Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0002183

Physical Location & Seq

Genomic Coordinates Reverse (-)

4076008 .. 4079039

Gene Structure 3032 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0052600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 681 bp

ATGTCGGAAGAACCCGAGTATCGTTGCTTTATTGGTGGCCTTGCCTGGTCAACGTCTGATAGGAGTCTAAAAGAAGCTTTTGACAAGTATGGGAAGCTTGTTGAAGCCAAGGTTGTTGTTGATAAGTTCTCGGGGCGCTCTCGTGGATTTGGATTTGTCACTTTTGATGACAAAAAAGCAATGGAAGAGGCAATTGAGGAAATGAATGGAATCGATTTAGACGGACGGACTATCACTGTTGATAAAGCTCAGCCTCACCAAGGTTCAGGTAGAGATTATGATGGTGACCGCAGCCGTGATCGTGGCGGCCGCGATCGTGACCGTGGTCGTGATTATGGAGGTGGCGGACGTGGATCTGGTGGTGGGGGAGATTGCTTCAAGTGTGGCAAGCCAGGACATTTTGCAAGGGAGTGTCCTAGTGGTGAAGTTTCAAGAGGAGGTGGCAGCAGGTATGGTGGTAGGGATGATAAGTACAGTGGAGGAGGAGGAGGTGGTGGTGGTAGCCGCTATGGAGACCGAAATGGAGGAGGAGGAGGGCCTGATCGAAATGGAGACCGATACAGTGGCCGCAGCAGGGATTCTGGTTCTGGTGGTCGTTCAAGCTCTGGAAGCGATCGTTTCAGTCGTGACCGCTCTGGTCCATATGAGCGTCGGGGGACAGGAGGTTTCCGCTCTGGATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005783 GO:0005794 GO:0005802 GO:0005829 GO:0006810 GO:0008150 GO:0012505 GO:0016192 GO:0031410 GO:0031982 GO:0031984 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044431 GO:0044444 GO:0044446 GO:0044464 GO:0051179 GO:0051234 GO:0097708 GO:0098791

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PRA1

Protein Analysis

226

Amino Acids

23.94

Weight (kDa)

9.17

Isoelectric Point (pI)

46.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	10 - 79	1.2e-21	RNA recognition motif
zf-CCHC	PF00098	125 - 140	1.1e-07	Zinc knuckle

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002183)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G38360 AT4G00005 AT5G01640
fragaria_vesca	FvH4_3g04281 FvH4_6g10630
malus_domestica	MD04G1166500.v1.1
prunus_persica	Prupe.6G284700_v2.0.a1
pyrus_communis	pycom04g14790 pycom12g16960
rosa_chinensis	RchiOBHm_Chr1g0318921 RchiOBHm_Chr2g0158611 RchiOBHm_Chr2g0165361 RchiOBHm_Chr2g0174561 RchiOBHm_Chr3g0461651 RchiOBHm_Chr5g0045301
rosa_laevigata	RLG00000024910
rosa_multiflora	Rmu_sc0003578.1_g000005 Rmu_sc0004520.1_g000006 Rmu_sc0010437.1_g000003 Rmu_sc0012406.1_g000008 Rmu_sc0033441.1_g000001
rosa_roxburghii	Rroxscaffold_1G00036960 Rroxscaffold_1G00048160 Rroxscaffold_6G00418070 Rroxscaffold_7G00216470
rosa_rugosa	Rorug01G0391100 Rorug01G0391200 Rorug03G0052600 Rorug05G0383700 Rorug06G0135300 Rorug06G0135400 Rorug06G0135500 Rorug06G0135600 Rorug07G0123000
rosa_samantha	Rh1AG037100 Rh1BG158700 Rh1DG189600 Rh2CG632900 Rh3AG110900 Rh3BG113900 Rh3CG115900 Rh3DG115800
rosa_wichuraiana	Rw6G041740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	438
AccBSI	CCGCTC	2 cut(s)	633, 672
AccII	CGCG	1 cut(s)	312
AciI	CCGC	8 cut(s)	289, 306, 310, 345, 505, 568, 631, 670
AclWI	GGATC	1 cut(s)	361
AcoI	YGGCCR	2 cut(s)	307, 565
AfaI	GTAC	1 cut(s)	473
AfiI	CCNNNNNNNGG	2 cut(s)	260, 574
AgsI	TTSAA	4 cut(s)	104, 379, 432, 600
AjiI	CACGTC	1 cut(s)	350
AjnI	CCWGG	2 cut(s)	44, 391
AluBI	AGCT	4 cut(s)	77, 97, 248, 603
AluI	AGCT	4 cut(s)	77, 97, 248, 603
Alw26I	GTCTC	2 cut(s)	507, 546
AlwI	GGATC	1 cut(s)	361
Ama87I	CYCGRG	2 cut(s)	14, 130
AoxI	GGCC	4 cut(s)	37, 307, 536, 565
ApeKI	GCWGC	3 cut(s)	291, 444, 570
AspLEI	GCGC	1 cut(s)	138
AspS9I	GGNCC	2 cut(s)	536, 638
AsuHPI	GGTGA	3 cut(s)	248, 296, 434
AvaI	CYCGRG	2 cut(s)	14, 130
AvaII	GGWCC	1 cut(s)	638
BaeI	ACNNNNGTAYC	1 cut(s)	35
BauI	CACGAG	1 cut(s)	141
BbvI	GCAGC	3 cut(s)	303, 456, 582
BccI	CCATC	1 cut(s)	275
BceAI	ACGGC	1 cut(s)	279
BciT130I	CCWGG	2 cut(s)	46, 393
BcoDI	GTCTC	2 cut(s)	507, 546
BfaI	CTAG	1 cut(s)	417
BfoI	RGCGCY	1 cut(s)	139
BfuAI	ACCTGC	1 cut(s)	438
BisI	GCNGC	7 cut(s)	292, 307, 310, 445, 505, 568, 571
BlpI	GCTNAGC	1 cut(s)	249
BlsI	GCNGC	7 cut(s)	293, 308, 311, 446, 506, 569, 572
Bme1390I	CCNGG	2 cut(s)	46, 393
Bme18I	GGWCC	1 cut(s)	638
BmeT110I	CYCGRG	2 cut(s)	14, 130
BmgBI	CACGTC	1 cut(s)	350
BmgT120I	GGNCC	2 cut(s)	536, 638
BmrFI	CCNGG	2 cut(s)	46, 393
BoxI	GACNNNNGTC	1 cut(s)	324
Bpu1102I	GCTNAGC	1 cut(s)	249
Bsa29I	ATCGAT	1 cut(s)	213
BsaI	GGTCTC	2 cut(s)	507, 546
BsaJI	CCNNGG	3 cut(s)	108, 259, 322
Bsc4I	CCNNNNNNNGG	2 cut(s)	260, 574
Bse3DI	GCAATG	1 cut(s)	186
BseBI	CCWGG	2 cut(s)	46, 393
BseCI	ATCGAT	1 cut(s)	213
BseDI	CCNNGG	3 cut(s)	108, 259, 322
BseGI	GGATG	1 cut(s)	469
BseLI	CCNNNNNNNGG	2 cut(s)	260, 574
BseMI	GCAATG	1 cut(s)	186
BseMII	CTCAG	1 cut(s)	263
BseRI	GAGGAG	7 cut(s)	450, 495, 498, 501, 540, 543, 546
BseX3I	CGGCCG	1 cut(s)	307
BseXI	GCAGC	3 cut(s)	303, 456, 582
Bsh1236I	CGCG	1 cut(s)	312
Bsh1285I	CGRYCG	3 cut(s)	310, 316, 616
BshFI	GGCC	4 cut(s)	39, 309, 538, 567
BshVI	ATCGAT	1 cut(s)	213
BsiEI	CGRYCG	3 cut(s)	310, 316, 616
BsiHKCI	CYCGRG	2 cut(s)	14, 130
BslFI	GGGAC	1 cut(s)	670
BslI	CCNNNNNNNGG	2 cut(s)	260, 574
BsmAI	GTCTC	2 cut(s)	507, 546
BsmFI	GGGAC	1 cut(s)	670
BsnI	GGCC	4 cut(s)	39, 309, 538, 567
Bso31I	GGTCTC	2 cut(s)	507, 546
BsoBI	CYCGRG	2 cut(s)	14, 130
Bsp143I	GATC	5 cut(s)	298, 313, 353, 541, 613
Bsp1720I	GCTNAGC	1 cut(s)	249
BspACI	CCGC	8 cut(s)	289, 306, 310, 345, 505, 568, 631, 670
BspANI	GGCC	4 cut(s)	39, 309, 538, 567
BspCNI	CTCAG	1 cut(s)	262
BspDI	ATCGAT	1 cut(s)	213
BspFNI	CGCG	1 cut(s)	312
BspMI	ACCTGC	1 cut(s)	438
BspPI	GGATC	1 cut(s)	361
BspTNI	GGTCTC	2 cut(s)	507, 546
BsrBI	CCGCTC	2 cut(s)	633, 672
BsrDI	GCAATG	1 cut(s)	186
BssECI	CCNNGG	3 cut(s)	108, 259, 322
BssMI	GATC	5 cut(s)	298, 313, 353, 541, 613
BssSI	CACGAG	1 cut(s)	141
BssT1I	CCWWGG	2 cut(s)	108, 259
Bst2BI	CACGAG	1 cut(s)	141
Bst2UI	CCWGG	2 cut(s)	46, 393
Bst4CI	ACNGT	4 cut(s)	238, 323, 476, 563
Bst6I	CTCTTC	1 cut(s)	180
BstC8I	GCNNGC	1 cut(s)	389
BstDEI	CTNAG	1 cut(s)	249
BstDSI	CCRYGG	1 cut(s)	322
BstEII	GGTNACC	1 cut(s)	284
BstENI	CCTNNNNNAGG	1 cut(s)	258
BstF5I	GGATG	1 cut(s)	469
BstFNI	CGCG	1 cut(s)	312
BstH2I	RGCGCY	1 cut(s)	139
BstHHI	GCGC	1 cut(s)	138
BstKTI	GATC	5 cut(s)	301, 316, 356, 544, 616
BstMAI	GTCTC	2 cut(s)	507, 546
BstMBI	GATC	5 cut(s)	298, 313, 353, 541, 613
BstMCI	CGRYCG	3 cut(s)	310, 316, 616
BstMWI	GCNNNNNNNGC	1 cut(s)	609
BstNI	CCWGG	2 cut(s)	46, 393
BstPAI	GACNNNNGTC	1 cut(s)	324
BstPI	GGTNACC	1 cut(s)	284
BstSCI	CCNGG	2 cut(s)	44, 391
BstUI	CGCG	1 cut(s)	312
BstV1I	GCAGC	3 cut(s)	303, 456, 582
BstX2I	RGATCY	1 cut(s)	353
BstYI	RGATCY	1 cut(s)	353
BstZI	CGGCCG	1 cut(s)	307
Bsu15I	ATCGAT	1 cut(s)	213
BsuRI	GGCC	4 cut(s)	39, 309, 538, 567
BsuTUI	ATCGAT	1 cut(s)	213
BtgI	CCRYGG	1 cut(s)	322
BtrI	CACGTC	1 cut(s)	350
BtsCI	GGATG	1 cut(s)	469
BtsIMutI	CAGTG	3 cut(s)	234, 481, 568
BveI	ACCTGC	1 cut(s)	438
Cac8I	GCNNGC	1 cut(s)	389
CciNI	GCGGCCGC	1 cut(s)	307
CfoI	GCGC	1 cut(s)	138
Cfr13I	GGNCC	2 cut(s)	536, 638
ClaI	ATCGAT	1 cut(s)	213
CseI	GACGC	1 cut(s)	638
Csp6I	GTAC	1 cut(s)	472
CviQI	GTAC	1 cut(s)	472
DdeI	CTNAG	1 cut(s)	249
DpnI	GATC	5 cut(s)	300, 315, 355, 543, 615
DpnII	GATC	5 cut(s)	298, 313, 353, 541, 613
EaeI	YGGCCR	2 cut(s)	307, 565
EagI	CGGCCG	1 cut(s)	307
Eam1104I	CTCTTC	1 cut(s)	180
EarI	CTCTTC	1 cut(s)	180
EciI	GGCGGA	1 cut(s)	360
EclXI	CGGCCG	1 cut(s)	307
Eco130I	CCWWGG	2 cut(s)	108, 259
Eco31I	GGTCTC	2 cut(s)	507, 546
Eco47I	GGWCC	1 cut(s)	638
Eco52I	CGGCCG	1 cut(s)	307
Eco88I	CYCGRG	2 cut(s)	14, 130
Eco91I	GGTNACC	1 cut(s)	284
EcoNI	CCTNNNNNAGG	1 cut(s)	258
EcoO109I	RGGNCCY	1 cut(s)	536
EcoO65I	GGTNACC	1 cut(s)	284
EcoRII	CCWGG	2 cut(s)	44, 391
EcoT14I	CCWWGG	2 cut(s)	108, 259
ErhI	CCWWGG	2 cut(s)	108, 259
FaiI	YATR	7 cut(s)	90, 279, 336, 453, 510, 643, 645
FaqI	GGGAC	1 cut(s)	670
FauNDI	CATATG	1 cut(s)	643
Fnu4HI	GCNGC	7 cut(s)	292, 307, 310, 445, 505, 568, 571
FokI	GGATG	1 cut(s)	476
Fsp4HI	GCNGC	7 cut(s)	292, 307, 310, 445, 505, 568, 571
FspBI	CTAG	1 cut(s)	417
GlaI	GCGC	1 cut(s)	137
GluI	GCNGC	7 cut(s)	292, 307, 310, 445, 505, 568, 571
HaeII	RGCGCY	1 cut(s)	139
HaeIII	GGCC	4 cut(s)	39, 309, 538, 567
HgaI	GACGC	1 cut(s)	638
HhaI	GCGC	1 cut(s)	138
Hin6I	GCGC	1 cut(s)	136
HinP1I	GCGC	1 cut(s)	136
HincII	GTYRAC	1 cut(s)	51
HindII	GTYRAC	1 cut(s)	51
HindIII	AAGCTT	2 cut(s)	75, 95
HinfI	GANTC	3 cut(s)	64, 210, 578
HphI	GGTGA	3 cut(s)	248, 296, 434
Hpy166II	GTNNAC	1 cut(s)	51
Hpy188I	TCNGA	2 cut(s)	7, 58
Hpy188III	TCNNGA	6 cut(s)	317, 329, 432, 606, 626, 675
Hpy8I	GTNNAC	1 cut(s)	51
Hpy99I	CGWCG	1 cut(s)	654
HpyCH4III	ACNGT	4 cut(s)	238, 323, 476, 563
HpyCH4IV	ACGT	2 cut(s)	53, 349
HpyCH4V	TGCA	1 cut(s)	404
HpyF10VI	GCNNNNNNNGC	1 cut(s)	609
HpyF3I	CTNAG	1 cut(s)	249
HpySE526I	ACGT	2 cut(s)	53, 349
HspAI	GCGC	1 cut(s)	136
Kzo9I	GATC	5 cut(s)	298, 313, 353, 541, 613
Lsp1109I	GCAGC	3 cut(s)	303, 456, 582
MaeI	CTAG	1 cut(s)	417
MaeII	ACGT	2 cut(s)	53, 349
MaeIII	GTNAC	4 cut(s)	157, 284, 317, 626
MalI	GATC	5 cut(s)	300, 315, 355, 543, 615
MbiI	CCGCTC	2 cut(s)	633, 672
MboI	GATC	5 cut(s)	298, 313, 353, 541, 613
MboII	GAAGA	2 cut(s)	20, 197
MfeI	CAATTG	1 cut(s)	192
MflI	RGATCY	1 cut(s)	353
MluCI	AATT	1 cut(s)	192
MlyI	GAGTC	1 cut(s)	73
MspR9I	CCNGG	2 cut(s)	46, 393
MunI	CAATTG	1 cut(s)	192
MvaI	CCWGG	2 cut(s)	46, 393
MvnI	CGCG	1 cut(s)	312
MwoI	GCNNNNNNNGC	1 cut(s)	609
NdeI	CATATG	1 cut(s)	643
NdeII	GATC	5 cut(s)	298, 313, 353, 541, 613
NmuCI	GTSAC	4 cut(s)	157, 284, 317, 626
NotI	GCGGCCGC	1 cut(s)	307
PcsI	WCGNNNNNNNCGW	1 cut(s)	622
PfeI	GAWTC	2 cut(s)	210, 578
PkrI	GCNGC	7 cut(s)	293, 308, 311, 446, 506, 569, 572
Ple19I	CGATCG	2 cut(s)	316, 616
PleI	GAGTC	1 cut(s)	72
PpsI	GAGTC	1 cut(s)	72
PshAI	GACNNNNGTC	1 cut(s)	324
Psp6I	CCWGG	2 cut(s)	44, 391
PspEI	GGTNACC	1 cut(s)	284
PspGI	CCWGG	2 cut(s)	44, 391
PspPI	GGNCC	2 cut(s)	536, 638
PsuI	RGATCY	1 cut(s)	353
PvuI	CGATCG	2 cut(s)	316, 616
RsaI	GTAC	1 cut(s)	473
RsaNI	GTAC	1 cut(s)	472
SatI	GCNGC	7 cut(s)	292, 307, 310, 445, 505, 568, 571
Sau3AI	GATC	5 cut(s)	298, 313, 353, 541, 613
Sau96I	GGNCC	2 cut(s)	536, 638
SchI	GAGTC	1 cut(s)	73
ScrFI	CCNGG	2 cut(s)	46, 393
SinI	GGWCC	1 cut(s)	638
Sse9I	AATT	1 cut(s)	192
SsiI	CCGC	8 cut(s)	289, 306, 310, 345, 505, 568, 631, 670
SspMI	CTAG	1 cut(s)	417
StyD4I	CCNGG	2 cut(s)	44, 391
StyI	CCWWGG	2 cut(s)	108, 259
TaaI	ACNGT	4 cut(s)	238, 323, 476, 563
TaiI	ACGT	2 cut(s)	56, 352
TaqI	TCGA	2 cut(s)	213, 544
TaqII	GACCGA	2 cut(s)	531, 570
TasI	AATT	1 cut(s)	192
TatI	WGTACW	1 cut(s)	471
TauI	GCSGC	4 cut(s)	309, 312, 507, 570
TfiI	GAWTC	2 cut(s)	210, 578
TscAI	CASTG	3 cut(s)	241, 481, 568
TseFI	GTSAC	4 cut(s)	157, 284, 317, 626
TseI	GCWGC	3 cut(s)	291, 444, 570
Tsp45I	GTSAC	4 cut(s)	157, 284, 317, 626
TspDTI	ATGAA	1 cut(s)	218
TspGWI	ACGGA	2 cut(s)	237, 241
TspRI	CASTG	3 cut(s)	241, 481, 568
VpaK11BI	GGWCC	1 cut(s)	638
XagI	CCTNNNNNAGG	1 cut(s)	258
XspI	CTAG	1 cut(s)	417

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