Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0000759

Physical Location & Seq

Genomic Coordinates Reverse (-)

8122769 .. 8124683

Gene Structure 1915 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG038400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 396 bp

ATGAAGAGAAGAAATATCGTGTTTCAGAGGATTGATGACAATCTGTCGGAGGATAAGAGGGATAGGGTTTTGAAGGACTTCAGCCTTTACCGCACCAAAGATAAACAGGTCTTGTTGATATGTTTAAGAACTGAAGCTGGTTATGATTTAAGTGCAGCGTCTAATATCTTTTTAATGGATCCATGGTGGAATCCACCCGCTGACGAGAAAATACTAATGAGAATTATACGCAGTAGAAAATATGGAACTGTTGTTAGAAGATTTATTGTCAAGGACACAGTGGAGGAACGCATGCAACAGCTTCAGTCTAGAAAGCAGCAAATGAGTGTGGAAGTTGTCCCTGTTGAGAAAGATCGATCGGCCAGAATTGAGGACCTCAAAATGATTTTCAGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009526 GO:0009536 GO:0009941 GO:0031967 GO:0031975 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HIRAN Helicase_C SNF2_N zf-C3HC4 zf-C3HC4_3

Protein Analysis

131

Amino Acids

15.76

Weight (kDa)

9.87

Isoelectric Point (pI)

70.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Helicase_C	PF00271	3 - 78	5.7e-08	Helicase conserved 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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Publication-ready

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Orthologous Genes (Group: OG0000759)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G43530
fragaria_vesca	FvH4_4g03130 FvH4_4g03131 FvH4_4g03132 FvH4_4g03180 FvH4_4g03180 FvH4_4g03180
malus_domestica	MD16G1213200.v1.1
prunus_persica	Prupe.1G034800_v2.0.a1
pyrus_communis	pycom16g17900 pycom16g17910
rosa_chinensis	RchiOBHm_Chr4g0391421 RchiOBHm_Chr4g0391471 RchiOBHm_Chr4g0391481 RchiOBHm_Chr4g0391501 RchiOBHm_Chr4g0391631 RchiOBHm_Chr4g0391741 RchiOBHm_Chr4g0391801
rosa_laevigata	RLG00000009859 RLG00000009860 RLG00000009864 RLG00000009865 RLG00000009866 RLG00000028882 RLG00000034555
rosa_multiflora	Rmu_sc0000383.1_g000032 Rmu_sc0001174.1_g000001 Rmu_sc0001174.1_g000027 Rmu_sc0001174.1_g000030 Rmu_sc0004862.1_g000001 Rmu_sc0004862.1_g000022 Rmu_sc0007466.1_g000001 Rmu_sc0021280.1_g000001 Rmu_sc0023741.1_g000005
rosa_roxburghii	Rroxscaffold_5G00337130 Rroxscaffold_5G00337140 Rroxscaffold_5G00337170 Rroxscaffold_7G00197540
rosa_rugosa	Rorug03G0335900 Rorug03G0336000 Rorug03G0336100 Rorug03G0336400
rosa_samantha	Rh4AG037500 Rh4AG037600 Rh4AG037700 Rh4AG038300 Rh4AG038400 Rh4AG038500 Rh4AG038800 Rh4BG031800 Rh4BG032300 Rh4BG032500 Rh4BG032600 Rh4BG033000 Rh4BG137700 Rh4CG040500 Rh4CG040700 Rh4CG040800 Rh4CG041400 Rh4CG269500 Rh4DG035000 Rh4DG035100 Rh4DG035200 Rh4DG036200 Rh6DG188300
rosa_wichuraiana	Rw4G002920 Rw4G002930 Rw4G002970 Rw4G003010 Rw5G048340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	91, 198
AclWI	GGATC	2 cut(s)	173, 186
AcoI	YGGCCR	1 cut(s)	360
AcuI	CTGAAG	3 cut(s)	64, 153, 287
AgsI	TTSAA	1 cut(s)	73
AhdI	GACNNNNNGTC	1 cut(s)	43
AluBI	AGCT	2 cut(s)	137, 301
AluI	AGCT	2 cut(s)	137, 301
AlwI	GGATC	2 cut(s)	173, 186
AoxI	GGCC	1 cut(s)	360
ApeKI	GCWGC	2 cut(s)	155, 316
Asp700I	GAANNNNTTC	1 cut(s)	77
AspS9I	GGNCC	1 cut(s)	373
AvaII	GGWCC	1 cut(s)	373
BamHI	GGATCC	1 cut(s)	178
BbvI	GCAGC	2 cut(s)	167, 328
BfaI	CTAG	1 cut(s)	309
BisI	GCNGC	2 cut(s)	156, 317
BlsI	GCNGC	2 cut(s)	157, 318
Bme18I	GGWCC	1 cut(s)	373
BmeRI	GACNNNNNGTC	1 cut(s)	43
BmgT120I	GGNCC	1 cut(s)	373
BmiI	GGNNCC	1 cut(s)	180
Bsa29I	ATCGAT	1 cut(s)	355
BsaBI	GATNNNNATC	1 cut(s)	39
BsaJI	CCNNGG	1 cut(s)	182
Bse8I	GATNNNNATC	1 cut(s)	39
BseCI	ATCGAT	1 cut(s)	355
BseDI	CCNNGG	1 cut(s)	182
BseJI	GATNNNNATC	1 cut(s)	39
BseXI	GCAGC	2 cut(s)	167, 328
BsgI	GTGCAG	1 cut(s)	174
Bsh1285I	CGRYCG	1 cut(s)	359
BshFI	GGCC	1 cut(s)	362
BshVI	ATCGAT	1 cut(s)	355
BsiEI	CGRYCG	1 cut(s)	359
BslFI	GGGAC	1 cut(s)	323
BsmFI	GGGAC	1 cut(s)	323
BsnI	GGCC	1 cut(s)	362
Bsp143I	GATC	3 cut(s)	178, 352, 356
Bsp19I	CCATGG	1 cut(s)	182
BspACI	CCGC	2 cut(s)	91, 198
BspANI	GGCC	1 cut(s)	362
BspDI	ATCGAT	1 cut(s)	355
BspLI	GGNNCC	1 cut(s)	180
BspPI	GGATC	2 cut(s)	173, 186
BssECI	CCNNGG	1 cut(s)	182
BssMI	GATC	3 cut(s)	178, 352, 356
BssT1I	CCWWGG	1 cut(s)	182
Bst4CI	ACNGT	2 cut(s)	250, 280
BstC8I	GCNNGC	1 cut(s)	293
BstDSI	CCRYGG	1 cut(s)	182
BstKTI	GATC	3 cut(s)	181, 355, 359
BstMBI	GATC	3 cut(s)	178, 352, 356
BstMCI	CGRYCG	1 cut(s)	359
BstMWI	GCNNNNNNNGC	1 cut(s)	90
BstNSI	RCATGY	1 cut(s)	295
BstV1I	GCAGC	2 cut(s)	167, 328
BstX2I	RGATCY	1 cut(s)	178
BstYI	RGATCY	1 cut(s)	178
Bsu15I	ATCGAT	1 cut(s)	355
BsuRI	GGCC	1 cut(s)	362
BsuTUI	ATCGAT	1 cut(s)	355
BtgI	CCRYGG	1 cut(s)	182
BtsIMutI	CAGTG	1 cut(s)	285
Cac8I	GCNNGC	1 cut(s)	293
Cfr13I	GGNCC	1 cut(s)	373
ClaI	ATCGAT	1 cut(s)	355
CseI	GACGC	1 cut(s)	147
CviAII	CATG	2 cut(s)	183, 292
CviJI	RGCY	4 cut(s)	84, 137, 301, 362
CviKI_1	RGCY	4 cut(s)	84, 137, 301, 362
DpnI	GATC	3 cut(s)	180, 354, 358
DpnII	GATC	3 cut(s)	178, 352, 356
DriI	GACNNNNNGTC	1 cut(s)	43
EaeI	YGGCCR	1 cut(s)	360
Eam1105I	GACNNNNNGTC	1 cut(s)	43
Eco130I	CCWWGG	1 cut(s)	182
Eco47I	GGWCC	1 cut(s)	373
Eco57I	CTGAAG	3 cut(s)	64, 153, 287
EcoO109I	RGGNCCY	1 cut(s)	373
EcoT14I	CCWWGG	1 cut(s)	182
ErhI	CCWWGG	1 cut(s)	182
FaeI	CATG	2 cut(s)	186, 295
FaiI	YATR	6 cut(s)	121, 144, 184, 227, 243, 293
FaqI	GGGAC	1 cut(s)	323
FatI	CATG	2 cut(s)	182, 291
FauI	CCCGC	1 cut(s)	205
Fnu4HI	GCNGC	2 cut(s)	156, 317
Fsp4HI	GCNGC	2 cut(s)	156, 317
FspBI	CTAG	1 cut(s)	309
GluI	GCNGC	2 cut(s)	156, 317
HaeIII	GGCC	1 cut(s)	362
HgaI	GACGC	1 cut(s)	147
Hin1II	CATG	2 cut(s)	186, 295
HinfI	GANTC	1 cut(s)	190
Hpy188I	TCNGA	3 cut(s)	27, 49, 392
Hpy188III	TCNNGA	1 cut(s)	309
HpyAV	CCTTC	1 cut(s)	67
HpyCH4III	ACNGT	2 cut(s)	250, 280
HpyCH4V	TGCA	2 cut(s)	155, 295
HpyF10VI	GCNNNNNNNGC	1 cut(s)	90
Hsp92II	CATG	2 cut(s)	186, 295
Kzo9I	GATC	3 cut(s)	178, 352, 356
LpnPI	CCDG	4 cut(s)	92, 123, 354, 376
Lsp1109I	GCAGC	2 cut(s)	167, 328
MaeI	CTAG	1 cut(s)	309
MalI	GATC	3 cut(s)	180, 354, 358
MboI	GATC	3 cut(s)	178, 352, 356
MboII	GAAGA	3 cut(s)	16, 21, 270
MflI	RGATCY	1 cut(s)	178
MluCI	AATT	2 cut(s)	222, 366
MmeI	TCCRAC	1 cut(s)	27
MnlI	CCTC	6 cut(s)	21, 43, 51, 277, 364, 386
MroXI	GAANNNNTTC	1 cut(s)	77
MseI	TTAA	3 cut(s)	125, 149, 173
MspA1I	CMGCKG	1 cut(s)	200
MwoI	GCNNNNNNNGC	1 cut(s)	90
NcoI	CCATGG	1 cut(s)	182
NdeII	GATC	3 cut(s)	178, 352, 356
NlaIII	CATG	2 cut(s)	186, 295
NlaIV	GGNNCC	1 cut(s)	180
NspI	RCATGY	1 cut(s)	295
PaeI	GCATGC	1 cut(s)	295
PdmI	GAANNNNTTC	1 cut(s)	77
PfeI	GAWTC	1 cut(s)	190
PkrI	GCNGC	2 cut(s)	157, 318
Ple19I	CGATCG	1 cut(s)	359
PpuMI	RGGWCCY	1 cut(s)	373
Psp5II	RGGWCCY	1 cut(s)	373
PspN4I	GGNNCC	1 cut(s)	180
PspPI	GGNCC	1 cut(s)	373
PspPPI	RGGWCCY	1 cut(s)	373
PsuI	RGATCY	1 cut(s)	178
PvuI	CGATCG	1 cut(s)	359
SaqAI	TTAA	3 cut(s)	125, 149, 173
SatI	GCNGC	2 cut(s)	156, 317
Sau3AI	GATC	3 cut(s)	178, 352, 356
Sau96I	GGNCC	1 cut(s)	373
SetI	ASST	4 cut(s)	111, 139, 303, 378
SinI	GGWCC	1 cut(s)	373
SphI	GCATGC	1 cut(s)	295
Sse9I	AATT	2 cut(s)	222, 366
SsiI	CCGC	2 cut(s)	91, 198
SspMI	CTAG	1 cut(s)	309
StyI	CCWWGG	1 cut(s)	182
TaaI	ACNGT	2 cut(s)	250, 280
TaqI	TCGA	1 cut(s)	355
TasI	AATT	2 cut(s)	222, 366
TfiI	GAWTC	1 cut(s)	190
Tru1I	TTAA	3 cut(s)	125, 149, 173
Tru9I	TTAA	3 cut(s)	125, 149, 173
TscAI	CASTG	1 cut(s)	285
TseI	GCWGC	2 cut(s)	155, 316
TspDTI	ATGAA	1 cut(s)	17
TspRI	CASTG	1 cut(s)	285
VpaK11BI	GGWCC	1 cut(s)	373
XbaI	TCTAGA	1 cut(s)	308
XceI	RCATGY	1 cut(s)	295
XmnI	GAANNNNTTC	1 cut(s)	77
XspI	CTAG	1 cut(s)	309

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