Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0009580

Physical Location & Seq

Genomic Coordinates Forward (+)

11060353 .. 11061740

Gene Structure 1388 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG130900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 630 bp

ATGGGTTCACCGGAAAGATTGTTTCGCCGGCAAAGAACCCTTCATGAGATCCTTGGAGGAGGTCTTGTTGCAGATGTGATCTTGTGGAGGCAGAAAGATGTGACAATGGGGATACTGTTAGTAGCTTTAGCTGCTTGGGTGGTGTTTGAGAAGTCTGGTTATACATTGCTATCACTGGTCTCTAGTGTTCTTCTCCTCCTCTTTGTCATACTCTTTCTGTGGGCTAAATCGGCTGCCATTCTTAACCGACCAGCTCCACCCCTGCCTGAATTGCAGTTATCAGAAGAAATGGTGAATGAAGCTGCAGCTGTCATCCGGACTCATGTAAATGCTTTGCTTTTGGTTTCACAAGATATTTCTCTTGGTAAAGACTCGAGGTTGTTCTTCAAAGTAGCTGCTTACCTGCTGCTGATTTATTTTGTTGGTGGCTTGACTGATTTCCTGACTCTGAGCTACACCAGCCTTGTCATTGTTCTAACAATTCCAGCATTATATGAGAGGTATGAAGATTATGTGGACAAGTATGTCATGATGGGGTACAGGAAATTGCTGCAATTGTATGTTAAACTAGATGAAGAATATGTGAGCAGATTTCAACACTTGGTTCTGGAAAAGAAGAAACTACGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko05010 map05010

Pfam Domains

Protein Families

Reticulon

Protein Analysis

209

Amino Acids

23.85

Weight (kDa)

9.0

Isoelectric Point (pI)

36.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Reticulon	PF02453	23 - 177	4.9e-50	Reticulon

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

Tree File

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Publication-ready

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

Orthologous Genes (Group: OG0009580)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G54120
fragaria_vesca	FvH4_6g12180 FvH4_6g12180
malus_domestica	MD04G1146100.v1.1 MD12G1159300.v1.1
prunus_persica	Prupe.6G269700_v2.0.a1 Prupe.6G269700_v2.0.a1 Prupe.6G269700_v2.0.a1
pyrus_communis	pycom04g13170 pycom12g15110
rosa_chinensis	RchiOBHm_Chr3g0463981
rosa_laevigata	RLG00000024730
rosa_multiflora	Rmu_sc0006492.1_g000008
rosa_roxburghii	Rroxscaffold_6G00416090
rosa_rugosa	Rorug03G0069700 Rorug03G0069700 Rorug03G0069800
rosa_samantha	Rh3AG126700 Rh3BG130900 Rh3CG133200 Rh3DG132100
rosa_wichuraiana	Rw3G010700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	524
Acc36I	ACCTGC	1 cut(s)	411
AccIII	TCCGGA	1 cut(s)	315
AclWI	GGATC	1 cut(s)	43
AfaI	GTAC	1 cut(s)	539
AgsI	TTSAA	2 cut(s)	388, 596
AluBI	AGCT	7 cut(s)	125, 131, 254, 302, 308, 395, 453
AluI	AGCT	7 cut(s)	125, 131, 254, 302, 308, 395, 453
Alw26I	GTCTC	1 cut(s)	184
AlwI	GGATC	1 cut(s)	43
Ama87I	CYCGRG	1 cut(s)	373
Aor13HI	TCCGGA	1 cut(s)	315
ApeKI	GCWGC	7 cut(s)	131, 233, 302, 305, 395, 406, 550
AsuHPI	GGTGA	1 cut(s)	304
AvaI	CYCGRG	1 cut(s)	373
BbvI	GCAGC	7 cut(s)	118, 220, 289, 317, 382, 393, 537
BccI	CCATC	1 cut(s)	526
BciVI	GTATCC	1 cut(s)	105
BcoDI	GTCTC	1 cut(s)	184
BfaI	CTAG	2 cut(s)	183, 569
BfmI	CTRYAG	1 cut(s)	303
BfuAI	ACCTGC	1 cut(s)	411
BfuI	GTATCC	1 cut(s)	105
BisI	GCNGC	7 cut(s)	132, 234, 303, 306, 396, 407, 551
BlsI	GCNGC	7 cut(s)	133, 235, 304, 307, 397, 408, 552
BmeT110I	CYCGRG	1 cut(s)	373
BsaI	GGTCTC	1 cut(s)	184
BsaJI	CCNNGG	1 cut(s)	52
BsaWI	WCCGGW	2 cut(s)	10, 315
BsaXI	ACNNNNNCTCC	2 cut(s)	51, 81
Bse118I	RCCGGY	1 cut(s)	27
Bse1I	ACTGG	1 cut(s)	180
Bse3DI	GCAATG	1 cut(s)	164
BseAI	TCCGGA	1 cut(s)	315
BseDI	CCNNGG	1 cut(s)	52
BseGI	GGATG	1 cut(s)	312
BseMI	GCAATG	1 cut(s)	164
BseMII	CTCAG	1 cut(s)	440
BseNI	ACTGG	1 cut(s)	180
BseRI	GAGGAG	3 cut(s)	72, 185, 188
BseXI	GCAGC	7 cut(s)	118, 220, 289, 317, 382, 393, 537
BsiHKCI	CYCGRG	1 cut(s)	373
BsiSI	CCGG	3 cut(s)	11, 28, 316
BsmAI	GTCTC	1 cut(s)	184
Bso31I	GGTCTC	1 cut(s)	184
BsoBI	CYCGRG	1 cut(s)	373
Bsp13I	TCCGGA	1 cut(s)	315
Bsp143I	GATC	2 cut(s)	48, 78
BspCNI	CTCAG	1 cut(s)	441
BspEI	TCCGGA	1 cut(s)	315
BspHI	TCATGA	2 cut(s)	43, 528
BspMAI	CTGCAG	1 cut(s)	307
BspMI	ACCTGC	1 cut(s)	411
BspPI	GGATC	1 cut(s)	43
BspTNI	GGTCTC	1 cut(s)	184
BsrDI	GCAATG	1 cut(s)	164
BsrFI	RCCGGY	1 cut(s)	27
BsrI	ACTGG	1 cut(s)	180
BssAI	RCCGGY	1 cut(s)	27
BssECI	CCNNGG	1 cut(s)	52
BssMI	GATC	2 cut(s)	48, 78
BssT1I	CCWWGG	1 cut(s)	52
Bst4CI	ACNGT	1 cut(s)	117
BstC8I	GCNNGC	1 cut(s)	29
BstDEI	CTNAG	1 cut(s)	449
BstF5I	GGATG	1 cut(s)	312
BstKTI	GATC	2 cut(s)	51, 81
BstMAI	GTCTC	1 cut(s)	184
BstMBI	GATC	2 cut(s)	48, 78
BstMWI	GCNNNNNNNGC	4 cut(s)	131, 230, 271, 459
BstSFI	CTRYAG	1 cut(s)	303
BstV1I	GCAGC	7 cut(s)	118, 220, 289, 317, 382, 393, 537
BstX2I	RGATCY	1 cut(s)	48
BstYI	RGATCY	1 cut(s)	48
BsuI	GTATCC	1 cut(s)	105
BtsCI	GGATG	1 cut(s)	312
BtsIMutI	CAGTG	1 cut(s)	173
BveI	ACCTGC	1 cut(s)	411
Cac8I	GCNNGC	1 cut(s)	29
CciI	TCATGA	2 cut(s)	43, 528
Cfr10I	RCCGGY	1 cut(s)	27
Csp6I	GTAC	1 cut(s)	538
CviAII	CATG	3 cut(s)	44, 323, 529
CviQI	GTAC	1 cut(s)	538
DdeI	CTNAG	1 cut(s)	449
DpnI	GATC	2 cut(s)	50, 80
DpnII	GATC	2 cut(s)	48, 78
DrdI	GACNNNNNNGTC	1 cut(s)	524
DseDI	GACNNNNNNGTC	1 cut(s)	524
Eco130I	CCWWGG	1 cut(s)	52
Eco31I	GGTCTC	1 cut(s)	184
Eco88I	CYCGRG	1 cut(s)	373
EcoT14I	CCWWGG	1 cut(s)	52
ErhI	CCWWGG	1 cut(s)	52
FaeI	CATG	3 cut(s)	47, 326, 532
FatI	CATG	3 cut(s)	43, 322, 528
Fnu4HI	GCNGC	7 cut(s)	132, 234, 303, 306, 396, 407, 551
FokI	GGATG	1 cut(s)	299
Fsp4HI	GCNGC	7 cut(s)	132, 234, 303, 306, 396, 407, 551
FspBI	CTAG	2 cut(s)	183, 569
GluI	GCNGC	7 cut(s)	132, 234, 303, 306, 396, 407, 551
HapII	CCGG	3 cut(s)	11, 28, 316
Hin1II	CATG	3 cut(s)	47, 326, 532
HinfI	GANTC	3 cut(s)	319, 371, 445
HpaII	CCGG	3 cut(s)	11, 28, 316
HphI	GGTGA	1 cut(s)	304
Hpy166II	GTNNAC	2 cut(s)	8, 517
Hpy188I	TCNGA	2 cut(s)	283, 450
Hpy188III	TCNNGA	5 cut(s)	44, 316, 442, 529, 608
Hpy8I	GTNNAC	2 cut(s)	8, 517
HpyAV	CCTTC	1 cut(s)	50
HpyCH4III	ACNGT	1 cut(s)	117
HpyCH4IV	ACGT	1 cut(s)	625
HpyCH4V	TGCA	4 cut(s)	71, 274, 305, 553
HpyF10VI	GCNNNNNNNGC	4 cut(s)	131, 230, 271, 459
HpyF3I	CTNAG	1 cut(s)	449
HpySE526I	ACGT	1 cut(s)	625
Hsp92II	CATG	3 cut(s)	47, 326, 532
Kpn2I	TCCGGA	1 cut(s)	315
KroI	GCCGGC	1 cut(s)	27
KroNI	GCCGGC	1 cut(s)	29
Kzo9I	GATC	2 cut(s)	48, 78
LmnI	GCTCC	1 cut(s)	259
Lsp1109I	GCAGC	7 cut(s)	118, 220, 289, 317, 382, 393, 537
MaeI	CTAG	2 cut(s)	183, 569
MaeII	ACGT	1 cut(s)	625
MaeIII	GTNAC	1 cut(s)	100
MalI	GATC	2 cut(s)	50, 80
MboI	GATC	2 cut(s)	48, 78
MboII	GAAGA	6 cut(s)	182, 296, 376, 518, 587, 628
MfeI	CAATTG	1 cut(s)	554
MflI	RGATCY	1 cut(s)	48
MluCI	AATT	4 cut(s)	269, 480, 545, 554
MlyI	GAGTC	3 cut(s)	313, 365, 439
MnlI	CCTC	7 cut(s)	50, 53, 81, 206, 209, 369, 492
MroI	TCCGGA	1 cut(s)	315
MroNI	GCCGGC	1 cut(s)	27
MseI	TTAA	2 cut(s)	243, 564
MslI	CAYNNNNRTG	1 cut(s)	327
MspA1I	CMGCKG	1 cut(s)	308
MspI	CCGG	3 cut(s)	11, 28, 316
MunI	CAATTG	1 cut(s)	554
MwoI	GCNNNNNNNGC	4 cut(s)	131, 230, 271, 459
NaeI	GCCGGC	1 cut(s)	29
NdeII	GATC	2 cut(s)	48, 78
NgoMIV	GCCGGC	1 cut(s)	27
NlaIII	CATG	3 cut(s)	47, 326, 532
NmuCI	GTSAC	1 cut(s)	100
PaeR7I	CTCGAG	1 cut(s)	373
PagI	TCATGA	2 cut(s)	43, 528
PdiI	GCCGGC	1 cut(s)	29
PkrI	GCNGC	7 cut(s)	133, 235, 304, 307, 397, 408, 552
PleI	GAGTC	3 cut(s)	313, 365, 439
PpsI	GAGTC	3 cut(s)	313, 365, 439
PspXI	VCTCGAGB	1 cut(s)	373
PstI	CTGCAG	1 cut(s)	307
PsuI	RGATCY	1 cut(s)	48
PvuII	CAGCTG	1 cut(s)	308
RsaI	GTAC	1 cut(s)	539
RsaNI	GTAC	1 cut(s)	538
RseI	CAYNNNNRTG	1 cut(s)	327
SaqAI	TTAA	2 cut(s)	243, 564
SatI	GCNGC	7 cut(s)	132, 234, 303, 306, 396, 407, 551
Sau3AI	GATC	2 cut(s)	48, 78
SchI	GAGTC	3 cut(s)	313, 365, 439
SfcI	CTRYAG	1 cut(s)	303
Sfr274I	CTCGAG	1 cut(s)	373
SlaI	CTCGAG	1 cut(s)	373
SmiMI	CAYNNNNRTG	1 cut(s)	327
SmlI	CTYRAG	1 cut(s)	373
SmoI	CTYRAG	1 cut(s)	373
Sse9I	AATT	4 cut(s)	269, 480, 545, 554
SspMI	CTAG	2 cut(s)	183, 569
StyI	CCWWGG	1 cut(s)	52
TaaI	ACNGT	1 cut(s)	117
TaiI	ACGT	1 cut(s)	628
TaqI	TCGA	1 cut(s)	374
TasI	AATT	4 cut(s)	269, 480, 545, 554
Tru1I	TTAA	2 cut(s)	243, 564
Tru9I	TTAA	2 cut(s)	243, 564
TscAI	CASTG	1 cut(s)	180
TseFI	GTSAC	1 cut(s)	100
TseI	GCWGC	7 cut(s)	131, 233, 302, 305, 395, 406, 550
Tsp45I	GTSAC	1 cut(s)	100
TspDTI	ATGAA	4 cut(s)	32, 312, 519, 588
TspRI	CASTG	1 cut(s)	180
XhoI	CTCGAG	1 cut(s)	373
XspI	CTAG	2 cut(s)	183, 569

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