Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0011353

Physical Location & Seq

Genomic Coordinates Reverse (-)

4925263 .. 4927163

Gene Structure 1901 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG060000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 366 bp

ATGGAGACTAAAGTGCAGCAACTAGACGAAGCGCCACCGCCGGTGGCCCAACCCATCGTTTCACAACCACCACCACTGCCACCACTTTCCGAAATAGCTCAAATGGTTTGTGGATCTTGCCGCAGCCTGCTTACATACCCACCAGGAGCCAAGCATGTTCAATGCTCATGCTGTCAGACTGTCAACTTTGTGTTAGAAGCCCATCAGGTTGGCCAAGTCAAATGCGGCAGTTGTACAACCCTGCTGATGTACCCATATGGAGCTCTATCCGTTAGGTGTTCCTCGTGCAATTTTGTGACAGAAGTTAGGGTAAGTGAACCATTTACTTTCAAAGTGTTAGATGCCAATGTCATTGATTGTTATTAA

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

121

Amino Acids

13.14

Weight (kDa)

5.53

Isoelectric Point (pI)

51.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-LSD1	PF06943	37 - 61	1.9e-11	LSD1 zinc finger
zf-LSD1	PF06943	75 - 99	1.5e-12	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

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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)
AciI	CCGC	3 cut(s)	38, 121, 225
AclWI	GGATC	1 cut(s)	121
AcoI	YGGCCR	1 cut(s)	211
AfaI	GTAC	2 cut(s)	235, 251
AgsI	TTSAA	2 cut(s)	161, 331
AjnI	CCWGG	1 cut(s)	142
AluBI	AGCT	2 cut(s)	98, 263
AluI	AGCT	2 cut(s)	98, 263
Alw21I	GWGCWC	1 cut(s)	265
AlwI	GGATC	1 cut(s)	121
AoxI	GGCC	2 cut(s)	45, 211
ApeKI	GCWGC	2 cut(s)	16, 123
AspLEI	GCGC	1 cut(s)	34
AspS9I	GGNCC	1 cut(s)	46
BalI	TGGCCA	1 cut(s)	213
BanII	GRGCYC	1 cut(s)	265
BauI	CACGAG	1 cut(s)	283
Bbv12I	GWGCWC	1 cut(s)	265
BbvI	GCAGC	2 cut(s)	28, 135
BccI	CCATC	2 cut(s)	62, 210
BciT130I	CCWGG	1 cut(s)	144
BfaI	CTAG	1 cut(s)	23
BfoI	RGCGCY	1 cut(s)	35
BisI	GCNGC	4 cut(s)	17, 121, 124, 226
BlsI	GCNGC	4 cut(s)	18, 122, 125, 227
Bme1390I	CCNGG	1 cut(s)	144
BmgT120I	GGNCC	1 cut(s)	46
BmiI	GGNNCC	1 cut(s)	148
BmrFI	CCNGG	1 cut(s)	144
BmsI	GCATC	1 cut(s)	331
Bse118I	RCCGGY	1 cut(s)	40
BseBI	CCWGG	1 cut(s)	144
BseXI	GCAGC	2 cut(s)	28, 135
BsgI	GTGCAG	1 cut(s)	35
BshFI	GGCC	2 cut(s)	47, 213
BsiHKAI	GWGCWC	1 cut(s)	265
BsiSI	CCGG	1 cut(s)	41
BsnI	GGCC	2 cut(s)	47, 213
Bsp1286I	GDGCHC	1 cut(s)	265
Bsp1407I	TGTACA	1 cut(s)	233
Bsp143I	GATC	1 cut(s)	113
BspACI	CCGC	3 cut(s)	38, 121, 225
BspANI	GGCC	2 cut(s)	47, 213
BspLI	GGNNCC	1 cut(s)	148
BspPI	GGATC	1 cut(s)	121
BsrFI	RCCGGY	1 cut(s)	40
BsrGI	TGTACA	1 cut(s)	233
BssAI	RCCGGY	1 cut(s)	40
BssMI	GATC	1 cut(s)	113
BssSI	CACGAG	1 cut(s)	283
Bst2BI	CACGAG	1 cut(s)	283
Bst2UI	CCWGG	1 cut(s)	144
Bst4CI	ACNGT	1 cut(s)	181
BstAUI	TGTACA	1 cut(s)	233
BstC8I	GCNNGC	1 cut(s)	128
BstH2I	RGCGCY	1 cut(s)	35
BstHHI	GCGC	1 cut(s)	34
BstKTI	GATC	1 cut(s)	116
BstMBI	GATC	1 cut(s)	113
BstNI	CCWGG	1 cut(s)	144
BstNSI	RCATGY	1 cut(s)	158
BstSCI	CCNGG	1 cut(s)	142
BstV1I	GCAGC	2 cut(s)	28, 135
BstX2I	RGATCY	1 cut(s)	113
BstXI	CCANNNNNNTGG	1 cut(s)	209
BstYI	RGATCY	1 cut(s)	113
BsuRI	GGCC	2 cut(s)	47, 213
BtsI	GCAGTG	1 cut(s)	74
BtsIMutI	CAGTG	1 cut(s)	74
Cac8I	GCNNGC	1 cut(s)	128
CfoI	GCGC	1 cut(s)	34
Cfr10I	RCCGGY	1 cut(s)	40
Cfr13I	GGNCC	1 cut(s)	46
Csp6I	GTAC	2 cut(s)	234, 250
CviAII	CATG	2 cut(s)	155, 168
CviJI	RGCY	7 cut(s)	47, 98, 126, 149, 200, 213, 263
CviKI_1	RGCY	7 cut(s)	47, 98, 126, 149, 200, 213, 263
CviQI	GTAC	2 cut(s)	234, 250
DpnI	GATC	1 cut(s)	115
DpnII	GATC	1 cut(s)	113
EaeI	YGGCCR	1 cut(s)	211
Ecl136II	GAGCTC	1 cut(s)	263
Eco24I	GRGCYC	1 cut(s)	265
Eco53kI	GAGCTC	1 cut(s)	263
EcoICRI	GAGCTC	1 cut(s)	263
EcoRII	CCWGG	1 cut(s)	142
EcoT38I	GRGCYC	1 cut(s)	265
FaeI	CATG	2 cut(s)	158, 171
FaiI	YATR	5 cut(s)	136, 156, 169, 256, 258
FatI	CATG	2 cut(s)	154, 167
FauNDI	CATATG	1 cut(s)	256
Fnu4HI	GCNGC	4 cut(s)	17, 121, 124, 226
FriOI	GRGCYC	1 cut(s)	265
Fsp4HI	GCNGC	4 cut(s)	17, 121, 124, 226
FspBI	CTAG	1 cut(s)	23
GlaI	GCGC	1 cut(s)	33
GluI	GCNGC	4 cut(s)	17, 121, 124, 226
HaeII	RGCGCY	1 cut(s)	35
HaeIII	GGCC	2 cut(s)	47, 213
HapII	CCGG	1 cut(s)	41
HhaI	GCGC	1 cut(s)	34
Hin1II	CATG	2 cut(s)	158, 171
Hin6I	GCGC	1 cut(s)	32
HinP1I	GCGC	1 cut(s)	32
HincII	GTYRAC	1 cut(s)	184
HindII	GTYRAC	1 cut(s)	184
HpaII	CCGG	1 cut(s)	41
Hpy166II	GTNNAC	2 cut(s)	184, 317
Hpy188I	TCNGA	2 cut(s)	91, 177
Hpy8I	GTNNAC	2 cut(s)	184, 317
HpyCH4III	ACNGT	1 cut(s)	181
HpyCH4V	TGCA	2 cut(s)	16, 288
Hsp92II	CATG	2 cut(s)	158, 171
HspAI	GCGC	1 cut(s)	32
Kzo9I	GATC	1 cut(s)	113
LmnI	GCTCC	2 cut(s)	146, 260
LpnPI	CCDG	6 cut(s)	54, 129, 140, 156, 191, 254
Lsp1109I	GCAGC	2 cut(s)	28, 135
LweI	GCATC	1 cut(s)	331
MaeI	CTAG	1 cut(s)	23
MaeIII	GTNAC	1 cut(s)	295
MalI	GATC	1 cut(s)	115
MboI	GATC	1 cut(s)	113
MflI	RGATCY	1 cut(s)	113
MhlI	GDGCHC	1 cut(s)	265
MlsI	TGGCCA	1 cut(s)	213
MluCI	AATT	1 cut(s)	289
MluNI	TGGCCA	1 cut(s)	213
MnlI	CCTC	1 cut(s)	292
Mox20I	TGGCCA	1 cut(s)	213
MscI	TGGCCA	1 cut(s)	213
MseI	TTAA	1 cut(s)	364
Msp20I	TGGCCA	1 cut(s)	213
MspI	CCGG	1 cut(s)	41
MspR9I	CCNGG	1 cut(s)	144
MvaI	CCWGG	1 cut(s)	144
NdeI	CATATG	1 cut(s)	256
NdeII	GATC	1 cut(s)	113
NlaIII	CATG	2 cut(s)	158, 171
NlaIV	GGNNCC	1 cut(s)	148
NmuCI	GTSAC	1 cut(s)	295
NspI	RCATGY	1 cut(s)	158
PkrI	GCNGC	4 cut(s)	18, 122, 125, 227
Psp124BI	GAGCTC	1 cut(s)	265
Psp6I	CCWGG	1 cut(s)	142
PspGI	CCWGG	1 cut(s)	142
PspN4I	GGNNCC	1 cut(s)	148
PspPI	GGNCC	1 cut(s)	46
PsuI	RGATCY	1 cut(s)	113
RsaI	GTAC	2 cut(s)	235, 251
RsaNI	GTAC	2 cut(s)	234, 250
SacI	GAGCTC	1 cut(s)	265
SaqAI	TTAA	1 cut(s)	364
SatI	GCNGC	4 cut(s)	17, 121, 124, 226
Sau3AI	GATC	1 cut(s)	113
Sau96I	GGNCC	1 cut(s)	46
ScrFI	CCNGG	1 cut(s)	144
SduI	GDGCHC	1 cut(s)	265
SetI	ASST	4 cut(s)	100, 210, 265, 278
SfaNI	GCATC	1 cut(s)	331
SgrAI	CRCCGGYG	1 cut(s)	40
Sse9I	AATT	1 cut(s)	289
SsiI	CCGC	3 cut(s)	38, 121, 225
SspMI	CTAG	1 cut(s)	23
SstI	GAGCTC	1 cut(s)	265
StyD4I	CCNGG	1 cut(s)	142
TaaI	ACNGT	1 cut(s)	181
TasI	AATT	1 cut(s)	289
TatI	WGTACW	1 cut(s)	233
TauI	GCSGC	2 cut(s)	123, 228
Tru1I	TTAA	1 cut(s)	364
Tru9I	TTAA	1 cut(s)	364
TscAI	CASTG	1 cut(s)	81
TseFI	GTSAC	1 cut(s)	295
TseI	GCWGC	2 cut(s)	16, 123
Tsp45I	GTSAC	1 cut(s)	295
TspGWI	ACGGA	1 cut(s)	259
TspRI	CASTG	1 cut(s)	81
XceI	RCATGY	1 cut(s)	158
XspI	CTAG	1 cut(s)	23

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