Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0011353

Physical Location & Seq

Genomic Coordinates Reverse (-)

5293274 .. 5295290

Gene Structure 2017 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ28927

Sequence Viewer

CDS Protein Promoter (2k)

Length: 378 bp

ATGGAGACCAAAGTGCAGCAAGCAGACGAAGCGCCACCGCCGGAGGCCCAACCCATCGTTTCACAACCACCACCGCCACCACTTTCCGAAATAGCTCAAATGGTGTGTGGATCTTGCCGCCACCTGCTTACATACCCACCAGGAGCCAAGCATGTTCAATGCTCATGCTGTCAGACTGTCAACTTTGTGCTAGAAGCCCATCAGGTTGGCCAAGTCAAATGCGGCAGTTGTACAACGCTGCTGATGTACCCATATGGAGCTCTATCCGTTAGGTGTTCCTCGTGCAGTTTTGTGACAGAAGTTAGGGATCACAACATGCGCCCTCCATGGTCTGCTCAACAAGGACAACCAACTCCTCCATCCAATTCTGTTCACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0008150 GO:0009605 GO:0009607 GO:0009617 GO:0031347 GO:0031349 GO:0040008 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045927 GO:0048518 GO:0048583 GO:0048584 GO:0050789 GO:0050896 GO:0051704 GO:0051707 GO:0065007 GO:0080134

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-LSD1

Protein Analysis

125

Amino Acids

13.54

Weight (kDa)

6.48

Isoelectric Point (pI)

54.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-LSD1	PF06943	36 - 60	4.6e-11	LSD1 zinc finger
zf-LSD1	PF06943	74 - 98	1.5e-11	LSD1 zinc finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0011353)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G21610 AT4G21610
fragaria_vesca	FvH4_3g09310 FvH4_3g09310
malus_domestica	MD05G1313200.v1.1 MD10G1295400.v1.1
prunus_persica	Prupe.4G046600_v2.0.a1
pyrus_communis	pycom05g29120 pycom10g24730
rosa_chinensis	RchiOBHm_Chr5g0008291
rosa_laevigata	RLG00000031559
rosa_multiflora	Rmu_co8513525.1_g000001
rosa_roxburghii	Rroxscaffold_1G00068170
rosa_rugosa	Rorug04G0434800 Rorug04G0434800
rosa_samantha	Rh5AG063500 Rh5BG060000 Rh5CG070300 Rh5DG059500
rosa_wichuraiana	Rw5G005740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	132
Acc36I	ACCTGC	1 cut(s)	132
AciI	CCGC	4 cut(s)	38, 74, 118, 222
AclWI	GGATC	2 cut(s)	118, 315
AcoI	YGGCCR	1 cut(s)	208
AfaI	GTAC	2 cut(s)	232, 248
AgsI	TTSAA	1 cut(s)	158
AjnI	CCWGG	1 cut(s)	139
AluBI	AGCT	2 cut(s)	95, 260
AluI	AGCT	2 cut(s)	95, 260
Alw21I	GWGCWC	1 cut(s)	262
AlwI	GGATC	2 cut(s)	118, 315
AoxI	GGCC	2 cut(s)	45, 208
ApeKI	GCWGC	2 cut(s)	16, 238
AspLEI	GCGC	2 cut(s)	34, 321
AspS9I	GGNCC	1 cut(s)	46
BalI	TGGCCA	1 cut(s)	210
BanII	GRGCYC	1 cut(s)	262
BauI	CACGAG	1 cut(s)	280
Bbv12I	GWGCWC	1 cut(s)	262
BbvI	GCAGC	2 cut(s)	28, 225
BccI	CCATC	3 cut(s)	62, 207, 367
BciT130I	CCWGG	1 cut(s)	141
BfaI	CTAG	1 cut(s)	191
BfoI	RGCGCY	1 cut(s)	35
BfuAI	ACCTGC	1 cut(s)	132
BisI	GCNGC	4 cut(s)	17, 118, 223, 239
BlsI	GCNGC	4 cut(s)	18, 119, 224, 240
Bme1390I	CCNGG	1 cut(s)	141
BmgT120I	GGNCC	1 cut(s)	46
BmiI	GGNNCC	1 cut(s)	145
BmrFI	CCNGG	1 cut(s)	141
BsaJI	CCNNGG	1 cut(s)	326
BseBI	CCWGG	1 cut(s)	141
BseDI	CCNNGG	1 cut(s)	326
BseGI	GGATG	1 cut(s)	359
BseRI	GAGGAG	1 cut(s)	345
BseXI	GCAGC	2 cut(s)	28, 225
BsgI	GTGCAG	2 cut(s)	35, 304
BshFI	GGCC	2 cut(s)	47, 210
BsiHKAI	GWGCWC	1 cut(s)	262
BsiSI	CCGG	1 cut(s)	41
BsnI	GGCC	2 cut(s)	47, 210
Bsp1286I	GDGCHC	1 cut(s)	262
Bsp1407I	TGTACA	1 cut(s)	230
Bsp143I	GATC	2 cut(s)	110, 307
Bsp19I	CCATGG	1 cut(s)	326
BspACI	CCGC	4 cut(s)	38, 74, 118, 222
BspANI	GGCC	2 cut(s)	47, 210
BspLI	GGNNCC	1 cut(s)	145
BspMI	ACCTGC	1 cut(s)	132
BspPI	GGATC	2 cut(s)	118, 315
BsrGI	TGTACA	1 cut(s)	230
BssECI	CCNNGG	1 cut(s)	326
BssMI	GATC	2 cut(s)	110, 307
BssSI	CACGAG	1 cut(s)	280
BssT1I	CCWWGG	1 cut(s)	326
Bst2BI	CACGAG	1 cut(s)	280
Bst2UI	CCWGG	1 cut(s)	141
Bst4CI	ACNGT	1 cut(s)	178
BstAUI	TGTACA	1 cut(s)	230
BstC8I	GCNNGC	1 cut(s)	21
BstDSI	CCRYGG	1 cut(s)	326
BstF5I	GGATG	1 cut(s)	359
BstH2I	RGCGCY	1 cut(s)	35
BstHHI	GCGC	2 cut(s)	34, 321
BstKTI	GATC	2 cut(s)	113, 310
BstMBI	GATC	2 cut(s)	110, 307
BstMWI	GCNNNNNNNGC	1 cut(s)	29
BstNI	CCWGG	1 cut(s)	141
BstNSI	RCATGY	2 cut(s)	155, 319
BstSCI	CCNGG	1 cut(s)	139
BstV1I	GCAGC	2 cut(s)	28, 225
BstX2I	RGATCY	1 cut(s)	110
BstXI	CCANNNNNNTGG	1 cut(s)	206
BstYI	RGATCY	1 cut(s)	110
BsuRI	GGCC	2 cut(s)	47, 210
BtgI	CCRYGG	1 cut(s)	326
BtsCI	GGATG	1 cut(s)	359
BveI	ACCTGC	1 cut(s)	132
Cac8I	GCNNGC	1 cut(s)	21
CfoI	GCGC	2 cut(s)	34, 321
Cfr13I	GGNCC	1 cut(s)	46
Csp6I	GTAC	2 cut(s)	231, 247
CviAII	CATG	4 cut(s)	152, 165, 316, 327
CviJI	RGCY	6 cut(s)	47, 95, 146, 197, 210, 260
CviKI_1	RGCY	6 cut(s)	47, 95, 146, 197, 210, 260
CviQI	GTAC	2 cut(s)	231, 247
DpnI	GATC	2 cut(s)	112, 309
DpnII	GATC	2 cut(s)	110, 307
EaeI	YGGCCR	1 cut(s)	208
Ecl136II	GAGCTC	1 cut(s)	260
Eco130I	CCWWGG	1 cut(s)	326
Eco24I	GRGCYC	1 cut(s)	262
Eco53kI	GAGCTC	1 cut(s)	260
EcoICRI	GAGCTC	1 cut(s)	260
EcoRII	CCWGG	1 cut(s)	139
EcoT14I	CCWWGG	1 cut(s)	326
EcoT38I	GRGCYC	1 cut(s)	262
ErhI	CCWWGG	1 cut(s)	326
FaeI	CATG	4 cut(s)	155, 168, 319, 330
FaiI	YATR	7 cut(s)	133, 153, 166, 253, 255, 317, 328
FatI	CATG	4 cut(s)	151, 164, 315, 326
FauNDI	CATATG	1 cut(s)	253
Fnu4HI	GCNGC	4 cut(s)	17, 118, 223, 239
FokI	GGATG	1 cut(s)	346
FriOI	GRGCYC	1 cut(s)	262
Fsp4HI	GCNGC	4 cut(s)	17, 118, 223, 239
FspBI	CTAG	1 cut(s)	191
GlaI	GCGC	2 cut(s)	33, 320
GluI	GCNGC	4 cut(s)	17, 118, 223, 239
HaeII	RGCGCY	1 cut(s)	35
HaeIII	GGCC	2 cut(s)	47, 210
HapII	CCGG	1 cut(s)	41
HhaI	GCGC	2 cut(s)	34, 321
Hin1II	CATG	4 cut(s)	155, 168, 319, 330
Hin6I	GCGC	2 cut(s)	32, 319
HinP1I	GCGC	2 cut(s)	32, 319
HincII	GTYRAC	1 cut(s)	181
HindII	GTYRAC	1 cut(s)	181
HpaII	CCGG	1 cut(s)	41
Hpy166II	GTNNAC	2 cut(s)	181, 373
Hpy188I	TCNGA	2 cut(s)	88, 174
Hpy8I	GTNNAC	2 cut(s)	181, 373
HpyCH4III	ACNGT	1 cut(s)	178
HpyCH4V	TGCA	2 cut(s)	16, 285
HpyF10VI	GCNNNNNNNGC	1 cut(s)	29
Hsp92II	CATG	4 cut(s)	155, 168, 319, 330
HspAI	GCGC	2 cut(s)	32, 319
Kzo9I	GATC	2 cut(s)	110, 307
LmnI	GCTCC	2 cut(s)	143, 257
LpnPI	CCDG	5 cut(s)	54, 126, 137, 153, 188
Lsp1109I	GCAGC	2 cut(s)	28, 225
MaeI	CTAG	1 cut(s)	191
MaeIII	GTNAC	1 cut(s)	292
MalI	GATC	2 cut(s)	112, 309
MboI	GATC	2 cut(s)	110, 307
MflI	RGATCY	1 cut(s)	110
MhlI	GDGCHC	1 cut(s)	262
MlsI	TGGCCA	1 cut(s)	210
MluCI	AATT	1 cut(s)	364
MluNI	TGGCCA	1 cut(s)	210
MnlI	CCTC	4 cut(s)	37, 289, 333, 366
Mox20I	TGGCCA	1 cut(s)	210
MscI	TGGCCA	1 cut(s)	210
Msp20I	TGGCCA	1 cut(s)	210
MspI	CCGG	1 cut(s)	41
MspR9I	CCNGG	1 cut(s)	141
MvaI	CCWGG	1 cut(s)	141
MwoI	GCNNNNNNNGC	1 cut(s)	29
NcoI	CCATGG	1 cut(s)	326
NdeI	CATATG	1 cut(s)	253
NdeII	GATC	2 cut(s)	110, 307
NlaIII	CATG	4 cut(s)	155, 168, 319, 330
NlaIV	GGNNCC	1 cut(s)	145
NmuCI	GTSAC	1 cut(s)	292
NspI	RCATGY	2 cut(s)	155, 319
PaqCI	CACCTGC	1 cut(s)	132
PkrI	GCNGC	4 cut(s)	18, 119, 224, 240
Psp124BI	GAGCTC	1 cut(s)	262
Psp6I	CCWGG	1 cut(s)	139
PspGI	CCWGG	1 cut(s)	139
PspN4I	GGNNCC	1 cut(s)	145
PspPI	GGNCC	1 cut(s)	46
PsuI	RGATCY	1 cut(s)	110
RsaI	GTAC	2 cut(s)	232, 248
RsaNI	GTAC	2 cut(s)	231, 247
SacI	GAGCTC	1 cut(s)	262
SatI	GCNGC	4 cut(s)	17, 118, 223, 239
Sau3AI	GATC	2 cut(s)	110, 307
Sau96I	GGNCC	1 cut(s)	46
ScrFI	CCNGG	1 cut(s)	141
SduI	GDGCHC	1 cut(s)	262
SetI	ASST	5 cut(s)	97, 126, 207, 262, 275
Sse9I	AATT	1 cut(s)	364
SsiI	CCGC	4 cut(s)	38, 74, 118, 222
SspMI	CTAG	1 cut(s)	191
SstI	GAGCTC	1 cut(s)	262
StyD4I	CCNGG	1 cut(s)	139
StyI	CCWWGG	1 cut(s)	326
TaaI	ACNGT	1 cut(s)	178
TasI	AATT	1 cut(s)	364
TatI	WGTACW	1 cut(s)	230
TauI	GCSGC	2 cut(s)	120, 225
TseFI	GTSAC	1 cut(s)	292
TseI	GCWGC	2 cut(s)	16, 238
Tsp45I	GTSAC	1 cut(s)	292
TspGWI	ACGGA	1 cut(s)	256
XceI	RCATGY	2 cut(s)	155, 319
XspI	CTAG	1 cut(s)	191

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