Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0010373

Physical Location & Seq

Genomic Coordinates Reverse (-)

6427916 .. 6430634

Gene Structure 2719 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG039700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 486 bp

ATGGATGGAATGGAAGGCATAGAAGACTTTTTTGGGTACCCCAGCTTGATCGACGAACCCCAATTCCCCAATTTTCTCTGGTCCAATCCCAGCCCTTCATTTCCTGAGATCGAATTCTCTTCTTATAGTGGTGTTGCTGCTCCCTCACAGACCCAGGAAAAACAGTGCCCTCGCAAGAGGGGACGAACCGAGTCTTGGAGTGGCTCAGGGGCCAAAGCTTGCCGTGAGAAATTGAGGAGGGAGAGATTGAATGACAAGTTTGTGGATTTGAGTGCTGTTTTGGAACCTGGGAGGCCAGCCAAGACTGACAAGCCTGCTATACTTGATGATGCCATTAGGGTCTTGACCCAACTGAGAGCTGAAGCTCAGGAGCTTACACAGACAAATGAAAAGTTGCTTGAAGAGATAAAGAGTTTAAAGGTTCTCTTTATGGCTCATTTACTTTTGAAACTGATCTTGTTTGATTGCATAAAAGTTTTATTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001678 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009743 GO:0009746 GO:0009749 GO:0009889 GO:0009987 GO:0010029 GO:0010030 GO:0010033 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0019725 GO:0031323 GO:0031326 GO:0033500 GO:0034284 GO:0042221 GO:0042592 GO:0042593 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0048518 GO:0048580 GO:0048582 GO:0048878 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051094 GO:0051171 GO:0051239 GO:0051240 GO:0051252 GO:0051716 GO:0055082 GO:0060255 GO:0065007 GO:0065008 GO:0070887 GO:0071310 GO:0071322 GO:0071326 GO:0071331 GO:0071333 GO:0080090 GO:0097159 GO:0140110 GO:1900140 GO:1901363 GO:1901700 GO:1901701 GO:1903506 GO:2000026 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HLH

Protein Analysis

161

Amino Acids

18.23

Weight (kDa)

5.57

Isoelectric Point (pI)

51.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	71 - 119	2.9e-08	Helix-loop-helix DNA-binding domain
bHLH_IRO3	PF23177	72 - 135	1e-07	Iron-related transcription factor 3 bHLH domain

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: OG0010373)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G23210 AT3G23210 AT4G14410 AT4G14410 AT4G14410
fragaria_vesca	FvH4_4g03420
malus_domestica	MD13G1212400.v1.1 MD16G1216000.v1.1
prunus_persica	Prupe.1G037400_v2.0.a1
pyrus_communis	pycom13g18420 pycom16g18070
rosa_chinensis	RchiOBHm_Chr4g0392401
rosa_laevigata	RLG00000009814
rosa_multiflora	Rmu_sc0001800.1_g000017
rosa_roxburghii	Rroxscaffold_5G00337580
rosa_rugosa	Rorug03G0338600
rosa_samantha	Rh4AG042400 Rh4BG037300 Rh4CG045200 Rh4DG039700
rosa_wichuraiana	Rw4G003310

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	36
AccB1I	GGYRCC	1 cut(s)	36
AcsI	RAATTY	1 cut(s)	113
AcuI	CTGAAG	1 cut(s)	381
AfaI	GTAC	1 cut(s)	38
AfiI	CCNNNNNNNGG	1 cut(s)	195
AgsI	TTSAA	3 cut(s)	250, 401, 448
AjnI	CCWGG	2 cut(s)	153, 286
AjuI	GAANNNNNNNTTGG	4 cut(s)	15, 47, 178, 210
AloI	GAACNNNNNNTCC	2 cut(s)	48, 80
AluBI	AGCT	5 cut(s)	45, 218, 359, 365, 373
AluI	AGCT	5 cut(s)	45, 218, 359, 365, 373
AoxI	GGCC	2 cut(s)	210, 293
ApeKI	GCWGC	1 cut(s)	137
ApoI	RAATTY	1 cut(s)	113
Asp718I	GGTACC	1 cut(s)	36
AspS9I	GGNCC	2 cut(s)	81, 210
AvaII	GGWCC	1 cut(s)	81
BaeGI	GKGCMC	1 cut(s)	170
BanI	GGYRCC	1 cut(s)	36
BbsI	GAAGAC	1 cut(s)	30
BbvI	GCAGC	1 cut(s)	124
BceAI	ACGGC	1 cut(s)	207
BciT130I	CCWGG	2 cut(s)	155, 288
BisI	GCNGC	1 cut(s)	138
BlsI	GCNGC	1 cut(s)	139
Bme1390I	CCNGG	2 cut(s)	155, 288
Bme18I	GGWCC	1 cut(s)	81
BmgT120I	GGNCC	2 cut(s)	81, 210
BmiI	GGNNCC	3 cut(s)	38, 211, 285
BmrFI	CCNGG	2 cut(s)	155, 288
BmsI	GCATC	1 cut(s)	319
BpiI	GAAGAC	1 cut(s)	30
Bpu10I	CCTNAGC	2 cut(s)	205, 366
BsaJI	CCNNGG	2 cut(s)	153, 287
Bsc4I	CCNNNNNNNGG	1 cut(s)	195
BseBI	CCWGG	2 cut(s)	155, 288
BseDI	CCNNGG	2 cut(s)	153, 287
BseGI	GGATG	1 cut(s)	10
BseLI	CCNNNNNNNGG	1 cut(s)	195
BseMII	CTCAG	4 cut(s)	96, 219, 344, 380
BseRI	GAGGAG	1 cut(s)	250
BseSI	GKGCMC	1 cut(s)	170
BseXI	GCAGC	1 cut(s)	124
BseYI	CCCAGC	2 cut(s)	41, 89
BshFI	GGCC	2 cut(s)	212, 295
BshNI	GGYRCC	1 cut(s)	36
BslFI	GGGAC	1 cut(s)	195
BslI	CCNNNNNNNGG	1 cut(s)	195
BsmFI	GGGAC	1 cut(s)	195
BsnI	GGCC	2 cut(s)	212, 295
Bsp1286I	GDGCHC	1 cut(s)	170
Bsp143I	GATC	3 cut(s)	48, 108, 453
BspANI	GGCC	2 cut(s)	212, 295
BspCNI	CTCAG	4 cut(s)	97, 218, 345, 379
BspLI	GGNNCC	3 cut(s)	38, 211, 285
BspT107I	GGYRCC	1 cut(s)	36
BssECI	CCNNGG	2 cut(s)	153, 287
BssMI	GATC	3 cut(s)	48, 108, 453
Bst2UI	CCWGG	2 cut(s)	155, 288
Bst4CI	ACNGT	1 cut(s)	165
Bst6I	CTCTTC	2 cut(s)	124, 396
BstC8I	GCNNGC	3 cut(s)	220, 297, 315
BstDEI	CTNAG	4 cut(s)	105, 205, 353, 366
BstF5I	GGATG	1 cut(s)	10
BstKTI	GATC	3 cut(s)	51, 111, 456
BstMBI	GATC	3 cut(s)	48, 108, 453
BstNI	CCWGG	2 cut(s)	155, 288
BstSCI	CCNGG	2 cut(s)	153, 286
BstSLI	GKGCMC	1 cut(s)	170
BstV1I	GCAGC	1 cut(s)	124
BstV2I	GAAGAC	1 cut(s)	30
BsuRI	GGCC	2 cut(s)	212, 295
BtsCI	GGATG	1 cut(s)	10
BtsIMutI	CAGTG	1 cut(s)	170
Cac8I	GCNNGC	3 cut(s)	220, 297, 315
Cfr13I	GGNCC	2 cut(s)	81, 210
Csp6I	GTAC	1 cut(s)	37
CviQI	GTAC	1 cut(s)	37
DdeI	CTNAG	4 cut(s)	105, 205, 353, 366
DpnI	GATC	3 cut(s)	50, 110, 455
DpnII	GATC	3 cut(s)	48, 108, 453
DraI	TTTAAA	1 cut(s)	417
Eam1104I	CTCTTC	2 cut(s)	124, 396
EarI	CTCTTC	2 cut(s)	124, 396
Eco47I	GGWCC	1 cut(s)	81
Eco57I	CTGAAG	1 cut(s)	381
EcoRI	GAATTC	1 cut(s)	113
EcoRII	CCWGG	2 cut(s)	153, 286
FaiI	YATR	5 cut(s)	20, 126, 320, 431, 470
FalI	AAGNNNNNCTT	2 cut(s)	410, 442
FaqI	GGGAC	1 cut(s)	195
Fnu4HI	GCNGC	1 cut(s)	138
FokI	GGATG	1 cut(s)	17
Fsp4HI	GCNGC	1 cut(s)	138
GluI	GCNGC	1 cut(s)	138
GsaI	CCCAGC	2 cut(s)	45, 93
HaeIII	GGCC	2 cut(s)	212, 295
HindIII	AAGCTT	1 cut(s)	216
HinfI	GANTC	1 cut(s)	191
Hpy188III	TCNNGA	3 cut(s)	104, 343, 368
Hpy99I	CGWCG	1 cut(s)	56
HpyAV	CCTTC	2 cut(s)	8, 105
HpyCH4III	ACNGT	1 cut(s)	165
HpyCH4V	TGCA	1 cut(s)	468
HpyF3I	CTNAG	4 cut(s)	105, 205, 353, 366
KpnI	GGTACC	1 cut(s)	40
Kzo9I	GATC	3 cut(s)	48, 108, 453
LmnI	GCTCC	2 cut(s)	145, 370
Lsp1109I	GCAGC	1 cut(s)	124
LweI	GCATC	1 cut(s)	319
MalI	GATC	3 cut(s)	50, 110, 455
MboI	GATC	3 cut(s)	48, 108, 453
MboII	GAAGA	3 cut(s)	35, 111, 413
MhlI	GDGCHC	1 cut(s)	170
MluCI	AATT	4 cut(s)	62, 70, 113, 230
MlyI	GAGTC	1 cut(s)	200
MnlI	CCTC	6 cut(s)	154, 171, 180, 228, 231, 285
MseI	TTAA	1 cut(s)	416
MspR9I	CCNGG	2 cut(s)	155, 288
MvaI	CCWGG	2 cut(s)	155, 288
NdeII	GATC	3 cut(s)	48, 108, 453
NlaIV	GGNNCC	3 cut(s)	38, 211, 285
PkrI	GCNGC	1 cut(s)	139
PleI	GAGTC	1 cut(s)	199
PpsI	GAGTC	1 cut(s)	199
Psp6I	CCWGG	2 cut(s)	153, 286
PspFI	CCCAGC	2 cut(s)	41, 89
PspGI	CCWGG	2 cut(s)	153, 286
PspN4I	GGNNCC	3 cut(s)	38, 211, 285
PspPI	GGNCC	2 cut(s)	81, 210
RsaI	GTAC	1 cut(s)	38
RsaNI	GTAC	1 cut(s)	37
SaqAI	TTAA	1 cut(s)	416
SatI	GCNGC	1 cut(s)	138
Sau3AI	GATC	3 cut(s)	48, 108, 453
Sau96I	GGNCC	2 cut(s)	81, 210
SchI	GAGTC	1 cut(s)	200
ScrFI	CCNGG	2 cut(s)	155, 288
SduI	GDGCHC	1 cut(s)	170
SetI	ASST	7 cut(s)	47, 220, 289, 361, 367, 375, 423
SfaNI	GCATC	1 cut(s)	319
SinI	GGWCC	1 cut(s)	81
Sse9I	AATT	4 cut(s)	62, 70, 113, 230
StyD4I	CCNGG	2 cut(s)	153, 286
TaaI	ACNGT	1 cut(s)	165
TaqI	TCGA	2 cut(s)	51, 111
TasI	AATT	4 cut(s)	62, 70, 113, 230
Tru1I	TTAA	1 cut(s)	416
Tru9I	TTAA	1 cut(s)	416
TscAI	CASTG	1 cut(s)	170
TseI	GCWGC	1 cut(s)	137
TspDTI	ATGAA	2 cut(s)	87, 402
TspRI	CASTG	1 cut(s)	170
VpaK11BI	GGWCC	1 cut(s)	81
XapI	RAATTY	1 cut(s)	113

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