Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000006

Orthogroup ID

OG0003856

Physical Location & Seq

Genomic Coordinates Forward (+)

8035091 .. 8036620

Gene Structure 1530 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug06G0059700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 555 bp

ATGTCGATCAACAGGAGCATCCGACCCTCTGTCAATCTCCACGGCCCAGAATCAACTCCAGCTGTTAGTGCAGATAGTTCCAGGGATGCTCAGATACAGGGAGAGGAACTATGGACATTCTCAGATTTGGCCGCTGAAAATTTGTCAAGAGCTACTCGGTTATTATTTGAAGCACCCAATAACCTACCATCTAATGCTGGAGACCACAAGGGTCATAGTTCGACTTCAGCTAGCAGGGAAGGCTCTAATATTGTGATAACTTTAACTGACCCAGGACTGCTTGATTGCCCAATTTGCTGTGAACCCTTGACCGTTCCTGTCTTCCAGTGTGATCAAAATGGGCATCTAGCTTGCTCCTTGTGCTGCACCAAAATCAATAACAAATGCCCCTTTTGTTCCTGCCCCATTGGCTCCAATCGTTGCCGAGCCATCGAGAAGATTGTGGAGTCAAGTACAACTCGGTGCAAAAATATCAAGTACGGCTGCAATATTCCGGTGACTTACAACACGAAGAATGAACATGAAAAGACATGCCTTGTTCATGCCCTTATTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005623 GO:0005886 GO:0006464 GO:0006807 GO:0008150 GO:0008152 GO:0009314 GO:0009416 GO:0009605 GO:0009606 GO:0009628 GO:0009637 GO:0009638 GO:0009987 GO:0016020 GO:0016567 GO:0019538 GO:0032446 GO:0036211 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044464 GO:0050896 GO:0070647 GO:0071704 GO:0071944 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

BTB NPH3

Protein Analysis

184

Amino Acids

19.95

Weight (kDa)

6.57

Isoelectric Point (pI)

55.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sina_RING	PF21362	96 - 132	8.2e-08	E3 ubiquitin-protein ligase sina/sinah, RING finger

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)

Image

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0003856)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G64330 AT5G64330 AT5G64330
fragaria_vesca	FvH4_5g25720 FvH4_5g25720 FvH4_5g25720
malus_domestica	MD05G1047100.v1.1 MD10G1053800.v1.1
prunus_persica	Prupe.8G067500_v2.0.a1 Prupe.8G067500_v2.0.a1
pyrus_communis	pycom10g04060
rosa_chinensis	RchiOBHm_Chr6g0271301 RchiOBHm_Chr7g0216061
rosa_laevigata	RLG00000002597 RLG00000013726
rosa_multiflora	Rmu_sc0002356.1_g000004 Rmu_sc0004866.1_g000011
rosa_roxburghii	Rroxscaffold_3G00243680 Rroxscaffold_7G00197120
rosa_rugosa	Rorug06G0059500 Rorug06G0059600 Rorug06G0059700 Rorug07G0158400 Rorug07G0158500 Rorug07G0158600
rosa_samantha	Rh6AG179400 Rh6BG182500 Rh6CG179400 Rh6DG171100 Rh7AG295600 Rh7CG316000
rosa_wichuraiana	Rw6G015410 Rw6G015430 Rw7G025140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	132
AcoI	YGGCCR	1 cut(s)	129
AcsI	RAATTY	1 cut(s)	139
AcuI	CTGAAG	1 cut(s)	210
AfaI	GTAC	2 cut(s)	454, 479
AgsI	TTSAA	1 cut(s)	170
AhdI	GACNNNNNGTC	1 cut(s)	29
AjnI	CCWGG	2 cut(s)	80, 271
AluBI	AGCT	4 cut(s)	62, 152, 230, 350
AluI	AGCT	4 cut(s)	62, 152, 230, 350
Alw26I	GTCTC	1 cut(s)	195
AoxI	GGCC	2 cut(s)	43, 129
ApeKI	GCWGC	2 cut(s)	363, 483
ApoI	RAATTY	1 cut(s)	139
AspS9I	GGNCC	1 cut(s)	44
AsuHPI	GGTGA	1 cut(s)	508
AsuNHI	GCTAGC	1 cut(s)	230
BbsI	GAAGAC	1 cut(s)	313
BbvI	GCAGC	2 cut(s)	350, 470
BccI	CCATC	2 cut(s)	196, 437
BceAI	ACGGC	2 cut(s)	58, 496
BciT130I	CCWGG	2 cut(s)	82, 273
BclI	TGATCA	1 cut(s)	331
BcoDI	GTCTC	1 cut(s)	195
BfaI	CTAG	2 cut(s)	231, 347
BglI	GCCNNNNNGGC	1 cut(s)	408
BisI	GCNGC	3 cut(s)	132, 364, 484
BlsI	GCNGC	3 cut(s)	133, 365, 485
Bme1390I	CCNGG	2 cut(s)	82, 273
BmeRI	GACNNNNNGTC	1 cut(s)	29
BmgT120I	GGNCC	1 cut(s)	44
BmiI	GGNNCC	1 cut(s)	412
BmrFI	CCNGG	2 cut(s)	82, 273
BmsI	GCATC	3 cut(s)	27, 76, 352
BmtI	GCTAGC	1 cut(s)	234
BpiI	GAAGAC	1 cut(s)	313
BpmI	CTGGAG	2 cut(s)	42, 219
BsaI	GGTCTC	1 cut(s)	195
BsaJI	CCNNGG	3 cut(s)	40, 81, 271
BsaWI	WCCGGW	1 cut(s)	493
Bse1I	ACTGG	1 cut(s)	325
BseBI	CCWGG	2 cut(s)	82, 273
BseDI	CCNNGG	3 cut(s)	40, 81, 271
BseGI	GGATG	2 cut(s)	18, 91
BseMII	CTCAG	2 cut(s)	104, 135
BseNI	ACTGG	1 cut(s)	325
BseXI	GCAGC	2 cut(s)	350, 470
BsgI	GTGCAG	2 cut(s)	90, 349
BshFI	GGCC	2 cut(s)	45, 131
BsiSI	CCGG	1 cut(s)	494
BsmAI	GTCTC	1 cut(s)	195
BsnI	GGCC	2 cut(s)	45, 131
Bso31I	GGTCTC	1 cut(s)	195
Bsp143I	GATC	2 cut(s)	6, 331
BspACI	CCGC	1 cut(s)	132
BspANI	GGCC	2 cut(s)	45, 131
BspCNI	CTCAG	2 cut(s)	103, 134
BspLI	GGNNCC	1 cut(s)	412
BspOI	GCTAGC	1 cut(s)	234
BspTNI	GGTCTC	1 cut(s)	195
BsrI	ACTGG	1 cut(s)	325
BssECI	CCNNGG	3 cut(s)	40, 81, 271
BssMI	GATC	2 cut(s)	6, 331
Bst2UI	CCWGG	2 cut(s)	82, 273
Bst4CI	ACNGT	1 cut(s)	313
BstC8I	GCNNGC	2 cut(s)	232, 352
BstDEI	CTNAG	2 cut(s)	90, 121
BstDSI	CCRYGG	1 cut(s)	40
BstF5I	GGATG	2 cut(s)	18, 91
BstKTI	GATC	2 cut(s)	9, 334
BstMAI	GTCTC	1 cut(s)	195
BstMBI	GATC	2 cut(s)	6, 331
BstMWI	GCNNNNNNNGC	5 cut(s)	68, 240, 294, 360, 408
BstNI	CCWGG	2 cut(s)	82, 273
BstNSI	RCATGY	1 cut(s)	534
BstSCI	CCNGG	2 cut(s)	80, 271
BstV1I	GCAGC	2 cut(s)	350, 470
BstV2I	GAAGAC	1 cut(s)	313
BsuRI	GGCC	2 cut(s)	45, 131
BtgI	CCRYGG	1 cut(s)	40
BtsCI	GGATG	2 cut(s)	18, 91
BtsIMutI	CAGTG	1 cut(s)	332
Cac8I	GCNNGC	2 cut(s)	232, 352
Cfr13I	GGNCC	1 cut(s)	44
Csp6I	GTAC	2 cut(s)	453, 478
CviAII	CATG	3 cut(s)	521, 531, 542
CviQI	GTAC	2 cut(s)	453, 478
DdeI	CTNAG	2 cut(s)	90, 121
DpnI	GATC	2 cut(s)	8, 333
DpnII	GATC	2 cut(s)	6, 331
DriI	GACNNNNNGTC	1 cut(s)	29
EaeI	YGGCCR	1 cut(s)	129
Eam1105I	GACNNNNNGTC	1 cut(s)	29
Eco31I	GGTCTC	1 cut(s)	195
Eco57I	CTGAAG	1 cut(s)	210
EcoRII	CCWGG	2 cut(s)	80, 271
FaeI	CATG	3 cut(s)	524, 534, 545
FaiI	YATR	5 cut(s)	112, 216, 522, 532, 543
FatI	CATG	3 cut(s)	520, 530, 541
FbaI	TGATCA	1 cut(s)	331
Fnu4HI	GCNGC	3 cut(s)	132, 364, 484
FokI	GGATG	2 cut(s)	5, 98
Fsp4HI	GCNGC	3 cut(s)	132, 364, 484
FspBI	CTAG	2 cut(s)	231, 347
GluI	GCNGC	3 cut(s)	132, 364, 484
GsuI	CTGGAG	2 cut(s)	42, 219
HaeIII	GGCC	2 cut(s)	45, 131
HapII	CCGG	1 cut(s)	494
Hin1II	CATG	3 cut(s)	524, 534, 545
HinfI	GANTC	2 cut(s)	50, 446
HpaII	CCGG	1 cut(s)	494
HphI	GGTGA	1 cut(s)	508
Hpy166II	GTNNAC	1 cut(s)	302
Hpy188I	TCNGA	3 cut(s)	23, 93, 124
Hpy188III	TCNNGA	2 cut(s)	147, 433
Hpy8I	GTNNAC	1 cut(s)	302
HpyAV	CCTTC	1 cut(s)	233
HpyCH4III	ACNGT	1 cut(s)	313
HpyCH4V	TGCA	4 cut(s)	71, 366, 465, 486
HpyF10VI	GCNNNNNNNGC	5 cut(s)	68, 240, 294, 360, 408
HpyF3I	CTNAG	2 cut(s)	90, 121
Hsp92II	CATG	3 cut(s)	524, 534, 545
Ksp22I	TGATCA	1 cut(s)	331
Kzo9I	GATC	2 cut(s)	6, 331
LmnI	GCTCC	3 cut(s)	15, 359, 416
Lsp1109I	GCAGC	2 cut(s)	350, 470
LweI	GCATC	3 cut(s)	27, 76, 352
MaeI	CTAG	2 cut(s)	231, 347
MaeIII	GTNAC	1 cut(s)	496
MalI	GATC	2 cut(s)	8, 333
MboI	GATC	2 cut(s)	6, 331
MboII	GAAGA	3 cut(s)	313, 448, 523
MluCI	AATT	2 cut(s)	139, 291
MlyI	GAGTC	1 cut(s)	455
MmeI	TCCRAC	1 cut(s)	46
MnlI	CCTC	2 cut(s)	37, 97
MseI	TTAA	1 cut(s)	263
MspA1I	CMGCKG	2 cut(s)	62, 134
MspI	CCGG	1 cut(s)	494
MspR9I	CCNGG	2 cut(s)	82, 273
MvaI	CCWGG	2 cut(s)	82, 273
MwoI	GCNNNNNNNGC	5 cut(s)	68, 240, 294, 360, 408
NdeII	GATC	2 cut(s)	6, 331
NheI	GCTAGC	1 cut(s)	230
NlaIII	CATG	3 cut(s)	524, 534, 545
NlaIV	GGNNCC	1 cut(s)	412
NmeAIII	GCCGAG	1 cut(s)	449
NmuCI	GTSAC	1 cut(s)	496
NspI	RCATGY	1 cut(s)	534
PfeI	GAWTC	1 cut(s)	50
PkrI	GCNGC	3 cut(s)	133, 365, 485
PleI	GAGTC	1 cut(s)	454
PpsI	GAGTC	1 cut(s)	454
Psp6I	CCWGG	2 cut(s)	80, 271
PspGI	CCWGG	2 cut(s)	80, 271
PspN4I	GGNNCC	1 cut(s)	412
PspPI	GGNCC	1 cut(s)	44
PvuII	CAGCTG	1 cut(s)	62
RsaI	GTAC	2 cut(s)	454, 479
RsaNI	GTAC	2 cut(s)	453, 478
SaqAI	TTAA	1 cut(s)	263
SatI	GCNGC	3 cut(s)	132, 364, 484
Sau3AI	GATC	2 cut(s)	6, 331
Sau96I	GGNCC	1 cut(s)	44
SchI	GAGTC	1 cut(s)	455
ScrFI	CCNGG	2 cut(s)	82, 273
SetI	ASST	5 cut(s)	64, 154, 186, 232, 352
SfaNI	GCATC	3 cut(s)	27, 76, 352
Sse9I	AATT	2 cut(s)	139, 291
SsiI	CCGC	1 cut(s)	132
SspI	AATATT	2 cut(s)	250, 490
SspMI	CTAG	2 cut(s)	231, 347
StyD4I	CCNGG	2 cut(s)	80, 271
TaaI	ACNGT	1 cut(s)	313
TaqI	TCGA	3 cut(s)	5, 221, 432
TasI	AATT	2 cut(s)	139, 291
TatI	WGTACW	1 cut(s)	452
TauI	GCSGC	1 cut(s)	134
TfiI	GAWTC	1 cut(s)	50
Tru1I	TTAA	1 cut(s)	263
Tru9I	TTAA	1 cut(s)	263
TscAI	CASTG	1 cut(s)	332
TseFI	GTSAC	1 cut(s)	496
TseI	GCWGC	2 cut(s)	363, 483
Tsp45I	GTSAC	1 cut(s)	496
TspDTI	ATGAA	3 cut(s)	530, 531, 537
TspRI	CASTG	1 cut(s)	332
XapI	RAATTY	1 cut(s)	139
XceI	RCATGY	1 cut(s)	534
XspI	CTAG	2 cut(s)	231, 347

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