Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0009165

Physical Location & Seq

Genomic Coordinates Forward (+)

39728093 .. 39730086

Gene Structure 1994 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG233900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 432 bp

ATGATCGTCTGCGTCGCCGTCGTCGGGCATCAGAACAACCCTCTTTACATCCAAAGCTTCACTGATGCCGATGACGCCCTCAAGCTCCACCACATCGTCCACTGCTCCCTCGACGTCGTCGACGAGCGAGTGAACAATCCGAAGAAGTCCGGACCGACGCTGAATGAGACATTCTTGGGTCTGCTTTATCCAACCGAGAATTACAAAGTGTATGGCTATTTGACAAACACAAAGGTGAAGTTTATCTTGGTGACTACTGATCTCGATGTTAAAGATGCGGATGTCAGAAATTTTTTCAGGCGATTCCATGCTGGGTATGTGGATGCAATTTCAAACCCATTTCATGAGCCAGGGAAAAAGATAACCTCAAAAACCTTTGCTGAAAAGGTGAGCACCATTGTCAAGTCATTCGGGTTCAGTTCAACTGGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Sedlin_N

Protein Analysis

143

Amino Acids

16.03

Weight (kDa)

7.8

Isoelectric Point (pI)

12.52

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sedlin_N	PF04628	7 - 135	1.1e-37	Sedlin, N-terminal conserved region
Sybindin	PF04099	24 - 136	4.1e-08	Sybindin-like family

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)

Image

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Publication-ready

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Orthologous Genes (Group: OG0009165)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G20930
fragaria_vesca	FvH4_2g15500 FvH4_2g15500
malus_domestica	MD05G1123300.v1.1 MD10G1126300.v1.1
prunus_persica	Prupe.8G167200_v2.0.a1
pyrus_communis	pycom10g10850
rosa_chinensis	RchiOBHm_Chr6g0278501
rosa_laevigata	RLG00000013223
rosa_multiflora	Rmu_sc0000258.1_g000008 Rmu_sc0002777.1_g000003
rosa_roxburghii	Rroxscaffold_7G00189840 Rroxscaffold_7G00190330
rosa_rugosa	Rorug06G0117500
rosa_samantha	Rh4AG039800 Rh4BG034500 Rh6AG226600 Rh6BG230800 Rh6CG233900 Rh6DG225200
rosa_wichuraiana	Rw0G003070 Rw6G019780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	117
AccI	GTMKAC	1 cut(s)	120
AccIII	TCCGGA	1 cut(s)	149
AciI	CCGC	1 cut(s)	278
AcsI	RAATTY	1 cut(s)	289
AcyI	GRCGYC	2 cut(s)	75, 114
AfiI	CCNNNNNNNGG	1 cut(s)	24
AgsI	TTSAA	2 cut(s)	333, 423
AjnI	CCWGG	1 cut(s)	349
AjuI	GAANNNNNNNTTGG	2 cut(s)	230, 262
AleI	CACNNNNGTG	1 cut(s)	233
AluBI	AGCT	2 cut(s)	57, 85
AluI	AGCT	2 cut(s)	57, 85
Alw21I	GWGCWC	1 cut(s)	395
Alw26I	GTCTC	1 cut(s)	161
Aor13HI	TCCGGA	1 cut(s)	149
ApoI	RAATTY	1 cut(s)	289
AspS9I	GGNCC	1 cut(s)	152
AsuHPI	GGTGA	3 cut(s)	247, 262, 400
AvaII	GGWCC	1 cut(s)	152
Bbv12I	GWGCWC	1 cut(s)	395
BceAI	ACGGC	1 cut(s)	2
BciT130I	CCWGG	1 cut(s)	351
BcoDI	GTCTC	1 cut(s)	161
Bme1390I	CCNGG	1 cut(s)	351
Bme18I	GGWCC	1 cut(s)	152
BmgT120I	GGNCC	1 cut(s)	152
BmrFI	CCNGG	1 cut(s)	351
BmsI	GCATC	4 cut(s)	37, 55, 265, 313
BpuEI	CTTGAG	1 cut(s)	65
BsaHI	GRCGYC	2 cut(s)	75, 114
BsaJI	CCNNGG	1 cut(s)	350
BsaWI	WCCGGW	1 cut(s)	149
Bsc4I	CCNNNNNNNGG	1 cut(s)	24
Bse1I	ACTGG	1 cut(s)	430
BseAI	TCCGGA	1 cut(s)	149
BseBI	CCWGG	1 cut(s)	351
BseDI	CCNNGG	1 cut(s)	350
BseGI	GGATG	3 cut(s)	48, 286, 328
BseLI	CCNNNNNNNGG	1 cut(s)	24
BseNI	ACTGG	1 cut(s)	430
BseYI	CCCAGC	1 cut(s)	311
BsiHKAI	GWGCWC	1 cut(s)	395
BsiSI	CCGG	1 cut(s)	150
BslI	CCNNNNNNNGG	1 cut(s)	24
BsmAI	GTCTC	1 cut(s)	161
Bsp1286I	GDGCHC	1 cut(s)	395
Bsp13I	TCCGGA	1 cut(s)	149
Bsp143I	GATC	2 cut(s)	3, 259
BspACI	CCGC	1 cut(s)	278
BspEI	TCCGGA	1 cut(s)	149
BspHI	TCATGA	1 cut(s)	343
BsrI	ACTGG	1 cut(s)	430
BssECI	CCNNGG	1 cut(s)	350
BssMI	GATC	2 cut(s)	3, 259
BssNI	GRCGYC	2 cut(s)	75, 114
Bst2UI	CCWGG	1 cut(s)	351
BstACI	GRCGYC	2 cut(s)	75, 114
BstF5I	GGATG	3 cut(s)	48, 286, 328
BstKTI	GATC	2 cut(s)	6, 262
BstMAI	GTCTC	1 cut(s)	161
BstMBI	GATC	2 cut(s)	3, 259
BstMWI	GCNNNNNNNGC	1 cut(s)	74
BstNI	CCWGG	1 cut(s)	351
BstSCI	CCNGG	1 cut(s)	349
BtsCI	GGATG	3 cut(s)	48, 286, 328
BtsI	GCAGTG	1 cut(s)	100
BtsIMutI	CAGTG	2 cut(s)	60, 100
CciI	TCATGA	1 cut(s)	343
Cfr13I	GGNCC	1 cut(s)	152
CpoI	CGGWCCG	1 cut(s)	152
CseI	GACGC	2 cut(s)	83, 166
CspI	CGGWCCG	1 cut(s)	152
CviAII	CATG	2 cut(s)	308, 344
CviJI	RGCY	4 cut(s)	57, 85, 216, 349
CviKI_1	RGCY	4 cut(s)	57, 85, 216, 349
DpnI	GATC	2 cut(s)	5, 261
DpnII	GATC	2 cut(s)	3, 259
Eco47I	GGWCC	1 cut(s)	152
EcoRII	CCWGG	1 cut(s)	349
FaeI	CATG	2 cut(s)	311, 347
FaiI	YATR	4 cut(s)	213, 309, 318, 345
FalI	AAGNNNNNCTT	2 cut(s)	230, 262
FatI	CATG	2 cut(s)	307, 343
FblI	GTMKAC	1 cut(s)	120
FokI	GGATG	3 cut(s)	35, 293, 335
GsaI	CCCAGC	1 cut(s)	315
HapII	CCGG	1 cut(s)	150
HgaI	GACGC	2 cut(s)	83, 166
Hin1I	GRCGYC	2 cut(s)	75, 114
Hin1II	CATG	2 cut(s)	311, 347
HincII	GTYRAC	1 cut(s)	121
HindII	GTYRAC	1 cut(s)	121
HindIII	AAGCTT	1 cut(s)	55
HinfI	GANTC	1 cut(s)	303
HpaII	CCGG	1 cut(s)	150
HphI	GGTGA	3 cut(s)	247, 262, 400
Hpy166II	GTNNAC	3 cut(s)	100, 121, 133
Hpy188I	TCNGA	3 cut(s)	33, 141, 287
Hpy188III	TCNNGA	3 cut(s)	150, 263, 344
Hpy8I	GTNNAC	3 cut(s)	100, 121, 133
Hpy99I	CGWCG	8 cut(s)	17, 23, 26, 116, 119, 122, 125, 160
HpyCH4IV	ACGT	1 cut(s)	114
HpyCH4V	TGCA	1 cut(s)	326
HpyF10VI	GCNNNNNNNGC	1 cut(s)	74
HpySE526I	ACGT	1 cut(s)	114
Hsp92I	GRCGYC	2 cut(s)	75, 114
Hsp92II	CATG	2 cut(s)	311, 347
Kpn2I	TCCGGA	1 cut(s)	149
Kzo9I	GATC	2 cut(s)	3, 259
LmnI	GCTCC	2 cut(s)	90, 110
LpnPI	CCDG	6 cut(s)	163, 283, 297, 336, 363, 411
LweI	GCATC	4 cut(s)	37, 55, 265, 313
MaeII	ACGT	1 cut(s)	114
MaeIII	GTNAC	1 cut(s)	250
MalI	GATC	2 cut(s)	5, 261
MboI	GATC	2 cut(s)	3, 259
MboII	GAAGA	1 cut(s)	154
MhlI	GDGCHC	1 cut(s)	395
MluCI	AATT	3 cut(s)	199, 289, 327
MmeI	TCCRAC	1 cut(s)	215
MnlI	CCTC	4 cut(s)	51, 89, 119, 376
MroI	TCCGGA	1 cut(s)	149
MseI	TTAA	1 cut(s)	270
MslI	CAYNNNNRTG	1 cut(s)	233
MspI	CCGG	1 cut(s)	150
MspR9I	CCNGG	1 cut(s)	351
MvaI	CCWGG	1 cut(s)	351
MwoI	GCNNNNNNNGC	1 cut(s)	74
NdeII	GATC	2 cut(s)	3, 259
NlaIII	CATG	2 cut(s)	311, 347
NmuCI	GTSAC	1 cut(s)	250
OliI	CACNNNNGTG	1 cut(s)	233
PagI	TCATGA	1 cut(s)	343
PcsI	WCGNNNNNNNCGW	2 cut(s)	117, 120
PfeI	GAWTC	1 cut(s)	303
PflFI	GACNNNGTC	1 cut(s)	116
Psp6I	CCWGG	1 cut(s)	349
PspFI	CCCAGC	1 cut(s)	311
PspGI	CCWGG	1 cut(s)	349
PspPI	GGNCC	1 cut(s)	152
PsyI	GACNNNGTC	1 cut(s)	116
RseI	CAYNNNNRTG	1 cut(s)	233
Rsr2I	CGGWCCG	1 cut(s)	152
RsrII	CGGWCCG	1 cut(s)	152
SalI	GTCGAC	1 cut(s)	119
SaqAI	TTAA	1 cut(s)	270
Sau3AI	GATC	2 cut(s)	3, 259
Sau96I	GGNCC	1 cut(s)	152
ScrFI	CCNGG	1 cut(s)	351
SduI	GDGCHC	1 cut(s)	395
SetI	ASST	7 cut(s)	59, 87, 117, 237, 368, 377, 390
SfaNI	GCATC	4 cut(s)	37, 55, 265, 313
SgrDI	CGTCGACG	1 cut(s)	119
SinI	GGWCC	1 cut(s)	152
SmiMI	CAYNNNNRTG	1 cut(s)	233
SmlI	CTYRAG	1 cut(s)	80
SmoI	CTYRAG	1 cut(s)	80
Sse9I	AATT	3 cut(s)	199, 289, 327
SsiI	CCGC	1 cut(s)	278
StyD4I	CCNGG	1 cut(s)	349
TaiI	ACGT	1 cut(s)	117
TaqI	TCGA	3 cut(s)	111, 120, 264
TaqII	GACCGA	1 cut(s)	169
TasI	AATT	3 cut(s)	199, 289, 327
TfiI	GAWTC	1 cut(s)	303
Tru1I	TTAA	1 cut(s)	270
Tru9I	TTAA	1 cut(s)	270
TscAI	CASTG	2 cut(s)	67, 107
TseFI	GTSAC	1 cut(s)	250
Tsp45I	GTSAC	1 cut(s)	250
TspDTI	ATGAA	1 cut(s)	332
TspRI	CASTG	2 cut(s)	67, 107
Tth111I	GACNNNGTC	1 cut(s)	116
VpaK11BI	GGWCC	1 cut(s)	152
XapI	RAATTY	1 cut(s)	289
XmiI	GTMKAC	1 cut(s)	120
ZraI	GACGTC	1 cut(s)	115

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