Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0001334

Physical Location & Seq

Genomic Coordinates Reverse (-)

21503765 .. 21510891

Gene Structure 7127 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00234820.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 429 bp

ATGACGCGTGTCGTTGATTTAGTTTATAAGTTACTAGCCATCAGTTATGGAAAGAATGGGATTCAAAATCCGTGTTCTCATGGTGGTGATGGTGGCTGTGGTTATATGTCTTTCCCTCAGTCACGTTTGCTGCCGAGGGAACTGCCACCTTCTATACACCTCCCTATGTTCAACGATGGGGTGATGATAGCTGCAGCAAGCGATGTCATTTGGGGAAACAGAGCGGCTTGTGGAAGAAATTATAGAGTGAAATGCATTGGAGCCACTAACCAAGGTGTACCACAACCTTGCAAGGGTAACAGCATTGTCGTAAAGATTGTCGATTATTGTCCTCCTGGATGCCAGGGAACTATAGATCTCTCCCAAGAAGCCTTTTCTGCCATTGCTAATCCTGATGCTGGAAAAATCAAGATTGAGTATACTCAGTAA

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

DPBB_1

Protein Analysis

142

Amino Acids

15.19

Weight (kDa)

8.49

Isoelectric Point (pI)

25.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DPBB_1	PF03330	64 - 140	2.7e-19	Lytic transglycolase

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)

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Publication-ready

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Orthologous Genes (Group: OG0001334)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G30380 AT4G30380
fragaria_vesca	FvH4_4g09540 FvH4_6g06300
malus_domestica	MD02G1013800.v1.1 MD11G1210900.v1.1
prunus_persica	Prupe.1G065400_v2.0.a1 Prupe.1G096800_v2.0.a1 Prupe.1G096900_v2.0.a1 Prupe.1G097000_v2.0.a1
pyrus_communis	pycom02g01290 pycom02g01370
rosa_chinensis	RchiOBHm_Chr4g0404821 RchiOBHm_Chr4g0404841 RchiOBHm_Chr4g0404861 RchiOBHm_Chr7g0222801 RchiOBHm_Chr7g0224401
rosa_laevigata	RLG00000001898 RLG00000008898 RLG00000008902
rosa_multiflora	Rmu_sc0001179.1_g000019 Rmu_sc0001179.1_g000029 Rmu_sc0002881.1_g000004 Rmu_sc0006366.1_g000016
rosa_roxburghii	Rroxscaffold_3G00234800 Rroxscaffold_3G00234820 Rroxscaffold_5G00348980 Rroxscaffold_5G00348990 Rroxscaffold_5G00349000
rosa_rugosa	Rorug04G0049300 Rorug04G0049400 Rorug04G0049600 Rorug07G0222800
rosa_samantha	Rh4AG125100 Rh4AG125300 Rh4AG333700 Rh4BG119200 Rh4BG119400 Rh4CG133200 Rh4CG133400 Rh4CG133500 Rh4DG119100 Rh7AG356900 Rh7AG380500 Rh7BG359100 Rh7CG374300 Rh7CG399900 Rh7DG351300 Rh7DG368800
rosa_wichuraiana	Rw4G010140 Rw4G010150 Rw4G010160 Rw7G030270 Rw7G031140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	27
AccBSI	CCGCTC	1 cut(s)	224
AccI	GTMKAC	1 cut(s)	419
AccII	CGCG	1 cut(s)	7
AciI	CCGC	1 cut(s)	224
AfaI	GTAC	1 cut(s)	279
AfiI	CCNNNNNNNGG	2 cut(s)	293, 398
AflIII	ACRYGT	1 cut(s)	5
AgsI	TTSAA	2 cut(s)	65, 172
AjnI	CCWGG	2 cut(s)	334, 342
AluBI	AGCT	1 cut(s)	191
AluI	AGCT	1 cut(s)	191
ApeKI	GCWGC	3 cut(s)	130, 191, 194
AsuHPI	GGTGA	2 cut(s)	98, 193
BbvI	GCAGC	3 cut(s)	117, 178, 206
BccI	CCATC	3 cut(s)	47, 83, 170
BcgI	CGANNNNNNTGC	2 cut(s)	124, 158
BciT130I	CCWGG	2 cut(s)	336, 344
BfaI	CTAG	1 cut(s)	35
BfmI	CTRYAG	2 cut(s)	192, 351
BglII	AGATCT	1 cut(s)	355
BisI	GCNGC	4 cut(s)	131, 192, 195, 225
BlsI	GCNGC	4 cut(s)	132, 193, 196, 226
Bme1390I	CCNGG	2 cut(s)	336, 344
BmiI	GGNNCC	1 cut(s)	262
BmrFI	CCNGG	2 cut(s)	336, 344
BmsI	GCATC	2 cut(s)	329, 385
BoxI	GACNNNNGTC	1 cut(s)	8
BsaJI	CCNNGG	3 cut(s)	134, 271, 343
Bsc4I	CCNNNNNNNGG	2 cut(s)	293, 398
Bse3DI	GCAATG	1 cut(s)	381
BseBI	CCWGG	2 cut(s)	336, 344
BseDI	CCNNGG	3 cut(s)	134, 271, 343
BseGI	GGATG	1 cut(s)	344
BseLI	CCNNNNNNNGG	2 cut(s)	293, 398
BseMI	GCAATG	1 cut(s)	381
BseMII	CTCAG	1 cut(s)	131
BseXI	GCAGC	3 cut(s)	117, 178, 206
Bsh1236I	CGCG	1 cut(s)	7
BslI	CCNNNNNNNGG	2 cut(s)	293, 398
Bsp143I	GATC	1 cut(s)	355
BspACI	CCGC	1 cut(s)	224
BspCNI	CTCAG	1 cut(s)	130
BspFNI	CGCG	1 cut(s)	7
BspLI	GGNNCC	1 cut(s)	262
BspMAI	CTGCAG	1 cut(s)	196
BsrBI	CCGCTC	1 cut(s)	224
BsrDI	GCAATG	1 cut(s)	381
BssECI	CCNNGG	3 cut(s)	134, 271, 343
BssMI	GATC	1 cut(s)	355
BssNAI	GTATAC	1 cut(s)	420
BssT1I	CCWWGG	1 cut(s)	271
Bst1107I	GTATAC	1 cut(s)	420
Bst2UI	CCWGG	2 cut(s)	336, 344
BstC8I	GCNNGC	1 cut(s)	199
BstDEI	CTNAG	2 cut(s)	117, 423
BstF5I	GGATG	1 cut(s)	344
BstFNI	CGCG	1 cut(s)	7
BstKTI	GATC	1 cut(s)	358
BstMBI	GATC	1 cut(s)	355
BstMWI	GCNNNNNNNGC	1 cut(s)	377
BstNI	CCWGG	2 cut(s)	336, 344
BstPAI	GACNNNNGTC	1 cut(s)	8
BstSCI	CCNGG	2 cut(s)	334, 342
BstSFI	CTRYAG	2 cut(s)	192, 351
BstUI	CGCG	1 cut(s)	7
BstV1I	GCAGC	3 cut(s)	117, 178, 206
BstX2I	RGATCY	1 cut(s)	355
BstYI	RGATCY	1 cut(s)	355
BstZ17I	GTATAC	1 cut(s)	420
BtgZI	GCGATG	1 cut(s)	216
BtsCI	GGATG	1 cut(s)	344
Cac8I	GCNNGC	1 cut(s)	199
CseI	GACGC	1 cut(s)	13
Csp6I	GTAC	1 cut(s)	278
CviAII	CATG	1 cut(s)	80
CviJI	RGCY	6 cut(s)	38, 96, 191, 227, 263, 371
CviKI_1	RGCY	6 cut(s)	38, 96, 191, 227, 263, 371
CviQI	GTAC	1 cut(s)	278
DdeI	CTNAG	2 cut(s)	117, 423
DpnI	GATC	1 cut(s)	357
DpnII	GATC	1 cut(s)	355
Eco130I	CCWWGG	1 cut(s)	271
EcoRII	CCWGG	2 cut(s)	334, 342
EcoT14I	CCWWGG	1 cut(s)	271
EcoT22I	ATGCAT	1 cut(s)	257
ErhI	CCWWGG	1 cut(s)	271
FaeI	CATG	1 cut(s)	83
FatI	CATG	1 cut(s)	79
FblI	GTMKAC	1 cut(s)	419
Fnu4HI	GCNGC	4 cut(s)	131, 192, 195, 225
FokI	GGATG	1 cut(s)	351
Fsp4HI	GCNGC	4 cut(s)	131, 192, 195, 225
FspBI	CTAG	1 cut(s)	35
GluI	GCNGC	4 cut(s)	131, 192, 195, 225
HgaI	GACGC	1 cut(s)	13
Hin1II	CATG	1 cut(s)	83
HinfI	GANTC	1 cut(s)	61
HphI	GGTGA	2 cut(s)	98, 193
Hpy166II	GTNNAC	2 cut(s)	278, 420
Hpy188III	TCNNGA	2 cut(s)	392, 409
Hpy8I	GTNNAC	2 cut(s)	278, 420
HpyAV	CCTTC	1 cut(s)	159
HpyCH4IV	ACGT	1 cut(s)	124
HpyCH4V	TGCA	3 cut(s)	194, 255, 291
HpyF10VI	GCNNNNNNNGC	1 cut(s)	377
HpyF3I	CTNAG	2 cut(s)	117, 423
HpySE526I	ACGT	1 cut(s)	124
Hsp92II	CATG	1 cut(s)	83
Kzo9I	GATC	1 cut(s)	355
LmnI	GCTCC	1 cut(s)	260
LpnPI	CCDG	6 cut(s)	321, 329, 348, 356, 384, 405
Lsp1109I	GCAGC	3 cut(s)	117, 178, 206
LweI	GCATC	2 cut(s)	329, 385
MaeI	CTAG	1 cut(s)	35
MaeII	ACGT	1 cut(s)	124
MaeIII	GTNAC	3 cut(s)	30, 120, 296
MalI	GATC	1 cut(s)	357
MbiI	CCGCTC	1 cut(s)	224
MboI	GATC	1 cut(s)	355
MboII	GAAGA	1 cut(s)	246
MflI	RGATCY	1 cut(s)	355
MluCI	AATT	1 cut(s)	238
MluI	ACGCGT	1 cut(s)	5
MnlI	CCTC	4 cut(s)	126, 129, 170, 342
Mph1103I	ATGCAT	1 cut(s)	257
MslI	CAYNNNNRTG	1 cut(s)	84
MspR9I	CCNGG	2 cut(s)	336, 344
MvaI	CCWGG	2 cut(s)	336, 344
MvnI	CGCG	1 cut(s)	7
MwoI	GCNNNNNNNGC	1 cut(s)	377
NdeII	GATC	1 cut(s)	355
NlaIII	CATG	1 cut(s)	83
NlaIV	GGNNCC	1 cut(s)	262
NmeAIII	GCCGAG	1 cut(s)	159
NmuCI	GTSAC	1 cut(s)	120
NsiI	ATGCAT	1 cut(s)	257
PfeI	GAWTC	1 cut(s)	61
PfoI	TCCNGGA	1 cut(s)	334
PkrI	GCNGC	4 cut(s)	132, 193, 196, 226
PshAI	GACNNNNGTC	1 cut(s)	8
PsiI	TTATAA	1 cut(s)	27
Psp6I	CCWGG	2 cut(s)	334, 342
PspGI	CCWGG	2 cut(s)	334, 342
PspN4I	GGNNCC	1 cut(s)	262
PstI	CTGCAG	1 cut(s)	196
PsuI	RGATCY	1 cut(s)	355
RsaI	GTAC	1 cut(s)	279
RsaNI	GTAC	1 cut(s)	278
RseI	CAYNNNNRTG	1 cut(s)	84
SatI	GCNGC	4 cut(s)	131, 192, 195, 225
Sau3AI	GATC	1 cut(s)	355
ScrFI	CCNGG	2 cut(s)	336, 344
SetI	ASST	6 cut(s)	127, 151, 162, 193, 277, 289
SfaNI	GCATC	2 cut(s)	329, 385
SfcI	CTRYAG	2 cut(s)	192, 351
SmiMI	CAYNNNNRTG	1 cut(s)	84
Sse9I	AATT	1 cut(s)	238
SsiI	CCGC	1 cut(s)	224
SspMI	CTAG	1 cut(s)	35
StyD4I	CCNGG	2 cut(s)	334, 342
StyI	CCWWGG	1 cut(s)	271
TaiI	ACGT	1 cut(s)	127
TaqI	TCGA	1 cut(s)	321
TasI	AATT	1 cut(s)	238
TauI	GCSGC	1 cut(s)	227
TfiI	GAWTC	1 cut(s)	61
TseFI	GTSAC	1 cut(s)	120
TseI	GCWGC	3 cut(s)	130, 191, 194
Tsp45I	GTSAC	1 cut(s)	120
TspGWI	ACGGA	1 cut(s)	60
XmiI	GTMKAC	1 cut(s)	419
XspI	CTAG	1 cut(s)	35
Zsp2I	ATGCAT	1 cut(s)	257

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