Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0004387

Physical Location & Seq

Genomic Coordinates Reverse (-)

74163816 .. 74165236

Gene Structure 1421 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG530500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 450 bp

ATGATTTTTTGGCATTTTCCTGCTTTAGGTGGACTGGAGTATGTTTTGCACCATGGACTATCTATGTTCTCAATCTTCCTTTCCCTTGTAAGTGGTGAAGGGCAGATTTACATACTAATGGTTCTGTTCTCTGAGAGCACAACTCCTTTTGTAAACCTAAGATGGTACTTGGATATTGCTGGTAAGAAGAACTCTAAGCTGTACGTCTGCAATGGTGTAGCATTGTTCCTGGGTTGGCTGGTTGCAAGGATTCTTTTGTTCATTTACTTTTTCGTCCACATGTTTTTCCATTTTCATCAAGTCAAGACAATATTTCCGTTGGGATTTTACAGCTTGCTCACGATACCTCCTGTGTTGGCAATCATGAATCTGTTTTGGTTTTGGAAGATTGCCAAAGGTTTGATCAAAACAGTTTCAAAGGGCACACAGAAGACCATACACAGTCAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006950 GO:0006970 GO:0008150 GO:0009628 GO:0009651 GO:0009987 GO:0019725 GO:0042592 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0045454 GO:0046872 GO:0046914 GO:0050789 GO:0050794 GO:0050896 GO:0050897 GO:0065007 GO:0065008

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

TRAM_LAG1_CLN8

Protein Analysis

149

Amino Acids

17.26

Weight (kDa)

9.72

Isoelectric Point (pI)

27.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TRAM_LAG1_CLN8	PF03798	9 - 132	6.6e-22	TLC domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0004387)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G10360 AT4G10360 AT4G10360
fragaria_vesca	FvH4_3g41280 FvH4_3g41280 FvH4_3g41280 FvH4_3g41280 FvH4_3g41280 FvH4_3g41280 FvH4_3g41280 FvH4_3g41280 FvH4_3g41280
malus_domestica	MD03G1046000.v1.1 MD11G1048300.v1.1
prunus_persica	Prupe.6G037300_v2.0.a1 Prupe.6G037300_v2.0.a1 Prupe.6G037300_v2.0.a1 Prupe.6G037300_v2.0.a1 Prupe.6G037300_v2.0.a1 Prupe.6G037300_v2.0.a1
pyrus_communis	pycom03g03620 pycom11g03940
rosa_chinensis	RchiOBHm_Chr5g0074081
rosa_laevigata	RLG00000036452
rosa_multiflora	Rmu_sc0000573.1_g000071
rosa_roxburghii	Rroxscaffold_1G00007320
rosa_rugosa	Rorug05G0429100
rosa_samantha	Rh5AG486700 Rh5BG507000 Rh5CG530500 Rh5DG519400
rosa_wichuraiana	Rw5G045170

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AfaI	GTAC	2 cut(s)	167, 203
AfiI	CCNNNNNNNGG	1 cut(s)	26
AflIII	ACRYGT	1 cut(s)	279
AgsI	TTSAA	1 cut(s)	417
AjnI	CCWGG	1 cut(s)	228
AluBI	AGCT	2 cut(s)	199, 333
AluI	AGCT	2 cut(s)	199, 333
Alw21I	GWGCWC	1 cut(s)	140
AsuHPI	GGTGA	1 cut(s)	107
BaeGI	GKGCMC	1 cut(s)	425
BbsI	GAAGAC	1 cut(s)	437
Bbv12I	GWGCWC	1 cut(s)	140
BccI	CCATC	1 cut(s)	156
BciT130I	CCWGG	1 cut(s)	230
BclI	TGATCA	1 cut(s)	402
Bme1390I	CCNGG	1 cut(s)	230
BmrFI	CCNGG	1 cut(s)	230
BpiI	GAAGAC	1 cut(s)	437
BplI	GAGNNNNNCTC	2 cut(s)	127, 159
BpmI	CTGGAG	1 cut(s)	56
BsaJI	CCNNGG	2 cut(s)	52, 229
BsaXI	ACNNNNNCTCC	2 cut(s)	331, 361
Bsc4I	CCNNNNNNNGG	1 cut(s)	26
Bse1I	ACTGG	1 cut(s)	39
Bse3DI	GCAATG	1 cut(s)	217
BseBI	CCWGG	1 cut(s)	230
BseDI	CCNNGG	2 cut(s)	52, 229
BseLI	CCNNNNNNNGG	1 cut(s)	26
BseMI	GCAATG	1 cut(s)	217
BseMII	CTCAG	1 cut(s)	123
BseNI	ACTGG	1 cut(s)	39
BseSI	GKGCMC	1 cut(s)	425
BsiHKAI	GWGCWC	1 cut(s)	140
BslI	CCNNNNNNNGG	1 cut(s)	26
Bsp1286I	GDGCHC	2 cut(s)	140, 425
Bsp143I	GATC	1 cut(s)	402
Bsp19I	CCATGG	1 cut(s)	52
BspCNI	CTCAG	1 cut(s)	124
BspHI	TCATGA	1 cut(s)	363
BsrDI	GCAATG	1 cut(s)	217
BsrI	ACTGG	1 cut(s)	39
BssECI	CCNNGG	2 cut(s)	52, 229
BssMI	GATC	1 cut(s)	402
BssT1I	CCWWGG	1 cut(s)	52
Bst2UI	CCWGG	1 cut(s)	230
Bst4CI	ACNGT	2 cut(s)	412, 443
BstC8I	GCNNGC	1 cut(s)	335
BstDEI	CTNAG	3 cut(s)	132, 158, 195
BstDSI	CCRYGG	1 cut(s)	52
BstENI	CCTNNNNNAGG	1 cut(s)	24
BstKTI	GATC	1 cut(s)	405
BstMBI	GATC	1 cut(s)	402
BstNI	CCWGG	1 cut(s)	230
BstNSI	RCATGY	1 cut(s)	283
BstSCI	CCNGG	1 cut(s)	228
BstSLI	GKGCMC	1 cut(s)	425
BstV2I	GAAGAC	1 cut(s)	437
BtgI	CCRYGG	1 cut(s)	52
Cac8I	GCNNGC	1 cut(s)	335
CciI	TCATGA	1 cut(s)	363
Csp6I	GTAC	2 cut(s)	166, 202
CviAII	CATG	3 cut(s)	53, 280, 364
CviJI	RGCY	3 cut(s)	199, 238, 333
CviKI_1	RGCY	3 cut(s)	199, 238, 333
CviQI	GTAC	2 cut(s)	166, 202
DdeI	CTNAG	3 cut(s)	132, 158, 195
DpnI	GATC	1 cut(s)	404
DpnII	GATC	1 cut(s)	402
Eco130I	CCWWGG	1 cut(s)	52
EcoNI	CCTNNNNNAGG	1 cut(s)	24
EcoRII	CCWGG	1 cut(s)	228
EcoT14I	CCWWGG	1 cut(s)	52
ErhI	CCWWGG	1 cut(s)	52
FaeI	CATG	3 cut(s)	56, 283, 367
FaiI	YATR	7 cut(s)	42, 54, 65, 113, 281, 365, 437
FatI	CATG	3 cut(s)	52, 279, 363
FbaI	TGATCA	1 cut(s)	402
GsuI	CTGGAG	1 cut(s)	56
Hin1II	CATG	3 cut(s)	56, 283, 367
HinfI	GANTC	2 cut(s)	250, 367
HphI	GGTGA	1 cut(s)	107
Hpy166II	GTNNAC	3 cut(s)	32, 154, 277
Hpy188I	TCNGA	1 cut(s)	133
Hpy188III	TCNNGA	3 cut(s)	304, 340, 364
Hpy8I	GTNNAC	3 cut(s)	32, 154, 277
HpyAV	CCTTC	1 cut(s)	92
HpyCH4III	ACNGT	2 cut(s)	412, 443
HpyCH4IV	ACGT	1 cut(s)	204
HpyCH4V	TGCA	3 cut(s)	49, 210, 245
HpyF3I	CTNAG	3 cut(s)	132, 158, 195
HpySE526I	ACGT	1 cut(s)	204
Hsp92II	CATG	3 cut(s)	56, 283, 367
Ksp22I	TGATCA	1 cut(s)	402
Kzo9I	GATC	1 cut(s)	402
LpnPI	CCDG	7 cut(s)	20, 33, 165, 215, 224, 242, 363
MaeII	ACGT	1 cut(s)	204
MalI	GATC	1 cut(s)	404
MboI	GATC	1 cut(s)	402
MboII	GAAGA	4 cut(s)	67, 199, 397, 442
MhlI	GDGCHC	2 cut(s)	140, 425
MnlI	CCTC	1 cut(s)	357
MslI	CAYNNNNRTG	1 cut(s)	116
MspR9I	CCNGG	1 cut(s)	230
MvaI	CCWGG	1 cut(s)	230
NcoI	CCATGG	1 cut(s)	52
NdeII	GATC	1 cut(s)	402
NlaIII	CATG	3 cut(s)	56, 283, 367
NspI	RCATGY	1 cut(s)	283
PagI	TCATGA	1 cut(s)	363
PciI	ACATGT	1 cut(s)	279
PfeI	GAWTC	2 cut(s)	250, 367
PscI	ACATGT	1 cut(s)	279
Psp6I	CCWGG	1 cut(s)	228
PspGI	CCWGG	1 cut(s)	228
RsaI	GTAC	2 cut(s)	167, 203
RsaNI	GTAC	2 cut(s)	166, 202
RseI	CAYNNNNRTG	1 cut(s)	116
Sau3AI	GATC	1 cut(s)	402
ScrFI	CCNGG	1 cut(s)	230
SduI	GDGCHC	2 cut(s)	140, 425
SetI	ASST	7 cut(s)	31, 159, 201, 207, 335, 349, 400
SmiMI	CAYNNNNRTG	1 cut(s)	116
SspI	AATATT	1 cut(s)	312
StyD4I	CCNGG	1 cut(s)	228
StyI	CCWWGG	1 cut(s)	52
TaaI	ACNGT	2 cut(s)	412, 443
TaiI	ACGT	1 cut(s)	207
TfiI	GAWTC	2 cut(s)	250, 367
TspDTI	ATGAA	3 cut(s)	250, 284, 380
TspGWI	ACGGA	1 cut(s)	306
XagI	CCTNNNNNAGG	1 cut(s)	24
XceI	RCATGY	1 cut(s)	283

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