Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0017591

Physical Location & Seq

Genomic Coordinates Reverse (-)

46855550 .. 46856423

Gene Structure 874 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG369700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 789 bp

ATGGCAACCTCACAACAATATCGTTATTTTTCTCCGCCAACTGCATTACAGTTTTGTCACTCAGATAGTGACGACGACGATATTGATACGAAGGAAGATGAGCAAGACAACAATTCTCCATCCTTAGTGGGCTCCGACATGGAGTACCAGTGTGAATCCGATACTGAATCGGAAAGTGCTGATTGTTCTGAAAGAAAATTCAGGTATAGCAGTACCAAAGCAAACCAGAAGATGAAGTCTTCCGTGCGAGTGCGAGTATGGGAGGAGGAGGAGGAGATTACCCTTTTAAAAGGTTTAATTTCACATAAATCAGGAAATTTCAATATTGAAATCACCAAGTCACTCCCCAACAAGTCAAAAACGCAAATAAAGGATAAAGTCAGGCGATTGAAGGAGAAGTGTCAAAAGTGGAAGGCCGGCAAACTTGCAAGTCCCCATGAGAAGAGGTTACACAACTTATCAAAGAAAATTTGGGAAGTTGATCTTACTACAAGAGGTGAACACGAGAAAAAATCGATTAATGCTGATGCTGTGGGTGATGATAAATCGAAAACCACTAGTGATATGGAAGACTTGGTGCATGTAAATGATGATGTTATTATTAAGGCGTTTGATGAATATTTATTGCGCCGGTCACTTGAGATTAACGAAGAAGAAGAAAAAGAACGCTCGGAATTGCTGGACAAGTGGAGGAAAGTCGCATATAATAAAGCTCGACATAAGTTGGCCATAGCCGAGTTTACACTAGAGTTGCAACAATATAAACTCGATGGCTACAACAAATGCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001067 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0005737 GO:0005829 GO:0006082 GO:0006355 GO:0006790 GO:0006807 GO:0008150 GO:0008152 GO:0009507 GO:0009536 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0016143 GO:0016592 GO:0019219 GO:0019222 GO:0019748 GO:0019757 GO:0019760 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032991 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043436 GO:0043565 GO:0044212 GO:0044237 GO:0044281 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0070013 GO:0071704 GO:0080090 GO:0097159 GO:1901135 GO:1901363 GO:1901564 GO:1901657 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DUF573

Protein Analysis

262

Amino Acids

30.49

Weight (kDa)

5.77

Isoelectric Point (pI)

52.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GeBP-like_DBD	PF04504	85 - 159	2.2e-09	Glabrous-enhancer-binding protein-like family, DBD domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0017591)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g28081 FvH4_6g45821
prunus_persica	Prupe.4G287400_v2.0.a1
rosa_laevigata	RLG00000022475
rosa_multiflora	Rmu_sc0002893.1_g000015
rosa_roxburghii	Rroxscaffold_6G00388320
rosa_rugosa	Rorug03G0291400
rosa_samantha	Rh3AG334700 Rh3BG372400 Rh3CG368800 Rh3DG369700
rosa_wichuraiana	Rw3G029420

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	35
AcoI	YGGCCR	1 cut(s)	726
AcsI	RAATTY	3 cut(s)	197, 316, 468
AfaI	GTAC	2 cut(s)	146, 214
AgsI	TTSAA	3 cut(s)	322, 329, 391
AhlI	ACTAGT	1 cut(s)	557
AluBI	AGCT	1 cut(s)	713
AluI	AGCT	1 cut(s)	713
AoxI	GGCC	2 cut(s)	414, 726
ApoI	RAATTY	3 cut(s)	197, 316, 468
AseI	ATTAAT	1 cut(s)	519
AspLEI	GCGC	1 cut(s)	630
AsuHPI	GGTGA	3 cut(s)	325, 509, 548
BalI	TGGCCA	1 cut(s)	728
BanII	GRGCYC	1 cut(s)	134
BauI	CACGAG	1 cut(s)	503
BbsI	GAAGAC	2 cut(s)	231, 576
BccI	CCATC	2 cut(s)	127, 764
BcuI	ACTAGT	1 cut(s)	557
BfaI	CTAG	3 cut(s)	558, 746, 787
BmiI	GGNNCC	1 cut(s)	133
BmsI	GCATC	1 cut(s)	517
BpiI	GAAGAC	2 cut(s)	231, 576
BpuEI	CTTGAG	1 cut(s)	659
Bsa29I	ATCGAT	1 cut(s)	515
BsaXI	ACNNNNNCTCC	2 cut(s)	134, 164
Bse118I	RCCGGY	2 cut(s)	416, 630
Bse1I	ACTGG	1 cut(s)	148
BseCI	ATCGAT	1 cut(s)	515
BseGI	GGATG	1 cut(s)	119
BseMII	CTCAG	1 cut(s)	75
BseNI	ACTGG	1 cut(s)	148
BseRI	GAGGAG	4 cut(s)	278, 281, 284, 287
BshFI	GGCC	2 cut(s)	416, 728
BshVI	ATCGAT	1 cut(s)	515
BsiSI	CCGG	2 cut(s)	417, 631
BslFI	GGGAC	1 cut(s)	417
BsmFI	GGGAC	1 cut(s)	417
BsnI	GGCC	2 cut(s)	416, 728
Bsp1286I	GDGCHC	1 cut(s)	134
Bsp143I	GATC	1 cut(s)	481
BspACI	CCGC	1 cut(s)	35
BspANI	GGCC	2 cut(s)	416, 728
BspCNI	CTCAG	1 cut(s)	74
BspDI	ATCGAT	1 cut(s)	515
BspLI	GGNNCC	1 cut(s)	133
BsrFI	RCCGGY	2 cut(s)	416, 630
BsrI	ACTGG	1 cut(s)	148
BssAI	RCCGGY	2 cut(s)	416, 630
BssMI	GATC	1 cut(s)	481
BssSI	CACGAG	1 cut(s)	503
Bst2BI	CACGAG	1 cut(s)	503
Bst4CI	ACNGT	1 cut(s)	51
Bst6I	CTCTTC	1 cut(s)	437
BstC8I	GCNNGC	1 cut(s)	418
BstDEI	CTNAG	2 cut(s)	61, 124
BstF5I	GGATG	1 cut(s)	119
BstHHI	GCGC	1 cut(s)	630
BstKTI	GATC	1 cut(s)	484
BstMBI	GATC	1 cut(s)	481
BstNSI	RCATGY	1 cut(s)	584
BstV2I	GAAGAC	2 cut(s)	231, 576
Bsu15I	ATCGAT	1 cut(s)	515
BsuRI	GGCC	2 cut(s)	416, 728
BsuTUI	ATCGAT	1 cut(s)	515
BtsCI	GGATG	1 cut(s)	119
BtsIMutI	CAGTG	1 cut(s)	155
Cac8I	GCNNGC	1 cut(s)	418
CfoI	GCGC	1 cut(s)	630
Cfr10I	RCCGGY	2 cut(s)	416, 630
ClaI	ATCGAT	1 cut(s)	515
Csp6I	GTAC	2 cut(s)	145, 213
CviAII	CATG	3 cut(s)	139, 437, 581
CviJI	RGCY	6 cut(s)	132, 416, 713, 728, 734, 774
CviKI_1	RGCY	6 cut(s)	132, 416, 713, 728, 734, 774
CviQI	GTAC	2 cut(s)	145, 213
DdeI	CTNAG	2 cut(s)	61, 124
DpnI	GATC	1 cut(s)	483
DpnII	GATC	1 cut(s)	481
DraI	TTTAAA	1 cut(s)	288
EaeI	YGGCCR	1 cut(s)	726
Eam1104I	CTCTTC	1 cut(s)	437
EarI	CTCTTC	1 cut(s)	437
EciI	GGCGGA	1 cut(s)	24
Eco24I	GRGCYC	1 cut(s)	134
EcoT38I	GRGCYC	1 cut(s)	134
FaeI	CATG	3 cut(s)	142, 440, 584
FalI	AAGNNNNNCTT	2 cut(s)	468, 500
FaqI	GGGAC	1 cut(s)	417
FatI	CATG	3 cut(s)	138, 436, 580
FokI	GGATG	1 cut(s)	106
FriOI	GRGCYC	1 cut(s)	134
FspBI	CTAG	3 cut(s)	558, 746, 787
GlaI	GCGC	1 cut(s)	629
HaeIII	GGCC	2 cut(s)	416, 728
HapII	CCGG	2 cut(s)	417, 631
HhaI	GCGC	1 cut(s)	630
Hin1II	CATG	3 cut(s)	142, 440, 584
Hin6I	GCGC	1 cut(s)	628
HinP1I	GCGC	1 cut(s)	628
HinfI	GANTC	2 cut(s)	155, 167
HpaII	CCGG	2 cut(s)	417, 631
HphI	GGTGA	3 cut(s)	325, 509, 548
Hpy166II	GTNNAC	2 cut(s)	500, 741
Hpy188I	TCNGA	6 cut(s)	64, 136, 160, 172, 190, 673
Hpy188III	TCNNGA	1 cut(s)	312
Hpy8I	GTNNAC	2 cut(s)	500, 741
Hpy99I	CGWCG	2 cut(s)	77, 80
HpyAV	CCTTC	3 cut(s)	85, 385, 406
HpyCH4III	ACNGT	1 cut(s)	51
HpyCH4V	TGCA	4 cut(s)	44, 428, 580, 754
HpyF3I	CTNAG	2 cut(s)	61, 124
Hsp92II	CATG	3 cut(s)	142, 440, 584
HspAI	GCGC	1 cut(s)	628
KroI	GCCGGC	1 cut(s)	416
KroNI	GCCGGC	1 cut(s)	418
Kzo9I	GATC	1 cut(s)	481
LmnI	GCTCC	1 cut(s)	137
LpnPI	CCDG	8 cut(s)	161, 187, 239, 297, 367, 430, 644, 665
LweI	GCATC	1 cut(s)	517
MaeI	CTAG	3 cut(s)	558, 746, 787
MaeIII	GTNAC	5 cut(s)	56, 68, 339, 447, 633
MalI	GATC	1 cut(s)	483
MboI	GATC	1 cut(s)	481
MboII	GAAGA	8 cut(s)	107, 231, 241, 454, 581, 662, 665, 668
MhlI	GDGCHC	1 cut(s)	134
MlsI	TGGCCA	1 cut(s)	728
MluCI	AATT	6 cut(s)	112, 197, 297, 316, 468, 674
MluNI	TGGCCA	1 cut(s)	728
MmeI	TCCRAC	1 cut(s)	159
MnlI	CCTC	8 cut(s)	19, 256, 259, 262, 265, 438, 488, 684
Mox20I	TGGCCA	1 cut(s)	728
MroNI	GCCGGC	1 cut(s)	416
MscI	TGGCCA	1 cut(s)	728
MseI	TTAA	5 cut(s)	287, 296, 519, 603, 645
MslI	CAYNNNNRTG	1 cut(s)	585
Msp20I	TGGCCA	1 cut(s)	728
MspI	CCGG	2 cut(s)	417, 631
NaeI	GCCGGC	1 cut(s)	418
NdeII	GATC	1 cut(s)	481
NgoMIV	GCCGGC	1 cut(s)	416
NlaIII	CATG	3 cut(s)	142, 440, 584
NlaIV	GGNNCC	1 cut(s)	133
NmeAIII	GCCGAG	1 cut(s)	760
NmuCI	GTSAC	4 cut(s)	56, 68, 339, 633
NspI	RCATGY	1 cut(s)	584
PdiI	GCCGGC	1 cut(s)	418
PfeI	GAWTC	2 cut(s)	155, 167
PshBI	ATTAAT	1 cut(s)	519
PspN4I	GGNNCC	1 cut(s)	133
RsaI	GTAC	2 cut(s)	146, 214
RsaNI	GTAC	2 cut(s)	145, 213
RseI	CAYNNNNRTG	1 cut(s)	585
SaqAI	TTAA	5 cut(s)	287, 296, 519, 603, 645
Sau3AI	GATC	1 cut(s)	481
SduI	GDGCHC	1 cut(s)	134
SetI	ASST	6 cut(s)	11, 206, 295, 449, 499, 715
SfaNI	GCATC	1 cut(s)	517
SmiMI	CAYNNNNRTG	1 cut(s)	585
SmlI	CTYRAG	1 cut(s)	638
SmoI	CTYRAG	1 cut(s)	638
SpeI	ACTAGT	1 cut(s)	557
Sse9I	AATT	6 cut(s)	112, 197, 297, 316, 468, 674
SsiI	CCGC	1 cut(s)	35
SspI	AATATT	2 cut(s)	325, 620
SspMI	CTAG	3 cut(s)	558, 746, 787
TaaI	ACNGT	1 cut(s)	51
TaqI	TCGA	4 cut(s)	515, 548, 715, 768
TasI	AATT	6 cut(s)	112, 197, 297, 316, 468, 674
TfiI	GAWTC	2 cut(s)	155, 167
Tru1I	TTAA	5 cut(s)	287, 296, 519, 603, 645
Tru9I	TTAA	5 cut(s)	287, 296, 519, 603, 645
TscAI	CASTG	1 cut(s)	155
TseFI	GTSAC	4 cut(s)	56, 68, 339, 633
Tsp45I	GTSAC	4 cut(s)	56, 68, 339, 633
TspDTI	ATGAA	2 cut(s)	248, 630
TspGWI	ACGGA	1 cut(s)	232
TspRI	CASTG	1 cut(s)	155
VspI	ATTAAT	1 cut(s)	519
XapI	RAATTY	3 cut(s)	197, 316, 468
XceI	RCATGY	1 cut(s)	584
XcmI	CCANNNNNNNNNTGG	1 cut(s)	562
XspI	CTAG	3 cut(s)	558, 746, 787

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