Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0003731

Physical Location & Seq

Genomic Coordinates Forward (+)

34519589 .. 34520713

Gene Structure 1125 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0198100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 720 bp

ATGGGGGAAGTTAGCAAAGTTAGTGATTTGATTTCAGCTACGGGAGTTTGGAATGATGCTCTGATTCGAAGGCTGTTTGATAGGGAGGAGGCAGAGATCATATTAAACATCCCTCTTAGTCATAGGAATATACTTGATAGATTGACATTATCTCTTACAGAGTTGGGGGTGTTGATCTTCTTACTGTGGAGCATTTGGAAAGAAAGAAACTCTCGAGTCTGGGAGGGGAAGAGTGTGTTGGCTTGTGATGTTGTACTTAGAGCTGACACTCGTATGCAAGAGTTTCGTGTTCATAATACCAACTTTGCTCTGGCTAGTGCTCGAAGAAGAAGAGTGCAAACATGGGTGGCCCCATCAACAGGAGTGTTAAAGATCAATGTTGATGGCTCCTTTCATCATAACACTAGGTCTGGCGGCTTTGGTTTTGTGATCAGAGATTCAAGTGGTGCCATGTTAGCCGGAGGTGCAGGCCTTTTATGCGGACTGATATCATCAGAACATGCCGAAGTTTTGGCGTGTAGGAATGCAATTCGCTTTGCAATTGATAATGGCTTCGTTCCAGCTCTTTTGGAGACTGACGCACAAGAGGTGCAGCACCAACTTGCTGCCCAAGCTAGCCATAATGCCTCAGCCTCGGGACGTCTATATGAGGATATGAGTCTACTCTTGGATCCTCAAAATATTTTGACAGTTAGCTATGTTAGTAGAATGACAATGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0005737 GO:0005829 GO:0006325 GO:0006355 GO:0006357 GO:0006996 GO:0007010 GO:0007154 GO:0007165 GO:0007166 GO:0008150 GO:0008360 GO:0009889 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0016043 GO:0019219 GO:0019221 GO:0019222 GO:0022603 GO:0022604 GO:0023052 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0034097 GO:0038111 GO:0042221 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051128 GO:0051171 GO:0051252 GO:0051276 GO:0051716 GO:0060255 GO:0065007 GO:0065008 GO:0070013 GO:0070887 GO:0071310 GO:0071345 GO:0071840 GO:0080090 GO:0098760 GO:0098761 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Auxin_resp Bromodomain WD40

Protein Analysis

239

Amino Acids

26.44

Weight (kDa)

6.66

Isoelectric Point (pI)

48.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	126 - 236	5.5e-16	Reverse transcriptase-like

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0003731)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G49430 AT5G49430
fragaria_vesca	FvH4_4g19490 FvH4_4g19490 FvH4_4g19490 FvH4_4g19490 FvH4_4g19490 FvH4_4g19490 FvH4_4g19490 FvH4_4g19490 FvH4_4g19490
malus_domestica	MD13G1156100.v1.1 MD16G1157000.v1.1
prunus_persica	Prupe.1G121900_v2.0.a1 Prupe.1G121900_v2.0.a1
pyrus_communis	pycom13g13310 pycom13g13320 pycom13g13330 pycom13g13340 pycom13g13350 pycom16g13190 pycom16g13200
rosa_chinensis	RchiOBHm_Chr4g0424601
rosa_laevigata	RLG00000007452
rosa_multiflora	Rmu_co8472673.1_g000001
rosa_roxburghii	Rroxscaffold_5G00366520
rosa_rugosa	Rorug04G0198100 Rorug04G0198200 Rorug04G0198300
rosa_samantha	Rh4AG254900 Rh4BG260400 Rh4CG271900 Rh4DG255100
rosa_wichuraiana	Rw4G022040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	643
AccB1I	GGYRCC	1 cut(s)	446
AccI	GTMKAC	1 cut(s)	661
AciI	CCGC	2 cut(s)	414, 480
AclWI	GGATC	2 cut(s)	665, 678
AcyI	GRCGYC	1 cut(s)	640
AfaI	GTAC	1 cut(s)	255
AfiI	CCNNNNNNNGG	1 cut(s)	359
AgsI	TTSAA	1 cut(s)	441
AjuI	GAANNNNNNNTTGG	2 cut(s)	221, 253
AluBI	AGCT	5 cut(s)	38, 263, 563, 614, 696
AluI	AGCT	5 cut(s)	38, 263, 563, 614, 696
Alw21I	GWGCWC	1 cut(s)	322
Alw26I	GTCTC	1 cut(s)	566
AlwI	GGATC	2 cut(s)	665, 678
Ama87I	CYCGRG	2 cut(s)	213, 634
AoxI	GGCC	2 cut(s)	348, 469
ApeKI	GCWGC	2 cut(s)	592, 605
AspS9I	GGNCC	1 cut(s)	349
AsuII	TTCGAA	1 cut(s)	67
AsuNHI	GCTAGC	1 cut(s)	614
AvaI	CYCGRG	2 cut(s)	213, 634
BamHI	GGATCC	1 cut(s)	670
BanI	GGYRCC	1 cut(s)	446
Bbv12I	GWGCWC	1 cut(s)	322
BbvCI	CCTCAGC	1 cut(s)	628
BbvI	GCAGC	2 cut(s)	592, 604
BccI	CCATC	2 cut(s)	361, 377
BcgI	CGANNNNNNTGC	2 cut(s)	266, 300
BclI	TGATCA	1 cut(s)	429
BcoDI	GTCTC	1 cut(s)	566
BfaI	CTAG	3 cut(s)	315, 405, 615
BisI	GCNGC	3 cut(s)	415, 593, 606
BlsI	GCNGC	3 cut(s)	416, 594, 607
BmeT110I	CYCGRG	2 cut(s)	213, 634
BmgT120I	GGNCC	1 cut(s)	349
BmiI	GGNNCC	4 cut(s)	351, 388, 448, 672
BmsI	GCATC	1 cut(s)	46
BmtI	GCTAGC	1 cut(s)	618
Bpu10I	CCTNAGC	1 cut(s)	628
Bpu14I	TTCGAA	1 cut(s)	67
BsaHI	GRCGYC	1 cut(s)	640
BsaJI	CCNNGG	1 cut(s)	633
Bsc4I	CCNNNNNNNGG	1 cut(s)	359
BseDI	CCNNGG	1 cut(s)	633
BseGI	GGATG	1 cut(s)	108
BseLI	CCNNNNNNNGG	1 cut(s)	359
BseMII	CTCAG	1 cut(s)	642
BseRI	GAGGAG	1 cut(s)	101
BseXI	GCAGC	2 cut(s)	592, 604
BsgI	GTGCAG	2 cut(s)	486, 611
BshFI	GGCC	2 cut(s)	350, 471
BshNI	GGYRCC	1 cut(s)	446
BsiHKAI	GWGCWC	1 cut(s)	322
BsiHKCI	CYCGRG	2 cut(s)	213, 634
BsiSI	CCGG	1 cut(s)	459
BslFI	GGGAC	1 cut(s)	651
BslI	CCNNNNNNNGG	1 cut(s)	359
BsmAI	GTCTC	1 cut(s)	566
BsmFI	GGGAC	1 cut(s)	651
BsmI	GAATGC	1 cut(s)	529
BsnI	GGCC	2 cut(s)	350, 471
BsoBI	CYCGRG	2 cut(s)	213, 634
Bsp119I	TTCGAA	1 cut(s)	67
Bsp1286I	GDGCHC	1 cut(s)	322
Bsp143I	GATC	5 cut(s)	96, 174, 372, 429, 670
BspACI	CCGC	2 cut(s)	414, 480
BspANI	GGCC	2 cut(s)	350, 471
BspCNI	CTCAG	1 cut(s)	641
BspLI	GGNNCC	4 cut(s)	351, 388, 448, 672
BspOI	GCTAGC	1 cut(s)	618
BspPI	GGATC	2 cut(s)	665, 678
BspT104I	TTCGAA	1 cut(s)	67
BspT107I	GGYRCC	1 cut(s)	446
BssECI	CCNNGG	1 cut(s)	633
BssMI	GATC	5 cut(s)	96, 174, 372, 429, 670
BssNI	GRCGYC	1 cut(s)	640
Bst4CI	ACNGT	2 cut(s)	186, 691
Bst6I	CTCTTC	2 cut(s)	224, 325
BstACI	GRCGYC	1 cut(s)	640
BstBI	TTCGAA	1 cut(s)	67
BstC8I	GCNNGC	2 cut(s)	469, 616
BstDEI	CTNAG	3 cut(s)	116, 257, 628
BstF5I	GGATG	1 cut(s)	108
BstKTI	GATC	5 cut(s)	99, 177, 375, 432, 673
BstMAI	GTCTC	1 cut(s)	566
BstMBI	GATC	5 cut(s)	96, 174, 372, 429, 670
BstMWI	GCNNNNNNNGC	4 cut(s)	455, 464, 477, 611
BstNSI	RCATGY	1 cut(s)	503
BstV1I	GCAGC	2 cut(s)	592, 604
BstX2I	RGATCY	1 cut(s)	670
BstYI	RGATCY	1 cut(s)	670
BsuRI	GGCC	2 cut(s)	350, 471
BtsCI	GGATG	1 cut(s)	108
Cac8I	GCNNGC	2 cut(s)	469, 616
Cfr13I	GGNCC	1 cut(s)	349
CseI	GACGC	1 cut(s)	587
Csp6I	GTAC	1 cut(s)	254
CviAII	CATG	3 cut(s)	342, 451, 500
CviQI	GTAC	1 cut(s)	254
DdeI	CTNAG	3 cut(s)	116, 257, 628
DpnI	GATC	5 cut(s)	98, 176, 374, 431, 672
DpnII	GATC	5 cut(s)	96, 174, 372, 429, 670
Eam1104I	CTCTTC	2 cut(s)	224, 325
EarI	CTCTTC	2 cut(s)	224, 325
Eco147I	AGGCCT	1 cut(s)	471
Eco32I	GATATC	1 cut(s)	489
Eco88I	CYCGRG	2 cut(s)	213, 634
EcoRV	GATATC	1 cut(s)	489
FaeI	CATG	3 cut(s)	345, 454, 503
FaqI	GGGAC	1 cut(s)	651
FatI	CATG	3 cut(s)	341, 450, 499
FbaI	TGATCA	1 cut(s)	429
FblI	GTMKAC	1 cut(s)	661
Fnu4HI	GCNGC	3 cut(s)	415, 593, 606
FokI	GGATG	1 cut(s)	95
Fsp4HI	GCNGC	3 cut(s)	415, 593, 606
FspBI	CTAG	3 cut(s)	315, 405, 615
GluI	GCNGC	3 cut(s)	415, 593, 606
HaeIII	GGCC	2 cut(s)	350, 471
HapII	CCGG	1 cut(s)	459
HgaI	GACGC	1 cut(s)	587
Hin1I	GRCGYC	1 cut(s)	640
Hin1II	CATG	3 cut(s)	345, 454, 503
HinfI	GANTC	4 cut(s)	64, 216, 437, 658
HpaII	CCGG	1 cut(s)	459
Hpy166II	GTNNAC	1 cut(s)	662
Hpy188I	TCNGA	3 cut(s)	63, 434, 496
Hpy188III	TCNNGA	2 cut(s)	213, 636
Hpy8I	GTNNAC	1 cut(s)	662
HpyAV	CCTTC	1 cut(s)	63
HpyCH4III	ACNGT	2 cut(s)	186, 691
HpyCH4IV	ACGT	1 cut(s)	640
HpyCH4V	TGCA	6 cut(s)	277, 337, 467, 527, 539, 592
HpyF10VI	GCNNNNNNNGC	4 cut(s)	455, 464, 477, 611
HpyF3I	CTNAG	3 cut(s)	116, 257, 628
HpySE526I	ACGT	1 cut(s)	640
Hsp92I	GRCGYC	1 cut(s)	640
Hsp92II	CATG	3 cut(s)	345, 454, 503
Ksp22I	TGATCA	1 cut(s)	429
Kzo9I	GATC	5 cut(s)	96, 174, 372, 429, 670
LmnI	GCTCC	2 cut(s)	189, 392
LpnPI	CCDG	7 cut(s)	205, 296, 345, 396, 453, 472, 573
Lsp1109I	GCAGC	2 cut(s)	592, 604
LweI	GCATC	1 cut(s)	46
MaeI	CTAG	3 cut(s)	315, 405, 615
MaeII	ACGT	1 cut(s)	640
MalI	GATC	5 cut(s)	98, 176, 374, 431, 672
MboI	GATC	5 cut(s)	96, 174, 372, 429, 670
MboII	GAAGA	5 cut(s)	169, 241, 336, 339, 342
MfeI	CAATTG	1 cut(s)	540
MflI	RGATCY	1 cut(s)	670
MhlI	GDGCHC	1 cut(s)	322
MluCI	AATT	2 cut(s)	528, 540
MlyI	GAGTC	2 cut(s)	225, 667
MseI	TTAA	2 cut(s)	104, 368
MslI	CAYNNNNRTG	1 cut(s)	272
MspI	CCGG	1 cut(s)	459
MunI	CAATTG	1 cut(s)	540
Mva1269I	GAATGC	1 cut(s)	529
MwoI	GCNNNNNNNGC	4 cut(s)	455, 464, 477, 611
NdeII	GATC	5 cut(s)	96, 174, 372, 429, 670
NheI	GCTAGC	1 cut(s)	614
NlaIII	CATG	3 cut(s)	345, 454, 503
NlaIV	GGNNCC	4 cut(s)	351, 388, 448, 672
NspI	RCATGY	1 cut(s)	503
NspV	TTCGAA	1 cut(s)	67
PaeR7I	CTCGAG	1 cut(s)	213
PceI	AGGCCT	1 cut(s)	471
PctI	GAATGC	1 cut(s)	529
PfeI	GAWTC	2 cut(s)	64, 437
PkrI	GCNGC	3 cut(s)	416, 594, 607
PleI	GAGTC	2 cut(s)	224, 666
PpsI	GAGTC	2 cut(s)	224, 666
PspN4I	GGNNCC	4 cut(s)	351, 388, 448, 672
PspPI	GGNCC	1 cut(s)	349
PsuI	RGATCY	1 cut(s)	670
RsaI	GTAC	1 cut(s)	255
RsaNI	GTAC	1 cut(s)	254
RseI	CAYNNNNRTG	1 cut(s)	272
SaqAI	TTAA	2 cut(s)	104, 368
SatI	GCNGC	3 cut(s)	415, 593, 606
Sau3AI	GATC	5 cut(s)	96, 174, 372, 429, 670
Sau96I	GGNCC	1 cut(s)	349
SchI	GAGTC	2 cut(s)	225, 667
SduI	GDGCHC	1 cut(s)	322
SetI	ASST	9 cut(s)	40, 265, 410, 466, 565, 591, 616, 643, 698
SfaNI	GCATC	1 cut(s)	46
Sfr274I	CTCGAG	1 cut(s)	213
SfuI	TTCGAA	1 cut(s)	67
SlaI	CTCGAG	1 cut(s)	213
SmiMI	CAYNNNNRTG	1 cut(s)	272
SmlI	CTYRAG	1 cut(s)	213
SmoI	CTYRAG	1 cut(s)	213
Sse9I	AATT	2 cut(s)	528, 540
SseBI	AGGCCT	1 cut(s)	471
SsiI	CCGC	2 cut(s)	414, 480
SspI	AATATT	1 cut(s)	682
SspMI	CTAG	3 cut(s)	315, 405, 615
StuI	AGGCCT	1 cut(s)	471
TaaI	ACNGT	2 cut(s)	186, 691
TaiI	ACGT	1 cut(s)	643
TaqI	TCGA	3 cut(s)	67, 214, 322
TasI	AATT	2 cut(s)	528, 540
TatI	WGTACW	1 cut(s)	253
TauI	GCSGC	1 cut(s)	417
TfiI	GAWTC	2 cut(s)	64, 437
Tru1I	TTAA	2 cut(s)	104, 368
Tru9I	TTAA	2 cut(s)	104, 368
TseI	GCWGC	2 cut(s)	592, 605
TspDTI	ATGAA	2 cut(s)	281, 383
XceI	RCATGY	1 cut(s)	503
XcmI	CCANNNNNNNNNTGG	1 cut(s)	307
XhoI	CTCGAG	1 cut(s)	213
XmiI	GTMKAC	1 cut(s)	661
XspI	CTAG	3 cut(s)	315, 405, 615
ZraI	GACGTC	1 cut(s)	641

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