Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0002733

Physical Location & Seq

Genomic Coordinates Reverse (-)

11292582 .. 11294112

Gene Structure 1531 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00290790.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 936 bp

ATGGAGACTAGGAACTTCAGTACCAAAAATGGCAAGCGTTTGTGTCTGCAAGACCAAGTTGCTGTTGCTCTTAGGAGGCTTAGCTCTGGTGAATCATTAATGAACATTGGTGACTCCTTTGGGATGAACCAAACAACTGTTGCTCAGGTAACCTGGCGGTTTGCGGAAGCAATAGAGGAGAAAGGGCTCCACCATCTTTGTTGGCCTAAAGAGCAAGGTGAGATGGAAAAGATAAAGTCCAAGTTTGAAAGAATTCGTGGCCTTCCAAATTGCTGTGGTGCAATCGACATCACTCACATCATGATGACTCTGCCTGCAGCTGACTCATCAGATGTCTGGCTCGATGGTGAAAAAAACTGCAGCATGACCTTGCAGGCAGTTGTTGACCCTGATATGAGATTTCGTAACATAGTTACTGGATGGCCAGGAAGTCTGAGTGATGACATTATCCTCCGAAGCTCAGGTTTCTTCAAACTGTGTGAAGAAGGAACTTGTTTAAATGGTAAGAAAATGGTGCTGTCTGAAGGAACAGAAGTAAGAGAATACTTAGTAGGAGATTCCGGTTTTCCACTTTTGGAATGGCTTATGACTCCTTACCAGGGAAGAAAACTCCCAGATGATAAGTCTGAGTTTAACGAGCGACTTTCTGCAACCCAAATGGTGGCAAGGAGAGCATTTGTGAGGTTGAAGGAGATGTGGAAATTAATTCAAGGAGCAATGTGGTTGCCTGATAAGAATAAGCTGCCGAGGATTATTCTCGCTTGCTGCGTACTGCATAACATAGTCATTGATATGGATGATCAGGTGCAGGACGAAATGCCTTTGTCCCATCACCATGATTCGGGTTACCACCACCAGAGTTGTGAATCTGCTGACAAGACTGGCTCTGTTCTAAGAGAGAAACTTTCTCTATACTTCTCTGGACAATTACCTTGA

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

DDE_Tnp_4

Protein Analysis

311

Amino Acids

35.25

Weight (kDa)

6.02

Isoelectric Point (pI)

42.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Plant_tran	PF04827	75 - 267	3.6e-13	Plant transposon protein
DDE_Tnp_4	PF13359	95 - 260	1.4e-29	DDE superfamily endonuclease

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: OG0002733)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G55350
fragaria_vesca	FvH4_3g35001 FvH4_3g35001 FvH4_3g35001 FvH4_3g35001 FvH4_7g21532 FvH4_7g21532
malus_domestica	MD01G1122200.v1.1 MD03G1099600.v1.1 MD07G1191700.v1.1 MD11G1113800.v1.1
prunus_persica	Prupe.2G229800_v2.0.a1 Prupe.6G084600_v2.0.a1
pyrus_communis	pycom01g14910 pycom03g08200 pycom07g18110 pycom11g09580
rosa_chinensis	RchiOBHm_Chr1g0365861 RchiOBHm_Chr5g0062911
rosa_laevigata	RLG00000027385 RLG00000035589
rosa_multiflora	Rmu_co8388519.1_g000001 Rmu_sc0006406.1_g000002 Rmu_sc0010322.1_g000001
rosa_roxburghii	Rroxscaffold_1G00017720 Rroxscaffold_4G00290790 Rroxscaffold_5G00340940
rosa_rugosa	Rorug05G0352700
rosa_samantha	Rh1AG334100 Rh1BG294700 Rh1CG311400 Rh1DG327100 Rh5AG413700 Rh5BG427900 Rh5CG451500 Rh5DG441600
rosa_wichuraiana	Rw1G029640 Rw2G024510 Rw5G038870

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	661
AciI	CCGC	2 cut(s)	157, 164
AcoI	YGGCCR	1 cut(s)	422
AcsI	RAATTY	1 cut(s)	252
AcuI	CTGAAG	1 cut(s)	543
AfaI	GTAC	2 cut(s)	22, 771
AfiI	CCNNNNNNNGG	3 cut(s)	599, 661, 841
AgsI	TTSAA	4 cut(s)	248, 472, 688, 710
AjnI	CCWGG	3 cut(s)	152, 424, 597
AluBI	AGCT	4 cut(s)	84, 320, 459, 742
AluI	AGCT	4 cut(s)	84, 320, 459, 742
AoxI	GGCC	3 cut(s)	203, 259, 422
ApeKI	GCWGC	4 cut(s)	317, 360, 742, 765
ApoI	RAATTY	1 cut(s)	252
AseI	ATTAAT	2 cut(s)	98, 704
Asp700I	GAANNNNTTC	1 cut(s)	252
AsuHPI	GGTGA	5 cut(s)	101, 122, 230, 359, 824
BaeI	ACNNNNGTAYC	1 cut(s)	37
BalI	TGGCCA	1 cut(s)	424
BanII	GRGCYC	1 cut(s)	189
BbvI	GCAGC	4 cut(s)	329, 372, 729, 752
BccI	CCATC	5 cut(s)	201, 217, 338, 414, 837
BciT130I	CCWGG	3 cut(s)	154, 426, 599
BclI	TGATCA	1 cut(s)	799
BfaI	CTAG	1 cut(s)	9
BfmI	CTRYAG	2 cut(s)	315, 358
BisI	GCNGC	4 cut(s)	318, 361, 743, 766
BlpI	GCTNAGC	1 cut(s)	80
BlsI	GCNGC	4 cut(s)	319, 362, 744, 767
Bme1390I	CCNGG	3 cut(s)	154, 426, 599
BmiI	GGNNCC	1 cut(s)	188
BmrFI	CCNGG	3 cut(s)	154, 426, 599
Bpu10I	CCTNAGC	2 cut(s)	144, 460
Bpu1102I	GCTNAGC	1 cut(s)	80
BsaJI	CCNNGG	2 cut(s)	598, 746
BsaWI	WCCGGW	1 cut(s)	560
Bsc4I	CCNNNNNNNGG	3 cut(s)	599, 661, 841
Bse1I	ACTGG	2 cut(s)	421, 886
Bse3DI	GCAATG	1 cut(s)	723
BseBI	CCWGG	3 cut(s)	154, 426, 599
BseDI	CCNNGG	2 cut(s)	598, 746
BseGI	GGATG	3 cut(s)	129, 425, 802
BseLI	CCNNNNNNNGG	3 cut(s)	599, 661, 841
BseMI	GCAATG	1 cut(s)	723
BseMII	CTCAG	4 cut(s)	158, 425, 474, 618
BseNI	ACTGG	2 cut(s)	421, 886
BseRI	GAGGAG	1 cut(s)	191
BseXI	GCAGC	4 cut(s)	329, 372, 729, 752
BsgI	GTGCAG	1 cut(s)	827
BshFI	GGCC	3 cut(s)	205, 261, 424
BsiSI	CCGG	1 cut(s)	561
BslFI	GGGAC	1 cut(s)	811
BslI	CCNNNNNNNGG	3 cut(s)	599, 661, 841
BsmFI	GGGAC	1 cut(s)	811
BsnI	GGCC	3 cut(s)	205, 261, 424
Bsp1286I	GDGCHC	1 cut(s)	189
Bsp143I	GATC	1 cut(s)	799
Bsp1720I	GCTNAGC	1 cut(s)	80
BspACI	CCGC	2 cut(s)	157, 164
BspANI	GGCC	3 cut(s)	205, 261, 424
BspCNI	CTCAG	4 cut(s)	157, 426, 473, 619
BspHI	TCATGA	1 cut(s)	300
BspLI	GGNNCC	1 cut(s)	188
BspMAI	CTGCAG	2 cut(s)	319, 362
BsrDI	GCAATG	1 cut(s)	723
BsrI	ACTGG	2 cut(s)	421, 886
BssECI	CCNNGG	2 cut(s)	598, 746
BssMI	GATC	1 cut(s)	799
Bst2UI	CCWGG	3 cut(s)	154, 426, 599
Bst4CI	ACNGT	2 cut(s)	139, 477
BstC8I	GCNNGC	4 cut(s)	35, 315, 375, 763
BstDEI	CTNAG	8 cut(s)	71, 80, 144, 434, 460, 547, 627, 893
BstEII	GGTNACC	2 cut(s)	148, 845
BstF5I	GGATG	3 cut(s)	129, 425, 802
BstKTI	GATC	1 cut(s)	802
BstMBI	GATC	1 cut(s)	799
BstMWI	GCNNNNNNNGC	2 cut(s)	211, 671
BstNI	CCWGG	3 cut(s)	154, 426, 599
BstPI	GGTNACC	2 cut(s)	148, 845
BstSCI	CCNGG	3 cut(s)	152, 424, 597
BstSFI	CTRYAG	2 cut(s)	315, 358
BstV1I	GCAGC	4 cut(s)	329, 372, 729, 752
BsuRI	GGCC	3 cut(s)	205, 261, 424
BtsCI	GGATG	3 cut(s)	129, 425, 802
Cac8I	GCNNGC	4 cut(s)	35, 315, 375, 763
CciI	TCATGA	1 cut(s)	300
Csp6I	GTAC	2 cut(s)	21, 770
CspCI	CAANNNNNGTGG	4 cut(s)	179, 214, 842, 877
CviAII	CATG	3 cut(s)	301, 364, 836
CviQI	GTAC	2 cut(s)	21, 770
DdeI	CTNAG	8 cut(s)	71, 80, 144, 434, 460, 547, 627, 893
DpnI	GATC	1 cut(s)	801
DpnII	GATC	1 cut(s)	799
DraI	TTTAAA	1 cut(s)	498
EaeI	YGGCCR	1 cut(s)	422
Eco24I	GRGCYC	1 cut(s)	189
Eco57I	CTGAAG	1 cut(s)	543
Eco91I	GGTNACC	2 cut(s)	148, 845
EcoO65I	GGTNACC	2 cut(s)	148, 845
EcoRI	GAATTC	1 cut(s)	252
EcoRII	CCWGG	3 cut(s)	152, 424, 597
EcoT38I	GRGCYC	1 cut(s)	189
FaeI	CATG	3 cut(s)	304, 367, 839
FaqI	GGGAC	1 cut(s)	811
FatI	CATG	3 cut(s)	300, 363, 835
FbaI	TGATCA	1 cut(s)	799
Fnu4HI	GCNGC	4 cut(s)	318, 361, 743, 766
FokI	GGATG	3 cut(s)	136, 432, 809
FriOI	GRGCYC	1 cut(s)	189
Fsp4HI	GCNGC	4 cut(s)	318, 361, 743, 766
FspBI	CTAG	1 cut(s)	9
GluI	GCNGC	4 cut(s)	318, 361, 743, 766
HaeIII	GGCC	3 cut(s)	205, 261, 424
HapII	CCGG	1 cut(s)	561
Hin1II	CATG	3 cut(s)	304, 367, 839
HincII	GTYRAC	1 cut(s)	385
HindII	GTYRAC	1 cut(s)	385
HinfI	GANTC	8 cut(s)	92, 113, 307, 323, 557, 589, 839, 866
HpaII	CCGG	1 cut(s)	561
HphI	GGTGA	5 cut(s)	101, 122, 230, 359, 824
Hpy166II	GTNNAC	1 cut(s)	385
Hpy188I	TCNGA	5 cut(s)	331, 435, 455, 523, 628
Hpy188III	TCNNGA	2 cut(s)	301, 921
Hpy8I	GTNNAC	1 cut(s)	385
HpyAV	CCTTC	4 cut(s)	272, 479, 518, 682
HpyCH4III	ACNGT	2 cut(s)	139, 477
HpyCH4V	TGCA	8 cut(s)	49, 281, 317, 360, 373, 650, 775, 808
HpyF10VI	GCNNNNNNNGC	2 cut(s)	211, 671
HpyF3I	CTNAG	8 cut(s)	71, 80, 144, 434, 460, 547, 627, 893
Hsp92II	CATG	3 cut(s)	304, 367, 839
Ksp22I	TGATCA	1 cut(s)	799
Kzo9I	GATC	1 cut(s)	799
LmnI	GCTCC	2 cut(s)	192, 713
Lsp1109I	GCAGC	4 cut(s)	329, 372, 729, 752
MaeI	CTAG	1 cut(s)	9
MaeIII	GTNAC	5 cut(s)	110, 148, 404, 412, 845
MalI	GATC	1 cut(s)	801
MboI	GATC	1 cut(s)	799
MboII	GAAGA	3 cut(s)	460, 494, 615
MhlI	GDGCHC	1 cut(s)	189
MlsI	TGGCCA	1 cut(s)	424
MluCI	AATT	5 cut(s)	252, 268, 701, 705, 926
MluNI	TGGCCA	1 cut(s)	424
MlyI	GAGTC	4 cut(s)	107, 301, 317, 583
MnlI	CCTC	5 cut(s)	69, 169, 461, 675, 741
Mox20I	TGGCCA	1 cut(s)	424
MroXI	GAANNNNTTC	1 cut(s)	252
MscI	TGGCCA	1 cut(s)	424
MseI	TTAA	4 cut(s)	98, 497, 633, 704
MslI	CAYNNNNRTG	3 cut(s)	302, 791, 834
Msp20I	TGGCCA	1 cut(s)	424
MspA1I	CMGCKG	1 cut(s)	320
MspI	CCGG	1 cut(s)	561
MspR9I	CCNGG	3 cut(s)	154, 426, 599
MvaI	CCWGG	3 cut(s)	154, 426, 599
MwoI	GCNNNNNNNGC	2 cut(s)	211, 671
NdeII	GATC	1 cut(s)	799
NlaIII	CATG	3 cut(s)	304, 367, 839
NlaIV	GGNNCC	1 cut(s)	188
NmeAIII	GCCGAG	1 cut(s)	771
NmuCI	GTSAC	1 cut(s)	110
PagI	TCATGA	1 cut(s)	300
PcsI	WCGNNNNNNNCGW	1 cut(s)	765
PdmI	GAANNNNTTC	1 cut(s)	252
PfeI	GAWTC	4 cut(s)	92, 557, 839, 866
PflMI	CCANNNNNTGG	1 cut(s)	661
PkrI	GCNGC	4 cut(s)	319, 362, 744, 767
PleI	GAGTC	4 cut(s)	107, 301, 317, 583
PpsI	GAGTC	4 cut(s)	107, 301, 317, 583
PshBI	ATTAAT	2 cut(s)	98, 704
Psp6I	CCWGG	3 cut(s)	152, 424, 597
PspEI	GGTNACC	2 cut(s)	148, 845
PspGI	CCWGG	3 cut(s)	152, 424, 597
PspN4I	GGNNCC	1 cut(s)	188
PstI	CTGCAG	2 cut(s)	319, 362
PvuII	CAGCTG	1 cut(s)	320
RsaI	GTAC	2 cut(s)	22, 771
RsaNI	GTAC	2 cut(s)	21, 770
RseI	CAYNNNNRTG	3 cut(s)	302, 791, 834
SaqAI	TTAA	4 cut(s)	98, 497, 633, 704
SatI	GCNGC	4 cut(s)	318, 361, 743, 766
Sau3AI	GATC	1 cut(s)	799
SchI	GAGTC	4 cut(s)	107, 301, 317, 583
ScrFI	CCNGG	3 cut(s)	154, 426, 599
SduI	GDGCHC	1 cut(s)	189
SfcI	CTRYAG	2 cut(s)	315, 358
SmiMI	CAYNNNNRTG	3 cut(s)	302, 791, 834
Sse9I	AATT	5 cut(s)	252, 268, 701, 705, 926
SsiI	CCGC	2 cut(s)	157, 164
SspMI	CTAG	1 cut(s)	9
StyD4I	CCNGG	3 cut(s)	152, 424, 597
TaaI	ACNGT	2 cut(s)	139, 477
TaqI	TCGA	2 cut(s)	285, 342
TasI	AATT	5 cut(s)	252, 268, 701, 705, 926
TfiI	GAWTC	4 cut(s)	92, 557, 839, 866
Tru1I	TTAA	4 cut(s)	98, 497, 633, 704
Tru9I	TTAA	4 cut(s)	98, 497, 633, 704
TseFI	GTSAC	1 cut(s)	110
TseI	GCWGC	4 cut(s)	317, 360, 742, 765
Tsp45I	GTSAC	1 cut(s)	110
TspDTI	ATGAA	2 cut(s)	116, 140
Van91I	CCANNNNNTGG	1 cut(s)	661
VspI	ATTAAT	2 cut(s)	98, 704
XapI	RAATTY	1 cut(s)	252
XcmI	CCANNNNNNNNNTGG	1 cut(s)	576
XmnI	GAANNNNTTC	1 cut(s)	252
XspI	CTAG	1 cut(s)	9

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