Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0015672

Physical Location & Seq

Genomic Coordinates Reverse (-)

14922018 .. 14924937

Gene Structure 2920 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG162000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 651 bp

ATGCATGGTTGCTTAGTGACAACAACTCAAGAAGGGAGGAAGAGCATGTTGAAGCTGGCCGAGAGAATGGTTATAAGTTTTTGTGCCGGAGTGAGTGAGAGTGCATCTACCACTCATACATGGACGACGCTATCTCGAACAGGGGCTGATGATGTTCGTGTGATGACCCGAAAGAGTGTGGATGATCCAGGAAGGCCTCAAGGCATTGTGCTCACTGCAGCAACCTCATTCTGGCTTCCTGTTCCCCGCAAAAGGGTCTTTGAGTTCCTTCGTGATAAGAACTCTCGAAATAAGCGAGAACCAGGTCAATTTCGTCATGGATCTGTTCCAGCAGCACGTCGAGCAGTCTTAAGTAACGGCCCGTTCCGTTTGGTCTCCGGCAACTCCGATTTTGGGGTTGTGGAGGGGAATTGCGAAATGGATGATGGGTTGGATCTGGATTTGAGTTTAGGGTTAGGGTTAGGGTTAGATTTTAGGAATTGTTTTGATGATCCTGATGAAGATGACTTCTTCATGGGAAGGAGGGTTTCCTGGTCGGAATCCAGTGAGGAGACTTCTTCTGTAGGTAGGGTGGAGCCGTTTGAGAGCTGGGTGAGGCTCGTTGGGTTTGGATCTGAGTCTGATGAGGATGAGAATGGGAAGTGTTGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000902 GO:0000904 GO:0003006 GO:0003674 GO:0003700 GO:0006355 GO:0007275 GO:0008150 GO:0009653 GO:0009791 GO:0009888 GO:0009889 GO:0009908 GO:0009987 GO:0010026 GO:0010090 GO:0010468 GO:0010556 GO:0016043 GO:0019219 GO:0019222 GO:0022414 GO:0030154 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032989 GO:0045595 GO:0045596 GO:0048367 GO:0048437 GO:0048468 GO:0048497 GO:0048519 GO:0048523 GO:0048608 GO:0048731 GO:0048856 GO:0048869 GO:0050789 GO:0050793 GO:0050794 GO:0051093 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0071840 GO:0080090 GO:0090558 GO:0090567 GO:0090626 GO:0090700 GO:0099402 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Homeobox START

Protein Analysis

216

Amino Acids

23.9

Weight (kDa)

5.11

Isoelectric Point (pI)

38.15

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PDF2_C	PF25797	9 - 98	2.8e-32	PDF2-like, C-terminal 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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0015672)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g43300
malus_domestica	MD17G1095100.v1.1
rosa_chinensis	RchiOBHm_Chr3g0470751
rosa_laevigata	RLG00000024245
rosa_multiflora	Rmu_sc0002790.1_g000010 Rmu_sc0006168.1_g000005 Rmu_sc0006168.1_g000012 Rmu_sc0006168.1_g000014
rosa_roxburghii	Rroxscaffold_6G00410600
rosa_samantha	Rh3AG162000 Rh3BG186900 Rh3BG187100 Rh3CG177100 Rh3CG177300 Rh3DG188600 Rh3DG188700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	74
AciI	CCGC	1 cut(s)	247
AclWI	GGATC	5 cut(s)	179, 328, 441, 485, 619
AcoI	YGGCCR	1 cut(s)	57
AfiI	CCNNNNNNNGG	4 cut(s)	231, 252, 253, 393
AflII	CTTAAG	1 cut(s)	349
AgsI	TTSAA	1 cut(s)	52
AjiI	CACGTC	1 cut(s)	338
AjnI	CCWGG	3 cut(s)	187, 301, 530
AluBI	AGCT	2 cut(s)	55, 588
AluI	AGCT	2 cut(s)	55, 588
Alw21I	GWGCWC	1 cut(s)	213
Alw26I	GTCTC	2 cut(s)	379, 545
AlwI	GGATC	5 cut(s)	179, 328, 441, 485, 619
AlwNI	CAGNNNCTG	1 cut(s)	146
AoxI	GGCC	3 cut(s)	57, 194, 358
ApeKI	GCWGC	2 cut(s)	218, 332
AspS9I	GGNCC	1 cut(s)	359
AsuHPI	GGTGA	1 cut(s)	604
Bbv12I	GWGCWC	1 cut(s)	213
BbvI	GCAGC	2 cut(s)	230, 344
BccI	CCATC	1 cut(s)	419
BceAI	ACGGC	2 cut(s)	373, 562
BciT130I	CCWGG	3 cut(s)	189, 303, 532
BcoDI	GTCTC	2 cut(s)	379, 545
BfmI	CTRYAG	2 cut(s)	216, 561
BfrI	CTTAAG	1 cut(s)	349
BisI	GCNGC	2 cut(s)	219, 333
BlsI	GCNGC	2 cut(s)	220, 334
Bme1390I	CCNGG	3 cut(s)	189, 303, 532
BmgBI	CACGTC	1 cut(s)	338
BmgT120I	GGNCC	1 cut(s)	359
BmiI	GGNNCC	1 cut(s)	576
BmrFI	CCNGG	3 cut(s)	189, 303, 532
BmsI	GCATC	1 cut(s)	113
BpuEI	CTTGAG	2 cut(s)	12, 183
BsaI	GGTCTC	1 cut(s)	379
Bsc4I	CCNNNNNNNGG	4 cut(s)	231, 252, 253, 393
Bse1I	ACTGG	1 cut(s)	543
BseBI	CCWGG	3 cut(s)	189, 303, 532
BseGI	GGATG	3 cut(s)	187, 427, 634
BseLI	CCNNNNNNNGG	4 cut(s)	231, 252, 253, 393
BseMII	CTCAG	1 cut(s)	606
BseNI	ACTGG	1 cut(s)	543
BseRI	GAGGAG	1 cut(s)	563
BseXI	GCAGC	2 cut(s)	230, 344
BseYI	CCCAGC	1 cut(s)	588
BshFI	GGCC	3 cut(s)	59, 196, 360
BsiHKAI	GWGCWC	1 cut(s)	213
BsiSI	CCGG	2 cut(s)	87, 378
BslI	CCNNNNNNNGG	4 cut(s)	231, 252, 253, 393
BsmAI	GTCTC	2 cut(s)	379, 545
BsnI	GGCC	3 cut(s)	59, 196, 360
Bso31I	GGTCTC	1 cut(s)	379
Bsp1286I	GDGCHC	1 cut(s)	213
Bsp143I	GATC	5 cut(s)	184, 320, 433, 490, 611
BspACI	CCGC	1 cut(s)	247
BspANI	GGCC	3 cut(s)	59, 196, 360
BspCNI	CTCAG	1 cut(s)	607
BspLI	GGNNCC	1 cut(s)	576
BspMAI	CTGCAG	1 cut(s)	220
BspPI	GGATC	5 cut(s)	179, 328, 441, 485, 619
BspQI	GCTCTTC	1 cut(s)	35
BspTI	CTTAAG	1 cut(s)	349
BspTNI	GGTCTC	1 cut(s)	379
BsrI	ACTGG	1 cut(s)	543
BssMI	GATC	5 cut(s)	184, 320, 433, 490, 611
Bst2UI	CCWGG	3 cut(s)	189, 303, 532
Bst6I	CTCTTC	1 cut(s)	35
BstAFI	CTTAAG	1 cut(s)	349
BstC8I	GCNNGC	1 cut(s)	57
BstDEI	CTNAG	2 cut(s)	13, 615
BstF5I	GGATG	3 cut(s)	187, 427, 634
BstKTI	GATC	5 cut(s)	187, 323, 436, 493, 614
BstMAI	GTCTC	2 cut(s)	379, 545
BstMBI	GATC	5 cut(s)	184, 320, 433, 490, 611
BstMWI	GCNNNNNNNGC	1 cut(s)	341
BstNI	CCWGG	3 cut(s)	189, 303, 532
BstNSI	RCATGY	1 cut(s)	49
BstSCI	CCNGG	3 cut(s)	187, 301, 530
BstSFI	CTRYAG	2 cut(s)	216, 561
BstV1I	GCAGC	2 cut(s)	230, 344
BstX2I	RGATCY	3 cut(s)	320, 433, 611
BstYI	RGATCY	3 cut(s)	320, 433, 611
BsuRI	GGCC	3 cut(s)	59, 196, 360
BtrI	CACGTC	1 cut(s)	338
BtsCI	GGATG	3 cut(s)	187, 427, 634
BtsI	GCAGTG	1 cut(s)	213
BtsIMutI	CAGTG	2 cut(s)	213, 550
Cac8I	GCNNGC	1 cut(s)	57
CaiI	CAGNNNCTG	1 cut(s)	146
Cfr13I	GGNCC	1 cut(s)	359
CseI	GACGC	1 cut(s)	136
CsiI	ACCWGGT	1 cut(s)	301
CviAII	CATG	5 cut(s)	5, 46, 120, 317, 514
CviJI	RGCY	9 cut(s)	55, 59, 146, 196, 235, 360, 577, 588, 598
CviKI_1	RGCY	9 cut(s)	55, 59, 146, 196, 235, 360, 577, 588, 598
DdeI	CTNAG	2 cut(s)	13, 615
DpnI	GATC	5 cut(s)	186, 322, 435, 492, 613
DpnII	GATC	5 cut(s)	184, 320, 433, 490, 611
EaeI	YGGCCR	1 cut(s)	57
Eam1104I	CTCTTC	1 cut(s)	35
EarI	CTCTTC	1 cut(s)	35
Eco147I	AGGCCT	1 cut(s)	196
Eco31I	GGTCTC	1 cut(s)	379
EcoRII	CCWGG	3 cut(s)	187, 301, 530
EcoT22I	ATGCAT	1 cut(s)	6
FaeI	CATG	5 cut(s)	8, 49, 123, 320, 517
FaiI	YATR	7 cut(s)	6, 47, 74, 117, 121, 318, 515
FatI	CATG	5 cut(s)	4, 45, 119, 316, 513
FauI	CCCGC	1 cut(s)	254
Fnu4HI	GCNGC	2 cut(s)	219, 333
FokI	GGATG	3 cut(s)	194, 434, 641
Fsp4HI	GCNGC	2 cut(s)	219, 333
GluI	GCNGC	2 cut(s)	219, 333
GsaI	CCCAGC	1 cut(s)	592
HaeIII	GGCC	3 cut(s)	59, 196, 360
HapII	CCGG	2 cut(s)	87, 378
HgaI	GACGC	1 cut(s)	136
Hin1II	CATG	5 cut(s)	8, 49, 123, 320, 517
HinfI	GANTC	2 cut(s)	539, 617
HpaII	CCGG	2 cut(s)	87, 378
HphI	GGTGA	1 cut(s)	604
Hpy188I	TCNGA	4 cut(s)	388, 538, 616, 622
Hpy188III	TCNNGA	6 cut(s)	29, 135, 272, 285, 437, 494
Hpy99I	CGWCG	2 cut(s)	130, 342
HpyAV	CCTTC	4 cut(s)	26, 186, 278, 513
HpyCH4IV	ACGT	1 cut(s)	337
HpyCH4V	TGCA	3 cut(s)	4, 104, 218
HpyF10VI	GCNNNNNNNGC	1 cut(s)	341
HpyF3I	CTNAG	2 cut(s)	13, 615
HpySE526I	ACGT	1 cut(s)	337
Hsp92II	CATG	5 cut(s)	8, 49, 123, 320, 517
Kzo9I	GATC	5 cut(s)	184, 320, 433, 490, 611
LguI	GCTCTTC	1 cut(s)	35
LmnI	GCTCC	1 cut(s)	574
Lsp1109I	GCAGC	2 cut(s)	230, 344
LweI	GCATC	1 cut(s)	113
MabI	ACCWGGT	1 cut(s)	301
MaeII	ACGT	1 cut(s)	337
MaeIII	GTNAC	2 cut(s)	16, 353
MalI	GATC	5 cut(s)	186, 322, 435, 492, 613
MboI	GATC	5 cut(s)	184, 320, 433, 490, 611
MboII	GAAGA	4 cut(s)	52, 502, 512, 549
MflI	RGATCY	3 cut(s)	320, 433, 611
MhlI	GDGCHC	1 cut(s)	213
MluCI	AATT	3 cut(s)	308, 409, 478
MlyI	GAGTC	1 cut(s)	626
MmeI	TCCRAC	2 cut(s)	411, 516
MnlI	CCTC	8 cut(s)	30, 207, 235, 397, 516, 541, 588, 619
Mph1103I	ATGCAT	1 cut(s)	6
MseI	TTAA	1 cut(s)	350
MspCI	CTTAAG	1 cut(s)	349
MspI	CCGG	2 cut(s)	87, 378
MspR9I	CCNGG	3 cut(s)	189, 303, 532
MvaI	CCWGG	3 cut(s)	189, 303, 532
MwoI	GCNNNNNNNGC	1 cut(s)	341
NdeII	GATC	5 cut(s)	184, 320, 433, 490, 611
NlaIII	CATG	5 cut(s)	8, 49, 123, 320, 517
NlaIV	GGNNCC	1 cut(s)	576
NmeAIII	GCCGAG	1 cut(s)	85
NmuCI	GTSAC	1 cut(s)	16
NsiI	ATGCAT	1 cut(s)	6
NspI	RCATGY	1 cut(s)	49
PceI	AGGCCT	1 cut(s)	196
PciSI	GCTCTTC	1 cut(s)	35
PcsI	WCGNNNNNNNCGW	1 cut(s)	292
PfeI	GAWTC	1 cut(s)	539
PfoI	TCCNGGA	1 cut(s)	187
PkrI	GCNGC	2 cut(s)	220, 334
PleI	GAGTC	1 cut(s)	625
PpsI	GAGTC	1 cut(s)	625
PsiI	TTATAA	1 cut(s)	74
Psp6I	CCWGG	3 cut(s)	187, 301, 530
PspFI	CCCAGC	1 cut(s)	588
PspGI	CCWGG	3 cut(s)	187, 301, 530
PspN4I	GGNNCC	1 cut(s)	576
PspPI	GGNCC	1 cut(s)	359
PstI	CTGCAG	1 cut(s)	220
PstNI	CAGNNNCTG	1 cut(s)	146
PsuI	RGATCY	3 cut(s)	320, 433, 611
SapI	GCTCTTC	1 cut(s)	35
SaqAI	TTAA	1 cut(s)	350
SatI	GCNGC	2 cut(s)	219, 333
Sau3AI	GATC	5 cut(s)	184, 320, 433, 490, 611
Sau96I	GGNCC	1 cut(s)	359
SchI	GAGTC	1 cut(s)	626
ScrFI	CCNGG	3 cut(s)	189, 303, 532
SduI	GDGCHC	1 cut(s)	213
SetI	ASST	6 cut(s)	57, 227, 307, 340, 568, 590
SexAI	ACCWGGT	1 cut(s)	301
SfaNI	GCATC	1 cut(s)	113
SfcI	CTRYAG	2 cut(s)	216, 561
SmlI	CTYRAG	3 cut(s)	27, 198, 349
SmoI	CTYRAG	3 cut(s)	27, 198, 349
Sse9I	AATT	3 cut(s)	308, 409, 478
SseBI	AGGCCT	1 cut(s)	196
SsiI	CCGC	1 cut(s)	247
StuI	AGGCCT	1 cut(s)	196
StyD4I	CCNGG	3 cut(s)	187, 301, 530
TaiI	ACGT	1 cut(s)	340
TaqI	TCGA	3 cut(s)	136, 286, 340
TasI	AATT	3 cut(s)	308, 409, 478
TfiI	GAWTC	1 cut(s)	539
Tru1I	TTAA	1 cut(s)	350
Tru9I	TTAA	1 cut(s)	350
TscAI	CASTG	2 cut(s)	220, 550
TseFI	GTSAC	1 cut(s)	16
TseI	GCWGC	2 cut(s)	218, 332
Tsp45I	GTSAC	1 cut(s)	16
TspDTI	ATGAA	2 cut(s)	502, 513
TspGWI	ACGGA	1 cut(s)	356
TspRI	CASTG	2 cut(s)	220, 550
Vha464I	CTTAAG	1 cut(s)	349
XceI	RCATGY	1 cut(s)	49
Zsp2I	ATGCAT	1 cut(s)	6

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