Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0015672

Physical Location & Seq

Genomic Coordinates Reverse (-)

15556490 .. 15556855

Gene Structure 366 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG177100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 366 bp

ATGCATGGTTGCTTAGTGACAACAACTCAAGAAGGGAGGAAGAGCATGTTGAAGCTGGCCGAGAGAATGGTTATAAGTTTTTGTGCCGGAGTGAGTGAGAGTGCATCTACCACTCATACATGGACGACGCTATCTCGAACAGGGGCTGATGATGTTCGTGTGATGACCCGAAAGAGTGTGGATGATCCAGGAAGGCCTCAAGGCATTGTGCTCACTGCAGCAACCTCATTCTGGCTTCCTGTTCCCCGCAAAAGGGTCTTTGAGTTCCTTCGTGATAAGAACTCTCGAAATAAGGTACGTGAATTACATTTCAATAATGTGGGAGTTACCAAAATTAGGGCTGGGAATTCCAAACCGAGATCCTGA

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

121

Amino Acids

13.52

Weight (kDa)

10.89

Isoelectric Point (pI)

25.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PDF2_C	PF25797	9 - 99	3.2e-33	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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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	2 cut(s)	179, 354
AcoI	YGGCCR	1 cut(s)	57
AcsI	RAATTY	1 cut(s)	346
AfaI	GTAC	1 cut(s)	297
AfiI	CCNNNNNNNGG	4 cut(s)	231, 252, 253, 336
AgsI	TTSAA	2 cut(s)	52, 313
AjnI	CCWGG	1 cut(s)	187
AluBI	AGCT	1 cut(s)	55
AluI	AGCT	1 cut(s)	55
Alw21I	GWGCWC	1 cut(s)	213
AlwI	GGATC	2 cut(s)	179, 354
AlwNI	CAGNNNCTG	1 cut(s)	146
AoxI	GGCC	2 cut(s)	57, 194
ApeKI	GCWGC	1 cut(s)	218
ApoI	RAATTY	1 cut(s)	346
Bbv12I	GWGCWC	1 cut(s)	213
BbvI	GCAGC	1 cut(s)	230
BciT130I	CCWGG	1 cut(s)	189
BfmI	CTRYAG	1 cut(s)	216
BisI	GCNGC	1 cut(s)	219
BlsI	GCNGC	1 cut(s)	220
Bme1390I	CCNGG	1 cut(s)	189
BmrFI	CCNGG	1 cut(s)	189
BmsI	GCATC	1 cut(s)	113
BpuEI	CTTGAG	2 cut(s)	12, 183
BsaAI	YACGTR	1 cut(s)	299
Bsc4I	CCNNNNNNNGG	4 cut(s)	231, 252, 253, 336
BseBI	CCWGG	1 cut(s)	189
BseGI	GGATG	1 cut(s)	187
BseLI	CCNNNNNNNGG	4 cut(s)	231, 252, 253, 336
BseXI	GCAGC	1 cut(s)	230
BseYI	CCCAGC	1 cut(s)	341
BshFI	GGCC	2 cut(s)	59, 196
BsiHKAI	GWGCWC	1 cut(s)	213
BsiSI	CCGG	1 cut(s)	87
BslI	CCNNNNNNNGG	4 cut(s)	231, 252, 253, 336
BsnI	GGCC	2 cut(s)	59, 196
Bsp1286I	GDGCHC	1 cut(s)	213
Bsp143I	GATC	2 cut(s)	184, 359
BspACI	CCGC	1 cut(s)	247
BspANI	GGCC	2 cut(s)	59, 196
BspMAI	CTGCAG	1 cut(s)	220
BspPI	GGATC	2 cut(s)	179, 354
BspQI	GCTCTTC	1 cut(s)	35
BssMI	GATC	2 cut(s)	184, 359
Bst2UI	CCWGG	1 cut(s)	189
Bst6I	CTCTTC	1 cut(s)	35
BstBAI	YACGTR	1 cut(s)	299
BstC8I	GCNNGC	1 cut(s)	57
BstDEI	CTNAG	1 cut(s)	13
BstF5I	GGATG	1 cut(s)	187
BstKTI	GATC	2 cut(s)	187, 362
BstMBI	GATC	2 cut(s)	184, 359
BstNI	CCWGG	1 cut(s)	189
BstNSI	RCATGY	1 cut(s)	49
BstSCI	CCNGG	1 cut(s)	187
BstSFI	CTRYAG	1 cut(s)	216
BstV1I	GCAGC	1 cut(s)	230
BstX2I	RGATCY	1 cut(s)	359
BstYI	RGATCY	1 cut(s)	359
BsuRI	GGCC	2 cut(s)	59, 196
BtsCI	GGATG	1 cut(s)	187
BtsI	GCAGTG	1 cut(s)	213
BtsIMutI	CAGTG	1 cut(s)	213
Cac8I	GCNNGC	1 cut(s)	57
CaiI	CAGNNNCTG	1 cut(s)	146
CseI	GACGC	1 cut(s)	136
Csp6I	GTAC	1 cut(s)	296
CviAII	CATG	3 cut(s)	5, 46, 120
CviJI	RGCY	6 cut(s)	55, 59, 146, 196, 235, 341
CviKI_1	RGCY	6 cut(s)	55, 59, 146, 196, 235, 341
CviQI	GTAC	1 cut(s)	296
DdeI	CTNAG	1 cut(s)	13
DpnI	GATC	2 cut(s)	186, 361
DpnII	GATC	2 cut(s)	184, 359
EaeI	YGGCCR	1 cut(s)	57
Eam1104I	CTCTTC	1 cut(s)	35
EarI	CTCTTC	1 cut(s)	35
Eco147I	AGGCCT	1 cut(s)	196
EcoRI	GAATTC	1 cut(s)	346
EcoRII	CCWGG	1 cut(s)	187
EcoT22I	ATGCAT	1 cut(s)	6
FaeI	CATG	3 cut(s)	8, 49, 123
FaiI	YATR	5 cut(s)	6, 47, 74, 117, 121
FatI	CATG	3 cut(s)	4, 45, 119
FauI	CCCGC	1 cut(s)	254
Fnu4HI	GCNGC	1 cut(s)	219
FokI	GGATG	1 cut(s)	194
Fsp4HI	GCNGC	1 cut(s)	219
GluI	GCNGC	1 cut(s)	219
GsaI	CCCAGC	1 cut(s)	345
HaeIII	GGCC	2 cut(s)	59, 196
HapII	CCGG	1 cut(s)	87
HgaI	GACGC	1 cut(s)	136
Hin1II	CATG	3 cut(s)	8, 49, 123
HpaII	CCGG	1 cut(s)	87
Hpy188III	TCNNGA	5 cut(s)	29, 135, 272, 285, 363
Hpy99I	CGWCG	1 cut(s)	130
HpyAV	CCTTC	3 cut(s)	26, 186, 278
HpyCH4IV	ACGT	1 cut(s)	298
HpyCH4V	TGCA	3 cut(s)	4, 104, 218
HpyF3I	CTNAG	1 cut(s)	13
HpySE526I	ACGT	1 cut(s)	298
Hsp92II	CATG	3 cut(s)	8, 49, 123
Kzo9I	GATC	2 cut(s)	184, 359
LguI	GCTCTTC	1 cut(s)	35
LpnPI	CCDG	8 cut(s)	41, 100, 126, 174, 201, 217, 252, 327
Lsp1109I	GCAGC	1 cut(s)	230
LweI	GCATC	1 cut(s)	113
MaeII	ACGT	1 cut(s)	298
MaeIII	GTNAC	2 cut(s)	16, 325
MalI	GATC	2 cut(s)	186, 361
MboI	GATC	2 cut(s)	184, 359
MboII	GAAGA	1 cut(s)	52
MflI	RGATCY	1 cut(s)	359
MhlI	GDGCHC	1 cut(s)	213
MluCI	AATT	3 cut(s)	302, 333, 346
MnlI	CCTC	3 cut(s)	30, 207, 235
Mph1103I	ATGCAT	1 cut(s)	6
MspI	CCGG	1 cut(s)	87
MspR9I	CCNGG	1 cut(s)	189
MvaI	CCWGG	1 cut(s)	189
NdeII	GATC	2 cut(s)	184, 359
NlaIII	CATG	3 cut(s)	8, 49, 123
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
PfoI	TCCNGGA	1 cut(s)	187
PkrI	GCNGC	1 cut(s)	220
Ppu21I	YACGTR	1 cut(s)	299
PsiI	TTATAA	1 cut(s)	74
Psp6I	CCWGG	1 cut(s)	187
PspFI	CCCAGC	1 cut(s)	341
PspGI	CCWGG	1 cut(s)	187
PstI	CTGCAG	1 cut(s)	220
PstNI	CAGNNNCTG	1 cut(s)	146
PsuI	RGATCY	1 cut(s)	359
RsaI	GTAC	1 cut(s)	297
RsaNI	GTAC	1 cut(s)	296
SapI	GCTCTTC	1 cut(s)	35
SatI	GCNGC	1 cut(s)	219
Sau3AI	GATC	2 cut(s)	184, 359
ScrFI	CCNGG	1 cut(s)	189
SduI	GDGCHC	1 cut(s)	213
SetI	ASST	4 cut(s)	57, 227, 297, 301
SfaNI	GCATC	1 cut(s)	113
SfcI	CTRYAG	1 cut(s)	216
SmlI	CTYRAG	2 cut(s)	27, 198
SmoI	CTYRAG	2 cut(s)	27, 198
Sse9I	AATT	3 cut(s)	302, 333, 346
SseBI	AGGCCT	1 cut(s)	196
SsiI	CCGC	1 cut(s)	247
StuI	AGGCCT	1 cut(s)	196
StyD4I	CCNGG	1 cut(s)	187
TaiI	ACGT	1 cut(s)	301
TaqI	TCGA	2 cut(s)	136, 286
TasI	AATT	3 cut(s)	302, 333, 346
TscAI	CASTG	1 cut(s)	220
TseFI	GTSAC	1 cut(s)	16
TseI	GCWGC	1 cut(s)	218
Tsp45I	GTSAC	1 cut(s)	16
TspRI	CASTG	1 cut(s)	220
XapI	RAATTY	1 cut(s)	346
XceI	RCATGY	1 cut(s)	49
Zsp2I	ATGCAT	1 cut(s)	6

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