Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000006

Orthogroup ID

OG0004494

Physical Location & Seq

Genomic Coordinates Forward (+)

55091135 .. 55091800

Gene Structure 666 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug06G0408000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 666 bp

ATGCCCAAGAAAACCCAAGGCCGGAAGAAAATCGAGATCAAGCGGATAGAGAATTCGAGCAATAAACAAGTCACCTTCTCAAAGCGCCGCGCCGGCATATTCAAGAAGGCTGGCGAGTTAAGCGTGCTATGTGGCGCGCACATGGCAGTCATCGTGTTCTCTAGTGCCAACAAGGTGTTCTGTTATGGGCACCCAGACATCCATGCAGTGATTGAGAGCTATCAAAATGGGCTCAACTCTGTAGTCGGAGTTGATGATAAGGCCCAGGAGGTTCTCATGGCGGAGTACAACAAAGAGTGCGAGGAGAAGCATAAGGAGGAAGACGAGTTGAAGAAGAAGATGGCGGAGACAAAAGCCAAGGCAAATGAGAAGAAGATGATGATGGAAAGAAGCACAAGCAGGAATCAGGTGCGTGGGGGATTTTGGTGGGATGAGCCGGTGGATTTCGTCATGCTGGAAGAGCGAGAGAGGGAGCAGTACATGATGGCATTGGAAACCTTGAGGAACAAGGTAGCTGATAAGGCTCATCACAAGAAGATTTTGAGTGGAACTATTGCCGGGACATCAGTTCCGGCTGTTCATCGACTTAATCATATGATGACACCCAATAATTGTTTTGGTACTGGTTTCGGTGATCAATATGGGAACCATGGTTTTGGAATTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000228 GO:0000731 GO:0003006 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006281 GO:0006301 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0007275 GO:0008150 GO:0008152 GO:0008622 GO:0009058 GO:0009059 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0018130 GO:0019438 GO:0019899 GO:0019985 GO:0022414 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0033554 GO:0034641 GO:0034645 GO:0034654 GO:0042276 GO:0042575 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0046483 GO:0048316 GO:0048518 GO:0048522 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051302 GO:0051716 GO:0051781 GO:0061458 GO:0061695 GO:0065007 GO:0070013 GO:0070182 GO:0071704 GO:0071897 GO:0090304 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03030 ko03410 ko03420 ko05166 map00230 map00240 map01100 map03030 map03410 map03420 map05166

Pfam Domains

Protein Families

DNA_pol_E_B Dpoe2NT

Protein Analysis

221

Amino Acids

25.08

Weight (kDa)

9.14

Isoelectric Point (pI)

44.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SRF-TF	PF00319	15 - 62	9.6e-24	SRF-type transcription factor (DNA-binding and dimerisation domain)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Image

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Publication-ready

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Orthologous Genes (Group: OG0004494)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G22110 AT5G22110
fragaria_vesca	FvH4_5g17980
malus_domestica	MD06G1235400.v1.1 MD14G1242400.v1.1
prunus_persica	Prupe.5G240100_v2.0.a1 Prupe.8G055400_v2.0.a1 Prupe.8G055400_v2.0.a1 Prupe.8G055400_v2.0.a1 Prupe.8G055400_v2.0.a1 Prupe.8G055400_v2.0.a1 Prupe.8G055400_v2.0.a1 Prupe.8G055400_v2.0.a1
pyrus_communis	pycom06g21030 pycom14g12970 pycom14g20380
rosa_chinensis	RchiOBHm_Chr7g0177621
rosa_laevigata	RLG00000005519 RLG00000005520
rosa_multiflora	Rmu_ssc0000330.1_g000015
rosa_roxburghii	Rroxscaffold_3G00275720
rosa_rugosa	Rorug06G0407900 Rorug06G0408000
rosa_samantha	Rh7AG007200 Rh7AG007300 Rh7BG007200 Rh7BG007300 Rh7CG007700 Rh7CG007800 Rh7DG007400 Rh7DG007500
rosa_wichuraiana	Rw7G000620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	189
AccII	CGCG	2 cut(s)	90, 137
AciI	CCGC	4 cut(s)	43, 88, 281, 344
AcsI	RAATTY	2 cut(s)	52, 660
AfaI	GTAC	3 cut(s)	287, 479, 622
AfiI	CCNNNNNNNGG	1 cut(s)	21
AgsI	TTSAA	2 cut(s)	103, 331
AjnI	CCWGG	1 cut(s)	264
AjuI	GAANNNNNNNTTGG	2 cut(s)	161, 193
AluBI	AGCT	2 cut(s)	219, 515
AluI	AGCT	2 cut(s)	219, 515
Alw26I	GTCTC	1 cut(s)	341
AoxI	GGCC	2 cut(s)	19, 261
ApoI	RAATTY	2 cut(s)	52, 660
AspLEI	GCGC	4 cut(s)	87, 92, 137, 139
AspS9I	GGNCC	1 cut(s)	262
AsuC2I	CCSGG	1 cut(s)	559
AsuHPI	GGTGA	2 cut(s)	64, 644
BaeGI	GKGCMC	1 cut(s)	192
BanI	GGYRCC	1 cut(s)	189
BanII	GRGCYC	1 cut(s)	234
BbsI	GAAGAC	1 cut(s)	327
BccI	CCATC	3 cut(s)	334, 376, 478
BciT130I	CCWGG	1 cut(s)	266
BclI	TGATCA	1 cut(s)	634
BcnI	CCSGG	1 cut(s)	559
BcoDI	GTCTC	1 cut(s)	341
BfaI	CTAG	1 cut(s)	162
BfmI	CTRYAG	1 cut(s)	240
BfoI	RGCGCY	1 cut(s)	88
BglI	GCCNNNNNGGC	1 cut(s)	93
BisI	GCNGC	1 cut(s)	88
BlsI	GCNGC	1 cut(s)	89
Bme1390I	CCNGG	2 cut(s)	266, 559
BmgT120I	GGNCC	1 cut(s)	262
BmiI	GGNNCC	2 cut(s)	191, 647
BmrFI	CCNGG	2 cut(s)	266, 559
BpiI	GAAGAC	1 cut(s)	327
BpuEI	CTTGAG	1 cut(s)	520
BpuMI	CCSGG	1 cut(s)	559
BsaJI	CCNNGG	4 cut(s)	16, 264, 357, 649
Bsc4I	CCNNNNNNNGG	1 cut(s)	21
Bse118I	RCCGGY	2 cut(s)	92, 436
Bse1I	ACTGG	1 cut(s)	628
BseBI	CCWGG	1 cut(s)	266
BseDI	CCNNGG	4 cut(s)	16, 264, 357, 649
BseGI	GGATG	2 cut(s)	198, 436
BseLI	CCNNNNNNNGG	1 cut(s)	21
BseNI	ACTGG	1 cut(s)	628
BsePI	GCGCGC	1 cut(s)	135
BseRI	GAGGAG	1 cut(s)	317
BseSI	GKGCMC	1 cut(s)	192
Bsh1236I	CGCG	2 cut(s)	90, 137
BshFI	GGCC	2 cut(s)	21, 263
BshNI	GGYRCC	1 cut(s)	189
BsiSI	CCGG	5 cut(s)	22, 93, 437, 558, 572
BslFI	GGGAC	1 cut(s)	574
BslI	CCNNNNNNNGG	1 cut(s)	21
BsmAI	GTCTC	1 cut(s)	341
BsmFI	GGGAC	1 cut(s)	574
BsnI	GGCC	2 cut(s)	21, 263
Bsp1286I	GDGCHC	2 cut(s)	192, 234
Bsp143I	GATC	2 cut(s)	36, 634
Bsp19I	CCATGG	1 cut(s)	649
BspACI	CCGC	4 cut(s)	43, 88, 281, 344
BspANI	GGCC	2 cut(s)	21, 263
BspFNI	CGCG	2 cut(s)	90, 137
BspLI	GGNNCC	2 cut(s)	191, 647
BspQI	GCTCTTC	1 cut(s)	453
BspT107I	GGYRCC	1 cut(s)	189
BsrFI	RCCGGY	2 cut(s)	92, 436
BsrI	ACTGG	1 cut(s)	628
BssAI	RCCGGY	2 cut(s)	92, 436
BssECI	CCNNGG	4 cut(s)	16, 264, 357, 649
BssHII	GCGCGC	1 cut(s)	135
BssMI	GATC	2 cut(s)	36, 634
BssT1I	CCWWGG	3 cut(s)	16, 357, 649
Bst2UI	CCWGG	1 cut(s)	266
Bst6I	CTCTTC	1 cut(s)	453
BstC8I	GCNNGC	4 cut(s)	94, 112, 125, 137
BstDSI	CCRYGG	1 cut(s)	649
BstF5I	GGATG	2 cut(s)	198, 436
BstFNI	CGCG	2 cut(s)	90, 137
BstH2I	RGCGCY	1 cut(s)	88
BstHHI	GCGC	4 cut(s)	87, 92, 137, 139
BstKTI	GATC	2 cut(s)	39, 637
BstMAI	GTCTC	1 cut(s)	341
BstMBI	GATC	2 cut(s)	36, 634
BstMWI	GCNNNNNNNGC	5 cut(s)	93, 120, 143, 460, 521
BstNI	CCWGG	1 cut(s)	266
BstSCI	CCNGG	2 cut(s)	264, 557
BstSFI	CTRYAG	1 cut(s)	240
BstSLI	GKGCMC	1 cut(s)	192
BstUI	CGCG	2 cut(s)	90, 137
BstV2I	GAAGAC	1 cut(s)	327
BstXI	CCANNNNNNTGG	1 cut(s)	656
BsuRI	GGCC	2 cut(s)	21, 263
BtgI	CCRYGG	1 cut(s)	649
BtsCI	GGATG	2 cut(s)	198, 436
BtsI	GCAGTG	1 cut(s)	213
BtsIMutI	CAGTG	1 cut(s)	213
Cac8I	GCNNGC	4 cut(s)	94, 112, 125, 137
CfoI	GCGC	4 cut(s)	87, 92, 137, 139
Cfr10I	RCCGGY	2 cut(s)	92, 436
Cfr13I	GGNCC	1 cut(s)	262
Csp6I	GTAC	3 cut(s)	286, 478, 621
CviAII	CATG	6 cut(s)	142, 203, 277, 451, 481, 650
CviQI	GTAC	3 cut(s)	286, 478, 621
DpnI	GATC	2 cut(s)	38, 636
DpnII	GATC	2 cut(s)	36, 634
Eam1104I	CTCTTC	1 cut(s)	453
EarI	CTCTTC	1 cut(s)	453
EciI	GGCGGA	2 cut(s)	296, 359
Eco130I	CCWWGG	3 cut(s)	16, 357, 649
Eco24I	GRGCYC	1 cut(s)	234
EcoRI	GAATTC	1 cut(s)	52
EcoRII	CCWGG	1 cut(s)	264
EcoT14I	CCWWGG	3 cut(s)	16, 357, 649
EcoT38I	GRGCYC	1 cut(s)	234
ErhI	CCWWGG	3 cut(s)	16, 357, 649
FaeI	CATG	6 cut(s)	145, 206, 280, 454, 484, 653
FaqI	GGGAC	1 cut(s)	574
FatI	CATG	6 cut(s)	141, 202, 276, 450, 480, 649
FauNDI	CATATG	1 cut(s)	594
FbaI	TGATCA	1 cut(s)	634
Fnu4HI	GCNGC	1 cut(s)	88
FokI	GGATG	2 cut(s)	185, 443
FriOI	GRGCYC	1 cut(s)	234
Fsp4HI	GCNGC	1 cut(s)	88
FspBI	CTAG	1 cut(s)	162
GlaI	GCGC	4 cut(s)	86, 91, 136, 138
GluI	GCNGC	1 cut(s)	88
HaeII	RGCGCY	1 cut(s)	88
HaeIII	GGCC	2 cut(s)	21, 263
HapII	CCGG	5 cut(s)	22, 93, 437, 558, 572
HhaI	GCGC	4 cut(s)	87, 92, 137, 139
Hin1II	CATG	6 cut(s)	145, 206, 280, 454, 484, 653
Hin6I	GCGC	4 cut(s)	85, 90, 135, 137
HinP1I	GCGC	4 cut(s)	85, 90, 135, 137
HinfI	GANTC	1 cut(s)	403
HpaII	CCGG	5 cut(s)	22, 93, 437, 558, 572
HphI	GGTGA	2 cut(s)	64, 644
Hpy188I	TCNGA	1 cut(s)	248
Hpy188III	TCNNGA	2 cut(s)	34, 103
HpyAV	CCTTC	2 cut(s)	85, 100
HpyCH4V	TGCA	1 cut(s)	206
HpyF10VI	GCNNNNNNNGC	5 cut(s)	93, 120, 143, 460, 521
Hsp92II	CATG	6 cut(s)	145, 206, 280, 454, 484, 653
HspAI	GCGC	4 cut(s)	85, 90, 135, 137
KroI	GCCGGC	1 cut(s)	92
KroNI	GCCGGC	1 cut(s)	94
Ksp22I	TGATCA	1 cut(s)	634
Kzo9I	GATC	2 cut(s)	36, 634
LguI	GCTCTTC	1 cut(s)	453
LmnI	GCTCC	1 cut(s)	472
MaeI	CTAG	1 cut(s)	162
MaeIII	GTNAC	1 cut(s)	70
MalI	GATC	2 cut(s)	38, 636
MboI	GATC	2 cut(s)	36, 634
MboII	GAAGA	9 cut(s)	37, 332, 343, 346, 349, 382, 385, 470, 547
MhlI	GDGCHC	2 cut(s)	192, 234
MluCI	AATT	3 cut(s)	52, 610, 660
MmeI	TCCRAC	1 cut(s)	226
MnlI	CCTC	5 cut(s)	262, 295, 310, 462, 495
MroNI	GCCGGC	1 cut(s)	92
MseI	TTAA	2 cut(s)	119, 588
MspI	CCGG	5 cut(s)	22, 93, 437, 558, 572
MspR9I	CCNGG	2 cut(s)	266, 559
MteI	GCGCNGCGC	1 cut(s)	88
MvaI	CCWGG	1 cut(s)	266
MvnI	CGCG	2 cut(s)	90, 137
MwoI	GCNNNNNNNGC	5 cut(s)	93, 120, 143, 460, 521
NaeI	GCCGGC	1 cut(s)	94
NciI	CCSGG	1 cut(s)	559
NcoI	CCATGG	1 cut(s)	649
NdeI	CATATG	1 cut(s)	594
NdeII	GATC	2 cut(s)	36, 634
NgoMIV	GCCGGC	1 cut(s)	92
NlaIII	CATG	6 cut(s)	145, 206, 280, 454, 484, 653
NlaIV	GGNNCC	2 cut(s)	191, 647
NmuCI	GTSAC	1 cut(s)	70
PauI	GCGCGC	1 cut(s)	135
PciSI	GCTCTTC	1 cut(s)	453
PdiI	GCCGGC	1 cut(s)	94
PfeI	GAWTC	1 cut(s)	403
PkrI	GCNGC	1 cut(s)	89
Psp6I	CCWGG	1 cut(s)	264
PspGI	CCWGG	1 cut(s)	264
PspN4I	GGNNCC	2 cut(s)	191, 647
PspPI	GGNCC	1 cut(s)	262
PteI	GCGCGC	1 cut(s)	135
RsaI	GTAC	3 cut(s)	287, 479, 622
RsaNI	GTAC	3 cut(s)	286, 478, 621
SapI	GCTCTTC	1 cut(s)	453
SaqAI	TTAA	2 cut(s)	119, 588
SatI	GCNGC	1 cut(s)	88
Sau3AI	GATC	2 cut(s)	36, 634
Sau96I	GGNCC	1 cut(s)	262
ScrFI	CCNGG	2 cut(s)	266, 559
SduI	GDGCHC	2 cut(s)	192, 234
SetI	ASST	8 cut(s)	77, 177, 221, 273, 411, 500, 513, 517
SfcI	CTRYAG	1 cut(s)	240
SmlI	CTYRAG	1 cut(s)	499
SmoI	CTYRAG	1 cut(s)	499
Sse9I	AATT	3 cut(s)	52, 610, 660
SsiI	CCGC	4 cut(s)	43, 88, 281, 344
SspMI	CTAG	1 cut(s)	162
StyD4I	CCNGG	2 cut(s)	264, 557
StyI	CCWWGG	3 cut(s)	16, 357, 649
TaqI	TCGA	3 cut(s)	33, 56, 583
TasI	AATT	3 cut(s)	52, 610, 660
TatI	WGTACW	2 cut(s)	285, 477
TauI	GCSGC	1 cut(s)	90
TfiI	GAWTC	1 cut(s)	403
Tru1I	TTAA	2 cut(s)	119, 588
Tru9I	TTAA	2 cut(s)	119, 588
TscAI	CASTG	1 cut(s)	213
TseFI	GTSAC	1 cut(s)	70
Tsp45I	GTSAC	1 cut(s)	70
TspDTI	ATGAA	1 cut(s)	569
TspRI	CASTG	1 cut(s)	213
XapI	RAATTY	2 cut(s)	52, 660
XspI	CTAG	1 cut(s)	162

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