Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0001406

Physical Location & Seq

Genomic Coordinates Forward (+)

43908118 .. 43910502

Gene Structure 2385 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0351900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 561 bp

ATGGCATTCAGTACCAATCTCCTTGCCGCCGTCTTCACCGCCATGTTATTCATGCTGACATTCCACAGCTGCGGCGTGTCGGCACAGGCGCCGGGGCCAGCTCCTGAGGCGGCGACGGATTGCACCACGCAGCTGGTGACGTTGTCGGACTGCCTGACGTACGTGGAGGAAGGTAGCAACTTGACGAAGCCGGACAAGGCTTGCTGCCCGGAGCTGGCGACGCTGGTTAAAAGCACCCCCCAATGCTTGTGCTACTTGCTTCAGAAGAACAGTACCAGCAGCTACGGCATTGAAATCGACTTGAACAAAGCTCTTCATCTCCCTTCTGTTTGCAAAGTTGAGACCCCTCCTACCAGCGCCTGTGCACTTCTTGGAATACCAGTGGAAGCTCCCATGGCTTCTGAAGGGCCTACTGCTAACTCACCTGCTGGTTCGGAGCTAGCACCTCAAGGACCTTCTGCTTCCCAAGGAAACCAAGCAGACCATGGAGCTTCAACTACTGCTAAATCCCTTATGGCACTCTTTATTGGCTTAGCTATATCTCTTCCTACATTTTTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DUF4283 RVT_3 zf-CCHC_4

Protein Analysis

186

Amino Acids

19.14

Weight (kDa)

4.71

Isoelectric Point (pI)

47.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	26 - 121	7e-18	Probable lipid transfer
Tryp_alpha_amyl	PF00234	41 - 121	1.7e-11	Protease inhibitor/seed storage/LTP family

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

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

Orthologous Genes (Group: OG0001406)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g23711
prunus_persica	Prupe.1G407700_v2.0.a1 Prupe.3G281700_v2.0.a1
pyrus_communis	pycom08g05620 pycom17g03380
rosa_chinensis	RchiOBHm_Chr2g0170881 RchiOBHm_Chr6g0289031 RchiOBHm_Chr7g0222271
rosa_laevigata	RLG00000001172 RLG00000008907 RLG00000008913 RLG00000014117 RLG00000014203 RLG00000014204 RLG00000021990 RLG00000023949 RLG00000024929 RLG00000034655
rosa_multiflora	Rmu_sc0000220.1_g000012 Rmu_sc0003110.1_g000018 Rmu_sc0003395.1_g000004 Rmu_sc0011277.1_g000007 Rmu_sc0011582.1_g000018
rosa_roxburghii	Rroxscaffold_3G00237240
rosa_rugosa	Rorug02G0497700 Rorug02G0552100 Rorug05G0351900
rosa_samantha	Rh1BG311600 Rh1CG326800 Rh2AG624800 Rh2BG635500 Rh2CG472000 Rh2CG604200 Rh2DG647100 Rh3BG187400 Rh3BG187500 Rh3DG188300 Rh5AG461800 Rh5BG373200 Rh5BG373300 Rh5BG480000 Rh5CG377900 Rh5CG395000 Rh5CG504200 Rh6AG138900 Rh6BG513600 Rh7AG348400 Rh7AG474700 Rh7CG182200 Rh7CG366000
rosa_wichuraiana	Rw3G015310 Rw5G034010 Rw7G036470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	433
Acc36I	ACCTGC	1 cut(s)	433
AccB1I	GGYRCC	1 cut(s)	88
AciI	CCGC	4 cut(s)	27, 39, 72, 110
AcuI	CTGAAG	2 cut(s)	245, 423
AcyI	GRCGYC	1 cut(s)	89
AfaI	GTAC	3 cut(s)	13, 161, 274
AfiI	CCNNNNNNNGG	1 cut(s)	214
AgsI	TTSAA	3 cut(s)	293, 304, 495
Alw21I	GWGCWC	1 cut(s)	367
Alw26I	GTCTC	1 cut(s)	335
Alw44I	GTGCAC	1 cut(s)	363
AlwNI	CAGNNNCTG	2 cut(s)	104, 360
AoxI	GGCC	2 cut(s)	95, 407
ApaLI	GTGCAC	1 cut(s)	363
ApeKI	GCWGC	4 cut(s)	69, 130, 204, 279
AspLEI	GCGC	2 cut(s)	91, 359
AspS9I	GGNCC	3 cut(s)	95, 407, 452
AsuC2I	CCSGG	2 cut(s)	93, 209
AsuHPI	GGTGA	3 cut(s)	28, 148, 414
AsuNHI	GCTAGC	1 cut(s)	439
AvaII	GGWCC	1 cut(s)	452
AxyI	CCTNAGG	1 cut(s)	105
BaeGI	GKGCMC	1 cut(s)	367
BanI	GGYRCC	1 cut(s)	88
BbsI	GAAGAC	1 cut(s)	25
Bbv12I	GWGCWC	1 cut(s)	367
BbvI	GCAGC	4 cut(s)	56, 142, 191, 291
BceAI	ACGGC	2 cut(s)	14, 301
BcgI	CGANNNNNNTGC	2 cut(s)	277, 311
BcnI	CCSGG	2 cut(s)	93, 209
BcoDI	GTCTC	1 cut(s)	335
BfaI	CTAG	1 cut(s)	440
BfoI	RGCGCY	2 cut(s)	92, 360
BfuAI	ACCTGC	1 cut(s)	433
BisI	GCNGC	7 cut(s)	27, 70, 73, 111, 131, 205, 280
BlpI	GCTNAGC	1 cut(s)	532
BlsI	GCNGC	7 cut(s)	28, 71, 74, 112, 132, 206, 281
Bme1390I	CCNGG	2 cut(s)	93, 209
Bme18I	GGWCC	1 cut(s)	452
BmgT120I	GGNCC	3 cut(s)	95, 407, 452
BmiI	GGNNCC	2 cut(s)	90, 96
BmrFI	CCNGG	2 cut(s)	93, 209
BmtI	GCTAGC	1 cut(s)	443
BpiI	GAAGAC	1 cut(s)	25
Bpu1102I	GCTNAGC	1 cut(s)	532
BpuEI	CTTGAG	1 cut(s)	432
BpuMI	CCSGG	2 cut(s)	93, 209
BsaAI	YACGTR	1 cut(s)	163
BsaHI	GRCGYC	1 cut(s)	89
BsaI	GGTCTC	1 cut(s)	335
BsaJI	CCNNGG	4 cut(s)	92, 393, 466, 484
Bsc4I	CCNNNNNNNGG	1 cut(s)	214
Bse1I	ACTGG	1 cut(s)	380
Bse21I	CCTNAGG	1 cut(s)	105
BseDI	CCNNGG	4 cut(s)	92, 393, 466, 484
BseLI	CCNNNNNNNGG	1 cut(s)	214
BseMII	CTCAG	1 cut(s)	96
BseNI	ACTGG	1 cut(s)	380
BseSI	GKGCMC	1 cut(s)	367
BseXI	GCAGC	4 cut(s)	56, 142, 191, 291
BshFI	GGCC	2 cut(s)	97, 409
BshNI	GGYRCC	1 cut(s)	88
BsiHKAI	GWGCWC	1 cut(s)	367
BsiSI	CCGG	3 cut(s)	92, 191, 209
BsiWI	CGTACG	1 cut(s)	159
BslI	CCNNNNNNNGG	1 cut(s)	214
BsmAI	GTCTC	1 cut(s)	335
BsmI	GAATGC	1 cut(s)	5
BsnI	GGCC	2 cut(s)	97, 409
Bso31I	GGTCTC	1 cut(s)	335
Bsp1286I	GDGCHC	1 cut(s)	367
Bsp1720I	GCTNAGC	1 cut(s)	532
Bsp19I	CCATGG	2 cut(s)	393, 484
BspACI	CCGC	4 cut(s)	27, 39, 72, 110
BspANI	GGCC	2 cut(s)	97, 409
BspCNI	CTCAG	1 cut(s)	97
BspLI	GGNNCC	2 cut(s)	90, 96
BspMI	ACCTGC	1 cut(s)	433
BspOI	GCTAGC	1 cut(s)	443
BspQI	GCTCTTC	1 cut(s)	318
BspT107I	GGYRCC	1 cut(s)	88
BspTNI	GGTCTC	1 cut(s)	335
BsrI	ACTGG	1 cut(s)	380
BssECI	CCNNGG	4 cut(s)	92, 393, 466, 484
BssNI	GRCGYC	1 cut(s)	89
BssT1I	CCWWGG	3 cut(s)	393, 466, 484
Bst4CI	ACNGT	1 cut(s)	272
Bst6I	CTCTTC	2 cut(s)	318, 549
BstACI	GRCGYC	1 cut(s)	89
BstBAI	YACGTR	1 cut(s)	163
BstC8I	GCNNGC	4 cut(s)	99, 202, 216, 441
BstDEI	CTNAG	2 cut(s)	105, 532
BstDSI	CCRYGG	2 cut(s)	393, 484
BstH2I	RGCGCY	2 cut(s)	92, 360
BstHHI	GCGC	2 cut(s)	91, 359
BstMAI	GTCTC	1 cut(s)	335
BstMWI	GCNNNNNNNGC	4 cut(s)	107, 220, 285, 395
BstSCI	CCNGG	2 cut(s)	91, 207
BstSLI	GKGCMC	1 cut(s)	367
BstV1I	GCAGC	4 cut(s)	56, 142, 191, 291
BstV2I	GAAGAC	1 cut(s)	25
BstXI	CCANNNNNNTGG	1 cut(s)	133
Bsu36I	CCTNAGG	1 cut(s)	105
BsuRI	GGCC	2 cut(s)	97, 409
BtgI	CCRYGG	2 cut(s)	393, 484
BtsIMutI	CAGTG	1 cut(s)	387
BveI	ACCTGC	1 cut(s)	433
Cac8I	GCNNGC	4 cut(s)	99, 202, 216, 441
CaiI	CAGNNNCTG	2 cut(s)	104, 360
CfoI	GCGC	2 cut(s)	91, 359
Cfr13I	GGNCC	3 cut(s)	95, 407, 452
CseI	GACGC	1 cut(s)	229
Csp6I	GTAC	3 cut(s)	12, 160, 273
CviAII	CATG	4 cut(s)	43, 52, 394, 485
CviQI	GTAC	3 cut(s)	12, 160, 273
DdeI	CTNAG	2 cut(s)	105, 532
DinI	GGCGCC	1 cut(s)	90
Eam1104I	CTCTTC	2 cut(s)	318, 549
EarI	CTCTTC	2 cut(s)	318, 549
Eco130I	CCWWGG	3 cut(s)	393, 466, 484
Eco31I	GGTCTC	1 cut(s)	335
Eco47I	GGWCC	1 cut(s)	452
Eco57I	CTGAAG	2 cut(s)	245, 423
Eco81I	CCTNAGG	1 cut(s)	105
EcoO109I	RGGNCCY	2 cut(s)	407, 452
EcoT14I	CCWWGG	3 cut(s)	393, 466, 484
EgeI	GGCGCC	1 cut(s)	90
EheI	GGCGCC	1 cut(s)	90
ErhI	CCWWGG	3 cut(s)	393, 466, 484
FaeI	CATG	4 cut(s)	46, 55, 397, 488
FaiI	YATR	6 cut(s)	44, 53, 395, 486, 515, 539
FatI	CATG	4 cut(s)	42, 51, 393, 484
Fnu4HI	GCNGC	7 cut(s)	27, 70, 73, 111, 131, 205, 280
Fsp4HI	GCNGC	7 cut(s)	27, 70, 73, 111, 131, 205, 280
FspBI	CTAG	1 cut(s)	440
GlaI	GCGC	2 cut(s)	90, 358
GluI	GCNGC	7 cut(s)	27, 70, 73, 111, 131, 205, 280
HaeII	RGCGCY	2 cut(s)	92, 360
HaeIII	GGCC	2 cut(s)	97, 409
HapII	CCGG	3 cut(s)	92, 191, 209
HgaI	GACGC	1 cut(s)	229
HhaI	GCGC	2 cut(s)	91, 359
Hin1I	GRCGYC	1 cut(s)	89
Hin1II	CATG	4 cut(s)	46, 55, 397, 488
Hin6I	GCGC	2 cut(s)	89, 357
HinP1I	GCGC	2 cut(s)	89, 357
HpaII	CCGG	3 cut(s)	92, 191, 209
HphI	GGTGA	3 cut(s)	28, 148, 414
Hpy166II	GTNNAC	1 cut(s)	365
Hpy188I	TCNGA	5 cut(s)	148, 264, 403, 436, 560
Hpy188III	TCNNGA	1 cut(s)	104
Hpy8I	GTNNAC	1 cut(s)	365
Hpy99I	CGWCG	2 cut(s)	118, 223
HpyAV	CCTTC	4 cut(s)	164, 333, 398, 465
HpyCH4III	ACNGT	1 cut(s)	272
HpyCH4IV	ACGT	3 cut(s)	140, 158, 162
HpyCH4V	TGCA	3 cut(s)	123, 333, 365
HpyF10VI	GCNNNNNNNGC	4 cut(s)	107, 220, 285, 395
HpyF3I	CTNAG	2 cut(s)	105, 532
HpySE526I	ACGT	3 cut(s)	140, 158, 162
Hsp92I	GRCGYC	1 cut(s)	89
Hsp92II	CATG	4 cut(s)	46, 55, 397, 488
HspAI	GCGC	2 cut(s)	89, 357
KasI	GGCGCC	1 cut(s)	88
LguI	GCTCTTC	1 cut(s)	318
LmnI	GCTCC	5 cut(s)	106, 211, 394, 436, 488
Lsp1109I	GCAGC	4 cut(s)	56, 142, 191, 291
MaeI	CTAG	1 cut(s)	440
MaeII	ACGT	3 cut(s)	140, 158, 162
MaeIII	GTNAC	1 cut(s)	136
MboII	GAAGA	4 cut(s)	25, 277, 305, 536
MhlI	GDGCHC	1 cut(s)	367
Mly113I	GGCGCC	1 cut(s)	89
MmeI	TCCRAC	1 cut(s)	126
MnlI	CCTC	4 cut(s)	100, 160, 357, 456
MseI	TTAA	1 cut(s)	228
MslI	CAYNNNNRTG	1 cut(s)	41
MspA1I	CMGCKG	2 cut(s)	69, 133
MspI	CCGG	3 cut(s)	92, 191, 209
MspR9I	CCNGG	2 cut(s)	93, 209
Mva1269I	GAATGC	1 cut(s)	5
MwoI	GCNNNNNNNGC	4 cut(s)	107, 220, 285, 395
NarI	GGCGCC	1 cut(s)	89
NciI	CCSGG	2 cut(s)	93, 209
NcoI	CCATGG	2 cut(s)	393, 484
NheI	GCTAGC	1 cut(s)	439
NlaIII	CATG	4 cut(s)	46, 55, 397, 488
NlaIV	GGNNCC	2 cut(s)	90, 96
NmuCI	GTSAC	1 cut(s)	136
PaqCI	CACCTGC	1 cut(s)	433
PciSI	GCTCTTC	1 cut(s)	318
PctI	GAATGC	1 cut(s)	5
Pfl23II	CGTACG	1 cut(s)	159
PflFI	GACNNNGTC	1 cut(s)	142
PkrI	GCNGC	7 cut(s)	28, 71, 74, 112, 132, 206, 281
PluTI	GGCGCC	1 cut(s)	92
Ppu21I	YACGTR	1 cut(s)	163
PpuMI	RGGWCCY	1 cut(s)	452
Psp5II	RGGWCCY	1 cut(s)	452
PspLI	CGTACG	1 cut(s)	159
PspN4I	GGNNCC	2 cut(s)	90, 96
PspPI	GGNCC	3 cut(s)	95, 407, 452
PspPPI	RGGWCCY	1 cut(s)	452
PstNI	CAGNNNCTG	2 cut(s)	104, 360
PsyI	GACNNNGTC	1 cut(s)	142
PvuII	CAGCTG	2 cut(s)	69, 133
RsaI	GTAC	3 cut(s)	13, 161, 274
RsaNI	GTAC	3 cut(s)	12, 160, 273
RseI	CAYNNNNRTG	1 cut(s)	41
SapI	GCTCTTC	1 cut(s)	318
SaqAI	TTAA	1 cut(s)	228
SatI	GCNGC	7 cut(s)	27, 70, 73, 111, 131, 205, 280
Sau96I	GGNCC	3 cut(s)	95, 407, 452
ScrFI	CCNGG	2 cut(s)	93, 209
SduI	GDGCHC	1 cut(s)	367
SfoI	GGCGCC	1 cut(s)	90
SinI	GGWCC	1 cut(s)	452
SmiMI	CAYNNNNRTG	1 cut(s)	41
SmlI	CTYRAG	1 cut(s)	447
SmoI	CTYRAG	1 cut(s)	447
SsiI	CCGC	4 cut(s)	27, 39, 72, 110
SspDI	GGCGCC	1 cut(s)	88
SspMI	CTAG	1 cut(s)	440
StyD4I	CCNGG	2 cut(s)	91, 207
StyI	CCWWGG	3 cut(s)	393, 466, 484
TaaI	ACNGT	1 cut(s)	272
TaiI	ACGT	3 cut(s)	143, 161, 165
TaqI	TCGA	1 cut(s)	297
TauI	GCSGC	3 cut(s)	29, 75, 113
Tru1I	TTAA	1 cut(s)	228
Tru9I	TTAA	1 cut(s)	228
TscAI	CASTG	1 cut(s)	387
TseFI	GTSAC	1 cut(s)	136
TseI	GCWGC	4 cut(s)	69, 130, 204, 279
Tsp45I	GTSAC	1 cut(s)	136
TspDTI	ATGAA	2 cut(s)	40, 305
TspGWI	ACGGA	1 cut(s)	131
TspRI	CASTG	1 cut(s)	387
Tth111I	GACNNNGTC	1 cut(s)	142
VneI	GTGCAC	1 cut(s)	363
VpaK11BI	GGWCC	1 cut(s)	452
XcmI	CCANNNNNNNNNTGG	1 cut(s)	482
XspI	CTAG	1 cut(s)	440

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