Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0003420

Physical Location & Seq

Genomic Coordinates Forward (+)

61716056 .. 61717507

Gene Structure 1452 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000010008

Sequence Viewer

CDS Protein Promoter (2k)

Length: 678 bp

ATGGGAAGTAGATACGGTGAGTACACATATGAGAACCTGGAGAGGGAACCGTACTGGCCTTCTGAGAAGCTTCGGATTTCTGTAACGGGGGCTGGTGGTTTCATTGCTTCACATATTGCCAAGCGACTAAAGAGTGAGGGTCATTACATTATTGCTTCCGACTGGAAGAAAAATGAGCACATGACTGAGGACATGTTCTGTAACGAATTCCATCTGGTTGATCTTAGAGTGATGGATAATTGTTTGAAGGTTACTGCTGGTGTTAACCATGTTTTCAACCTTGCTGCTGACATGGGAGGTATGGGGTTCATTCAGTCCAACCATTCCGTCATTATGTATAACAACACAATGATCAGCTTTAATATGCTCGAGGCAGCAAGGATCAATGGAGCTAACATGTTCTTTTATGCTTCTAGTGCTTGCATTTACCCTGAATTCAAAAAGTTGGATACTAATGTGAGCTTGAAGGAGTCTGATGCTTGGCCTGCAGAGCCTCAAGACGCCTATGGCTTGGAGAAGCTCATGACTGAAGAATTATGCAAGCACTTTAATAAGGAGTTCAGCATTGAATGTAGGATTGGACGATTTCCCAACATTTATGGACCCTTCGGAACTTGGAAAGGTGGTAGAGAGAAGGCCCCTGCTGCTTTTTGTAGAAAAGCCCGTACTTACCACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00053 ko00520 ko01100 ko01110 map00053 map00520 map01100 map01110

Pfam Domains

Protein Families

Epimerase

Protein Analysis

226

Amino Acids

25.72

Weight (kDa)

6.71

Isoelectric Point (pI)

38.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Epimerase	PF01370	26 - 220	9.7e-34	NAD dependent epimerase/dehydratase family
GDP_Man_Dehyd	PF16363	28 - 204	7.2e-13	GDP-mannose 4,6 dehydratase
3Beta_HSD	PF01073	28 - 185	6.4e-11	3-beta hydroxysteroid dehydrogenase/isomerase family

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: OG0003420)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G28840 AT5G28840
fragaria_vesca	FvH4_6g02980
malus_domestica	MD04G1224100.v1.1 MD04G1224200.v1.1 MD12G1240900.v1.1
prunus_persica	Prupe.1G025100_v2.0.a1 Prupe.1G025100_v2.0.a1 Prupe.6G342800_v2.0.a1
pyrus_communis	pycom04g19750
rosa_chinensis	RchiOBHm_Chr3g0451161 RchiOBHm_Chr4g0388911
rosa_laevigata	RLG00000010008 RLG00000010011 RLG00000025681 RLG00000025682
rosa_multiflora	Rmu_co8299443.1_g000001 Rmu_sc0005486.1_g000010 Rmu_ssc0000028.1_g000003
rosa_roxburghii	Rroxscaffold_5G00335220 Rroxscaffold_6G00428630
rosa_rugosa	Rorug02G0632400 Rorug02G0632500 Rorug03G0321000 Rorug03G0321000 Rorug03G0321100
rosa_samantha	Rh3AG034900 Rh3BG035300 Rh3CG033800 Rh3CG033900 Rh3DG034900 Rh4BG018800 Rh4CG028600 Rh4DG019300
rosa_wichuraiana	Rw3G002560 Rw4G001840

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	389
AcsI	RAATTY	2 cut(s)	206, 434
AcuI	CTGAAG	1 cut(s)	549
AcyI	GRCGYC	1 cut(s)	501
AfaI	GTAC	3 cut(s)	23, 53, 667
AfiI	CCNNNNNNNGG	1 cut(s)	43
AflIII	ACRYGT	2 cut(s)	192, 396
AgsI	TTSAA	5 cut(s)	247, 277, 439, 466, 569
AjnI	CCWGG	1 cut(s)	36
AjuI	GAANNNNNNNTTGG	2 cut(s)	561, 593
AluBI	AGCT	5 cut(s)	70, 357, 392, 462, 520
AluI	AGCT	5 cut(s)	70, 357, 392, 462, 520
Alw21I	GWGCWC	1 cut(s)	180
AlwI	GGATC	1 cut(s)	389
Ama87I	CYCGRG	1 cut(s)	368
AoxI	GGCC	3 cut(s)	56, 482, 636
ApeKI	GCWGC	3 cut(s)	284, 374, 644
ApoI	RAATTY	2 cut(s)	206, 434
AspS9I	GGNCC	2 cut(s)	602, 637
AsuHPI	GGTGA	1 cut(s)	29
AvaI	CYCGRG	1 cut(s)	368
AvaII	GGWCC	1 cut(s)	602
BaeI	ACNNNNGTAYC	2 cut(s)	441, 474
Bbv12I	GWGCWC	1 cut(s)	180
BbvI	GCAGC	3 cut(s)	271, 386, 631
BccI	CCATC	2 cut(s)	219, 226
BciT130I	CCWGG	1 cut(s)	38
BciVI	GTATCC	1 cut(s)	442
BclI	TGATCA	1 cut(s)	351
BfaI	CTAG	1 cut(s)	414
BfmI	CTRYAG	1 cut(s)	486
BfuI	GTATCC	1 cut(s)	442
BisI	GCNGC	3 cut(s)	285, 375, 645
BlsI	GCNGC	3 cut(s)	286, 376, 646
Bme1390I	CCNGG	1 cut(s)	38
Bme18I	GGWCC	1 cut(s)	602
BmeT110I	CYCGRG	1 cut(s)	368
BmgT120I	GGNCC	2 cut(s)	602, 637
BmiI	GGNNCC	3 cut(s)	48, 604, 639
BmrFI	CCNGG	1 cut(s)	38
BmsI	GCATC	1 cut(s)	466
BpmI	CTGGAG	1 cut(s)	59
BpuEI	CTTGAG	1 cut(s)	480
BsaHI	GRCGYC	1 cut(s)	501
Bsc4I	CCNNNNNNNGG	1 cut(s)	43
Bse1I	ACTGG	2 cut(s)	59, 167
Bse3DI	GCAATG	1 cut(s)	102
BseBI	CCWGG	1 cut(s)	38
BseLI	CCNNNNNNNGG	1 cut(s)	43
BseMI	GCAATG	1 cut(s)	102
BseMII	CTCAG	2 cut(s)	54, 177
BseNI	ACTGG	2 cut(s)	59, 167
BseXI	GCAGC	3 cut(s)	271, 386, 631
BshFI	GGCC	3 cut(s)	58, 484, 638
BsiHKAI	GWGCWC	1 cut(s)	180
BsiHKCI	CYCGRG	1 cut(s)	368
BslI	CCNNNNNNNGG	1 cut(s)	43
BsnI	GGCC	3 cut(s)	58, 484, 638
BsoBI	CYCGRG	1 cut(s)	368
Bsp1286I	GDGCHC	1 cut(s)	180
Bsp143I	GATC	3 cut(s)	220, 351, 381
BspANI	GGCC	3 cut(s)	58, 484, 638
BspCNI	CTCAG	2 cut(s)	55, 178
BspHI	TCATGA	1 cut(s)	522
BspLI	GGNNCC	3 cut(s)	48, 604, 639
BspMAI	CTGCAG	1 cut(s)	490
BspPI	GGATC	1 cut(s)	389
BsrDI	GCAATG	1 cut(s)	102
BsrI	ACTGG	2 cut(s)	59, 167
BssMI	GATC	3 cut(s)	220, 351, 381
BssNI	GRCGYC	1 cut(s)	501
Bst2UI	CCWGG	1 cut(s)	38
Bst4CI	ACNGT	2 cut(s)	17, 51
BstACI	GRCGYC	1 cut(s)	501
BstC8I	GCNNGC	3 cut(s)	421, 486, 542
BstDEI	CTNAG	3 cut(s)	63, 186, 224
BstKTI	GATC	3 cut(s)	223, 354, 384
BstMBI	GATC	3 cut(s)	220, 351, 381
BstMWI	GCNNNNNNNGC	4 cut(s)	416, 485, 490, 644
BstNI	CCWGG	1 cut(s)	38
BstNSI	RCATGY	2 cut(s)	196, 400
BstSCI	CCNGG	1 cut(s)	36
BstSFI	CTRYAG	1 cut(s)	486
BstV1I	GCAGC	3 cut(s)	271, 386, 631
BsuI	GTATCC	1 cut(s)	442
BsuRI	GGCC	3 cut(s)	58, 484, 638
BtsIMutI	CAGTG	1 cut(s)	673
Cac8I	GCNNGC	3 cut(s)	421, 486, 542
CciI	TCATGA	1 cut(s)	522
Cfr13I	GGNCC	2 cut(s)	602, 637
CseI	GACGC	1 cut(s)	509
Csp6I	GTAC	3 cut(s)	22, 52, 666
CviAII	CATG	6 cut(s)	181, 193, 269, 292, 397, 523
CviQI	GTAC	3 cut(s)	22, 52, 666
DdeI	CTNAG	3 cut(s)	63, 186, 224
DpnI	GATC	3 cut(s)	222, 353, 383
DpnII	GATC	3 cut(s)	220, 351, 381
Eco47I	GGWCC	1 cut(s)	602
Eco57I	CTGAAG	1 cut(s)	549
Eco88I	CYCGRG	1 cut(s)	368
EcoO109I	RGGNCCY	1 cut(s)	637
EcoRI	GAATTC	2 cut(s)	206, 434
EcoRII	CCWGG	1 cut(s)	36
FaeI	CATG	6 cut(s)	184, 196, 272, 295, 400, 526
FatI	CATG	6 cut(s)	180, 192, 268, 291, 396, 522
FauNDI	CATATG	1 cut(s)	28
FbaI	TGATCA	1 cut(s)	351
Fnu4HI	GCNGC	3 cut(s)	285, 375, 645
Fsp4HI	GCNGC	3 cut(s)	285, 375, 645
FspBI	CTAG	1 cut(s)	414
GluI	GCNGC	3 cut(s)	285, 375, 645
GsuI	CTGGAG	1 cut(s)	59
HaeIII	GGCC	3 cut(s)	58, 484, 638
HgaI	GACGC	1 cut(s)	509
Hin1I	GRCGYC	1 cut(s)	501
Hin1II	CATG	6 cut(s)	184, 196, 272, 295, 400, 526
HincII	GTYRAC	1 cut(s)	265
HindII	GTYRAC	1 cut(s)	265
HindIII	AAGCTT	1 cut(s)	68
HinfI	GANTC	1 cut(s)	470
HpaI	GTTAAC	1 cut(s)	265
HphI	GGTGA	1 cut(s)	29
Hpy166II	GTNNAC	2 cut(s)	24, 265
Hpy188I	TCNGA	5 cut(s)	64, 75, 160, 475, 611
Hpy188III	TCNNGA	2 cut(s)	497, 523
Hpy8I	GTNNAC	2 cut(s)	24, 265
HpyAV	CCTTC	5 cut(s)	69, 241, 460, 616, 628
HpyCH4III	ACNGT	2 cut(s)	17, 51
HpyCH4V	TGCA	3 cut(s)	423, 488, 540
HpyF10VI	GCNNNNNNNGC	4 cut(s)	416, 485, 490, 644
HpyF3I	CTNAG	3 cut(s)	63, 186, 224
Hsp92I	GRCGYC	1 cut(s)	501
Hsp92II	CATG	6 cut(s)	184, 196, 272, 295, 400, 526
Ksp22I	TGATCA	1 cut(s)	351
KspAI	GTTAAC	1 cut(s)	265
Kzo9I	GATC	3 cut(s)	220, 351, 381
LmnI	GCTCC	1 cut(s)	389
Lsp1109I	GCAGC	3 cut(s)	271, 386, 631
LweI	GCATC	1 cut(s)	466
MaeI	CTAG	1 cut(s)	414
MaeIII	GTNAC	3 cut(s)	82, 200, 250
MalI	GATC	3 cut(s)	222, 353, 383
MboI	GATC	3 cut(s)	220, 351, 381
MboII	GAAGA	2 cut(s)	178, 542
MhlI	GDGCHC	1 cut(s)	180
MluCI	AATT	4 cut(s)	206, 238, 434, 533
MlyI	GAGTC	1 cut(s)	479
MmeI	TCCRAC	3 cut(s)	183, 342, 426
MnlI	CCTC	6 cut(s)	36, 130, 181, 290, 364, 504
MseI	TTAA	3 cut(s)	264, 360, 549
MspR9I	CCNGG	1 cut(s)	38
MvaI	CCWGG	1 cut(s)	38
MwoI	GCNNNNNNNGC	4 cut(s)	416, 485, 490, 644
NdeI	CATATG	1 cut(s)	28
NdeII	GATC	3 cut(s)	220, 351, 381
NlaIII	CATG	6 cut(s)	184, 196, 272, 295, 400, 526
NlaIV	GGNNCC	3 cut(s)	48, 604, 639
NspI	RCATGY	2 cut(s)	196, 400
PaeR7I	CTCGAG	1 cut(s)	368
PagI	TCATGA	1 cut(s)	522
PciI	ACATGT	2 cut(s)	192, 396
PkrI	GCNGC	3 cut(s)	286, 376, 646
PleI	GAGTC	1 cut(s)	478
PpsI	GAGTC	1 cut(s)	478
PscI	ACATGT	2 cut(s)	192, 396
Psp6I	CCWGG	1 cut(s)	36
PspGI	CCWGG	1 cut(s)	36
PspN4I	GGNNCC	3 cut(s)	48, 604, 639
PspPI	GGNCC	2 cut(s)	602, 637
PspXI	VCTCGAGB	1 cut(s)	368
PstI	CTGCAG	1 cut(s)	490
RsaI	GTAC	3 cut(s)	23, 53, 667
RsaNI	GTAC	3 cut(s)	22, 52, 666
SaqAI	TTAA	3 cut(s)	264, 360, 549
SatI	GCNGC	3 cut(s)	285, 375, 645
Sau3AI	GATC	3 cut(s)	220, 351, 381
Sau96I	GGNCC	2 cut(s)	602, 637
SchI	GAGTC	1 cut(s)	479
ScrFI	CCNGG	1 cut(s)	38
SduI	GDGCHC	1 cut(s)	180
SfaNI	GCATC	1 cut(s)	466
SfcI	CTRYAG	1 cut(s)	486
Sfr274I	CTCGAG	1 cut(s)	368
SinI	GGWCC	1 cut(s)	602
SlaI	CTCGAG	1 cut(s)	368
SmlI	CTYRAG	2 cut(s)	368, 495
SmoI	CTYRAG	2 cut(s)	368, 495
Sse9I	AATT	4 cut(s)	206, 238, 434, 533
SspMI	CTAG	1 cut(s)	414
StyD4I	CCNGG	1 cut(s)	36
TaaI	ACNGT	2 cut(s)	17, 51
TaqI	TCGA	1 cut(s)	369
TasI	AATT	4 cut(s)	206, 238, 434, 533
TatI	WGTACW	1 cut(s)	21
Tru1I	TTAA	3 cut(s)	264, 360, 549
Tru9I	TTAA	3 cut(s)	264, 360, 549
TseI	GCWGC	3 cut(s)	284, 374, 644
TspDTI	ATGAA	2 cut(s)	91, 298
TspGWI	ACGGA	1 cut(s)	316
VpaK11BI	GGWCC	1 cut(s)	602
XapI	RAATTY	2 cut(s)	206, 434
XceI	RCATGY	2 cut(s)	196, 400
XhoI	CTCGAG	1 cut(s)	368
XspI	CTAG	1 cut(s)	414

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