Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000006

Orthogroup ID

OG0004607

Physical Location & Seq

Genomic Coordinates Reverse (-)

4063693 .. 4065767

Gene Structure 2075 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug06G0033200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 465 bp

ATGGAGATGAAATCCCTCATTACGGGGCTTTCCTTTGCTTTTCCTATTCCTAGCCAGTATACAGATTGCATTCATGATAGAGAAGAATTTGCAAGCTTTAATTACTTAACGTTATCGCCTTTGACTATGAAACCGGAACTACCGCTAGAGTTCCCGGATGGAACTACACCAGTTACTTGCCGTGTCTCCATATACGATAGTTCTACCGATAAAAAAGTTGGTGGCGGATCCTTGATGGAACTACACCAGATGTTTGGACTGAATTGGGTCGTCCTTGTGGGATACATCAAAAGCAGGAAATTCTTGGGGACTGTGGTCGAGCTGCCATCCACACACAAGGTTCTACAAGCAATCCGTTTGGATCTACTTTTGTATATGGTTAACAAAACATTGCACTTGAGTATGGTTGTGCATGAGGTGATGAAGAATGGTTACATTGCAACAGTGAGTCTCTTTCAGTCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006139 GO:0006259 GO:0006304 GO:0006305 GO:0006306 GO:0006355 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0010964 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0031935 GO:0032259 GO:0032776 GO:0033043 GO:0033044 GO:0034641 GO:0042393 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043414 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044444 GO:0044464 GO:0044728 GO:0046483 GO:0050789 GO:0050794 GO:0051128 GO:0051171 GO:0051252 GO:0060255 GO:0060966 GO:0060968 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:1901360 GO:1902275 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

GYF Plus-3 SWIB zf-CCCH

Protein Analysis

154

Amino Acids

17.34

Weight (kDa)

6.5

Isoelectric Point (pI)

33.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PHAF1	PF03676	8 - 73	6.7e-07	Phagosome assembly factor 1

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0004607)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G16485 AT2G16485
fragaria_vesca	FvH4_2g10320 FvH4_2g10320 FvH4_2g10320 FvH4_2g10320 FvH4_2g10320 FvH4_2g10320 FvH4_2g10320
malus_domestica	MD00G1040500.v1.1 MD10G1064000.v1.1
prunus_persica	Prupe.8G085700_v2.0.a1
pyrus_communis	pycom05g04690 pycom05g04700 pycom10g04950 pycom10g04960
rosa_chinensis	RchiOBHm_Chr6g0267521
rosa_laevigata	RLG00000013994
rosa_multiflora	Rmu_co8013812.1_g000001 Rmu_co8150174.1_g000001 Rmu_sc0008030.1_g000001 Rmu_sc0012005.1_g000009
rosa_roxburghii	Rroxscaffold_7G00200660
rosa_rugosa	Rorug06G0033200 Rorug06G0033300 Rorug06G0033400
rosa_samantha	Rh6AG154800 Rh6BG155500 Rh6CG150700 Rh6DG140700
rosa_wichuraiana	Rw6G013290

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	59
AciI	CCGC	2 cut(s)	143, 225
AclI	AACGTT	1 cut(s)	110
AclWI	GGATC	3 cut(s)	222, 235, 369
AcsI	RAATTY	2 cut(s)	86, 299
AfiI	CCNNNNNNNGG	1 cut(s)	22
AluBI	AGCT	2 cut(s)	96, 322
AluI	AGCT	2 cut(s)	96, 322
Alw26I	GTCTC	2 cut(s)	190, 455
AlwI	GGATC	3 cut(s)	222, 235, 369
ApeKI	GCWGC	1 cut(s)	322
ApoI	RAATTY	2 cut(s)	86, 299
AsuC2I	CCSGG	1 cut(s)	155
AsuHPI	GGTGA	1 cut(s)	430
BamHI	GGATCC	1 cut(s)	227
BarI	GAAGNNNNNNTAC	2 cut(s)	416, 448
BbvI	GCAGC	1 cut(s)	309
BccI	CCATC	3 cut(s)	152, 229, 334
BceAI	ACGGC	1 cut(s)	165
BciVI	GTATCC	1 cut(s)	275
BcnI	CCSGG	1 cut(s)	155
BcoDI	GTCTC	2 cut(s)	190, 455
BfaI	CTAG	2 cut(s)	51, 146
BfuI	GTATCC	1 cut(s)	275
BisI	GCNGC	1 cut(s)	323
BlsI	GCNGC	1 cut(s)	324
Bme1390I	CCNGG	1 cut(s)	155
BmiI	GGNNCC	1 cut(s)	229
BmrFI	CCNGG	1 cut(s)	155
BoxI	GACNNNNGTC	1 cut(s)	314
BpuEI	CTTGAG	1 cut(s)	418
BpuMI	CCSGG	1 cut(s)	155
BsaWI	WCCGGW	1 cut(s)	133
Bsc4I	CCNNNNNNNGG	1 cut(s)	22
Bse1I	ACTGG	2 cut(s)	55, 170
Bse3DI	GCAATG	2 cut(s)	389, 435
BseGI	GGATG	2 cut(s)	163, 326
BseLI	CCNNNNNNNGG	1 cut(s)	22
BseMI	GCAATG	2 cut(s)	389, 435
BseNI	ACTGG	2 cut(s)	55, 170
BseXI	GCAGC	1 cut(s)	309
BsiSI	CCGG	2 cut(s)	134, 155
BslFI	GGGAC	1 cut(s)	322
BslI	CCNNNNNNNGG	1 cut(s)	22
BsmAI	GTCTC	2 cut(s)	190, 455
BsmFI	GGGAC	1 cut(s)	322
BsmI	GAATGC	1 cut(s)	69
Bsp143I	GATC	2 cut(s)	227, 361
BspACI	CCGC	2 cut(s)	143, 225
BspHI	TCATGA	2 cut(s)	73, 461
BspLI	GGNNCC	1 cut(s)	229
BspPI	GGATC	3 cut(s)	222, 235, 369
BsrDI	GCAATG	2 cut(s)	389, 435
BsrI	ACTGG	2 cut(s)	55, 170
BssMI	GATC	2 cut(s)	227, 361
BssNAI	GTATAC	1 cut(s)	60
Bst1107I	GTATAC	1 cut(s)	60
Bst4CI	ACNGT	2 cut(s)	313, 445
BstC8I	GCNNGC	1 cut(s)	94
BstF5I	GGATG	2 cut(s)	163, 326
BstKTI	GATC	2 cut(s)	230, 364
BstMAI	GTCTC	2 cut(s)	190, 455
BstMBI	GATC	2 cut(s)	227, 361
BstPAI	GACNNNNGTC	1 cut(s)	314
BstSCI	CCNGG	1 cut(s)	153
BstV1I	GCAGC	1 cut(s)	309
BstX2I	RGATCY	2 cut(s)	227, 361
BstXI	CCANNNNNNTGG	1 cut(s)	254
BstYI	RGATCY	2 cut(s)	227, 361
BstZ17I	GTATAC	1 cut(s)	60
BsuI	GTATCC	1 cut(s)	275
BtsCI	GGATG	2 cut(s)	163, 326
BtsIMutI	CAGTG	1 cut(s)	450
Cac8I	GCNNGC	1 cut(s)	94
CciI	TCATGA	2 cut(s)	73, 461
CviAII	CATG	3 cut(s)	74, 413, 462
CviJI	RGCY	4 cut(s)	28, 54, 96, 322
CviKI_1	RGCY	4 cut(s)	28, 54, 96, 322
DpnI	GATC	2 cut(s)	229, 363
DpnII	GATC	2 cut(s)	227, 361
EciI	GGCGGA	1 cut(s)	240
FaeI	CATG	3 cut(s)	77, 416, 465
FaqI	GGGAC	1 cut(s)	322
FatI	CATG	3 cut(s)	73, 412, 461
FblI	GTMKAC	1 cut(s)	59
Fnu4HI	GCNGC	1 cut(s)	323
FokI	GGATG	2 cut(s)	170, 313
Fsp4HI	GCNGC	1 cut(s)	323
FspBI	CTAG	2 cut(s)	51, 146
GluI	GCNGC	1 cut(s)	323
HapII	CCGG	2 cut(s)	134, 155
Hin1II	CATG	3 cut(s)	77, 416, 465
HincII	GTYRAC	1 cut(s)	382
HindII	GTYRAC	1 cut(s)	382
HindIII	AAGCTT	1 cut(s)	94
HinfI	GANTC	1 cut(s)	448
HpaI	GTTAAC	1 cut(s)	382
HpaII	CCGG	2 cut(s)	134, 155
HphI	GGTGA	1 cut(s)	430
Hpy166II	GTNNAC	2 cut(s)	60, 382
Hpy188III	TCNNGA	2 cut(s)	74, 462
Hpy8I	GTNNAC	2 cut(s)	60, 382
HpyCH4III	ACNGT	2 cut(s)	313, 445
HpyCH4IV	ACGT	1 cut(s)	110
HpyCH4V	TGCA	5 cut(s)	69, 92, 394, 412, 440
HpySE526I	ACGT	1 cut(s)	110
Hsp92II	CATG	3 cut(s)	77, 416, 465
KspAI	GTTAAC	1 cut(s)	382
Kzo9I	GATC	2 cut(s)	227, 361
LpnPI	CCDG	6 cut(s)	68, 147, 168, 183, 260, 280
Lsp1109I	GCAGC	1 cut(s)	309
MaeI	CTAG	2 cut(s)	51, 146
MaeII	ACGT	1 cut(s)	110
MaeIII	GTNAC	2 cut(s)	172, 431
MalI	GATC	2 cut(s)	229, 363
MboI	GATC	2 cut(s)	227, 361
MboII	GAAGA	2 cut(s)	95, 436
MflI	RGATCY	2 cut(s)	227, 361
MluCI	AATT	4 cut(s)	86, 100, 262, 299
MlyI	GAGTC	1 cut(s)	457
MnlI	CCTC	2 cut(s)	26, 409
MseI	TTAA	3 cut(s)	99, 107, 381
MspI	CCGG	2 cut(s)	134, 155
MspR9I	CCNGG	1 cut(s)	155
Mva1269I	GAATGC	1 cut(s)	69
NciI	CCSGG	1 cut(s)	155
NdeII	GATC	2 cut(s)	227, 361
NlaIII	CATG	3 cut(s)	77, 416, 465
NlaIV	GGNNCC	1 cut(s)	229
PagI	TCATGA	2 cut(s)	73, 461
PctI	GAATGC	1 cut(s)	69
PfoI	TCCNGGA	1 cut(s)	153
PkrI	GCNGC	1 cut(s)	324
PleI	GAGTC	1 cut(s)	456
PpsI	GAGTC	1 cut(s)	456
PshAI	GACNNNNGTC	1 cut(s)	314
Psp1406I	AACGTT	1 cut(s)	110
PspN4I	GGNNCC	1 cut(s)	229
PsuI	RGATCY	2 cut(s)	227, 361
SaqAI	TTAA	3 cut(s)	99, 107, 381
SatI	GCNGC	1 cut(s)	323
Sau3AI	GATC	2 cut(s)	227, 361
SchI	GAGTC	1 cut(s)	457
ScrFI	CCNGG	1 cut(s)	155
SetI	ASST	5 cut(s)	98, 113, 324, 342, 420
SmlI	CTYRAG	1 cut(s)	397
SmoI	CTYRAG	1 cut(s)	397
Sse9I	AATT	4 cut(s)	86, 100, 262, 299
SsiI	CCGC	2 cut(s)	143, 225
SspMI	CTAG	2 cut(s)	51, 146
StyD4I	CCNGG	1 cut(s)	153
TaaI	ACNGT	2 cut(s)	313, 445
TaiI	ACGT	1 cut(s)	113
TaqI	TCGA	1 cut(s)	318
TasI	AATT	4 cut(s)	86, 100, 262, 299
Tru1I	TTAA	3 cut(s)	99, 107, 381
Tru9I	TTAA	3 cut(s)	99, 107, 381
TscAI	CASTG	1 cut(s)	450
TseI	GCWGC	1 cut(s)	322
TspDTI	ATGAA	4 cut(s)	23, 62, 143, 437
TspGWI	ACGGA	1 cut(s)	344
TspRI	CASTG	1 cut(s)	450
XapI	RAATTY	2 cut(s)	86, 299
XmiI	GTMKAC	1 cut(s)	59
XspI	CTAG	2 cut(s)	51, 146

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