Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0002026

Physical Location & Seq

Genomic Coordinates Reverse (-)

5100508 .. 5102524

Gene Structure 2017 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0058500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 372 bp

ATGGAGACCAAAGTGCAGCAAGTAGACGAAGCGCCACCGCCGGAGGCCCAACCCATCGTTTCACAACCACCACCGCCACCACTTTCCGCTCAAATGGTGTGTGGATCTTGCCGCCGCCTGCTTACATACCCACCAGGAGCCAAGCATGTTCAATGCTCATGCTGTCAGACTGTCAACTTTGTGCTAGAAGCCCATCAGGTTGGCCAAGTCAAATGCGGCAGTTGTACAACGCTGCTGATGTACCCATATGGAGCTCTATCCGTTAGGTGTTCCTCGTGCAGTTTTGTGACAGAAGTTAGGGATCACAACATGCGCCCTCCATGGTCTGTTCAACAAGGACAACCAACTCCTCCATCCAATTCTGTTCGCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006950 GO:0006979 GO:0008150 GO:0008152 GO:0009507 GO:0009536 GO:0009636 GO:0009987 GO:0012505 GO:0016209 GO:0016491 GO:0016667 GO:0032542 GO:0033554 GO:0034599 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0050896 GO:0051716 GO:0055114 GO:0070887 GO:0097237 GO:0098754 GO:0098869 GO:1990748

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ParBc

Protein Analysis

123

Amino Acids

13.4

Weight (kDa)

8.11

Isoelectric Point (pI)

54.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-LSD1	PF06943	34 - 58	1.1e-11	LSD1 zinc finger
zf-LSD1	PF06943	72 - 96	1.5e-11	LSD1 zinc finger

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: OG0002026)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G31170 AT1G31170 AT1G31170 AT1G31170 AT1G31170
fragaria_vesca	FvH4_3g12430 FvH4_3g12430 FvH4_3g12430 FvH4_3g12430 FvH4_3g12430 FvH4_3g12430
malus_domestica	MD05G1250400.v1.1
prunus_persica	Prupe.4G113200_v2.0.a1 Prupe.4G113200_v2.0.a1 Prupe.4G113200_v2.0.a1 Prupe.4G113200_v2.0.a1
pyrus_communis	pycom05g22830
rosa_chinensis	RchiOBHm_Chr2g0126261 RchiOBHm_Chr4g0413841 RchiOBHm_Chr5g0020311
rosa_multiflora	Rmu_sc0002548.1_g000022 Rmu_sc0002818.1_g000002 Rmu_sc0005018.1_g000003 Rmu_sc0007157.1_g000006 Rmu_sc0015732.1_g000001 Rmu_ssc0000264.1_g000032
rosa_roxburghii	Rroxscaffold_1G00057900 Rroxscaffold_2G00128400 Rroxscaffold_7G00213460
rosa_rugosa	Rorug03G0361100.1 Rorug05G0058500 Rorug05G0058500 Rorug05G0058600
rosa_samantha	Rh1AG093600 Rh1AG095300 Rh1AG115400 Rh2BG327600 Rh2CG316100 Rh5BG148500 Rh5CG160000 Rh6AG221500
rosa_wichuraiana	Rw1G007290 Rw4G014520 Rw5G013190 Rw6G003940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	89
AccI	GTMKAC	1 cut(s)	24
AciI	CCGC	6 cut(s)	38, 74, 87, 112, 115, 216
AclWI	GGATC	2 cut(s)	112, 309
AcoI	YGGCCR	1 cut(s)	202
AfaI	GTAC	2 cut(s)	226, 242
AgsI	TTSAA	2 cut(s)	152, 332
AjnI	CCWGG	1 cut(s)	133
AluBI	AGCT	1 cut(s)	254
AluI	AGCT	1 cut(s)	254
Alw21I	GWGCWC	1 cut(s)	256
AlwI	GGATC	2 cut(s)	112, 309
AoxI	GGCC	2 cut(s)	45, 202
ApeKI	GCWGC	2 cut(s)	16, 232
AspLEI	GCGC	2 cut(s)	34, 315
AspS9I	GGNCC	1 cut(s)	46
BalI	TGGCCA	1 cut(s)	204
BanII	GRGCYC	1 cut(s)	256
BauI	CACGAG	1 cut(s)	274
Bbv12I	GWGCWC	1 cut(s)	256
BbvI	GCAGC	2 cut(s)	28, 219
BccI	CCATC	3 cut(s)	62, 201, 361
BciT130I	CCWGG	1 cut(s)	135
BfaI	CTAG	1 cut(s)	185
BfoI	RGCGCY	1 cut(s)	35
BisI	GCNGC	5 cut(s)	17, 112, 115, 217, 233
BlsI	GCNGC	5 cut(s)	18, 113, 116, 218, 234
Bme1390I	CCNGG	1 cut(s)	135
BmgT120I	GGNCC	1 cut(s)	46
BmiI	GGNNCC	1 cut(s)	139
BmrFI	CCNGG	1 cut(s)	135
BsaJI	CCNNGG	1 cut(s)	320
BseBI	CCWGG	1 cut(s)	135
BseDI	CCNNGG	1 cut(s)	320
BseGI	GGATG	1 cut(s)	353
BseRI	GAGGAG	1 cut(s)	339
BseXI	GCAGC	2 cut(s)	28, 219
BsgI	GTGCAG	2 cut(s)	35, 298
BshFI	GGCC	2 cut(s)	47, 204
BsiHKAI	GWGCWC	1 cut(s)	256
BsiSI	CCGG	1 cut(s)	41
BsnI	GGCC	2 cut(s)	47, 204
Bsp1286I	GDGCHC	1 cut(s)	256
Bsp1407I	TGTACA	1 cut(s)	224
Bsp143I	GATC	2 cut(s)	104, 301
Bsp19I	CCATGG	1 cut(s)	320
BspACI	CCGC	6 cut(s)	38, 74, 87, 112, 115, 216
BspANI	GGCC	2 cut(s)	47, 204
BspLI	GGNNCC	1 cut(s)	139
BspPI	GGATC	2 cut(s)	112, 309
BsrBI	CCGCTC	1 cut(s)	89
BsrGI	TGTACA	1 cut(s)	224
BssECI	CCNNGG	1 cut(s)	320
BssMI	GATC	2 cut(s)	104, 301
BssSI	CACGAG	1 cut(s)	274
BssT1I	CCWWGG	1 cut(s)	320
Bst2BI	CACGAG	1 cut(s)	274
Bst2UI	CCWGG	1 cut(s)	135
Bst4CI	ACNGT	1 cut(s)	172
BstAUI	TGTACA	1 cut(s)	224
BstC8I	GCNNGC	1 cut(s)	119
BstDSI	CCRYGG	1 cut(s)	320
BstF5I	GGATG	1 cut(s)	353
BstH2I	RGCGCY	1 cut(s)	35
BstHHI	GCGC	2 cut(s)	34, 315
BstKTI	GATC	2 cut(s)	107, 304
BstMBI	GATC	2 cut(s)	104, 301
BstNI	CCWGG	1 cut(s)	135
BstNSI	RCATGY	2 cut(s)	149, 313
BstSCI	CCNGG	1 cut(s)	133
BstV1I	GCAGC	2 cut(s)	28, 219
BstX2I	RGATCY	1 cut(s)	104
BstXI	CCANNNNNNTGG	1 cut(s)	200
BstYI	RGATCY	1 cut(s)	104
BsuRI	GGCC	2 cut(s)	47, 204
BtgI	CCRYGG	1 cut(s)	320
BtsCI	GGATG	1 cut(s)	353
Cac8I	GCNNGC	1 cut(s)	119
CfoI	GCGC	2 cut(s)	34, 315
Cfr13I	GGNCC	1 cut(s)	46
Csp6I	GTAC	2 cut(s)	225, 241
CviAII	CATG	4 cut(s)	146, 159, 310, 321
CviJI	RGCY	5 cut(s)	47, 140, 191, 204, 254
CviKI_1	RGCY	5 cut(s)	47, 140, 191, 204, 254
CviQI	GTAC	2 cut(s)	225, 241
DpnI	GATC	2 cut(s)	106, 303
DpnII	GATC	2 cut(s)	104, 301
EaeI	YGGCCR	1 cut(s)	202
Ecl136II	GAGCTC	1 cut(s)	254
Eco130I	CCWWGG	1 cut(s)	320
Eco24I	GRGCYC	1 cut(s)	256
Eco53kI	GAGCTC	1 cut(s)	254
EcoICRI	GAGCTC	1 cut(s)	254
EcoRII	CCWGG	1 cut(s)	133
EcoT14I	CCWWGG	1 cut(s)	320
EcoT38I	GRGCYC	1 cut(s)	256
ErhI	CCWWGG	1 cut(s)	320
FaeI	CATG	4 cut(s)	149, 162, 313, 324
FaiI	YATR	7 cut(s)	127, 147, 160, 247, 249, 311, 322
FatI	CATG	4 cut(s)	145, 158, 309, 320
FauNDI	CATATG	1 cut(s)	247
FblI	GTMKAC	1 cut(s)	24
Fnu4HI	GCNGC	5 cut(s)	17, 112, 115, 217, 233
FokI	GGATG	1 cut(s)	340
FriOI	GRGCYC	1 cut(s)	256
Fsp4HI	GCNGC	5 cut(s)	17, 112, 115, 217, 233
FspBI	CTAG	1 cut(s)	185
GlaI	GCGC	2 cut(s)	33, 314
GluI	GCNGC	5 cut(s)	17, 112, 115, 217, 233
HaeII	RGCGCY	1 cut(s)	35
HaeIII	GGCC	2 cut(s)	47, 204
HapII	CCGG	1 cut(s)	41
HhaI	GCGC	2 cut(s)	34, 315
Hin1II	CATG	4 cut(s)	149, 162, 313, 324
Hin6I	GCGC	2 cut(s)	32, 313
HinP1I	GCGC	2 cut(s)	32, 313
HincII	GTYRAC	1 cut(s)	175
HindII	GTYRAC	1 cut(s)	175
HpaII	CCGG	1 cut(s)	41
Hpy166II	GTNNAC	2 cut(s)	25, 175
Hpy188I	TCNGA	1 cut(s)	168
Hpy8I	GTNNAC	2 cut(s)	25, 175
HpyCH4III	ACNGT	1 cut(s)	172
HpyCH4V	TGCA	2 cut(s)	16, 279
Hsp92II	CATG	4 cut(s)	149, 162, 313, 324
HspAI	GCGC	2 cut(s)	32, 313
Kzo9I	GATC	2 cut(s)	104, 301
LmnI	GCTCC	2 cut(s)	137, 251
LpnPI	CCDG	5 cut(s)	54, 120, 131, 147, 182
Lsp1109I	GCAGC	2 cut(s)	28, 219
MaeI	CTAG	1 cut(s)	185
MaeIII	GTNAC	1 cut(s)	286
MalI	GATC	2 cut(s)	106, 303
MbiI	CCGCTC	1 cut(s)	89
MboI	GATC	2 cut(s)	104, 301
MflI	RGATCY	1 cut(s)	104
MhlI	GDGCHC	1 cut(s)	256
MlsI	TGGCCA	1 cut(s)	204
MluCI	AATT	1 cut(s)	358
MluNI	TGGCCA	1 cut(s)	204
MnlI	CCTC	4 cut(s)	37, 283, 327, 360
Mox20I	TGGCCA	1 cut(s)	204
MscI	TGGCCA	1 cut(s)	204
Msp20I	TGGCCA	1 cut(s)	204
MspI	CCGG	1 cut(s)	41
MspR9I	CCNGG	1 cut(s)	135
MvaI	CCWGG	1 cut(s)	135
NcoI	CCATGG	1 cut(s)	320
NdeI	CATATG	1 cut(s)	247
NdeII	GATC	2 cut(s)	104, 301
NlaIII	CATG	4 cut(s)	149, 162, 313, 324
NlaIV	GGNNCC	1 cut(s)	139
NmuCI	GTSAC	1 cut(s)	286
NspI	RCATGY	2 cut(s)	149, 313
PkrI	GCNGC	5 cut(s)	18, 113, 116, 218, 234
Psp124BI	GAGCTC	1 cut(s)	256
Psp6I	CCWGG	1 cut(s)	133
PspGI	CCWGG	1 cut(s)	133
PspN4I	GGNNCC	1 cut(s)	139
PspPI	GGNCC	1 cut(s)	46
PsuI	RGATCY	1 cut(s)	104
RsaI	GTAC	2 cut(s)	226, 242
RsaNI	GTAC	2 cut(s)	225, 241
SacI	GAGCTC	1 cut(s)	256
SatI	GCNGC	5 cut(s)	17, 112, 115, 217, 233
Sau3AI	GATC	2 cut(s)	104, 301
Sau96I	GGNCC	1 cut(s)	46
ScrFI	CCNGG	1 cut(s)	135
SduI	GDGCHC	1 cut(s)	256
SetI	ASST	3 cut(s)	201, 256, 269
Sse9I	AATT	1 cut(s)	358
SsiI	CCGC	6 cut(s)	38, 74, 87, 112, 115, 216
SspMI	CTAG	1 cut(s)	185
SstI	GAGCTC	1 cut(s)	256
StyD4I	CCNGG	1 cut(s)	133
StyI	CCWWGG	1 cut(s)	320
TaaI	ACNGT	1 cut(s)	172
TasI	AATT	1 cut(s)	358
TatI	WGTACW	1 cut(s)	224
TauI	GCSGC	3 cut(s)	114, 117, 219
TseFI	GTSAC	1 cut(s)	286
TseI	GCWGC	2 cut(s)	16, 232
Tsp45I	GTSAC	1 cut(s)	286
TspGWI	ACGGA	1 cut(s)	250
XceI	RCATGY	2 cut(s)	149, 313
XmiI	GTMKAC	1 cut(s)	24
XspI	CTAG	1 cut(s)	185

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