTAG	1 cut(s)	47
BglII	AGATCT	1 cut(s)	222
BisI	GCNGC	3 cut(s)	5, 56, 88
BlsI	GCNGC	3 cut(s)	6, 57, 89
BmiI	GGNNCC	1 cut(s)	454
Bpu10I	CCTNAGC	1 cut(s)	270
BpuEI	CTTGAG	1 cut(s)	405
BsaWI	WCCGGW	1 cut(s)	313
BsaXI	ACNNNNNCTCC	2 cut(s)	317, 347
Bsc4I	CCNNNNNNNGG	1 cut(s)	215
Bse118I	RCCGGY	1 cut(s)	275
Bse1I	ACTGG	3 cut(s)	179, 190, 331
BseGI	GGATG	1 cut(s)	322
BseLI	CCNNNNNNNGG	1 cut(s)	215
BseMII	CTCAG	1 cut(s)	261
BseNI	ACTGG	3 cut(s)	179, 190, 331
BseXI	GCAGC	3 cut(s)	16, 67, 99
BshFI	GGCC	1 cut(s)	275
BshNI	GGYRCC	1 cut(s)	452
BsiSI	CCGG	2 cut(s)	276, 314
BslFI	GGGAC	1 cut(s)	172
BslI	CCNNNNNNNGG	1 cut(s)	215
BsmFI	GGGAC	1 cut(s)	172
BsnI	GGCC	1 cut(s)	275
Bsp143I	GATC	3 cut(s)	10, 222, 487
BspACI	CCGC	2 cut(s)	400, 430
BspANI	GGCC	1 cut(s)	275
BspCNI	CTCAG	1 cut(s)	262
BspLI	GGNNCC	1 cut(s)	454
BspPI	GGATC	2 cut(s)	5, 482
BspT107I	GGYRCC	1 cut(s)	452
BsrFI	RCCGGY	1 cut(s)	275
BsrI	ACTGG	3 cut(s)	179, 190, 331
BssAI	RCCGGY	1 cut(s)	275
BssMI	GATC	3 cut(s)	10, 222, 487
BstDEI	CTNAG	2 cut(s)	226, 270
BstF5I	GGATG	1 cut(s)	322
BstKTI	GATC	3 cut(s)	13, 225, 490
BstMBI	GATC	3 cut(s)	10, 222, 487
BstV1I	GCAGC	3 cut(s)	16, 67, 99
BstX2I	RGATCY	1 cut(s)	222
BstYI	RGATCY	1 cut(s)	222
BsuRI	GGCC	1 cut(s)	275
BtsCI	GGATG	1 cut(s)	322
BtsIMutI	CAGTG	3 cut(s)	186, 197, 338
Cfr10I	RCCGGY	1 cut(s)	275
CseI	GACGC	1 cut(s)	61
Csp6I	GTAC	1 cut(s)	453
CviAII	CATG	2 cut(s)	61, 98
CviJI	RGCY	5 cut(s)	7, 58, 145, 233, 275
CviKI_1	RGCY	5 cut(s)	7, 58, 145, 233, 275
CviQI	GTAC	1 cut(s)	453
DdeI	CTNAG	2 cut(s)	226, 270
DpnI	GATC	3 cut(s)	12, 224, 489
DpnII	GATC	3 cut(s)	10, 222, 487
DraI	TTTAAA	1 cut(s)	214
FaeI	CATG	2 cut(s)	64, 101
FaiI	YATR	6 cut(s)	62, 99, 323, 344, 354, 482
FaqI	GGGAC	1 cut(s)	172
FatI	CATG	2 cut(s)	60, 97
FblI	GTMKAC	1 cut(s)	426
Fnu4HI	GCNGC	3 cut(s)	5, 56, 88
FokI	GGATG	1 cut(s)	329
Fsp4HI	GCNGC	3 cut(s)	5, 56, 88
FspBI	CTAG	1 cut(s)	47
GluI	GCNGC	3 cut(s)	5, 56, 88
HaeIII	GGCC	1 cut(s)	275
HapII	CCGG	2 cut(s)	276, 314
HgaI	GACGC	1 cut(s)	61
Hin1II	CATG	2 cut(s)	64, 101
HincII	GTYRAC	1 cut(s)	95
HindII	GTYRAC	1 cut(s)	95
HinfI	GANTC	1 cut(s)	379
HpaII	CCGG	2 cut(s)	276, 314
HphI	GGTGA	1 cut(s)	259
Hpy166II	GTNNAC	3 cut(s)	95, 250, 427
Hpy188I	TCNGA	2 cut(s)	364, 384
Hpy8I	GTNNAC	3 cut(s)	95, 250, 427
HpyCH4V	TGCA	4 cut(s)	4, 87, 113, 204
HpyF3I	CTNAG	2 cut(s)	226, 270
Hsp92II	CATG	2 cut(s)	64, 101
KpnI	GGTACC	1 cut(s)	456
Kzo9I	GATC	3 cut(s)	10, 222, 487
LpnPI	CCDG	6 cut(s)	192, 203, 266, 289, 327, 344
Lsp1109I	GCAGC	3 cut(s)	16, 67, 99
MaeI	CTAG	1 cut(s)	47
MaeIII	GTNAC	3 cut(s)	26, 49, 238
MalI	GATC	3 cut(s)	12, 224, 489
MboI	GATC	3 cut(s)	10, 222, 487
MboII	GAAGA	3 cut(s)	77, 283, 418
MflI	RGATCY	1 cut(s)	222
MluCI	AATT	3 cut(s)	81, 411, 438
MmeI	TCCRAC	1 cut(s)	324
MnlI	CCTC	3 cut(s)	24, 181, 265
MseI	TTAA	4 cut(s)	72, 153, 213, 375
MspI	CCGG	2 cut(s)	276, 314
NdeII	GATC	3 cut(s)	10, 222, 487
NlaIII	CATG	2 cut(s)	64, 101
NlaIV	GGNNCC	1 cut(s)	454
NmuCI	GTSAC	1 cut(s)	49
PfeI	GAWTC	1 cut(s)	379
PkrI	GCNGC	3 cut(s)	6, 57, 89
PspN4I	GGNNCC	1 cut(s)	454
PsuI	RGATCY	1 cut(s)	222
RsaI	GTAC	1 cut(s)	454
RsaNI	GTAC	1 cut(s)	453
SaqAI	TTAA	4 cut(s)	72, 153, 213, 375
SatI	GCNGC	3 cut(s)	5, 56, 88
Sau3AI	GATC	3 cut(s)	10, 222, 487
SetI	ASST	3 cut(s)	9, 60, 235
SmlI	CTYRAG	1 cut(s)	420
SmoI	CTYRAG	1 cut(s)	420
Sse9I	AATT	3 cut(s)	81, 411, 438
SsiI	CCGC	2 cut(s)	400, 430
SspMI	CTAG	1 cut(s)	47
TasI	AATT	3 cut(s)	81, 411, 438
TfiI	GAWTC	1 cut(s)	379
Tru1I	TTAA	4 cut(s)	72, 153, 213, 375
Tru9I	TTAA	4 cut(s)	72, 153, 213, 375
TscAI	CASTG	3 cut(s)	186, 197, 338
TseFI	GTSAC	1 cut(s)	49
TseI	GCWGC	3 cut(s)	4, 55, 87
Tsp45I	GTSAC	1 cut(s)	49
TspGWI	ACGGA	2 cut(s)	26, 381
TspRI	CASTG	3 cut(s)	186, 197, 338
XapI	RAATTY	2 cut(s)	81, 438
XmiI	GTMKAC	1 cut(s)	426
XspI	CTAG	1 cut(s)	47

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