Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0004719

Physical Location & Seq

Genomic Coordinates Reverse (-)

82683418 .. 82686635

Gene Structure 3218 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00060460.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 945 bp

ATGGATTTGTTTTACACTGTAGGGTTTATTGGACTGGGAAATATGGGATCCAGAATGGCAAACAATCTAATAAAGGCGGGATACCGAGTAGCTGTTCATGACATAAACTGCAATGCCATGAAAAAGTTCTCTGATATTGGAGCCGCAACAAAAGAAACACCTACTGAAGTTGCAGAAGCTAGTGATGTTGTAATCACAATGCTCCCTACATCATCTCATGTATATGATGTTTATACTGGACCAAATGGTTTACTTTATGGAGGGAATTTGCGACCACGGCTATTTATAGATTCATCCACTATTGATCCACAAACATCGAGAAAGCTTTCTTCCATCGTCTCTAACTGTACTCTAAAGGAACAGAAAGAAGATCATTGGAAGAAGCCTGCCTTGCTGGATGCTCCTGTATCTGGAGGTGTCCTTGCAGCGGAAGCTGGGACTCTTACTTTCATGGTTGGTGGATCTGAGGAAGCTTATATGGCGGCTGAACCCTTGTTCCTTTCGATGGGGAAGAACACAGTTTATTGTGGTGGGGCAGGAAATGGTTCAGCAGCAAAGATTTGCAATAATCTGGCACTGGCTATAAGTATGCTTGGCGTCTCAGAATCTCTTGCTCTTGGTCAGTCTCTAGGAATATCTGCCAGTACTCTAACAAAAGTGTTTAACTCTTCCAGTGCTCGCTGTTGGAGCAGCGATAGTTACAATCCAGTTCCGGGAGTGATGGAAGGGGTTCCCTCTTCGAGAAACTATGATGGTGGGTTTGCATCCAAACTAATGGCTAAAGACGTAAATATTGCTGCAACATCAGCCAAAGAGGTTGGTCTTCGATGCCCGTTGACTTCCCAAGCACAAGAGATATATACAGAGCTCTGTGAGGATGGCCATGAAACCAAGGACTTCTCCTGCGTATTCCGCCATTATTACTCTGGCAAGAATGAGATTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005488 GO:0005515 GO:0006082 GO:0006520 GO:0006551 GO:0006573 GO:0006807 GO:0008150 GO:0008152 GO:0008442 GO:0009081 GO:0009987 GO:0016491 GO:0016614 GO:0016616 GO:0019752 GO:0043436 GO:0043621 GO:0044237 GO:0044238 GO:0044281 GO:0055114 GO:0071704 GO:1901564 GO:1901605

KEGG Pathways

Metabolic & Signaling

ko00280 ko01100 map00280 map01100

Pfam Domains

Protein Families

NAD_binding_11 NAD_binding_2

Protein Analysis

314

Amino Acids

33.36

Weight (kDa)

5.6

Isoelectric Point (pI)

39.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NAD_binding_2	PF03446	6 - 177	9.5e-42	NAD binding domain of 6-phosphogluconate dehydrogenase
2-Hacid_dh_C	PF02826	6 - 73	1.3e-07	D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
F420_oxidored	PF03807	6 - 70	3.8e-07	NADP oxidoreductase coenzyme F420-dependent
NAD_binding_11	PF14833	180 - 306	1.9e-27	NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0004719)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G20930 AT4G20930
fragaria_vesca	FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220
malus_domestica	MD05G1271700.v1.1
prunus_persica	Prupe.4G091300_v2.0.a1 Prupe.4G091300_v2.0.a1 Prupe.4G091300_v2.0.a1 Prupe.4G091300_v2.0.a1 Prupe.4G091300_v2.0.a1
pyrus_communis	pycom05g25400
rosa_chinensis	RchiOBHm_Chr5g0016441
rosa_laevigata	RLG00000032250
rosa_multiflora	Rmu_sc0030879.1_g000005
rosa_roxburghii	Rroxscaffold_1G00060460
rosa_rugosa	Rorug05G0032300 Rorug05G0032400
rosa_samantha	Rh5AG125900 Rh5BG124900 Rh5CG137200 Rh5DG124600
rosa_wichuraiana	Rw5G010910

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	5 cut(s)	77, 144, 428, 482, 913
AclWI	GGATC	4 cut(s)	42, 55, 299, 469
AcoI	YGGCCR	1 cut(s)	880
AcsI	RAATTY	1 cut(s)	265
AcuI	CTGAAG	1 cut(s)	186
AcyI	GRCGYC	1 cut(s)	597
AfaI	GTAC	2 cut(s)	349, 646
AfiI	CCNNNNNNNGG	4 cut(s)	410, 427, 505, 713
AloI	GAACNNNNNNTCC	2 cut(s)	480, 512
AluBI	AGCT	6 cut(s)	92, 179, 325, 434, 473, 868
AluI	AGCT	6 cut(s)	92, 179, 325, 434, 473, 868
Alw21I	GWGCWC	2 cut(s)	679, 870
Alw26I	GTCTC	3 cut(s)	343, 604, 630
AlwI	GGATC	4 cut(s)	42, 55, 299, 469
AoxI	GGCC	1 cut(s)	880
ApeKI	GCWGC	4 cut(s)	425, 551, 690, 797
ApoI	RAATTY	1 cut(s)	265
Asp700I	GAANNNNTTC	4 cut(s)	125, 325, 544, 729
AspS9I	GGNCC	1 cut(s)	239
AsuC2I	CCSGG	1 cut(s)	714
AvaII	GGWCC	1 cut(s)	239
BalI	TGGCCA	1 cut(s)	882
BamHI	GGATCC	1 cut(s)	47
BanII	GRGCYC	1 cut(s)	870
BbsI	GAAGAC	1 cut(s)	815
Bbv12I	GWGCWC	2 cut(s)	679, 870
BbvI	GCAGC	4 cut(s)	437, 563, 702, 784
BccI	CCATC	5 cut(s)	341, 499, 715, 746, 872
BceAI	ACGGC	1 cut(s)	293
BciVI	GTATCC	1 cut(s)	74
BcnI	CCSGG	1 cut(s)	714
BcoDI	GTCTC	3 cut(s)	343, 604, 630
BfaI	CTAG	2 cut(s)	180, 629
BfmI	CTRYAG	1 cut(s)	18
BfuI	GTATCC	1 cut(s)	74
BisI	GCNGC	6 cut(s)	144, 426, 483, 552, 691, 798
BlsI	GCNGC	6 cut(s)	145, 427, 484, 553, 692, 799
BmcAI	AGTACT	1 cut(s)	646
Bme1390I	CCNGG	1 cut(s)	714
Bme18I	GGWCC	1 cut(s)	239
BmgT120I	GGNCC	1 cut(s)	239
BmiI	GGNNCC	3 cut(s)	49, 142, 732
BmrFI	CCNGG	1 cut(s)	714
BmrI	ACTGGG	1 cut(s)	44
BmsI	GCATC	3 cut(s)	388, 773, 818
BmuI	ACTGGG	1 cut(s)	44
BpiI	GAAGAC	1 cut(s)	815
BpmI	CTGGAG	1 cut(s)	432
BpuMI	CCSGG	1 cut(s)	714
BsaHI	GRCGYC	1 cut(s)	597
BsaJI	CCNNGG	2 cut(s)	275, 891
Bsc4I	CCNNNNNNNGG	4 cut(s)	410, 427, 505, 713
Bse1I	ACTGG	6 cut(s)	39, 241, 582, 642, 672, 707
Bse3DI	GCAATG	1 cut(s)	118
BseDI	CCNNGG	2 cut(s)	275, 891
BseGI	GGATG	4 cut(s)	293, 403, 764, 883
BseLI	CCNNNNNNNGG	4 cut(s)	410, 427, 505, 713
BseMI	GCAATG	1 cut(s)	118
BseMII	CTCAG	2 cut(s)	456, 615
BseNI	ACTGG	6 cut(s)	39, 241, 582, 642, 672, 707
BseXI	GCAGC	4 cut(s)	437, 563, 702, 784
BseYI	CCCAGC	1 cut(s)	434
BshFI	GGCC	1 cut(s)	882
BsiHKAI	GWGCWC	2 cut(s)	679, 870
BsiSI	CCGG	1 cut(s)	713
BslFI	GGGAC	1 cut(s)	451
BslI	CCNNNNNNNGG	4 cut(s)	410, 427, 505, 713
BsmAI	GTCTC	3 cut(s)	343, 604, 630
BsmBI	CGTCTC	2 cut(s)	343, 604
BsmFI	GGGAC	1 cut(s)	451
BsnI	GGCC	1 cut(s)	882
Bsp1286I	GDGCHC	2 cut(s)	679, 870
Bsp143I	GATC	4 cut(s)	47, 304, 370, 461
BspACI	CCGC	5 cut(s)	77, 144, 428, 482, 913
BspANI	GGCC	1 cut(s)	882
BspCNI	CTCAG	2 cut(s)	457, 614
BspHI	TCATGA	1 cut(s)	97
BspLI	GGNNCC	3 cut(s)	49, 142, 732
BspPI	GGATC	4 cut(s)	42, 55, 299, 469
BsrDI	GCAATG	1 cut(s)	118
BsrI	ACTGG	6 cut(s)	39, 241, 582, 642, 672, 707
BssECI	CCNNGG	2 cut(s)	275, 891
BssMI	GATC	4 cut(s)	47, 304, 370, 461
BssNI	GRCGYC	1 cut(s)	597
BssT1I	CCWWGG	1 cut(s)	891
Bst4CI	ACNGT	3 cut(s)	19, 347, 520
Bst6I	CTCTTC	2 cut(s)	673, 742
BstACI	GRCGYC	1 cut(s)	597
BstC8I	GCNNGC	2 cut(s)	387, 679
BstDEI	CTNAG	2 cut(s)	465, 601
BstDSI	CCRYGG	1 cut(s)	275
BstF5I	GGATG	4 cut(s)	293, 403, 764, 883
BstKTI	GATC	4 cut(s)	50, 307, 373, 464
BstMAI	GTCTC	3 cut(s)	343, 604, 630
BstMBI	GATC	4 cut(s)	47, 304, 370, 461
BstMWI	GCNNNNNNNGC	7 cut(s)	277, 391, 431, 479, 687, 806, 912
BstSCI	CCNGG	1 cut(s)	712
BstSFI	CTRYAG	1 cut(s)	18
BstV1I	GCAGC	4 cut(s)	437, 563, 702, 784
BstV2I	GAAGAC	1 cut(s)	815
BstX2I	RGATCY	2 cut(s)	47, 461
BstXI	CCANNNNNNTGG	1 cut(s)	775
BstYI	RGATCY	2 cut(s)	47, 461
BsuI	GTATCC	1 cut(s)	74
BsuRI	GGCC	1 cut(s)	882
BtgI	CCRYGG	1 cut(s)	275
BtsCI	GGATG	4 cut(s)	293, 403, 764, 883
BtsIMutI	CAGTG	3 cut(s)	15, 575, 679
Cac8I	GCNNGC	2 cut(s)	387, 679
CciI	TCATGA	1 cut(s)	97
Cfr13I	GGNCC	1 cut(s)	239
CseI	GACGC	1 cut(s)	586
Csp6I	GTAC	2 cut(s)	348, 645
CviAII	CATG	5 cut(s)	98, 118, 218, 451, 884
CviQI	GTAC	2 cut(s)	348, 645
DdeI	CTNAG	2 cut(s)	465, 601
DpnI	GATC	4 cut(s)	49, 306, 372, 463
DpnII	GATC	4 cut(s)	47, 304, 370, 461
EaeI	YGGCCR	1 cut(s)	880
Eam1104I	CTCTTC	2 cut(s)	673, 742
EarI	CTCTTC	2 cut(s)	673, 742
EciI	GGCGGA	1 cut(s)	902
Ecl136II	GAGCTC	1 cut(s)	868
Eco130I	CCWWGG	1 cut(s)	891
Eco24I	GRGCYC	1 cut(s)	870
Eco47I	GGWCC	1 cut(s)	239
Eco53kI	GAGCTC	1 cut(s)	868
Eco57I	CTGAAG	1 cut(s)	186
EcoICRI	GAGCTC	1 cut(s)	868
EcoT14I	CCWWGG	1 cut(s)	891
EcoT38I	GRGCYC	1 cut(s)	870
ErhI	CCWWGG	1 cut(s)	891
Esp3I	CGTCTC	2 cut(s)	343, 604
FaeI	CATG	5 cut(s)	101, 121, 221, 454, 887
FalI	AAGNNNNNCTT	2 cut(s)	374, 406
FaqI	GGGAC	1 cut(s)	451
FatI	CATG	5 cut(s)	97, 117, 217, 450, 883
FauI	CCCGC	1 cut(s)	70
Fnu4HI	GCNGC	6 cut(s)	144, 426, 483, 552, 691, 798
FokI	GGATG	4 cut(s)	280, 410, 751, 890
FriOI	GRGCYC	1 cut(s)	870
Fsp4HI	GCNGC	6 cut(s)	144, 426, 483, 552, 691, 798
FspBI	CTAG	2 cut(s)	180, 629
GluI	GCNGC	6 cut(s)	144, 426, 483, 552, 691, 798
GsaI	CCCAGC	1 cut(s)	438
GsuI	CTGGAG	1 cut(s)	432
HaeIII	GGCC	1 cut(s)	882
HapII	CCGG	1 cut(s)	713
HgaI	GACGC	1 cut(s)	586
Hin1I	GRCGYC	1 cut(s)	597
Hin1II	CATG	5 cut(s)	101, 121, 221, 454, 887
HincII	GTYRAC	1 cut(s)	837
HindII	GTYRAC	1 cut(s)	837
HindIII	AAGCTT	2 cut(s)	323, 471
HinfI	GANTC	3 cut(s)	290, 439, 605
HpaII	CCGG	1 cut(s)	713
Hpy166II	GTNNAC	2 cut(s)	251, 837
Hpy188I	TCNGA	3 cut(s)	133, 466, 604
Hpy188III	TCNNGA	5 cut(s)	51, 98, 318, 411, 741
Hpy8I	GTNNAC	2 cut(s)	251, 837
HpyAV	CCTTC	1 cut(s)	719
HpyCH4III	ACNGT	3 cut(s)	19, 347, 520
HpyCH4IV	ACGT	1 cut(s)	786
HpyCH4V	TGCA	6 cut(s)	111, 173, 425, 564, 764, 800
HpyF10VI	GCNNNNNNNGC	7 cut(s)	277, 391, 431, 479, 687, 806, 912
HpyF3I	CTNAG	2 cut(s)	465, 601
HpySE526I	ACGT	1 cut(s)	786
Hsp92I	GRCGYC	1 cut(s)	597
Hsp92II	CATG	5 cut(s)	101, 121, 221, 454, 887
Kzo9I	GATC	4 cut(s)	47, 304, 370, 461
LmnI	GCTCC	4 cut(s)	140, 207, 406, 687
Lsp1109I	GCAGC	4 cut(s)	437, 563, 702, 784
LweI	GCATC	3 cut(s)	388, 773, 818
MaeI	CTAG	2 cut(s)	180, 629
MaeII	ACGT	1 cut(s)	786
MaeIII	GTNAC	1 cut(s)	698
MalI	GATC	4 cut(s)	49, 306, 372, 463
MboI	GATC	4 cut(s)	47, 304, 370, 461
MboII	GAAGA	7 cut(s)	321, 380, 391, 523, 660, 729, 815
MflI	RGATCY	2 cut(s)	47, 461
MhlI	GDGCHC	2 cut(s)	679, 870
MlsI	TGGCCA	1 cut(s)	882
MluCI	AATT	1 cut(s)	265
MluNI	TGGCCA	1 cut(s)	882
MlyI	GAGTC	1 cut(s)	433
MmeI	TCCRAC	1 cut(s)	665
MnlI	CCTC	6 cut(s)	254, 407, 460, 745, 808, 868
Mox20I	TGGCCA	1 cut(s)	882
MroXI	GAANNNNTTC	4 cut(s)	125, 325, 544, 729
MscI	TGGCCA	1 cut(s)	882
MseI	TTAA	1 cut(s)	663
MslI	CAYNNNNRTG	1 cut(s)	222
Msp20I	TGGCCA	1 cut(s)	882
MspA1I	CMGCKG	1 cut(s)	428
MspI	CCGG	1 cut(s)	713
MspR9I	CCNGG	1 cut(s)	714
MwoI	GCNNNNNNNGC	7 cut(s)	277, 391, 431, 479, 687, 806, 912
NciI	CCSGG	1 cut(s)	714
NdeII	GATC	4 cut(s)	47, 304, 370, 461
NlaIII	CATG	5 cut(s)	101, 121, 221, 454, 887
NlaIV	GGNNCC	3 cut(s)	49, 142, 732
PagI	TCATGA	1 cut(s)	97
PdmI	GAANNNNTTC	4 cut(s)	125, 325, 544, 729
PfeI	GAWTC	2 cut(s)	290, 605
PfoI	TCCNGGA	1 cut(s)	712
PkrI	GCNGC	6 cut(s)	145, 427, 484, 553, 692, 799
PleI	GAGTC	1 cut(s)	433
PpsI	GAGTC	1 cut(s)	433
Psp124BI	GAGCTC	1 cut(s)	870
PspFI	CCCAGC	1 cut(s)	434
PspN4I	GGNNCC	3 cut(s)	49, 142, 732
PspPI	GGNCC	1 cut(s)	239
PsuI	RGATCY	2 cut(s)	47, 461
RsaI	GTAC	2 cut(s)	349, 646
RsaNI	GTAC	2 cut(s)	348, 645
RseI	CAYNNNNRTG	1 cut(s)	222
SacI	GAGCTC	1 cut(s)	870
SaqAI	TTAA	1 cut(s)	663
SatI	GCNGC	6 cut(s)	144, 426, 483, 552, 691, 798
Sau3AI	GATC	4 cut(s)	47, 304, 370, 461
Sau96I	GGNCC	1 cut(s)	239
ScaI	AGTACT	1 cut(s)	646
SchI	GAGTC	1 cut(s)	433
ScrFI	CCNGG	1 cut(s)	714
SduI	GDGCHC	2 cut(s)	679, 870
SfaNI	GCATC	3 cut(s)	388, 773, 818
SfcI	CTRYAG	1 cut(s)	18
SinI	GGWCC	1 cut(s)	239
SmiMI	CAYNNNNRTG	1 cut(s)	222
Sse9I	AATT	1 cut(s)	265
SsiI	CCGC	5 cut(s)	77, 144, 428, 482, 913
SspI	AATATT	1 cut(s)	793
SspMI	CTAG	2 cut(s)	180, 629
SstI	GAGCTC	1 cut(s)	870
StyD4I	CCNGG	1 cut(s)	712
StyI	CCWWGG	1 cut(s)	891
TaaI	ACNGT	3 cut(s)	19, 347, 520
TaiI	ACGT	1 cut(s)	789
TaqI	TCGA	4 cut(s)	317, 503, 740, 826
TasI	AATT	1 cut(s)	265
TatI	WGTACW	2 cut(s)	347, 644
TauI	GCSGC	2 cut(s)	146, 485
TfiI	GAWTC	2 cut(s)	290, 605
Tru1I	TTAA	1 cut(s)	663
Tru9I	TTAA	1 cut(s)	663
TscAI	CASTG	3 cut(s)	22, 582, 679
TseI	GCWGC	4 cut(s)	425, 551, 690, 797
TspDTI	ATGAA	5 cut(s)	86, 134, 282, 439, 900
TspRI	CASTG	3 cut(s)	22, 582, 679
VpaK11BI	GGWCC	1 cut(s)	239
XapI	RAATTY	1 cut(s)	265
XcmI	CCANNNNNNNNNTGG	1 cut(s)	923
XmnI	GAANNNNTTC	4 cut(s)	125, 325, 544, 729
XspI	CTAG	2 cut(s)	180, 629
ZrmI	AGTACT	1 cut(s)	646

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