Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000002

Orthogroup ID

OG0001657

Physical Location & Seq

Genomic Coordinates Forward (+)

51811874 .. 51815420

Gene Structure 3547 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug02G0405600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 948 bp

ATGCATTTGACTGAAGCCCAAATTACTTCTCGATCACAATCTCAGATGAAAGGCAAGTCAGGGCCATATATCTCATGGAACAAAGAAATGGATGCTGCATTGGCTAAAGCGTTGATTGACCAAATGAAGCAAGGTAATAAGGTTGGTGGACAGTGGACACGACATGCCATTCCAGCAGTTGTGCGTGAGTTAAATATGACTTTAGATCTTGGTTTGACAAAAGACAATGTGAAGAATAGACTTAAGGCTTGGAAGAGACATTATGCCATTATTTCTGATATCAAGAATCAAAGTCAGCTTATGTGGGATGAAGGTAGGAAGATGGTTGTAATCAGATCAGAAAATCTGGAAGCTTGGAATGATTATGTTGAGTCACATCCTCTTGCACGTGGTTATCAAAACAAATTCATCGATAATTGGGATGACATTGCATTGCTATGTGGGAAGGATAAGACAACAGTTGAAGGTGCAGAGAATATTGAAGATGTTGAAGGAGCAATGGGAGTTGAAAAGGAAAATGGAGTCAATTTCATCTCTAATTCCCGTAGTCTTACACATCCTTCAGCTTCAACTTCGGAATCACATCCACGGATGAAGAAAGCCAACAAACATTCGTGGAGGGTTGAAGAAGAAAATGAAGTCAATTCCATTTCTAATTCACATAGCTCAACACATCCTTCAGCATCAACTTCTAACTTGCATCCGAAGAAGAAAGCAAAGAAAGTGAAGAAAGATCTCTTGGCAGATGCAATTGGTGAGATGACGACTTCACTAAAGGAGTATTTGGCAAGCAAGATGGACCTGAATAGATCCCAACCCAAAGGTGAAGAAGTATATGAAGTGGTTTCAAAGGTACCAGGGCTCAATAGATTGCAGGTTTTTAAGGCTATACGAGTATTACTGAATGGTAACCCAGAAGAATTCTTTTCTATTGAAATATCTTCCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000045 GO:0006810 GO:0006914 GO:0006996 GO:0007033 GO:0007034 GO:0008150 GO:0008152 GO:0009056 GO:0009987 GO:0016043 GO:0016192 GO:0016236 GO:0022607 GO:0030587 GO:0031154 GO:0032502 GO:0044085 GO:0044237 GO:0044248 GO:0045324 GO:0046907 GO:0048856 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0051703 GO:0051704 GO:0061919 GO:0070925 GO:0071840 GO:0090702 GO:0099120 GO:1905037

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Chorein_N SHR-BD VPS13 VPS13_C VPS13_mid_rpt

Protein Analysis

315

Amino Acids

35.46

Weight (kDa)

8.88

Isoelectric Point (pI)

43.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Myb_DNA-bind_3	PF12776	25 - 122	7.1e-16	Myb/SANT-like DNA-binding domain

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: OG0001657)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G24740 AT5G24740 AT5G24740 AT5G24740 AT5G24740 AT5G24740
fragaria_vesca	FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300
malus_domestica	MD09G1170300.v1.1 MD17G1156800.v1.1
prunus_persica	Prupe.3G028500_v2.0.a1 Prupe.3G028500_v2.0.a1 Prupe.3G028500_v2.0.a1
pyrus_communis	pycom09g08790 pycom17g15020
rosa_chinensis	RchiOBHm_Chr2g0148301 RchiOBHm_Chr2g0148311 RchiOBHm_Chr5g0051461
rosa_laevigata	RLG00000020335
rosa_multiflora	Rmu_sc0004032.1_g000013 Rmu_sc0022189.1_g000006
rosa_roxburghii	Rroxscaffold_1G00027070 Rroxscaffold_2G00098910 Rroxscaffold_2G00098920
rosa_rugosa	Rorug02G0405600 Rorug05G0279200
rosa_samantha	Rh2AG464200 Rh2BG477200 Rh2CG450900 Rh2DG486000 Rh5AG350300 Rh5AG350400 Rh5BG362600 Rh5CG387200 Rh5DG377000
rosa_wichuraiana	Rw2G037840

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	865
Acc65I	GGTACC	1 cut(s)	853
AccB1I	GGYRCC	1 cut(s)	853
AclWI	GGATC	1 cut(s)	804
AcsI	RAATTY	2 cut(s)	404, 920
AcuI	CTGAAG	3 cut(s)	33, 546, 663
AcvI	CACGTG	1 cut(s)	389
AfaI	GTAC	1 cut(s)	855
AflII	CTTAAG	1 cut(s)	242
AgsI	TTSAA	8 cut(s)	464, 482, 491, 509, 570, 626, 849, 935
AjnI	CCWGG	1 cut(s)	856
AjuI	GAANNNNNNNTTGG	2 cut(s)	722, 754
AluBI	AGCT	4 cut(s)	298, 353, 566, 666
AluI	AGCT	4 cut(s)	298, 353, 566, 666
Alw26I	GTCTC	1 cut(s)	250
AlwI	GGATC	1 cut(s)	804
AoxI	GGCC	1 cut(s)	62
ApeKI	GCWGC	1 cut(s)	95
ApoI	RAATTY	2 cut(s)	404, 920
Asp718I	GGTACC	1 cut(s)	853
AspS9I	GGNCC	2 cut(s)	62, 799
AsuHPI	GGTGA	2 cut(s)	767, 836
AvaII	GGWCC	1 cut(s)	799
BanI	GGYRCC	1 cut(s)	853
BanII	GRGCYC	1 cut(s)	864
BbrPI	CACGTG	1 cut(s)	389
BbvI	GCAGC	1 cut(s)	82
BccI	CCATC	2 cut(s)	316, 790
BciT130I	CCWGG	1 cut(s)	858
BcoDI	GTCTC	1 cut(s)	250
BfrI	CTTAAG	1 cut(s)	242
BfuAI	ACCTGC	1 cut(s)	865
BglII	AGATCT	2 cut(s)	205, 733
BisI	GCNGC	1 cut(s)	96
BlsI	GCNGC	1 cut(s)	97
Bme1390I	CCNGG	1 cut(s)	858
Bme18I	GGWCC	1 cut(s)	799
BmgT120I	GGNCC	2 cut(s)	62, 799
BmiI	GGNNCC	1 cut(s)	855
BmrFI	CCNGG	1 cut(s)	858
BmsI	GCATC	4 cut(s)	82, 692, 709, 736
Bsa29I	ATCGAT	1 cut(s)	411
BsaAI	YACGTR	1 cut(s)	389
BsaBI	GATNNNNATC	1 cut(s)	37
BsaJI	CCNNGG	2 cut(s)	587, 857
Bse3DI	GCAATG	3 cut(s)	426, 431, 504
Bse8I	GATNNNNATC	1 cut(s)	37
BseBI	CCWGG	1 cut(s)	858
BseCI	ATCGAT	1 cut(s)	411
BseDI	CCNNGG	2 cut(s)	587, 857
BseGI	GGATG	9 cut(s)	97, 313, 376, 427, 556, 583, 597, 673, 700
BseJI	GATNNNNATC	1 cut(s)	37
BseMI	GCAATG	3 cut(s)	426, 431, 504
BseMII	CTCAG	1 cut(s)	56
BseXI	GCAGC	1 cut(s)	82
BsgI	GTGCAG	1 cut(s)	489
BshFI	GGCC	1 cut(s)	64
BshNI	GGYRCC	1 cut(s)	853
BshVI	ATCGAT	1 cut(s)	411
BsmAI	GTCTC	1 cut(s)	250
BsnI	GGCC	1 cut(s)	64
Bsp1286I	GDGCHC	1 cut(s)	864
Bsp143I	GATC	5 cut(s)	32, 205, 335, 733, 809
BspANI	GGCC	1 cut(s)	64
BspCNI	CTCAG	1 cut(s)	55
BspDI	ATCGAT	1 cut(s)	411
BspLI	GGNNCC	1 cut(s)	855
BspMI	ACCTGC	1 cut(s)	865
BspPI	GGATC	1 cut(s)	804
BspT107I	GGYRCC	1 cut(s)	853
BspTI	CTTAAG	1 cut(s)	242
BsrDI	GCAATG	3 cut(s)	426, 431, 504
BssECI	CCNNGG	2 cut(s)	587, 857
BssMI	GATC	5 cut(s)	32, 205, 335, 733, 809
Bst2UI	CCWGG	1 cut(s)	858
Bst4CI	ACNGT	2 cut(s)	153, 460
Bst6I	CTCTTC	1 cut(s)	248
BstAFI	CTTAAG	1 cut(s)	242
BstBAI	YACGTR	1 cut(s)	389
BstC8I	GCNNGC	1 cut(s)	790
BstDEI	CTNAG	1 cut(s)	42
BstDSI	CCRYGG	1 cut(s)	587
BstEII	GGTNACC	1 cut(s)	908
BstF5I	GGATG	9 cut(s)	97, 313, 376, 427, 556, 583, 597, 673, 700
BstKTI	GATC	5 cut(s)	35, 208, 338, 736, 812
BstMAI	GTCTC	1 cut(s)	250
BstMBI	GATC	5 cut(s)	32, 205, 335, 733, 809
BstMWI	GCNNNNNNNGC	2 cut(s)	101, 173
BstNI	CCWGG	1 cut(s)	858
BstNSI	RCATGY	1 cut(s)	167
BstPI	GGTNACC	1 cut(s)	908
BstSCI	CCNGG	1 cut(s)	856
BstV1I	GCAGC	1 cut(s)	82
BstX2I	RGATCY	3 cut(s)	205, 733, 809
BstYI	RGATCY	3 cut(s)	205, 733, 809
Bsu15I	ATCGAT	1 cut(s)	411
BsuRI	GGCC	1 cut(s)	64
BsuTUI	ATCGAT	1 cut(s)	411
BtgI	CCRYGG	1 cut(s)	587
BtsCI	GGATG	9 cut(s)	97, 313, 376, 427, 556, 583, 597, 673, 700
BtsIMutI	CAGTG	1 cut(s)	158
BveI	ACCTGC	1 cut(s)	865
Cac8I	GCNNGC	1 cut(s)	790
Cfr13I	GGNCC	2 cut(s)	62, 799
ClaI	ATCGAT	1 cut(s)	411
Csp6I	GTAC	1 cut(s)	854
CviAII	CATG	2 cut(s)	75, 164
CviQI	GTAC	1 cut(s)	854
DdeI	CTNAG	1 cut(s)	42
DpnI	GATC	5 cut(s)	34, 207, 337, 735, 811
DpnII	GATC	5 cut(s)	32, 205, 335, 733, 809
Eam1104I	CTCTTC	1 cut(s)	248
EarI	CTCTTC	1 cut(s)	248
Eco24I	GRGCYC	1 cut(s)	864
Eco32I	GATATC	1 cut(s)	280
Eco47I	GGWCC	1 cut(s)	799
Eco57I	CTGAAG	3 cut(s)	33, 546, 663
Eco72I	CACGTG	1 cut(s)	389
Eco91I	GGTNACC	1 cut(s)	908
EcoO65I	GGTNACC	1 cut(s)	908
EcoRI	GAATTC	1 cut(s)	920
EcoRII	CCWGG	1 cut(s)	856
EcoRV	GATATC	1 cut(s)	280
EcoT22I	ATGCAT	1 cut(s)	6
EcoT38I	GRGCYC	1 cut(s)	864
FaeI	CATG	2 cut(s)	78, 167
FatI	CATG	2 cut(s)	74, 163
Fnu4HI	GCNGC	1 cut(s)	96
FokI	GGATG	9 cut(s)	104, 320, 363, 434, 543, 570, 604, 660, 687
FriOI	GRGCYC	1 cut(s)	864
Fsp4HI	GCNGC	1 cut(s)	96
GluI	GCNGC	1 cut(s)	96
HaeIII	GGCC	1 cut(s)	64
Hin1II	CATG	2 cut(s)	78, 167
HindIII	AAGCTT	1 cut(s)	351
HinfI	GANTC	4 cut(s)	286, 371, 522, 578
HphI	GGTGA	2 cut(s)	767, 836
Hpy166II	GTNNAC	2 cut(s)	149, 156
Hpy188I	TCNGA	6 cut(s)	45, 277, 335, 340, 577, 705
Hpy188III	TCNNGA	4 cut(s)	30, 283, 347, 945
Hpy8I	GTNNAC	2 cut(s)	149, 156
HpyAV	CCTTC	6 cut(s)	305, 439, 458, 485, 570, 687
HpyCH4III	ACNGT	2 cut(s)	153, 460
HpyCH4IV	ACGT	1 cut(s)	388
HpyCH4V	TGCA	8 cut(s)	4, 98, 386, 431, 470, 700, 749, 874
HpyF10VI	GCNNNNNNNGC	2 cut(s)	101, 173
HpyF3I	CTNAG	1 cut(s)	42
HpySE526I	ACGT	1 cut(s)	388
Hsp92II	CATG	2 cut(s)	78, 167
KpnI	GGTACC	1 cut(s)	857
Kzo9I	GATC	5 cut(s)	32, 205, 335, 733, 809
LmnI	GCTCC	1 cut(s)	494
LpnPI	CCDG	8 cut(s)	45, 186, 332, 815, 843, 860, 870, 927
Lsp1109I	GCAGC	1 cut(s)	82
LweI	GCATC	4 cut(s)	82, 692, 709, 736
MaeII	ACGT	1 cut(s)	388
MaeIII	GTNAC	2 cut(s)	372, 908
MalI	GATC	5 cut(s)	34, 207, 337, 735, 811
MboI	GATC	5 cut(s)	32, 205, 335, 733, 809
MfeI	CAATTG	1 cut(s)	750
MflI	RGATCY	3 cut(s)	205, 733, 809
MhlI	GDGCHC	1 cut(s)	864
MluCI	AATT	9 cut(s)	21, 404, 415, 526, 538, 643, 655, 750, 920
MlyI	GAGTC	2 cut(s)	380, 531
MnlI	CCTC	2 cut(s)	390, 612
Mph1103I	ATGCAT	1 cut(s)	6
MseI	TTAA	3 cut(s)	191, 243, 882
MslI	CAYNNNNRTG	1 cut(s)	436
MspCI	CTTAAG	1 cut(s)	242
MspR9I	CCNGG	1 cut(s)	858
MunI	CAATTG	1 cut(s)	750
MvaI	CCWGG	1 cut(s)	858
MwoI	GCNNNNNNNGC	2 cut(s)	101, 173
NdeII	GATC	5 cut(s)	32, 205, 335, 733, 809
NlaIII	CATG	2 cut(s)	78, 167
NlaIV	GGNNCC	1 cut(s)	855
NmuCI	GTSAC	1 cut(s)	372
NsiI	ATGCAT	1 cut(s)	6
NspI	RCATGY	1 cut(s)	167
PfeI	GAWTC	2 cut(s)	286, 578
PkrI	GCNGC	1 cut(s)	97
PleI	GAGTC	2 cut(s)	379, 530
PmaCI	CACGTG	1 cut(s)	389
PmlI	CACGTG	1 cut(s)	389
PpsI	GAGTC	2 cut(s)	379, 530
Ppu21I	YACGTR	1 cut(s)	389
Psp6I	CCWGG	1 cut(s)	856
PspCI	CACGTG	1 cut(s)	389
PspEI	GGTNACC	1 cut(s)	908
PspGI	CCWGG	1 cut(s)	856
PspN4I	GGNNCC	1 cut(s)	855
PspPI	GGNCC	2 cut(s)	62, 799
PsuI	RGATCY	3 cut(s)	205, 733, 809
RsaI	GTAC	1 cut(s)	855
RsaNI	GTAC	1 cut(s)	854
RseI	CAYNNNNRTG	1 cut(s)	436
SaqAI	TTAA	3 cut(s)	191, 243, 882
SatI	GCNGC	1 cut(s)	96
Sau3AI	GATC	5 cut(s)	32, 205, 335, 733, 809
Sau96I	GGNCC	2 cut(s)	62, 799
SchI	GAGTC	2 cut(s)	380, 531
ScrFI	CCNGG	1 cut(s)	858
SduI	GDGCHC	1 cut(s)	864
SfaNI	GCATC	4 cut(s)	82, 692, 709, 736
SinI	GGWCC	1 cut(s)	799
SmiMI	CAYNNNNRTG	1 cut(s)	436
SmlI	CTYRAG	1 cut(s)	242
SmoI	CTYRAG	1 cut(s)	242
Sse9I	AATT	9 cut(s)	21, 404, 415, 526, 538, 643, 655, 750, 920
SspI	AATATT	1 cut(s)	478
StyD4I	CCNGG	1 cut(s)	856
TaaI	ACNGT	2 cut(s)	153, 460
TaiI	ACGT	1 cut(s)	391
TaqI	TCGA	2 cut(s)	31, 411
TasI	AATT	9 cut(s)	21, 404, 415, 526, 538, 643, 655, 750, 920
TfiI	GAWTC	2 cut(s)	286, 578
Tru1I	TTAA	3 cut(s)	191, 243, 882
Tru9I	TTAA	3 cut(s)	191, 243, 882
TscAI	CASTG	1 cut(s)	158
TseFI	GTSAC	1 cut(s)	372
TseI	GCWGC	1 cut(s)	95
Tsp45I	GTSAC	1 cut(s)	372
TspDTI	ATGAA	8 cut(s)	62, 140, 324, 397, 520, 608, 651, 852
TspGWI	ACGGA	1 cut(s)	604
TspRI	CASTG	1 cut(s)	158
Vha464I	CTTAAG	1 cut(s)	242
VpaK11BI	GGWCC	1 cut(s)	799
XapI	RAATTY	2 cut(s)	404, 920
XceI	RCATGY	1 cut(s)	167
XcmI	CCANNNNNNNNNTGG	1 cut(s)	72
Zsp2I	ATGCAT	1 cut(s)	6

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