Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0011704

Physical Location & Seq

Genomic Coordinates Forward (+)

52353035 .. 52355454

Gene Structure 2420 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG334900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 882 bp

ATGAGAAGGTTGGCATCTGGTGAGTCTCAGGTCTCAGTGGGAGCTGCCTTTGGGGTCGGCCAGTCCACAGTTTCTCAGGTGACTTGGAGATTCATTGAAGCATTGGAAGAACGTGCCAAGCACCATCTCAAGTGGCCTGATTCCAATAGGATGGAGGAAATTAAGTCTAAACTTGAAGCATCTTTTGGATTGCCTAATTGCTGTGGAGCCATAGACGGCACACACATCATAATGACACTTCCTACTGTTCAAGCATCAGACGATTGGTGTGACACTGAGAAAAATTACAGCATGCTCTTGCAGGGAACTGTCGATCATGAGTTAAGATTCCTTGATATTGTGACCGGTTGGCCTGGGGGAATGACAGTGTCTAGACTATTAAAGTGTTCAGGGCTTTTCAAGCTGTGCGAAAGTGGACAGCGTTTAAATGGGAATGTTAGAACTTTATCTGAAGGAGGAGAGATCAGAGAATATGTGGTTGGTGGGGTTGGCTATCCTCTCCTTCCCTGGCTCATAACTCCTTATGAAGGCAGTGGCCTTCCAGCTTCTGTTGTTTCTGCTTTTAATGCCGCGCATGAGGCTGCAAGGTCTCTTGCAGTAAGGGCATTCTCGCAGTTAAAGGGCACTTGGAGAATCCTCAGCAAGGTTATGTGGAGACCAGATAAACGGAAACTTCCAAGCATTATCTTGGTATGTTGTTTACTCCACAATATAATAATCGACTGTGGAGATATATTAAACCCAGATGTTGCTTTATCTGGTCATCACGACTCGGGATATGGAGAGCAATGCTGTAAGCAAGTTGATCCATTGGGAAGGTCTATGAGCGAGAACTTAGTTAGACACTGGCAGCATAGCAAGCAAACAGCTGCATCAAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0000152 GO:0003674 GO:0003682 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006355 GO:0008150 GO:0009889 GO:0009891 GO:0009893 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0010639 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031519 GO:0031935 GO:0031936 GO:0031974 GO:0031981 GO:0032991 GO:0033043 GO:0033044 GO:0034708 GO:0035097 GO:0035098 GO:0035102 GO:0040029 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045815 GO:0045893 GO:0045935 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0050789 GO:0050794 GO:0051128 GO:0051129 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0060968 GO:0060969 GO:0065007 GO:0070013 GO:0080090 GO:1902275 GO:1902494 GO:1902680 GO:1903506 GO:1903508 GO:1905268 GO:1990234 GO:2000112 GO:2001141 GO:2001251

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DDE_Tnp_4

Protein Analysis

293

Amino Acids

32.26

Weight (kDa)

7.6

Isoelectric Point (pI)

35.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Plant_tran	PF04827	46 - 241	9.4e-08	Plant transposon protein
DDE_Tnp_4	PF13359	71 - 237	1.4e-19	DDE superfamily endonuclease

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0011704)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G63270
fragaria_vesca	FvH4_2g23101
malus_domestica	MD03G1260000.v1.1 MD11G1280300.v1.1
prunus_persica	Prupe.3G034000_v2.0.a1 Prupe.8G236200_v2.0.a1
pyrus_communis	pycom03g20770
rosa_chinensis	RchiOBHm_Chr6g0290271
rosa_laevigata	RLG00000012229
rosa_multiflora	Rmu_sc0034661.1_g000001 Rmu_ssc0000208.1_g000001
rosa_roxburghii	Rroxscaffold_7G00177190
rosa_rugosa	Rorug06G0211400
rosa_samantha	Rh6AG321700 Rh6BG329000 Rh6CG334900 Rh6DG322000
rosa_wichuraiana	Rw6G027790 Rw6G027890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	572
AciI	CCGC	1 cut(s)	570
AclWI	GGATC	1 cut(s)	800
AcoI	YGGCCR	1 cut(s)	58
AcuI	CTGAAG	1 cut(s)	471
AfiI	CCNNNNNNNGG	2 cut(s)	527, 643
AgeI	ACCGGT	1 cut(s)	344
AgsI	TTSAA	4 cut(s)	98, 176, 251, 400
AjnI	CCWGG	2 cut(s)	352, 506
AjuI	GAANNNNNNNTTGG	4 cut(s)	168, 200, 462, 494
AluBI	AGCT	4 cut(s)	44, 403, 545, 869
AluI	AGCT	4 cut(s)	44, 403, 545, 869
Alw26I	GTCTC	4 cut(s)	30, 37, 594, 649
AlwI	GGATC	1 cut(s)	800
AlwNI	CAGNNNCTG	1 cut(s)	548
Ama87I	CYCGRG	1 cut(s)	772
AoxI	GGCC	4 cut(s)	58, 134, 350, 535
ApeKI	GCWGC	4 cut(s)	44, 581, 850, 869
AsiGI	ACCGGT	1 cut(s)	344
AspLEI	GCGC	1 cut(s)	574
AsuHPI	GGTGA	2 cut(s)	32, 91
AvaI	CYCGRG	1 cut(s)	772
BaeGI	GKGCMC	1 cut(s)	626
BbvCI	CCTCAGC	1 cut(s)	638
BbvI	GCAGC	4 cut(s)	31, 568, 856, 862
BccI	CCATC	2 cut(s)	132, 145
BceAI	ACGGC	1 cut(s)	232
BciT130I	CCWGG	2 cut(s)	354, 508
BcoDI	GTCTC	4 cut(s)	30, 37, 594, 649
BfaI	CTAG	1 cut(s)	372
BisI	GCNGC	5 cut(s)	45, 570, 582, 851, 870
BlsI	GCNGC	5 cut(s)	46, 571, 583, 852, 871
Bme1390I	CCNGG	2 cut(s)	354, 508
BmeT110I	CYCGRG	1 cut(s)	772
BmiI	GGNNCC	1 cut(s)	208
BmrFI	CCNGG	2 cut(s)	354, 508
BmsI	GCATC	3 cut(s)	23, 188, 263
Bpu10I	CCTNAGC	1 cut(s)	638
BpuEI	CTTGAG	1 cut(s)	113
BsaI	GGTCTC	3 cut(s)	37, 594, 649
BsaJI	CCNNGG	2 cut(s)	353, 506
BsaWI	WCCGGW	1 cut(s)	344
Bsc4I	CCNNNNNNNGG	2 cut(s)	527, 643
Bse118I	RCCGGY	1 cut(s)	344
Bse1I	ACTGG	2 cut(s)	61, 851
Bse3DI	GCAATG	1 cut(s)	794
BseBI	CCWGG	2 cut(s)	354, 508
BseDI	CCNNGG	2 cut(s)	353, 506
BseGI	GGATG	1 cut(s)	156
BseLI	CCNNNNNNNGG	2 cut(s)	527, 643
BseMI	GCAATG	1 cut(s)	794
BseMII	CTCAG	5 cut(s)	41, 48, 89, 267, 652
BseNI	ACTGG	2 cut(s)	61, 851
BseRI	GAGGAG	1 cut(s)	471
BseSI	GKGCMC	1 cut(s)	626
BseXI	GCAGC	4 cut(s)	31, 568, 856, 862
Bsh1236I	CGCG	1 cut(s)	572
BshFI	GGCC	4 cut(s)	60, 136, 352, 537
BshTI	ACCGGT	1 cut(s)	344
BsiHKCI	CYCGRG	1 cut(s)	772
BsiSI	CCGG	1 cut(s)	345
BslI	CCNNNNNNNGG	2 cut(s)	527, 643
BsmAI	GTCTC	4 cut(s)	30, 37, 594, 649
BsmI	GAATGC	1 cut(s)	605
BsnI	GGCC	4 cut(s)	60, 136, 352, 537
Bso31I	GGTCTC	3 cut(s)	37, 594, 649
BsoBI	CYCGRG	1 cut(s)	772
Bsp1286I	GDGCHC	1 cut(s)	626
Bsp143I	GATC	3 cut(s)	313, 462, 805
BspACI	CCGC	1 cut(s)	570
BspANI	GGCC	4 cut(s)	60, 136, 352, 537
BspCNI	CTCAG	5 cut(s)	40, 47, 88, 268, 651
BspFNI	CGCG	1 cut(s)	572
BspHI	TCATGA	1 cut(s)	316
BspLI	GGNNCC	1 cut(s)	208
BspPI	GGATC	1 cut(s)	800
BspTNI	GGTCTC	3 cut(s)	37, 594, 649
BsrDI	GCAATG	1 cut(s)	794
BsrFI	RCCGGY	1 cut(s)	344
BsrI	ACTGG	2 cut(s)	61, 851
BssAI	RCCGGY	1 cut(s)	344
BssECI	CCNNGG	2 cut(s)	353, 506
BssMI	GATC	3 cut(s)	313, 462, 805
Bst2UI	CCWGG	2 cut(s)	354, 508
Bst4CI	ACNGT	5 cut(s)	70, 247, 310, 367, 725
BstC8I	GCNNGC	2 cut(s)	293, 860
BstDEI	CTNAG	6 cut(s)	27, 34, 75, 276, 638, 835
BstENI	CCTNNNNNAGG	2 cut(s)	525, 641
BstF5I	GGATG	1 cut(s)	156
BstFNI	CGCG	1 cut(s)	572
BstHHI	GCGC	1 cut(s)	574
BstKTI	GATC	3 cut(s)	316, 465, 808
BstMAI	GTCTC	4 cut(s)	30, 37, 594, 649
BstMBI	GATC	3 cut(s)	313, 462, 805
BstMWI	GCNNNNNNNGC	5 cut(s)	400, 566, 578, 602, 859
BstNI	CCWGG	2 cut(s)	354, 508
BstNSI	RCATGY	1 cut(s)	295
BstSCI	CCNGG	2 cut(s)	352, 506
BstSLI	GKGCMC	1 cut(s)	626
BstUI	CGCG	1 cut(s)	572
BstV1I	GCAGC	4 cut(s)	31, 568, 856, 862
BstXI	CCANNNNNNTGG	1 cut(s)	151
BsuRI	GGCC	4 cut(s)	60, 136, 352, 537
BtsCI	GGATG	1 cut(s)	156
BtsI	GCAGTG	1 cut(s)	538
BtsIMutI	CAGTG	5 cut(s)	42, 273, 372, 538, 844
Cac8I	GCNNGC	2 cut(s)	293, 860
CaiI	CAGNNNCTG	1 cut(s)	548
CciI	TCATGA	1 cut(s)	316
CfoI	GCGC	1 cut(s)	574
Cfr10I	RCCGGY	1 cut(s)	344
CspAI	ACCGGT	1 cut(s)	344
CviAII	CATG	3 cut(s)	292, 317, 575
DdeI	CTNAG	6 cut(s)	27, 34, 75, 276, 638, 835
DpnI	GATC	3 cut(s)	315, 464, 807
DpnII	GATC	3 cut(s)	313, 462, 805
DraI	TTTAAA	1 cut(s)	426
EaeI	YGGCCR	1 cut(s)	58
Eco31I	GGTCTC	3 cut(s)	37, 594, 649
Eco57I	CTGAAG	1 cut(s)	471
Eco88I	CYCGRG	1 cut(s)	772
EcoNI	CCTNNNNNAGG	2 cut(s)	525, 641
EcoRII	CCWGG	2 cut(s)	352, 506
FaeI	CATG	3 cut(s)	295, 320, 578
FatI	CATG	3 cut(s)	291, 316, 574
Fnu4HI	GCNGC	5 cut(s)	45, 570, 582, 851, 870
FokI	GGATG	1 cut(s)	163
Fsp4HI	GCNGC	5 cut(s)	45, 570, 582, 851, 870
FspBI	CTAG	1 cut(s)	372
GlaI	GCGC	1 cut(s)	573
GluI	GCNGC	5 cut(s)	45, 570, 582, 851, 870
HaeIII	GGCC	4 cut(s)	60, 136, 352, 537
HapII	CCGG	1 cut(s)	345
HhaI	GCGC	1 cut(s)	574
Hin1II	CATG	3 cut(s)	295, 320, 578
Hin6I	GCGC	1 cut(s)	572
HinP1I	GCGC	1 cut(s)	572
HinfI	GANTC	6 cut(s)	23, 90, 140, 327, 633, 770
HpaII	CCGG	1 cut(s)	345
HphI	GGTGA	2 cut(s)	32, 91
Hpy166II	GTNNAC	3 cut(s)	66, 416, 701
Hpy188I	TCNGA	3 cut(s)	259, 451, 467
Hpy188III	TCNNGA	4 cut(s)	317, 372, 767, 774
Hpy8I	GTNNAC	3 cut(s)	66, 416, 701
HpyAV	CCTTC	5 cut(s)	446, 512, 521, 548, 810
HpyCH4III	ACNGT	5 cut(s)	70, 247, 310, 367, 725
HpyCH4IV	ACGT	1 cut(s)	112
HpyCH4V	TGCA	4 cut(s)	301, 584, 596, 872
HpyF10VI	GCNNNNNNNGC	5 cut(s)	400, 566, 578, 602, 859
HpyF3I	CTNAG	6 cut(s)	27, 34, 75, 276, 638, 835
HpySE526I	ACGT	1 cut(s)	112
Hsp92II	CATG	3 cut(s)	295, 320, 578
HspAI	GCGC	1 cut(s)	572
Kzo9I	GATC	3 cut(s)	313, 462, 805
LmnI	GCTCC	2 cut(s)	41, 206
Lsp1109I	GCAGC	4 cut(s)	31, 568, 856, 862
LweI	GCATC	3 cut(s)	23, 188, 263
MaeI	CTAG	1 cut(s)	372
MaeII	ACGT	1 cut(s)	112
MaeIII	GTNAC	3 cut(s)	79, 269, 340
MalI	GATC	3 cut(s)	315, 464, 807
MboI	GATC	3 cut(s)	313, 462, 805
MboII	GAAGA	1 cut(s)	119
MhlI	GDGCHC	1 cut(s)	626
MluCI	AATT	3 cut(s)	159, 196, 283
MlyI	GAGTC	2 cut(s)	32, 764
MnlI	CCTC	5 cut(s)	148, 449, 507, 571, 647
MseI	TTAA	7 cut(s)	162, 323, 380, 425, 564, 617, 737
MslI	CAYNNNNRTG	2 cut(s)	230, 877
MspA1I	CMGCKG	1 cut(s)	869
MspI	CCGG	1 cut(s)	345
MspR9I	CCNGG	2 cut(s)	354, 508
Mva1269I	GAATGC	1 cut(s)	605
MvaI	CCWGG	2 cut(s)	354, 508
MvnI	CGCG	1 cut(s)	572
MwoI	GCNNNNNNNGC	5 cut(s)	400, 566, 578, 602, 859
NdeII	GATC	3 cut(s)	313, 462, 805
NlaIII	CATG	3 cut(s)	295, 320, 578
NlaIV	GGNNCC	1 cut(s)	208
NmuCI	GTSAC	3 cut(s)	79, 269, 340
NspI	RCATGY	1 cut(s)	295
PaeI	GCATGC	1 cut(s)	295
PagI	TCATGA	1 cut(s)	316
PctI	GAATGC	1 cut(s)	605
PfeI	GAWTC	4 cut(s)	90, 140, 327, 633
PflFI	GACNNNGTC	1 cut(s)	367
PinAI	ACCGGT	1 cut(s)	344
PkrI	GCNGC	5 cut(s)	46, 571, 583, 852, 871
PleI	GAGTC	2 cut(s)	31, 764
PpsI	GAGTC	2 cut(s)	31, 764
Psp6I	CCWGG	2 cut(s)	352, 506
PspGI	CCWGG	2 cut(s)	352, 506
PspN4I	GGNNCC	1 cut(s)	208
PstNI	CAGNNNCTG	1 cut(s)	548
PsyI	GACNNNGTC	1 cut(s)	367
PvuII	CAGCTG	1 cut(s)	869
RseI	CAYNNNNRTG	2 cut(s)	230, 877
SaqAI	TTAA	7 cut(s)	162, 323, 380, 425, 564, 617, 737
SatI	GCNGC	5 cut(s)	45, 570, 582, 851, 870
Sau3AI	GATC	3 cut(s)	313, 462, 805
SchI	GAGTC	2 cut(s)	32, 764
ScrFI	CCNGG	2 cut(s)	354, 508
SduI	GDGCHC	1 cut(s)	626
SfaNI	GCATC	3 cut(s)	23, 188, 263
SmiMI	CAYNNNNRTG	2 cut(s)	230, 877
SmlI	CTYRAG	1 cut(s)	128
SmoI	CTYRAG	1 cut(s)	128
SphI	GCATGC	1 cut(s)	295
Sse9I	AATT	3 cut(s)	159, 196, 283
SsiI	CCGC	1 cut(s)	570
SspMI	CTAG	1 cut(s)	372
StyD4I	CCNGG	2 cut(s)	352, 506
TaaI	ACNGT	5 cut(s)	70, 247, 310, 367, 725
TaiI	ACGT	1 cut(s)	115
TaqI	TCGA	2 cut(s)	312, 720
TasI	AATT	3 cut(s)	159, 196, 283
TauI	GCSGC	1 cut(s)	572
TfiI	GAWTC	4 cut(s)	90, 140, 327, 633
Tru1I	TTAA	7 cut(s)	162, 323, 380, 425, 564, 617, 737
Tru9I	TTAA	7 cut(s)	162, 323, 380, 425, 564, 617, 737
TscAI	CASTG	5 cut(s)	42, 280, 372, 538, 851
TseFI	GTSAC	3 cut(s)	79, 269, 340
TseI	GCWGC	4 cut(s)	44, 581, 850, 869
Tsp45I	GTSAC	3 cut(s)	79, 269, 340
TspDTI	ATGAA	2 cut(s)	82, 540
TspGWI	ACGGA	1 cut(s)	682
TspRI	CASTG	5 cut(s)	42, 280, 372, 538, 851
Tth111I	GACNNNGTC	1 cut(s)	367
XagI	CCTNNNNNAGG	2 cut(s)	525, 641
XbaI	TCTAGA	1 cut(s)	371
XceI	RCATGY	1 cut(s)	295
XspI	CTAG	1 cut(s)	372

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