Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0005003

Physical Location & Seq

Genomic Coordinates Reverse (-)

89280957 .. 89283337

Gene Structure 2381 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00067960.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 429 bp

ATGGATCATCAGCAGTACCCTAGTAGTAGTTCATCTAGAACTGACAGAAAAACCATTGAGAAAAACAGGAGGAATCAGATGAAAGCCCTATACTCCGAGCTCAACTCTCTTCTACCCCATCAACGCTCAAGGGAAGTGACTTCTTTGCCAGATCAAATAGATGAAGCTGTGAACTACATCAAGAAGTTGCAGACCAACTTGGAGAAAATGAGGGAGAAGAAAGACAGCCAAATGGGAGTAGAGCGGATCACCATTAACAATAATGGAGGTTCACGTAGGGGACTAAATGGTGGCGGGTTAAGATTACCTCAGATCGAGATTCGTGAAATGGGTTCTGTTCTAGATGTTGTTCTGATAACTGGATTGGATTTTCAATTCATGTTTGAGGGTCGATTCGCATGCTTCTTGAAGAGGGAGCTGACATTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000976 GO:0000977 GO:0001012 GO:0001067 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005667 GO:0006355 GO:0006357 GO:0006950 GO:0006952 GO:0008150 GO:0009605 GO:0009607 GO:0009620 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0032991 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044798 GO:0050789 GO:0050794 GO:0050832 GO:0050896 GO:0051171 GO:0051252 GO:0051704 GO:0051707 GO:0060255 GO:0065007 GO:0080090 GO:0090575 GO:0097159 GO:0098542 GO:0140110 GO:1901363 GO:1903506 GO:1990837 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HLH

Protein Analysis

142

Amino Acids

16.39

Weight (kDa)

9.56

Isoelectric Point (pI)

55.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	13 - 64	1.3e-08	Helix-loop-helix DNA-binding 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: OG0005003)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G20970
fragaria_vesca	FvH4_3g09050
malus_domestica	MD05G1338200.v1.1
prunus_persica	Prupe.4G048500_v2.0.a1 Prupe.4G048500_v2.0.a1
pyrus_communis	pycom05g28960 pycom10g24530
rosa_chinensis	RchiOBHm_Chr5g0008581 RchiOBHm_Chr5g0008601
rosa_laevigata	RLG00000031585 RLG00000031587
rosa_multiflora	Rmu_co8408735.1_g000001 Rmu_sc0001665.1_g000022
rosa_roxburghii	Rroxscaffold_1G00067940 Rroxscaffold_1G00067960
rosa_rugosa	Rorug04G0437000 Rorug04G0437100 Rorug04G0437200 Rorug04G0437200 Rorug04G0437400.1
rosa_samantha	Rh5AG065700 Rh5AG065900 Rh5BG063200 Rh5BG063300 Rh5CG073400 Rh5CG073500 Rh5DG062900 Rh5DG063000
rosa_wichuraiana	Rw5G006310 Rw5G006320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	244
AciI	CCGC	2 cut(s)	244, 294
AclWI	GGATC	2 cut(s)	12, 254
AfaI	GTAC	1 cut(s)	17
AgsI	TTSAA	2 cut(s)	374, 409
AluBI	AGCT	3 cut(s)	100, 167, 418
AluI	AGCT	3 cut(s)	100, 167, 418
Alw21I	GWGCWC	1 cut(s)	102
AlwI	GGATC	2 cut(s)	12, 254
AsuHPI	GGTGA	1 cut(s)	241
BanII	GRGCYC	1 cut(s)	102
Bbv12I	GWGCWC	1 cut(s)	102
BccI	CCATC	1 cut(s)	126
BcgI	CGANNNNNNTGC	2 cut(s)	381, 415
BfaI	CTAG	3 cut(s)	21, 36, 341
BplI	GAGNNNNNCTC	2 cut(s)	89, 121
BpuEI	CTTGAG	1 cut(s)	112
BsaAI	YACGTR	1 cut(s)	275
Bse1I	ACTGG	1 cut(s)	364
BseMII	CTCAG	1 cut(s)	323
BseNI	ACTGG	1 cut(s)	364
BsiHKAI	GWGCWC	1 cut(s)	102
BslFI	GGGAC	1 cut(s)	294
BsmFI	GGGAC	1 cut(s)	294
Bsp1286I	GDGCHC	1 cut(s)	102
Bsp143I	GATC	4 cut(s)	4, 151, 246, 312
BspACI	CCGC	2 cut(s)	244, 294
BspCNI	CTCAG	1 cut(s)	322
BspPI	GGATC	2 cut(s)	12, 254
BsrBI	CCGCTC	1 cut(s)	244
BsrI	ACTGG	1 cut(s)	364
BssMI	GATC	4 cut(s)	4, 151, 246, 312
Bst6I	CTCTTC	2 cut(s)	114, 404
BstBAI	YACGTR	1 cut(s)	275
BstC8I	GCNNGC	1 cut(s)	400
BstDEI	CTNAG	1 cut(s)	309
BstKTI	GATC	4 cut(s)	7, 154, 249, 315
BstMBI	GATC	4 cut(s)	4, 151, 246, 312
BstNSI	RCATGY	1 cut(s)	402
Cac8I	GCNNGC	1 cut(s)	400
Csp6I	GTAC	1 cut(s)	16
CviAII	CATG	2 cut(s)	379, 399
CviJI	RGCY	5 cut(s)	86, 100, 167, 228, 418
CviKI_1	RGCY	5 cut(s)	86, 100, 167, 228, 418
CviQI	GTAC	1 cut(s)	16
DdeI	CTNAG	1 cut(s)	309
DpnI	GATC	4 cut(s)	6, 153, 248, 314
DpnII	GATC	4 cut(s)	4, 151, 246, 312
Eam1104I	CTCTTC	2 cut(s)	114, 404
EarI	CTCTTC	2 cut(s)	114, 404
Ecl136II	GAGCTC	1 cut(s)	100
Eco24I	GRGCYC	1 cut(s)	102
Eco53kI	GAGCTC	1 cut(s)	100
EcoICRI	GAGCTC	1 cut(s)	100
EcoT38I	GRGCYC	1 cut(s)	102
FaeI	CATG	2 cut(s)	382, 402
FaiI	YATR	3 cut(s)	91, 380, 400
FaqI	GGGAC	1 cut(s)	294
FatI	CATG	2 cut(s)	378, 398
FauI	CCCGC	1 cut(s)	287
FriOI	GRGCYC	1 cut(s)	102
FspBI	CTAG	3 cut(s)	21, 36, 341
Hin1II	CATG	2 cut(s)	382, 402
HinfI	GANTC	3 cut(s)	73, 319, 393
HphI	GGTGA	1 cut(s)	241
Hpy166II	GTNNAC	2 cut(s)	172, 272
Hpy188I	TCNGA	4 cut(s)	78, 97, 312, 354
Hpy188III	TCNNGA	6 cut(s)	36, 181, 316, 323, 341, 406
Hpy8I	GTNNAC	2 cut(s)	172, 272
HpyCH4IV	ACGT	1 cut(s)	274
HpyCH4V	TGCA	1 cut(s)	190
HpyF3I	CTNAG	1 cut(s)	309
HpySE526I	ACGT	1 cut(s)	274
Hsp92II	CATG	2 cut(s)	382, 402
Kzo9I	GATC	4 cut(s)	4, 151, 246, 312
LmnI	GCTCC	1 cut(s)	415
LpnPI	CCDG	3 cut(s)	52, 162, 345
MaeI	CTAG	3 cut(s)	21, 36, 341
MaeII	ACGT	1 cut(s)	274
MaeIII	GTNAC	1 cut(s)	136
MalI	GATC	4 cut(s)	6, 153, 248, 314
MbiI	CCGCTC	1 cut(s)	244
MboI	GATC	4 cut(s)	4, 151, 246, 312
MboII	GAAGA	3 cut(s)	101, 229, 421
MhlI	GDGCHC	1 cut(s)	102
MluCI	AATT	1 cut(s)	374
MnlI	CCTC	6 cut(s)	63, 204, 260, 318, 379, 405
MseI	TTAA	2 cut(s)	255, 299
NdeII	GATC	4 cut(s)	4, 151, 246, 312
NlaIII	CATG	2 cut(s)	382, 402
NmuCI	GTSAC	1 cut(s)	136
NspI	RCATGY	1 cut(s)	402
PaeI	GCATGC	1 cut(s)	402
PfeI	GAWTC	3 cut(s)	73, 319, 393
Ppu21I	YACGTR	1 cut(s)	275
Psp124BI	GAGCTC	1 cut(s)	102
RsaI	GTAC	1 cut(s)	17
RsaNI	GTAC	1 cut(s)	16
SacI	GAGCTC	1 cut(s)	102
SaqAI	TTAA	2 cut(s)	255, 299
Sau3AI	GATC	4 cut(s)	4, 151, 246, 312
SduI	GDGCHC	1 cut(s)	102
SetI	ASST	6 cut(s)	102, 169, 271, 277, 310, 420
SmlI	CTYRAG	1 cut(s)	127
SmoI	CTYRAG	1 cut(s)	127
SphI	GCATGC	1 cut(s)	402
Sse9I	AATT	1 cut(s)	374
SsiI	CCGC	2 cut(s)	244, 294
SspMI	CTAG	3 cut(s)	21, 36, 341
SstI	GAGCTC	1 cut(s)	102
TaiI	ACGT	1 cut(s)	277
TaqI	TCGA	2 cut(s)	315, 391
TasI	AATT	1 cut(s)	374
TfiI	GAWTC	3 cut(s)	73, 319, 393
Tru1I	TTAA	2 cut(s)	255, 299
Tru9I	TTAA	2 cut(s)	255, 299
TseFI	GTSAC	1 cut(s)	136
Tsp45I	GTSAC	1 cut(s)	136
TspDTI	ATGAA	4 cut(s)	21, 95, 177, 367
XbaI	TCTAGA	2 cut(s)	35, 340
XceI	RCATGY	1 cut(s)	402
XspI	CTAG	3 cut(s)	21, 36, 341

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