Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0001539

Physical Location & Seq

Genomic Coordinates Reverse (-)

5354693 .. 5355932

Gene Structure 1240 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00390380.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 729 bp

ATGACTAATGTTACAAGTTATTTTGCCACAGCTGTATTCATTTTTATACATATTCTATCCCAATCATCTGCTTCTGGTGATGAGACGACTACAAGAACTTATAATGTTTTGGAGTTTGGAGCCAAGTGCAATGGTGTAACCAATTCAACCCAAGCTTTTCTCAATGCTTGGCCAGTAGCCTGTGGTTCCTCCGCAGATTCCACTAAGATATATGTACCAAAGGGGAGGTATTTGCTCGGCGCTATGGCCTTTAAAGGCGACTGCAAAAGCTCACACATCACTTTTCGGATTGATGGAACACTTGTGGCTTCACCTGATTACCGAGTACTAGGCCAAGCTAACAACTGGTTCAGCTTTGAAGGAGTTAGCGGGATAACCATTGTCGGAGGAGCACTTGATGCCAAAGGCGTTAAAGTCATTGCCGCTGGAAATAGCCCAAACACTGATGGTATCCATGTCCAGTTTTCCAGAAATGTTGCAATCTTCGACACCTCCATCAAAACTGGGGACGATTGTGTCTCTATTGGCCCCGGCACCAAGGACTTGTGGATGGAACGCATATCATGCGGACCTGGGCATGGCATTAGCATAGGGAGCCTGGCCAAAGACTTGGAAGAGGAAGGAGTCCAAAATGTAACACTCAAAAATGCGATTTTCAAGGGTACCACAAATGGTCTCAGGATAAAGTCGTGGGCAAGACCCAGCACGGGGTTTGTGCAAGGTGTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005576 GO:0005618 GO:0005623 GO:0030312 GO:0044464 GO:0071944

KEGG Pathways

Metabolic & Signaling

ko00040 ko01100 map00040 map01100

Pfam Domains

Protein Families

Glyco_hydro_28

Protein Analysis

242

Amino Acids

25.62

Weight (kDa)

8.25

Isoelectric Point (pI)

21.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	35 - 231	5.2e-08	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	134 - 242	3.2e-34	Glycosyl hydrolases family 28

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: OG0001539)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g22630
malus_domestica	MD12G1096500.v1.1
prunus_persica	Prupe.7G005500_v2.0.a1 Prupe.7G030700_v2.0.a1 Prupe.7G031900_v2.0.a1 Prupe.7G036000_v2.0.a1 Prupe.7G036300_v2.0.a1
pyrus_communis	pycom12g08540 pycom12g08550 pycom14g00130
rosa_chinensis	RchiOBHm_Chr2g0116641 RchiOBHm_Chr2g0116851 RchiOBHm_Chr2g0116891 RchiOBHm_Chr2g0116931 RchiOBHm_Chr2g0116951
rosa_laevigata	RLG00000018296 RLG00000018300 RLG00000018301 RLG00000018305 RLG00000018307 RLG00000018315 RLG00000032066
rosa_multiflora	Rmu_co8325457.1_g000001 Rmu_co8398115.1_g000001 Rmu_co8400735.1_g000001 Rmu_co8406615.1_g000001 Rmu_co8465195.1_g000001 Rmu_sc0002177.1_g000015 Rmu_sc0004942.1_g000013 Rmu_sc0011969.1_g000016 Rmu_sc0013102.1_g000010 Rmu_sc0016190.1_g000004 Rmu_ssc0000141.1_g000016 Rmu_ssc0000141.1_g000018 Rmu_ssc0000238.1_g000024 Rmu_ssc0000238.1_g000031
rosa_roxburghii	Rroxscaffold_2G00126930 Rroxscaffold_2G00126990 Rroxscaffold_6G00390380 Rroxscaffold_6G00390440 Rroxscaffold_6G00390460
rosa_rugosa	Rorug02G0208600 Rorug02G0208900 Rorug02G0208900
rosa_samantha	Rh2BG275400 Rh2BG275800 Rh2BG276100 Rh2BG276700
rosa_wichuraiana	Rw2G020840 Rw2G020860 Rw2G020890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	102
AasI	GACNNNNNNGTC	1 cut(s)	515
Acc65I	GGTACC	1 cut(s)	662
AccB1I	GGYRCC	2 cut(s)	533, 662
AciI	CCGC	4 cut(s)	192, 369, 423, 567
AcoI	YGGCCR	2 cut(s)	170, 600
AfaI	GTAC	3 cut(s)	216, 327, 664
AfiI	CCNNNNNNNGG	3 cut(s)	578, 707, 708
AgsI	TTSAA	3 cut(s)	147, 359, 658
AjnI	CCWGG	2 cut(s)	571, 597
AluBI	AGCT	5 cut(s)	32, 155, 270, 338, 354
AluI	AGCT	5 cut(s)	32, 155, 270, 338, 354
Alw21I	GWGCWC	1 cut(s)	394
Alw26I	GTCTC	3 cut(s)	77, 523, 680
AoxI	GGCC	5 cut(s)	170, 246, 331, 526, 600
Asp718I	GGTACC	1 cut(s)	662
AspLEI	GCGC	1 cut(s)	242
AspS9I	GGNCC	2 cut(s)	527, 569
AsuC2I	CCSGG	1 cut(s)	531
AsuHPI	GGTGA	2 cut(s)	89, 303
AvaII	GGWCC	1 cut(s)	569
BalI	TGGCCA	2 cut(s)	172, 602
BanI	GGYRCC	2 cut(s)	533, 662
Bbv12I	GWGCWC	1 cut(s)	394
BccI	CCATC	4 cut(s)	287, 440, 503, 544
BciT130I	CCWGG	2 cut(s)	573, 599
BciVI	GTATCC	1 cut(s)	461
BcnI	CCSGG	1 cut(s)	531
BcoDI	GTCTC	3 cut(s)	77, 523, 680
BfaI	CTAG	1 cut(s)	329
BfoI	RGCGCY	1 cut(s)	243
BfuI	GTATCC	1 cut(s)	461
BisI	GCNGC	1 cut(s)	423
BlsI	GCNGC	1 cut(s)	424
BmcAI	AGTACT	1 cut(s)	327
Bme1390I	CCNGG	3 cut(s)	531, 573, 599
Bme18I	GGWCC	1 cut(s)	569
BmgT120I	GGNCC	2 cut(s)	527, 569
BmiI	GGNNCC	6 cut(s)	121, 187, 529, 535, 596, 664
BmrFI	CCNGG	3 cut(s)	531, 573, 599
BmrI	ACTGGG	1 cut(s)	513
BmsI	GCATC	1 cut(s)	388
BmuI	ACTGGG	1 cut(s)	513
BpuMI	CCSGG	1 cut(s)	531
BsaI	GGTCTC	1 cut(s)	680
BsaJI	CCNNGG	3 cut(s)	529, 537, 572
Bsc4I	CCNNNNNNNGG	3 cut(s)	578, 707, 708
Bse1I	ACTGG	4 cut(s)	173, 350, 460, 508
Bse3DI	GCAATG	2 cut(s)	136, 417
BseBI	CCWGG	2 cut(s)	573, 599
BseDI	CCNNGG	3 cut(s)	529, 537, 572
BseGI	GGATG	1 cut(s)	555
BseLI	CCNNNNNNNGG	3 cut(s)	578, 707, 708
BseMI	GCAATG	2 cut(s)	136, 417
BseMII	CTCAG	1 cut(s)	691
BseNI	ACTGG	4 cut(s)	173, 350, 460, 508
BseRI	GAGGAG	1 cut(s)	402
BseYI	CCCAGC	1 cut(s)	701
BshFI	GGCC	5 cut(s)	172, 248, 333, 528, 602
BshNI	GGYRCC	2 cut(s)	533, 662
BsiHKAI	GWGCWC	1 cut(s)	394
BsiSI	CCGG	1 cut(s)	531
BslFI	GGGAC	1 cut(s)	521
BslI	CCNNNNNNNGG	3 cut(s)	578, 707, 708
BsmAI	GTCTC	3 cut(s)	77, 523, 680
BsmBI	CGTCTC	1 cut(s)	77
BsmFI	GGGAC	1 cut(s)	521
BsnI	GGCC	5 cut(s)	172, 248, 333, 528, 602
Bso31I	GGTCTC	1 cut(s)	680
Bsp1286I	GDGCHC	1 cut(s)	394
BspACI	CCGC	4 cut(s)	192, 369, 423, 567
BspANI	GGCC	5 cut(s)	172, 248, 333, 528, 602
BspCNI	CTCAG	1 cut(s)	690
BspLI	GGNNCC	6 cut(s)	121, 187, 529, 535, 596, 664
BspT107I	GGYRCC	2 cut(s)	533, 662
BspTNI	GGTCTC	1 cut(s)	680
BsrDI	GCAATG	2 cut(s)	136, 417
BsrI	ACTGG	4 cut(s)	173, 350, 460, 508
BssECI	CCNNGG	3 cut(s)	529, 537, 572
BssT1I	CCWWGG	1 cut(s)	537
Bst2UI	CCWGG	2 cut(s)	573, 599
Bst6I	CTCTTC	1 cut(s)	609
BstAPI	GCANNNNNTGC	2 cut(s)	398, 564
BstDEI	CTNAG	2 cut(s)	204, 677
BstF5I	GGATG	1 cut(s)	555
BstH2I	RGCGCY	1 cut(s)	243
BstHHI	GCGC	1 cut(s)	242
BstMAI	GTCTC	3 cut(s)	77, 523, 680
BstMWI	GCNNNNNNNGC	3 cut(s)	398, 564, 594
BstNI	CCWGG	2 cut(s)	573, 599
BstSCI	CCNGG	3 cut(s)	529, 571, 597
BstXI	CCANNNNNNTGG	1 cut(s)	610
BsuI	GTATCC	1 cut(s)	461
BsuRI	GGCC	5 cut(s)	172, 248, 333, 528, 602
BtsCI	GGATG	1 cut(s)	555
BtsIMutI	CAGTG	1 cut(s)	441
CfoI	GCGC	1 cut(s)	242
Cfr13I	GGNCC	2 cut(s)	527, 569
Csp6I	GTAC	3 cut(s)	215, 326, 663
CviAII	CATG	3 cut(s)	455, 564, 578
CviQI	GTAC	3 cut(s)	215, 326, 663
DdeI	CTNAG	2 cut(s)	204, 677
DraI	TTTAAA	1 cut(s)	253
DrdI	GACNNNNNNGTC	1 cut(s)	515
DseDI	GACNNNNNNGTC	1 cut(s)	515
EaeI	YGGCCR	2 cut(s)	170, 600
Eam1104I	CTCTTC	1 cut(s)	609
EarI	CTCTTC	1 cut(s)	609
Eco130I	CCWWGG	1 cut(s)	537
Eco31I	GGTCTC	1 cut(s)	680
Eco47I	GGWCC	1 cut(s)	569
EcoRII	CCWGG	2 cut(s)	571, 597
EcoT14I	CCWWGG	1 cut(s)	537
ErhI	CCWWGG	1 cut(s)	537
Esp3I	CGTCTC	1 cut(s)	77
FaeI	CATG	3 cut(s)	458, 567, 581
FaqI	GGGAC	1 cut(s)	521
FatI	CATG	3 cut(s)	454, 563, 577
FauI	CCCGC	1 cut(s)	362
Fnu4HI	GCNGC	1 cut(s)	423
FokI	GGATG	1 cut(s)	562
Fsp4HI	GCNGC	1 cut(s)	423
FspBI	CTAG	1 cut(s)	329
GlaI	GCGC	1 cut(s)	241
GluI	GCNGC	1 cut(s)	423
GsaI	CCCAGC	1 cut(s)	705
HaeII	RGCGCY	1 cut(s)	243
HaeIII	GGCC	5 cut(s)	172, 248, 333, 528, 602
HapII	CCGG	1 cut(s)	531
HhaI	GCGC	1 cut(s)	242
Hin1II	CATG	3 cut(s)	458, 567, 581
Hin6I	GCGC	1 cut(s)	240
HinP1I	GCGC	1 cut(s)	240
HindIII	AAGCTT	1 cut(s)	153
HinfI	GANTC	2 cut(s)	197, 624
HpaII	CCGG	1 cut(s)	531
HphI	GGTGA	2 cut(s)	89, 303
Hpy188I	TCNGA	3 cut(s)	288, 386, 728
Hpy188III	TCNNGA	2 cut(s)	468, 679
HpyAV	CCTTC	2 cut(s)	353, 614
HpyCH4V	TGCA	4 cut(s)	129, 264, 479, 718
HpyF10VI	GCNNNNNNNGC	3 cut(s)	398, 564, 594
HpyF3I	CTNAG	2 cut(s)	204, 677
Hsp92II	CATG	3 cut(s)	458, 567, 581
HspAI	GCGC	1 cut(s)	240
KpnI	GGTACC	1 cut(s)	666
LmnI	GCTCC	3 cut(s)	119, 389, 594
LweI	GCATC	1 cut(s)	388
MaeI	CTAG	1 cut(s)	329
MaeIII	GTNAC	3 cut(s)	10, 136, 634
MboII	GAAGA	2 cut(s)	475, 626
MhlI	GDGCHC	1 cut(s)	394
MlsI	TGGCCA	2 cut(s)	172, 602
MluCI	AATT	1 cut(s)	142
MluNI	TGGCCA	2 cut(s)	172, 602
MlyI	GAGTC	1 cut(s)	633
MmeI	TCCRAC	1 cut(s)	364
MnlI	CCTC	5 cut(s)	199, 219, 380, 502, 610
Mox20I	TGGCCA	2 cut(s)	172, 602
MscI	TGGCCA	2 cut(s)	172, 602
MseI	TTAA	2 cut(s)	252, 411
Msp20I	TGGCCA	2 cut(s)	172, 602
MspA1I	CMGCKG	2 cut(s)	32, 425
MspI	CCGG	1 cut(s)	531
MspR9I	CCNGG	3 cut(s)	531, 573, 599
MvaI	CCWGG	2 cut(s)	573, 599
MwoI	GCNNNNNNNGC	3 cut(s)	398, 564, 594
NciI	CCSGG	1 cut(s)	531
NlaIII	CATG	3 cut(s)	458, 567, 581
NlaIV	GGNNCC	6 cut(s)	121, 187, 529, 535, 596, 664
NmeAIII	GCCGAG	1 cut(s)	216
PfeI	GAWTC	1 cut(s)	197
PkrI	GCNGC	1 cut(s)	424
PleI	GAGTC	1 cut(s)	632
PpsI	GAGTC	1 cut(s)	632
PsiI	TTATAA	1 cut(s)	102
Psp6I	CCWGG	2 cut(s)	571, 597
PspFI	CCCAGC	1 cut(s)	701
PspGI	CCWGG	2 cut(s)	571, 597
PspN4I	GGNNCC	6 cut(s)	121, 187, 529, 535, 596, 664
PspPI	GGNCC	2 cut(s)	527, 569
PvuII	CAGCTG	1 cut(s)	32
RsaI	GTAC	3 cut(s)	216, 327, 664
RsaNI	GTAC	3 cut(s)	215, 326, 663
SaqAI	TTAA	2 cut(s)	252, 411
SatI	GCNGC	1 cut(s)	423
Sau96I	GGNCC	2 cut(s)	527, 569
ScaI	AGTACT	1 cut(s)	327
SchI	GAGTC	1 cut(s)	633
ScrFI	CCNGG	3 cut(s)	531, 573, 599
SduI	GDGCHC	1 cut(s)	394
SfaNI	GCATC	1 cut(s)	388
SinI	GGWCC	1 cut(s)	569
Sse9I	AATT	1 cut(s)	142
SsiI	CCGC	4 cut(s)	192, 369, 423, 567
SspMI	CTAG	1 cut(s)	329
StyD4I	CCNGG	3 cut(s)	529, 571, 597
StyI	CCWWGG	1 cut(s)	537
TaqI	TCGA	1 cut(s)	486
TasI	AATT	1 cut(s)	142
TatI	WGTACW	1 cut(s)	325
TauI	GCSGC	1 cut(s)	425
TfiI	GAWTC	1 cut(s)	197
Tru1I	TTAA	2 cut(s)	252, 411
Tru9I	TTAA	2 cut(s)	252, 411
TscAI	CASTG	1 cut(s)	448
TspDTI	ATGAA	1 cut(s)	28
TspRI	CASTG	1 cut(s)	448
VpaK11BI	GGWCC	1 cut(s)	569
XspI	CTAG	1 cut(s)	329
ZrmI	AGTACT	1 cut(s)	327

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