Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000001

Orthogroup ID

OG0004688

Physical Location & Seq

Genomic Coordinates Forward (+)

24441267 .. 24445304

Gene Structure 4038 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug01G0178200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 693 bp

ATGAAACCTTGGGTCATTAAAACTAAAAAATTAACCCTGATGTCTTTCAGCTTCAGCTTGCCTACTCGACTATCTATCCATCTCTCACAGACAAAGTCAAACACAAAACCGTCCGATATCCAAGATCACCTTCTTCTTCTTCGTCGTCGGAGCCAGCCAAATCACAGAGGCCGTTTTTGTATCAGTCAGTACTCCGCCATGGGACAAGTCCTTGACAAATTACAAGGTAAGCAATGGAGGCGACAGCAAATCAGGAAGATTACGGACAAGGTGTTTGATCATTTCAAAAACGAGAGAGGAACGGCAAATTTGAGATTCGAGGATGTCTACATTGGTGTACTGCTTGTGTACAATGATATTAACAAGCGTTTACCTGGCCCACATTTTGATCCACCCTCTAAAGATGCTGTCAGACTACTGATTCAGGAACACGATATCAATCTTGACGGAGAAATTGACCGGGAAGAATTTGCCAAGTTGATCAAGCAGATGACTGCCGACACATTTGTTGTTATCAGTCAGGGAATGATCGTCACATTGGTTGCAGCACCAACAATTGCAATGGCGACAAAGAAGGCTACTGAGGGTGTACCCCATGTTGGGAAGGTCGTGCAACGGATACCCACTTCAGTTTATGCATCCCTTGTGACTCTTGTTGTCATGATGGTTCAGCATGCATGTCAGGAGCCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003678 GO:0003824 GO:0004003 GO:0004386 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005829 GO:0005886 GO:0006139 GO:0006259 GO:0006281 GO:0006289 GO:0006293 GO:0006294 GO:0006296 GO:0006325 GO:0006338 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0008026 GO:0008094 GO:0008150 GO:0008152 GO:0009987 GO:0016020 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022607 GO:0031334 GO:0031974 GO:0031981 GO:0032392 GO:0032508 GO:0033554 GO:0033683 GO:0034622 GO:0034641 GO:0036094 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043254 GO:0043933 GO:0044085 GO:0044087 GO:0044089 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0050896 GO:0051128 GO:0051130 GO:0051276 GO:0051716 GO:0065003 GO:0065004 GO:0065007 GO:0070013 GO:0070035 GO:0070911 GO:0071103 GO:0071704 GO:0071824 GO:0071840 GO:0071944 GO:0090304 GO:0090305 GO:0097159 GO:0140097 GO:1901265 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Helicase_C SNF2_N

Protein Analysis

230

Amino Acids

26.23

Weight (kDa)

9.85

Isoelectric Point (pI)

39.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DUF7874	PF25284	92 - 193	4.9e-06	Family of unknown function (DUF7874)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004688)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G44980 AT2G44980 AT2G44980
fragaria_vesca	FvH4_7g09450 FvH4_7g09450 FvH4_7g09450 FvH4_7g09450 FvH4_7g09450 FvH4_7g09450 FvH4_7g09450 FvH4_7g09450 FvH4_7g09450
malus_domestica	MD07G1098400.v1.1
prunus_persica	Prupe.2G122400_v2.0.a1 Prupe.2G122400_v2.0.a1 Prupe.2G122400_v2.0.a1
pyrus_communis	pycom07g08110
rosa_chinensis	RchiOBHm_Chr1g0346091
rosa_laevigata	RLG00000028814
rosa_multiflora	Rmu_sc0003809.1_g000022 Rmu_ssc0000255.1_g000070
rosa_roxburghii	Rroxscaffold_4G00308820
rosa_rugosa	Rorug01G0178000 Rorug01G0178100 Rorug01G0178200
rosa_samantha	Rh1AG197500 Rh1BG162800 Rh1CG182500 Rh1DG193400
rosa_wichuraiana	Rw1G016330 Rw1G016580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	327
AciI	CCGC	1 cut(s)	195
AclWI	GGATC	1 cut(s)	383
AcsI	RAATTY	2 cut(s)	307, 467
AcuI	CTGAAG	2 cut(s)	37, 612
AfaI	GTAC	4 cut(s)	191, 339, 350, 591
AfiI	CCNNNNNNNGG	2 cut(s)	599, 600
AgsI	TTSAA	1 cut(s)	286
AjnI	CCWGG	1 cut(s)	373
AjuI	GAANNNNNNNTTGG	2 cut(s)	114, 146
AluBI	AGCT	2 cut(s)	51, 57
AluI	AGCT	2 cut(s)	51, 57
AlwI	GGATC	1 cut(s)	383
AoxI	GGCC	2 cut(s)	169, 376
ApeKI	GCWGC	1 cut(s)	545
ApoI	RAATTY	2 cut(s)	307, 467
ArsI	GACNNNNNNTTYG	2 cut(s)	257, 289
AspS9I	GGNCC	1 cut(s)	377
AsuC2I	CCSGG	1 cut(s)	461
AsuHPI	GGTGA	1 cut(s)	119
BanII	GRGCYC	1 cut(s)	690
BbvI	GCAGC	1 cut(s)	557
BccI	CCATC	2 cut(s)	87, 658
BceAI	ACGGC	2 cut(s)	156, 318
BciT130I	CCWGG	1 cut(s)	375
BciVI	GTATCC	1 cut(s)	612
BclI	TGATCA	2 cut(s)	277, 480
BcnI	CCSGG	1 cut(s)	461
BfuI	GTATCC	1 cut(s)	612
BisI	GCNGC	1 cut(s)	546
BlsI	GCNGC	1 cut(s)	547
BmcAI	AGTACT	1 cut(s)	191
Bme1390I	CCNGG	2 cut(s)	375, 461
BmgT120I	GGNCC	1 cut(s)	377
BmiI	GGNNCC	2 cut(s)	152, 687
BmrFI	CCNGG	2 cut(s)	375, 461
BmsI	GCATC	2 cut(s)	394, 647
BpuMI	CCSGG	1 cut(s)	461
BsaBI	GATNNNNATC	1 cut(s)	438
BsaJI	CCNNGG	2 cut(s)	8, 198
Bsc4I	CCNNNNNNNGG	2 cut(s)	599, 600
Bse3DI	GCAATG	2 cut(s)	239, 567
Bse8I	GATNNNNATC	1 cut(s)	438
BseBI	CCWGG	1 cut(s)	375
BseDI	CCNNGG	2 cut(s)	8, 198
BseGI	GGATG	2 cut(s)	328, 638
BseJI	GATNNNNATC	1 cut(s)	438
BseLI	CCNNNNNNNGG	2 cut(s)	599, 600
BseMI	GCAATG	2 cut(s)	239, 567
BseMII	CTCAG	1 cut(s)	573
BseXI	GCAGC	1 cut(s)	557
BshFI	GGCC	2 cut(s)	171, 378
BsiSI	CCGG	1 cut(s)	460
BslFI	GGGAC	1 cut(s)	216
BslI	CCNNNNNNNGG	2 cut(s)	599, 600
BsmFI	GGGAC	1 cut(s)	216
BsnI	GGCC	2 cut(s)	171, 378
Bsp1286I	GDGCHC	1 cut(s)	690
Bsp1407I	TGTACA	1 cut(s)	348
Bsp143I	GATC	5 cut(s)	124, 277, 388, 480, 528
Bsp19I	CCATGG	1 cut(s)	198
BspACI	CCGC	1 cut(s)	195
BspANI	GGCC	2 cut(s)	171, 378
BspCNI	CTCAG	1 cut(s)	574
BspHI	TCATGA	1 cut(s)	660
BspLI	GGNNCC	2 cut(s)	152, 687
BspPI	GGATC	1 cut(s)	383
BsrDI	GCAATG	2 cut(s)	239, 567
BsrGI	TGTACA	1 cut(s)	348
BssECI	CCNNGG	2 cut(s)	8, 198
BssMI	GATC	5 cut(s)	124, 277, 388, 480, 528
BssT1I	CCWWGG	2 cut(s)	8, 198
Bst2UI	CCWGG	1 cut(s)	375
Bst4CI	ACNGT	1 cut(s)	111
BstAUI	TGTACA	1 cut(s)	348
BstC8I	GCNNGC	3 cut(s)	59, 155, 675
BstDEI	CTNAG	1 cut(s)	582
BstDSI	CCRYGG	1 cut(s)	198
BstF5I	GGATG	2 cut(s)	328, 638
BstKTI	GATC	5 cut(s)	127, 280, 391, 483, 531
BstMBI	GATC	5 cut(s)	124, 277, 388, 480, 528
BstMWI	GCNNNNNNNGC	1 cut(s)	238
BstNI	CCWGG	1 cut(s)	375
BstNSI	RCATGY	2 cut(s)	677, 681
BstSCI	CCNGG	2 cut(s)	373, 459
BstV1I	GCAGC	1 cut(s)	557
BsuI	GTATCC	1 cut(s)	612
BsuRI	GGCC	2 cut(s)	171, 378
BtgI	CCRYGG	1 cut(s)	198
BtsCI	GGATG	2 cut(s)	328, 638
Cac8I	GCNNGC	3 cut(s)	59, 155, 675
CciI	TCATGA	1 cut(s)	660
Cfr13I	GGNCC	1 cut(s)	377
Csp6I	GTAC	4 cut(s)	190, 338, 349, 590
CviAII	CATG	5 cut(s)	199, 596, 661, 674, 678
CviJI	RGCY	8 cut(s)	51, 57, 153, 157, 171, 378, 578, 688
CviKI_1	RGCY	8 cut(s)	51, 57, 153, 157, 171, 378, 578, 688
CviQI	GTAC	4 cut(s)	190, 338, 349, 590
DdeI	CTNAG	1 cut(s)	582
DpnI	GATC	5 cut(s)	126, 279, 390, 482, 530
DpnII	GATC	5 cut(s)	124, 277, 388, 480, 528
EciI	GGCGGA	1 cut(s)	184
Eco130I	CCWWGG	2 cut(s)	8, 198
Eco24I	GRGCYC	1 cut(s)	690
Eco32I	GATATC	2 cut(s)	118, 436
Eco57I	CTGAAG	2 cut(s)	37, 612
EcoRII	CCWGG	1 cut(s)	373
EcoRV	GATATC	2 cut(s)	118, 436
EcoT14I	CCWWGG	2 cut(s)	8, 198
EcoT22I	ATGCAT	2 cut(s)	640, 679
EcoT38I	GRGCYC	1 cut(s)	690
ErhI	CCWWGG	2 cut(s)	8, 198
FaeI	CATG	5 cut(s)	202, 599, 664, 677, 681
FaiI	YATR	6 cut(s)	200, 597, 636, 662, 675, 679
FalI	AAGNNNNNCTT	2 cut(s)	114, 146
FaqI	GGGAC	1 cut(s)	216
FatI	CATG	5 cut(s)	198, 595, 660, 673, 677
FbaI	TGATCA	2 cut(s)	277, 480
FblI	GTMKAC	1 cut(s)	327
Fnu4HI	GCNGC	1 cut(s)	546
FokI	GGATG	2 cut(s)	335, 625
FriOI	GRGCYC	1 cut(s)	690
Fsp4HI	GCNGC	1 cut(s)	546
GluI	GCNGC	1 cut(s)	546
HaeIII	GGCC	2 cut(s)	171, 378
HapII	CCGG	1 cut(s)	460
Hin1II	CATG	5 cut(s)	202, 599, 664, 677, 681
HinfI	GANTC	3 cut(s)	315, 421, 649
HpaII	CCGG	1 cut(s)	460
HphI	GGTGA	1 cut(s)	119
Hpy166II	GTNNAC	5 cut(s)	328, 338, 349, 371, 590
Hpy188I	TCNGA	3 cut(s)	115, 150, 413
Hpy188III	TCNNGA	5 cut(s)	253, 425, 443, 661, 683
Hpy8I	GTNNAC	5 cut(s)	328, 338, 349, 371, 590
Hpy99I	CGWCG	2 cut(s)	147, 150
HpyAV	CCTTC	3 cut(s)	140, 568, 598
HpyCH4III	ACNGT	1 cut(s)	111
HpyCH4V	TGCA	5 cut(s)	545, 560, 613, 638, 677
HpyF10VI	GCNNNNNNNGC	1 cut(s)	238
HpyF3I	CTNAG	1 cut(s)	582
Hsp92II	CATG	5 cut(s)	202, 599, 664, 677, 681
Ksp22I	TGATCA	2 cut(s)	277, 480
Kzo9I	GATC	5 cut(s)	124, 277, 388, 480, 528
LmnI	GCTCC	2 cut(s)	150, 685
LpnPI	CCDG	9 cut(s)	50, 167, 238, 360, 387, 410, 473, 506, 668
Lsp1109I	GCAGC	1 cut(s)	557
LweI	GCATC	2 cut(s)	394, 647
MaeIII	GTNAC	2 cut(s)	532, 646
MalI	GATC	5 cut(s)	126, 279, 390, 482, 530
MboI	GATC	5 cut(s)	124, 277, 388, 480, 528
MboII	GAAGA	5 cut(s)	125, 128, 131, 268, 476
MfeI	CAATTG	1 cut(s)	555
MhlI	GDGCHC	1 cut(s)	690
MluCI	AATT	6 cut(s)	29, 218, 307, 453, 467, 555
MlyI	GAGTC	1 cut(s)	643
MmeI	TCCRAC	1 cut(s)	128
MnlI	CCTC	6 cut(s)	161, 231, 290, 313, 406, 577
Mph1103I	ATGCAT	2 cut(s)	640, 679
MseI	TTAA	3 cut(s)	18, 32, 360
MspI	CCGG	1 cut(s)	460
MspR9I	CCNGG	2 cut(s)	375, 461
MunI	CAATTG	1 cut(s)	555
MvaI	CCWGG	1 cut(s)	375
MwoI	GCNNNNNNNGC	1 cut(s)	238
NciI	CCSGG	1 cut(s)	461
NcoI	CCATGG	1 cut(s)	198
NdeII	GATC	5 cut(s)	124, 277, 388, 480, 528
NlaIII	CATG	5 cut(s)	202, 599, 664, 677, 681
NlaIV	GGNNCC	2 cut(s)	152, 687
NmuCI	GTSAC	2 cut(s)	532, 646
NsiI	ATGCAT	2 cut(s)	640, 679
NspI	RCATGY	2 cut(s)	677, 681
PaeI	GCATGC	1 cut(s)	677
PagI	TCATGA	1 cut(s)	660
PfeI	GAWTC	2 cut(s)	315, 421
PflFI	GACNNNGTC	1 cut(s)	94
PkrI	GCNGC	1 cut(s)	547
PleI	GAGTC	1 cut(s)	643
PpsI	GAGTC	1 cut(s)	643
Psp6I	CCWGG	1 cut(s)	373
PspGI	CCWGG	1 cut(s)	373
PspN4I	GGNNCC	2 cut(s)	152, 687
PspPI	GGNCC	1 cut(s)	377
PsyI	GACNNNGTC	1 cut(s)	94
RsaI	GTAC	4 cut(s)	191, 339, 350, 591
RsaNI	GTAC	4 cut(s)	190, 338, 349, 590
SaqAI	TTAA	3 cut(s)	18, 32, 360
SatI	GCNGC	1 cut(s)	546
Sau3AI	GATC	5 cut(s)	124, 277, 388, 480, 528
Sau96I	GGNCC	1 cut(s)	377
ScaI	AGTACT	1 cut(s)	191
SchI	GAGTC	1 cut(s)	643
ScrFI	CCNGG	2 cut(s)	375, 461
SduI	GDGCHC	1 cut(s)	690
SetI	ASST	8 cut(s)	10, 53, 59, 132, 229, 273, 376, 609
SfaNI	GCATC	2 cut(s)	394, 647
SphI	GCATGC	1 cut(s)	677
Sse9I	AATT	6 cut(s)	29, 218, 307, 453, 467, 555
SsiI	CCGC	1 cut(s)	195
StyD4I	CCNGG	2 cut(s)	373, 459
StyI	CCWWGG	2 cut(s)	8, 198
TaaI	ACNGT	1 cut(s)	111
TaqI	TCGA	2 cut(s)	67, 318
TasI	AATT	6 cut(s)	29, 218, 307, 453, 467, 555
TatI	WGTACW	3 cut(s)	189, 337, 348
TfiI	GAWTC	2 cut(s)	315, 421
Tru1I	TTAA	3 cut(s)	18, 32, 360
Tru9I	TTAA	3 cut(s)	18, 32, 360
TseFI	GTSAC	2 cut(s)	532, 646
TseI	GCWGC	1 cut(s)	545
Tsp45I	GTSAC	2 cut(s)	532, 646
TspDTI	ATGAA	1 cut(s)	17
TspGWI	ACGGA	3 cut(s)	278, 462, 631
Tth111I	GACNNNGTC	1 cut(s)	94
XapI	RAATTY	2 cut(s)	307, 467
XceI	RCATGY	2 cut(s)	677, 681
XmiI	GTMKAC	1 cut(s)	327
ZrmI	AGTACT	1 cut(s)	191
Zsp2I	ATGCAT	2 cut(s)	640, 679

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