Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0005003

Physical Location & Seq

Genomic Coordinates Reverse (-)

5394880 .. 5397522

Gene Structure 2643 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG063000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 498 bp

ATGGATCAGCAGCAGTACCCTAGTAGTAGTTCATCTAGAACTGACAGAAAAACCATTGAGAAAAACAGGAGGAATCAGATGAAAGCCCTATACTCCGAGCTCAACTCTCTTCTACCCCATCAACGCTCAAGGGAAGTGACTTCTTTGCCAGATCAAATAGATGAAGCTGTGAACTACATCAAGAAGTTGCAGACCAACTTGGAGAAAATGAGGGAGAAGAAAGACAGCCAAATGGGAGTAGAGCGGATCACCATTAACAATAATGGAGGTTCACGTAGGGGACTAAATGGTGGCGGGTTAAGATTACCTCAGATCGAGATTCGTGAAATGGGTTCTGTTCTAGATGTTGTTCTGATAACTGGATTGGATTTTCAATTCATGTTTGAGGGGTCGATTCGTATGCTTCTTGAAGAGGGAGCTGACATTGTAAATGCCAGTTTCTCAGTTGTTGAAGATACCATTTTCCACACCATACATTCTAAGGTAAGTAAAAATTGA

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

165

Amino Acids

18.77

Weight (kDa)

7.99

Isoelectric Point (pI)

46.7

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	13 - 64	1.8e-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

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Publication-ready

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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	3 cut(s)	374, 410, 452
AluBI	AGCT	3 cut(s)	100, 167, 419
AluI	AGCT	3 cut(s)	100, 167, 419
Alw21I	GWGCWC	1 cut(s)	102
AlwI	GGATC	2 cut(s)	12, 254
ApeKI	GCWGC	1 cut(s)	10
AsuHPI	GGTGA	1 cut(s)	241
BanII	GRGCYC	1 cut(s)	102
Bbv12I	GWGCWC	1 cut(s)	102
BbvI	GCAGC	1 cut(s)	22
BccI	CCATC	1 cut(s)	126
BcgI	CGANNNNNNTGC	2 cut(s)	382, 416
BfaI	CTAG	3 cut(s)	21, 36, 341
BisI	GCNGC	1 cut(s)	11
BlsI	GCNGC	1 cut(s)	12
BplI	GAGNNNNNCTC	2 cut(s)	89, 121
BpuEI	CTTGAG	1 cut(s)	112
BsaAI	YACGTR	1 cut(s)	275
Bse1I	ACTGG	2 cut(s)	364, 435
BseMII	CTCAG	2 cut(s)	323, 456
BseNI	ACTGG	2 cut(s)	364, 435
BseXI	GCAGC	1 cut(s)	22
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	2 cut(s)	322, 455
BspPI	GGATC	2 cut(s)	12, 254
BsrBI	CCGCTC	1 cut(s)	244
BsrI	ACTGG	2 cut(s)	364, 435
BssMI	GATC	4 cut(s)	4, 151, 246, 312
Bst6I	CTCTTC	2 cut(s)	114, 405
BstBAI	YACGTR	1 cut(s)	275
BstDEI	CTNAG	3 cut(s)	309, 442, 480
BstKTI	GATC	4 cut(s)	7, 154, 249, 315
BstMBI	GATC	4 cut(s)	4, 151, 246, 312
BstV1I	GCAGC	1 cut(s)	22
Csp6I	GTAC	1 cut(s)	16
CviAII	CATG	1 cut(s)	379
CviJI	RGCY	5 cut(s)	86, 100, 167, 228, 419
CviKI_1	RGCY	5 cut(s)	86, 100, 167, 228, 419
CviQI	GTAC	1 cut(s)	16
DdeI	CTNAG	3 cut(s)	309, 442, 480
DpnI	GATC	4 cut(s)	6, 153, 248, 314
DpnII	GATC	4 cut(s)	4, 151, 246, 312
Eam1104I	CTCTTC	2 cut(s)	114, 405
EarI	CTCTTC	2 cut(s)	114, 405
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	1 cut(s)	382
FaiI	YATR	4 cut(s)	91, 380, 401, 473
FaqI	GGGAC	1 cut(s)	294
FatI	CATG	1 cut(s)	378
FauI	CCCGC	1 cut(s)	287
Fnu4HI	GCNGC	1 cut(s)	11
FriOI	GRGCYC	1 cut(s)	102
Fsp4HI	GCNGC	1 cut(s)	11
FspBI	CTAG	3 cut(s)	21, 36, 341
GluI	GCNGC	1 cut(s)	11
Hin1II	CATG	1 cut(s)	382
HinfI	GANTC	3 cut(s)	73, 319, 394
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, 407
Hpy8I	GTNNAC	2 cut(s)	172, 272
HpyCH4IV	ACGT	1 cut(s)	274
HpyCH4V	TGCA	1 cut(s)	190
HpyF3I	CTNAG	3 cut(s)	309, 442, 480
HpySE526I	ACGT	1 cut(s)	274
Hsp92II	CATG	1 cut(s)	382
Kzo9I	GATC	4 cut(s)	4, 151, 246, 312
LmnI	GCTCC	1 cut(s)	416
LpnPI	CCDG	4 cut(s)	52, 162, 345, 448
Lsp1109I	GCAGC	1 cut(s)	22
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	4 cut(s)	101, 229, 422, 464
MhlI	GDGCHC	1 cut(s)	102
MluCI	AATT	2 cut(s)	374, 493
MnlI	CCTC	6 cut(s)	63, 204, 260, 318, 379, 406
MseI	TTAA	2 cut(s)	255, 299
NdeII	GATC	4 cut(s)	4, 151, 246, 312
NlaIII	CATG	1 cut(s)	382
NmuCI	GTSAC	1 cut(s)	136
PfeI	GAWTC	3 cut(s)	73, 319, 394
PkrI	GCNGC	1 cut(s)	12
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
SatI	GCNGC	1 cut(s)	11
Sau3AI	GATC	4 cut(s)	4, 151, 246, 312
SduI	GDGCHC	1 cut(s)	102
SetI	ASST	7 cut(s)	102, 169, 271, 277, 310, 421, 486
SmlI	CTYRAG	1 cut(s)	127
SmoI	CTYRAG	1 cut(s)	127
Sse9I	AATT	2 cut(s)	374, 493
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, 392
TasI	AATT	2 cut(s)	374, 493
TfiI	GAWTC	3 cut(s)	73, 319, 394
Tru1I	TTAA	2 cut(s)	255, 299
Tru9I	TTAA	2 cut(s)	255, 299
TseFI	GTSAC	1 cut(s)	136
TseI	GCWGC	1 cut(s)	10
Tsp45I	GTSAC	1 cut(s)	136
TspDTI	ATGAA	4 cut(s)	21, 95, 177, 367
XbaI	TCTAGA	2 cut(s)	35, 340
XspI	CTAG	3 cut(s)	21, 36, 341

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