Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0002935

Physical Location & Seq

Genomic Coordinates Reverse (-)

3458719 .. 3459124

Gene Structure 406 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG028000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 303 bp

ATGTCATATATATCCAGAAAAGCGAAAGTTGATGCAAGATTTTCCCAAAGTGAGACAGTGTTAGACAGGAGAGAATGTCCCTTCAACAGCTTGGGATTATCCATGGCCAAAGGCAAGCAGCTTGGAGACCAATTAGAGGGCTGCCTGAGAACTTGGCTTTTCAAACACTTTCTTCATCCTTATCCTTATGACTCTGAGAAGCTAATGTTGGCATCACAAACAGGCCTGTCCAAGAACCAAGTAATACTTCCTAACAGTTTTGTCTACGTCCTGATTTCATCATATGTCATCACTTTCTTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Homeobox_KN POX

Protein Analysis

100

Amino Acids

11.45

Weight (kDa)

9.23

Isoelectric Point (pI)

50.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Homeobox_KN	PF05920	52 - 81	2e-09	Homeobox KN domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0002935)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G75430 AT1G75430
fragaria_vesca	FvH4_2g39270 FvH4_2g39270 FvH4_2g39270
malus_domestica	MD08G1024300.v1.1 MD15G1021900.v1.1
prunus_persica	Prupe.1G373700_v2.0.a1 Prupe.1G373700_v2.0.a1 Prupe.1G373700_v2.0.a1 Prupe.1G373700_v2.0.a1 Prupe.1G373700_v2.0.a1
pyrus_communis	pycom08g01910 pycom15g01820
rosa_chinensis	RchiOBHm_Chr6g0245211 RchiOBHm_Chr6g0301741
rosa_laevigata	RLG00000011226 RLG00000015315 RLG00000021395
rosa_multiflora	Rmu_sc0001288.1_g000006 Rmu_sc0005454.1_g000025
rosa_roxburghii	Rroxscaffold_3G00242160 Rroxscaffold_7G00166460 Rroxscaffold_7G00215350
rosa_rugosa	Rorug05G0512900 Rorug05G0512900 Rorug06G0308600 Rorug06G0308700.1 Rorug06G0308800.1 Rorug06G0308900.1
rosa_samantha	Rh6AG028000 Rh6AG028100 Rh6AG421100 Rh6BG024200 Rh6BG427800 Rh6CG434400 Rh6DG421300
rosa_wichuraiana	Rw6G036450

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	301
AccI	GTMKAC	1 cut(s)	264
AcoI	YGGCCR	1 cut(s)	105
AfiI	CCNNNNNNNGG	1 cut(s)	136
AgsI	TTSAA	2 cut(s)	85, 163
AjuI	GAANNNNNNNTTGG	4 cut(s)	191, 223, 231, 263
AluBI	AGCT	3 cut(s)	90, 121, 202
AluI	AGCT	3 cut(s)	90, 121, 202
Alw26I	GTCTC	2 cut(s)	47, 120
AoxI	GGCC	2 cut(s)	105, 223
ApeKI	GCWGC	2 cut(s)	118, 141
BalI	TGGCCA	1 cut(s)	107
BbvI	GCAGC	2 cut(s)	128, 130
BcoDI	GTCTC	2 cut(s)	47, 120
BisI	GCNGC	2 cut(s)	119, 142
BlsI	GCNGC	2 cut(s)	120, 143
BmsI	GCATC	2 cut(s)	22, 221
BsaI	GGTCTC	1 cut(s)	120
BsaJI	CCNNGG	1 cut(s)	102
BsaXI	ACNNNNNCTCC	2 cut(s)	61, 91
Bsc4I	CCNNNNNNNGG	1 cut(s)	136
BseDI	CCNNGG	1 cut(s)	102
BseGI	GGATG	1 cut(s)	175
BseLI	CCNNNNNNNGG	1 cut(s)	136
BseMII	CTCAG	2 cut(s)	137, 186
BseXI	GCAGC	2 cut(s)	128, 130
BshFI	GGCC	2 cut(s)	107, 225
BslFI	GGGAC	1 cut(s)	63
BslI	CCNNNNNNNGG	1 cut(s)	136
BsmAI	GTCTC	2 cut(s)	47, 120
BsmFI	GGGAC	1 cut(s)	63
BsnI	GGCC	2 cut(s)	107, 225
Bso31I	GGTCTC	1 cut(s)	120
Bsp19I	CCATGG	1 cut(s)	102
BspANI	GGCC	2 cut(s)	107, 225
BspCNI	CTCAG	2 cut(s)	138, 187
BspTNI	GGTCTC	1 cut(s)	120
BssECI	CCNNGG	1 cut(s)	102
BssT1I	CCWWGG	1 cut(s)	102
Bst4CI	ACNGT	2 cut(s)	58, 257
BstC8I	GCNNGC	1 cut(s)	116
BstDEI	CTNAG	2 cut(s)	146, 195
BstDSI	CCRYGG	1 cut(s)	102
BstF5I	GGATG	1 cut(s)	175
BstMAI	GTCTC	2 cut(s)	47, 120
BstV1I	GCAGC	2 cut(s)	128, 130
BsuRI	GGCC	2 cut(s)	107, 225
BtgI	CCRYGG	1 cut(s)	102
BtsCI	GGATG	1 cut(s)	175
BtsIMutI	CAGTG	1 cut(s)	63
Cac8I	GCNNGC	1 cut(s)	116
CviAII	CATG	1 cut(s)	103
CviJI	RGCY	7 cut(s)	90, 107, 121, 141, 157, 202, 225
CviKI_1	RGCY	7 cut(s)	90, 107, 121, 141, 157, 202, 225
DdeI	CTNAG	2 cut(s)	146, 195
EaeI	YGGCCR	1 cut(s)	105
Eco130I	CCWWGG	1 cut(s)	102
Eco147I	AGGCCT	1 cut(s)	225
Eco31I	GGTCTC	1 cut(s)	120
EcoT14I	CCWWGG	1 cut(s)	102
ErhI	CCWWGG	1 cut(s)	102
FaeI	CATG	1 cut(s)	106
FaiI	YATR	8 cut(s)	7, 9, 11, 104, 189, 283, 285, 301
FalI	AAGNNNNNCTT	2 cut(s)	231, 263
FaqI	GGGAC	1 cut(s)	63
FatI	CATG	1 cut(s)	102
FauNDI	CATATG	1 cut(s)	283
FblI	GTMKAC	1 cut(s)	264
Fnu4HI	GCNGC	2 cut(s)	119, 142
FokI	GGATG	1 cut(s)	162
Fsp4HI	GCNGC	2 cut(s)	119, 142
GluI	GCNGC	2 cut(s)	119, 142
HaeIII	GGCC	2 cut(s)	107, 225
Hin1II	CATG	1 cut(s)	106
HinfI	GANTC	1 cut(s)	191
Hpy166II	GTNNAC	1 cut(s)	265
Hpy188I	TCNGA	1 cut(s)	196
Hpy188III	TCNNGA	2 cut(s)	15, 271
Hpy8I	GTNNAC	1 cut(s)	265
HpyAV	CCTTC	1 cut(s)	91
HpyCH4III	ACNGT	2 cut(s)	58, 257
HpyCH4IV	ACGT	1 cut(s)	267
HpyCH4V	TGCA	1 cut(s)	35
HpyF3I	CTNAG	2 cut(s)	146, 195
HpySE526I	ACGT	1 cut(s)	267
Hsp92II	CATG	1 cut(s)	106
LpnPI	CCDG	6 cut(s)	28, 52, 158, 207, 239, 284
Lsp1109I	GCAGC	2 cut(s)	128, 130
LweI	GCATC	2 cut(s)	22, 221
MaeII	ACGT	1 cut(s)	267
MboII	GAAGA	1 cut(s)	164
MlsI	TGGCCA	1 cut(s)	107
MluCI	AATT	1 cut(s)	131
MluNI	TGGCCA	1 cut(s)	107
MlyI	GAGTC	1 cut(s)	185
MnlI	CCTC	1 cut(s)	130
Mox20I	TGGCCA	1 cut(s)	107
MscI	TGGCCA	1 cut(s)	107
Msp20I	TGGCCA	1 cut(s)	107
NcoI	CCATGG	1 cut(s)	102
NdeI	CATATG	1 cut(s)	283
NlaIII	CATG	1 cut(s)	106
PceI	AGGCCT	1 cut(s)	225
PkrI	GCNGC	2 cut(s)	120, 143
PleI	GAGTC	1 cut(s)	185
PpsI	GAGTC	1 cut(s)	185
PsiI	TTATAA	1 cut(s)	301
SatI	GCNGC	2 cut(s)	119, 142
SchI	GAGTC	1 cut(s)	185
SetI	ASST	4 cut(s)	92, 123, 204, 270
SfaNI	GCATC	2 cut(s)	22, 221
Sse9I	AATT	1 cut(s)	131
SseBI	AGGCCT	1 cut(s)	225
StuI	AGGCCT	1 cut(s)	225
StyI	CCWWGG	1 cut(s)	102
TaaI	ACNGT	2 cut(s)	58, 257
TaiI	ACGT	1 cut(s)	270
TasI	AATT	1 cut(s)	131
TscAI	CASTG	1 cut(s)	63
TseI	GCWGC	2 cut(s)	118, 141
TspDTI	ATGAA	2 cut(s)	164, 267
TspRI	CASTG	1 cut(s)	63
XmiI	GTMKAC	1 cut(s)	264

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