Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0007788

Physical Location & Seq

Genomic Coordinates Forward (+)

2569186 .. 2572333

Gene Structure 3148 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG038900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 687 bp

ATGGACTGCCAGTGTCTTGATGTTGCAAAGGACCTCATCAAGCTTTTACGAAAGGCATTTCCAGAGAGTAAAAGAGTTGGCAAGCTAGAGGCTATGTTGCTTGAGGCAAAGGGATCCTGGGCAGAGGCAGAGAAGGCTTATTCAAGCCTTTTGGAAGATAGTCCACTTGATCAAGTAATACATAAGAGAAGGGTAGCTATGGCAAAGGCTCAAGGCGATACTTCAGGGGCCATTGAATGGCTTAATAAATATCTTGAAATATTTATGGCCGATAATGATGCTTGGAGAGAGCTGGCAGAAATCTATGTCTCGTTGCAAATGTACAAGCAAGCTGCATTCTGCTATGAGGAGCTGATATTAGCACAACCTACTGTTCCCCTCTACCACTTAGCTTATGCTGATATTCTTTACACTCTTGGTGGATTAGAAAACATACAGACAGCAAAGAAATACTACGCATCTGTTATAGACTTGACTGGGGGCAAGAATATCAGAGCATTATTTGGTATTAGCTTGTGTACTTCTGCCATTGCACAGCTTGCGAAAGGAAGGAACAAGGAAGACAAGGAGACCTCGGAGCTACAGTCACTGGTAGCAACAGCCTTGGAGAAAGACTACAAGCAAAGAGCTCCGGACAAGCTTTCTCTGCTTACTACTGCCTTAAAAAACTTGAAAGTTTCATCATAA

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

TPR_16 TPR_19

Protein Analysis

228

Amino Acids

25.45

Weight (kDa)

6.75

Isoelectric Point (pI)

47.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_EMC2	PF22890	25 - 135	3.4e-57	EMC2 TPR-like repeat domain
TPR_19	PF14559	70 - 135	4.1e-06	Tetratricopeptide repeat

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

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

Orthologous Genes (Group: OG0007788)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G04830 AT3G04830 AT5G28220
fragaria_vesca	FvH4_6g03340
malus_domestica	MD04G1221600.v1.1 MD12G1237600.v1.1
prunus_persica	Prupe.6G340800_v2.0.a1
pyrus_communis	pycom04g19600 pycom12g21850
rosa_chinensis	RchiOBHm_Chr3g0451841
rosa_laevigata	RLG00000002508 RLG00000015364 RLG00000025644
rosa_multiflora	Rmu_sc0002901.1_g000010 Rmu_sc0006510.1_g000013
rosa_roxburghii	Rroxscaffold_164G00436280 Rroxscaffold_6G00429010
rosa_rugosa	Rorug02G0636600
rosa_samantha	Rh3AG038400 Rh3BG039700 Rh3CG038100 Rh3DG038900
rosa_wichuraiana	Rw3G002850 Rw6G001930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	237
AccIII	TCCGGA	1 cut(s)	631
AclWI	GGATC	2 cut(s)	108, 121
AcoI	YGGCCR	1 cut(s)	267
AcuI	CTGAAG	1 cut(s)	207
AfaI	GTAC	2 cut(s)	323, 520
AfiI	CCNNNNNNNGG	1 cut(s)	237
AgsI	TTSAA	4 cut(s)	144, 236, 257, 673
AjnI	CCWGG	1 cut(s)	116
Alw21I	GWGCWC	1 cut(s)	631
Alw26I	GTCTC	2 cut(s)	313, 563
AlwI	GGATC	2 cut(s)	108, 121
AlwNI	CAGNNNCTG	1 cut(s)	589
Aor13HI	TCCGGA	1 cut(s)	631
AoxI	GGCC	2 cut(s)	228, 267
ApeKI	GCWGC	1 cut(s)	332
AspS9I	GGNCC	2 cut(s)	31, 228
AvaII	GGWCC	1 cut(s)	31
BamHI	GGATCC	1 cut(s)	113
BanII	GRGCYC	1 cut(s)	631
BbsI	GAAGAC	1 cut(s)	567
Bbv12I	GWGCWC	1 cut(s)	631
BbvI	GCAGC	1 cut(s)	319
BcgI	CGANNNNNNTGC	2 cut(s)	260, 294
BciT130I	CCWGG	1 cut(s)	118
BclI	TGATCA	1 cut(s)	169
BcoDI	GTCTC	2 cut(s)	313, 563
BfaI	CTAG	1 cut(s)	86
BfmI	CTRYAG	1 cut(s)	581
BisI	GCNGC	1 cut(s)	333
BlsI	GCNGC	1 cut(s)	334
Bme1390I	CCNGG	1 cut(s)	118
Bme18I	GGWCC	1 cut(s)	31
BmgT120I	GGNCC	2 cut(s)	31, 228
BmiI	GGNNCC	2 cut(s)	115, 229
BmrFI	CCNGG	1 cut(s)	118
BmrI	ACTGGG	1 cut(s)	486
BmsI	GCATC	2 cut(s)	268, 467
BmuI	ACTGGG	1 cut(s)	486
BpiI	GAAGAC	1 cut(s)	567
BpuEI	CTTGAG	2 cut(s)	122, 195
BsaI	GGTCTC	1 cut(s)	563
BsaJI	CCNNGG	3 cut(s)	117, 573, 603
BsaWI	WCCGGW	1 cut(s)	631
BsaXI	ACNNNNNCTCC	2 cut(s)	569, 599
Bsc4I	CCNNNNNNNGG	1 cut(s)	237
Bse1I	ACTGG	3 cut(s)	10, 481, 594
Bse3DI	GCAATG	1 cut(s)	528
BseAI	TCCGGA	1 cut(s)	631
BseBI	CCWGG	1 cut(s)	118
BseDI	CCNNGG	3 cut(s)	117, 573, 603
BseLI	CCNNNNNNNGG	1 cut(s)	237
BseMI	GCAATG	1 cut(s)	528
BseNI	ACTGG	3 cut(s)	10, 481, 594
BseRI	GAGGAG	1 cut(s)	362
BseXI	GCAGC	1 cut(s)	319
BshFI	GGCC	2 cut(s)	230, 269
BsiHKAI	GWGCWC	1 cut(s)	631
BsiSI	CCGG	1 cut(s)	632
BslI	CCNNNNNNNGG	1 cut(s)	237
BsmAI	GTCTC	2 cut(s)	313, 563
BsmI	GAATGC	1 cut(s)	335
BsnI	GGCC	2 cut(s)	230, 269
Bso31I	GGTCTC	1 cut(s)	563
Bsp1286I	GDGCHC	1 cut(s)	631
Bsp13I	TCCGGA	1 cut(s)	631
Bsp1407I	TGTACA	1 cut(s)	321
Bsp143I	GATC	2 cut(s)	113, 169
BspANI	GGCC	2 cut(s)	230, 269
BspEI	TCCGGA	1 cut(s)	631
BspLI	GGNNCC	2 cut(s)	115, 229
BspPI	GGATC	2 cut(s)	108, 121
BspTNI	GGTCTC	1 cut(s)	563
BsrDI	GCAATG	1 cut(s)	528
BsrGI	TGTACA	1 cut(s)	321
BsrI	ACTGG	3 cut(s)	10, 481, 594
BssECI	CCNNGG	3 cut(s)	117, 573, 603
BssMI	GATC	2 cut(s)	113, 169
BssT1I	CCWWGG	1 cut(s)	603
Bst2UI	CCWGG	1 cut(s)	118
Bst4CI	ACNGT	2 cut(s)	373, 585
BstAPI	GCANNNNNTGC	1 cut(s)	539
BstAUI	TGTACA	1 cut(s)	321
BstC8I	GCNNGC	4 cut(s)	83, 294, 330, 540
BstDEI	CTNAG	1 cut(s)	388
BstKTI	GATC	2 cut(s)	116, 172
BstMAI	GTCTC	2 cut(s)	313, 563
BstMBI	GATC	2 cut(s)	113, 169
BstMWI	GCNNNNNNNGC	3 cut(s)	134, 539, 646
BstNI	CCWGG	1 cut(s)	118
BstSCI	CCNGG	1 cut(s)	116
BstSFI	CTRYAG	1 cut(s)	581
BstV1I	GCAGC	1 cut(s)	319
BstV2I	GAAGAC	1 cut(s)	567
BstX2I	RGATCY	1 cut(s)	113
BstYI	RGATCY	1 cut(s)	113
BsuRI	GGCC	2 cut(s)	230, 269
BtsIMutI	CAGTG	2 cut(s)	17, 587
Cac8I	GCNNGC	4 cut(s)	83, 294, 330, 540
CaiI	CAGNNNCTG	1 cut(s)	589
Cfr13I	GGNCC	2 cut(s)	31, 228
Csp6I	GTAC	2 cut(s)	322, 519
CviQI	GTAC	2 cut(s)	322, 519
DdeI	CTNAG	1 cut(s)	388
DpnI	GATC	2 cut(s)	115, 171
DpnII	GATC	2 cut(s)	113, 169
EaeI	YGGCCR	1 cut(s)	267
Ecl136II	GAGCTC	1 cut(s)	629
Eco130I	CCWWGG	1 cut(s)	603
Eco24I	GRGCYC	1 cut(s)	631
Eco31I	GGTCTC	1 cut(s)	563
Eco47I	GGWCC	1 cut(s)	31
Eco53kI	GAGCTC	1 cut(s)	629
Eco57I	CTGAAG	1 cut(s)	207
EcoICRI	GAGCTC	1 cut(s)	629
EcoO109I	RGGNCCY	1 cut(s)	31
EcoRII	CCWGG	1 cut(s)	116
EcoT14I	CCWWGG	1 cut(s)	603
EcoT38I	GRGCYC	1 cut(s)	631
ErhI	CCWWGG	1 cut(s)	603
FbaI	TGATCA	1 cut(s)	169
Fnu4HI	GCNGC	1 cut(s)	333
FriOI	GRGCYC	1 cut(s)	631
Fsp4HI	GCNGC	1 cut(s)	333
FspBI	CTAG	1 cut(s)	86
GluI	GCNGC	1 cut(s)	333
HaeIII	GGCC	2 cut(s)	230, 269
HapII	CCGG	1 cut(s)	632
HindIII	AAGCTT	2 cut(s)	41, 638
HpaII	CCGG	1 cut(s)	632
Hpy166II	GTNNAC	2 cut(s)	164, 519
Hpy188I	TCNGA	2 cut(s)	494, 577
Hpy188III	TCNNGA	4 cut(s)	17, 62, 254, 632
Hpy8I	GTNNAC	2 cut(s)	164, 519
HpyAV	CCTTC	3 cut(s)	127, 183, 543
HpyCH4III	ACNGT	2 cut(s)	373, 585
HpyCH4V	TGCA	4 cut(s)	26, 316, 335, 533
HpyF10VI	GCNNNNNNNGC	3 cut(s)	134, 539, 646
HpyF3I	CTNAG	1 cut(s)	388
Kpn2I	TCCGGA	1 cut(s)	631
Ksp22I	TGATCA	1 cut(s)	169
Kzo9I	GATC	2 cut(s)	113, 169
LmnI	GCTCC	3 cut(s)	349, 577, 634
LpnPI	CCDG	9 cut(s)	23, 75, 103, 130, 210, 278, 462, 575, 645
Lsp1109I	GCAGC	1 cut(s)	319
LweI	GCATC	2 cut(s)	268, 467
MaeI	CTAG	1 cut(s)	86
MaeIII	GTNAC	1 cut(s)	585
MalI	GATC	2 cut(s)	115, 171
MboI	GATC	2 cut(s)	113, 169
MboII	GAAGA	2 cut(s)	167, 572
MflI	RGATCY	1 cut(s)	113
MhlI	GDGCHC	1 cut(s)	631
MnlI	CCTC	7 cut(s)	44, 82, 97, 118, 340, 389, 583
MroI	TCCGGA	1 cut(s)	631
MseI	TTAA	2 cut(s)	243, 662
MspI	CCGG	1 cut(s)	632
MspR9I	CCNGG	1 cut(s)	118
Mva1269I	GAATGC	1 cut(s)	335
MvaI	CCWGG	1 cut(s)	118
MwoI	GCNNNNNNNGC	3 cut(s)	134, 539, 646
NdeII	GATC	2 cut(s)	113, 169
NlaIV	GGNNCC	2 cut(s)	115, 229
NmuCI	GTSAC	1 cut(s)	585
PctI	GAATGC	1 cut(s)	335
PflMI	CCANNNNNTGG	1 cut(s)	237
PkrI	GCNGC	1 cut(s)	334
PpuMI	RGGWCCY	1 cut(s)	31
Psp124BI	GAGCTC	1 cut(s)	631
Psp5II	RGGWCCY	1 cut(s)	31
Psp6I	CCWGG	1 cut(s)	116
PspGI	CCWGG	1 cut(s)	116
PspN4I	GGNNCC	2 cut(s)	115, 229
PspPI	GGNCC	2 cut(s)	31, 228
PspPPI	RGGWCCY	1 cut(s)	31
PstNI	CAGNNNCTG	1 cut(s)	589
PsuI	RGATCY	1 cut(s)	113
RsaI	GTAC	2 cut(s)	323, 520
RsaNI	GTAC	2 cut(s)	322, 519
SacI	GAGCTC	1 cut(s)	631
SaqAI	TTAA	2 cut(s)	243, 662
SatI	GCNGC	1 cut(s)	333
Sau3AI	GATC	2 cut(s)	113, 169
Sau96I	GGNCC	2 cut(s)	31, 228
ScrFI	CCNGG	1 cut(s)	118
SduI	GDGCHC	1 cut(s)	631
SfaNI	GCATC	2 cut(s)	268, 467
SfcI	CTRYAG	1 cut(s)	581
SinI	GGWCC	1 cut(s)	31
SmlI	CTYRAG	2 cut(s)	101, 210
SmoI	CTYRAG	2 cut(s)	101, 210
SspI	AATATT	1 cut(s)	261
SspMI	CTAG	1 cut(s)	86
SstI	GAGCTC	1 cut(s)	631
StyD4I	CCNGG	1 cut(s)	116
StyI	CCWWGG	1 cut(s)	603
TaaI	ACNGT	2 cut(s)	373, 585
TatI	WGTACW	2 cut(s)	321, 518
Tru1I	TTAA	2 cut(s)	243, 662
Tru9I	TTAA	2 cut(s)	243, 662
TscAI	CASTG	2 cut(s)	17, 594
TseFI	GTSAC	1 cut(s)	585
TseI	GCWGC	1 cut(s)	332
Tsp45I	GTSAC	1 cut(s)	585
TspDTI	ATGAA	1 cut(s)	669
TspRI	CASTG	2 cut(s)	17, 594
Van91I	CCANNNNNTGG	1 cut(s)	237
VpaK11BI	GGWCC	1 cut(s)	31
XspI	CTAG	1 cut(s)	86

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