Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0002733

Physical Location & Seq

Genomic Coordinates Forward (+)

43066138 .. 43071981

Gene Structure 5844 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG294700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1167 bp

ATGGGCCCCATCAGAGGAATGAAGAGGAGGAAGAAGACTGAACAGAAGAATGTGCTTCCTGCTGCTCCACAGAGTCCTCAGCCCGAGCCACTGGATTGGTGGGACGAGTTCCAGCAGAGGATTACTGGGCCTTTATCTGGATCAGAATCCAGAAATGCAGTGAAATTTGAATCTGTCTTTAAAATATCAAGAAAGACATTCAATTACATTTGTTCACTTGTAAAGGAACATATGGAGATTAGGAACTTCAGTACCAAAAATGGCAAGCGTTTGTGTCTGCAAGACCAAGTTGCTGTTGCTCTTAGGAGGCTTAGCTCTGGTGAATCATTAATGAACATTGGTGACTCCTTTGGGATGAACCAAACAACTGTTGCTCAGGTAACCTGGCGGTTTGCAGAAGCAATAGAAGAGAAAGGGCTCCACCATCTTTGTTGGCCTAAAGAGCAAGGTGCAATGGAAGAGATAAAGTCCAAGTTTGAAAGAATTCGTGGCCTTCCAAATTGCTGTGGTGCAATCGACATCACTCACATCATGATGACTCTGCCTGCAGCTGACTCATCAGATGTCTGGCTCGATGGTGAGAAAAACTGCAGCATGACCTTGCAGGCAGTTGTTGACCCTGATATGAGATTTAGTAACATAGTTACTGGATGGCCAGGAAGTCTGAGTGATGACATTATCCTCCGAAGCTCAGGTTTCTTCAAACTGTGTGAAGAAGGAACTTGTTTAAATGGTAAGAAAATGGTGCTGTCTGAAGGAACAGAAGTAAGAGAATACATAGTAGGAGATTCCGGTTTTCCACTTTTGGAATGGCTTATGACTCCTTACCAGGGAAGAAAACTCCCAGATGATAAGTCTGAGTTTAACGAGCGACTTTCTGCAACCCAAATGGTGGCAAGGAGAGCATTTGTGAGGTTGAAGGAGATGTGGAAATTAATTCAAGGAGCAATGTGGTTGCCTGATAAGAATAAGCTGCCGAGGATTATTCTCGCTTGCTGCATACTGCATAACATAGTCATTGATATGGATGATCAGGTGCAGGACGAAATGCCTCTGTCCCATCACCATGATTCGGGTTACCACCACCAGGGTTGTGAATCTGCTGACAAGACTGGCTCTGTTCTAAGAGAGAAACTTTCTCTATACTTCTCTGGACAATTACCATGA

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

388

Amino Acids

44.03

Weight (kDa)

6.8

Isoelectric Point (pI)

47.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Plant_tran	PF04827	152 - 344	4e-13	Plant transposon protein
DDE_Tnp_4	PF13359	172 - 337	2.2e-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)

Image

Tree File

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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)	892
AciI	CCGC	1 cut(s)	388
AclWI	GGATC	1 cut(s)	148
AcoI	YGGCCR	1 cut(s)	653
AcsI	RAATTY	2 cut(s)	164, 483
AcuI	CTGAAG	2 cut(s)	232, 774
AfaI	GTAC	1 cut(s)	253
AfiI	CCNNNNNNNGG	6 cut(s)	14, 137, 830, 892, 1072, 1087
AgsI	TTSAA	6 cut(s)	170, 202, 479, 703, 919, 941
AjnI	CCWGG	4 cut(s)	383, 655, 828, 1086
AluBI	AGCT	4 cut(s)	315, 551, 690, 973
AluI	AGCT	4 cut(s)	315, 551, 690, 973
AlwI	GGATC	1 cut(s)	148
Ama87I	CYCGRG	1 cut(s)	83
AoxI	GGCC	5 cut(s)	4, 128, 434, 490, 653
ApaI	GGGCCC	1 cut(s)	8
ApeKI	GCWGC	5 cut(s)	62, 548, 591, 973, 996
ApoI	RAATTY	2 cut(s)	164, 483
AseI	ATTAAT	2 cut(s)	329, 935
Asp700I	GAANNNNTTC	1 cut(s)	483
AspS9I	GGNCC	3 cut(s)	4, 5, 128
AsuHPI	GGTGA	4 cut(s)	332, 353, 590, 1055
AvaI	CYCGRG	1 cut(s)	83
BaeGI	GKGCMC	1 cut(s)	8
BaeI	ACNNNNGTAYC	2 cut(s)	235, 268
BalI	TGGCCA	1 cut(s)	655
BanII	GRGCYC	2 cut(s)	8, 420
BbsI	GAAGAC	1 cut(s)	41
BbvCI	CCTCAGC	1 cut(s)	78
BbvI	GCAGC	5 cut(s)	49, 560, 603, 960, 983
BccI	CCATC	5 cut(s)	17, 432, 569, 645, 1068
BciT130I	CCWGG	4 cut(s)	385, 657, 830, 1088
BclI	TGATCA	1 cut(s)	1030
BfmI	CTRYAG	2 cut(s)	546, 589
BisI	GCNGC	5 cut(s)	63, 549, 592, 974, 997
BlpI	GCTNAGC	1 cut(s)	311
BlsI	GCNGC	5 cut(s)	64, 550, 593, 975, 998
Bme1390I	CCNGG	4 cut(s)	385, 657, 830, 1088
BmeT110I	CYCGRG	1 cut(s)	83
BmgT120I	GGNCC	3 cut(s)	4, 5, 128
BmiI	GGNNCC	3 cut(s)	6, 7, 419
BmrFI	CCNGG	4 cut(s)	385, 657, 830, 1088
BmrI	ACTGGG	1 cut(s)	135
BmuI	ACTGGG	1 cut(s)	135
BpiI	GAAGAC	1 cut(s)	41
Bpu10I	CCTNAGC	3 cut(s)	78, 375, 691
Bpu1102I	GCTNAGC	1 cut(s)	311
BsaBI	GATNNNNATC	1 cut(s)	145
BsaJI	CCNNGG	3 cut(s)	829, 977, 1087
BsaWI	WCCGGW	1 cut(s)	791
Bsc4I	CCNNNNNNNGG	6 cut(s)	14, 137, 830, 892, 1072, 1087
Bse1I	ACTGG	4 cut(s)	96, 130, 652, 1117
Bse3DI	GCAATG	2 cut(s)	459, 954
Bse8I	GATNNNNATC	1 cut(s)	145
BseBI	CCWGG	4 cut(s)	385, 657, 830, 1088
BseDI	CCNNGG	3 cut(s)	829, 977, 1087
BseGI	GGATG	3 cut(s)	360, 656, 1033
BseJI	GATNNNNATC	1 cut(s)	145
BseLI	CCNNNNNNNGG	6 cut(s)	14, 137, 830, 892, 1072, 1087
BseMI	GCAATG	2 cut(s)	459, 954
BseMII	CTCAG	5 cut(s)	92, 389, 656, 705, 849
BseNI	ACTGG	4 cut(s)	96, 130, 652, 1117
BseRI	GAGGAG	1 cut(s)	40
BseSI	GKGCMC	1 cut(s)	8
BseXI	GCAGC	5 cut(s)	49, 560, 603, 960, 983
BsgI	GTGCAG	1 cut(s)	1058
BshFI	GGCC	5 cut(s)	6, 130, 436, 492, 655
BsiHKCI	CYCGRG	1 cut(s)	83
BsiSI	CCGG	1 cut(s)	792
BslFI	GGGAC	2 cut(s)	116, 1042
BslI	CCNNNNNNNGG	6 cut(s)	14, 137, 830, 892, 1072, 1087
BsmFI	GGGAC	2 cut(s)	116, 1042
BsnI	GGCC	5 cut(s)	6, 130, 436, 492, 655
BsoBI	CYCGRG	1 cut(s)	83
Bsp120I	GGGCCC	1 cut(s)	4
Bsp1286I	GDGCHC	2 cut(s)	8, 420
Bsp143I	GATC	2 cut(s)	140, 1030
Bsp1720I	GCTNAGC	1 cut(s)	311
BspACI	CCGC	1 cut(s)	388
BspANI	GGCC	5 cut(s)	6, 130, 436, 492, 655
BspCNI	CTCAG	5 cut(s)	91, 388, 657, 704, 850
BspHI	TCATGA	1 cut(s)	531
BspLI	GGNNCC	3 cut(s)	6, 7, 419
BspMAI	CTGCAG	2 cut(s)	550, 593
BspPI	GGATC	1 cut(s)	148
BsrDI	GCAATG	2 cut(s)	459, 954
BsrI	ACTGG	4 cut(s)	96, 130, 652, 1117
BssECI	CCNNGG	3 cut(s)	829, 977, 1087
BssMI	GATC	2 cut(s)	140, 1030
Bst2UI	CCWGG	4 cut(s)	385, 657, 830, 1088
Bst4CI	ACNGT	2 cut(s)	370, 708
Bst6I	CTCTTC	3 cut(s)	17, 402, 453
BstC8I	GCNNGC	4 cut(s)	266, 546, 606, 994
BstDEI	CTNAG	8 cut(s)	78, 302, 311, 375, 665, 691, 858, 1124
BstEII	GGTNACC	2 cut(s)	379, 1076
BstF5I	GGATG	3 cut(s)	360, 656, 1033
BstKTI	GATC	2 cut(s)	143, 1033
BstMBI	GATC	2 cut(s)	140, 1030
BstMWI	GCNNNNNNNGC	2 cut(s)	442, 902
BstNI	CCWGG	4 cut(s)	385, 657, 830, 1088
BstPI	GGTNACC	2 cut(s)	379, 1076
BstSCI	CCNGG	4 cut(s)	383, 655, 828, 1086
BstSFI	CTRYAG	2 cut(s)	546, 589
BstSLI	GKGCMC	1 cut(s)	8
BstV1I	GCAGC	5 cut(s)	49, 560, 603, 960, 983
BstV2I	GAAGAC	1 cut(s)	41
BstXI	CCANNNNNNTGG	1 cut(s)	96
BsuRI	GGCC	5 cut(s)	6, 130, 436, 492, 655
BtsCI	GGATG	3 cut(s)	360, 656, 1033
BtsI	GCAGTG	1 cut(s)	165
BtsIMutI	CAGTG	2 cut(s)	89, 165
Cac8I	GCNNGC	4 cut(s)	266, 546, 606, 994
CciI	TCATGA	1 cut(s)	531
Cfr13I	GGNCC	3 cut(s)	4, 5, 128
Csp6I	GTAC	1 cut(s)	252
CspCI	CAANNNNNGTGG	4 cut(s)	410, 445, 1073, 1108
CviAII	CATG	4 cut(s)	532, 595, 1067, 1164
CviQI	GTAC	1 cut(s)	252
DdeI	CTNAG	8 cut(s)	78, 302, 311, 375, 665, 691, 858, 1124
DpnI	GATC	2 cut(s)	142, 1032
DpnII	GATC	2 cut(s)	140, 1030
DraI	TTTAAA	2 cut(s)	181, 729
EaeI	YGGCCR	1 cut(s)	653
Eam1104I	CTCTTC	3 cut(s)	17, 402, 453
EarI	CTCTTC	3 cut(s)	17, 402, 453
Eco24I	GRGCYC	2 cut(s)	8, 420
Eco57I	CTGAAG	2 cut(s)	232, 774
Eco88I	CYCGRG	1 cut(s)	83
Eco91I	GGTNACC	2 cut(s)	379, 1076
EcoO109I	RGGNCCY	1 cut(s)	5
EcoO65I	GGTNACC	2 cut(s)	379, 1076
EcoRI	GAATTC	1 cut(s)	483
EcoRII	CCWGG	4 cut(s)	383, 655, 828, 1086
EcoT38I	GRGCYC	2 cut(s)	8, 420
FaeI	CATG	4 cut(s)	535, 598, 1070, 1167
FaqI	GGGAC	2 cut(s)	116, 1042
FatI	CATG	4 cut(s)	531, 594, 1066, 1163
FauNDI	CATATG	1 cut(s)	231
FbaI	TGATCA	1 cut(s)	1030
Fnu4HI	GCNGC	5 cut(s)	63, 549, 592, 974, 997
FokI	GGATG	3 cut(s)	367, 663, 1040
FriOI	GRGCYC	2 cut(s)	8, 420
Fsp4HI	GCNGC	5 cut(s)	63, 549, 592, 974, 997
GluI	GCNGC	5 cut(s)	63, 549, 592, 974, 997
HaeIII	GGCC	5 cut(s)	6, 130, 436, 492, 655
HapII	CCGG	1 cut(s)	792
Hin1II	CATG	4 cut(s)	535, 598, 1070, 1167
HincII	GTYRAC	1 cut(s)	616
HindII	GTYRAC	1 cut(s)	616
HpaII	CCGG	1 cut(s)	792
HphI	GGTGA	4 cut(s)	332, 353, 590, 1055
Hpy166II	GTNNAC	2 cut(s)	215, 616
Hpy188I	TCNGA	7 cut(s)	14, 145, 562, 666, 686, 754, 859
Hpy188III	TCNNGA	5 cut(s)	138, 150, 189, 532, 1152
Hpy8I	GTNNAC	2 cut(s)	215, 616
HpyAV	CCTTC	4 cut(s)	503, 710, 749, 913
HpyCH4III	ACNGT	2 cut(s)	370, 708
HpyF10VI	GCNNNNNNNGC	2 cut(s)	442, 902
HpyF3I	CTNAG	8 cut(s)	78, 302, 311, 375, 665, 691, 858, 1124
Hsp92II	CATG	4 cut(s)	535, 598, 1070, 1167
Ksp22I	TGATCA	1 cut(s)	1030
Kzo9I	GATC	2 cut(s)	140, 1030
LmnI	GCTCC	3 cut(s)	70, 423, 944
Lsp1109I	GCAGC	5 cut(s)	49, 560, 603, 960, 983
MaeIII	GTNAC	5 cut(s)	341, 379, 635, 643, 1076
MalI	GATC	2 cut(s)	142, 1032
MboI	GATC	2 cut(s)	140, 1030
MboII	GAAGA	9 cut(s)	34, 43, 46, 58, 419, 470, 691, 725, 846
MhlI	GDGCHC	2 cut(s)	8, 420
MlsI	TGGCCA	1 cut(s)	655
MluCI	AATT	7 cut(s)	164, 202, 483, 499, 932, 936, 1157
MluNI	TGGCCA	1 cut(s)	655
MlyI	GAGTC	5 cut(s)	82, 338, 532, 548, 814
Mox20I	TGGCCA	1 cut(s)	655
MroXI	GAANNNNTTC	1 cut(s)	483
MscI	TGGCCA	1 cut(s)	655
MseI	TTAA	5 cut(s)	180, 329, 728, 864, 935
MslI	CAYNNNNRTG	3 cut(s)	533, 1022, 1065
Msp20I	TGGCCA	1 cut(s)	655
MspA1I	CMGCKG	1 cut(s)	551
MspI	CCGG	1 cut(s)	792
MspR9I	CCNGG	4 cut(s)	385, 657, 830, 1088
MvaI	CCWGG	4 cut(s)	385, 657, 830, 1088
MwoI	GCNNNNNNNGC	2 cut(s)	442, 902
NdeI	CATATG	1 cut(s)	231
NdeII	GATC	2 cut(s)	140, 1030
NlaIII	CATG	4 cut(s)	535, 598, 1070, 1167
NlaIV	GGNNCC	3 cut(s)	6, 7, 419
NmeAIII	GCCGAG	1 cut(s)	1002
NmuCI	GTSAC	1 cut(s)	341
PagI	TCATGA	1 cut(s)	531
PdmI	GAANNNNTTC	1 cut(s)	483
PfeI	GAWTC	6 cut(s)	146, 170, 323, 788, 1070, 1097
PflMI	CCANNNNNTGG	1 cut(s)	892
PkrI	GCNGC	5 cut(s)	64, 550, 593, 975, 998
PleI	GAGTC	5 cut(s)	81, 338, 532, 548, 814
PpsI	GAGTC	5 cut(s)	81, 338, 532, 548, 814
PshBI	ATTAAT	2 cut(s)	329, 935
Psp6I	CCWGG	4 cut(s)	383, 655, 828, 1086
PspEI	GGTNACC	2 cut(s)	379, 1076
PspGI	CCWGG	4 cut(s)	383, 655, 828, 1086
PspN4I	GGNNCC	3 cut(s)	6, 7, 419
PspOMI	GGGCCC	1 cut(s)	4
PspPI	GGNCC	3 cut(s)	4, 5, 128
PstI	CTGCAG	2 cut(s)	550, 593
PvuII	CAGCTG	1 cut(s)	551
RsaI	GTAC	1 cut(s)	253
RsaNI	GTAC	1 cut(s)	252
RseI	CAYNNNNRTG	3 cut(s)	533, 1022, 1065
SaqAI	TTAA	5 cut(s)	180, 329, 728, 864, 935
SatI	GCNGC	5 cut(s)	63, 549, 592, 974, 997
Sau3AI	GATC	2 cut(s)	140, 1030
Sau96I	GGNCC	3 cut(s)	4, 5, 128
SchI	GAGTC	5 cut(s)	82, 338, 532, 548, 814
ScrFI	CCNGG	4 cut(s)	385, 657, 830, 1088
SduI	GDGCHC	2 cut(s)	8, 420
SfcI	CTRYAG	2 cut(s)	546, 589
SmiMI	CAYNNNNRTG	3 cut(s)	533, 1022, 1065
Sse9I	AATT	7 cut(s)	164, 202, 483, 499, 932, 936, 1157
SsiI	CCGC	1 cut(s)	388
StyD4I	CCNGG	4 cut(s)	383, 655, 828, 1086
TaaI	ACNGT	2 cut(s)	370, 708
TaqI	TCGA	2 cut(s)	516, 573
TasI	AATT	7 cut(s)	164, 202, 483, 499, 932, 936, 1157
TfiI	GAWTC	6 cut(s)	146, 170, 323, 788, 1070, 1097
Tru1I	TTAA	5 cut(s)	180, 329, 728, 864, 935
Tru9I	TTAA	5 cut(s)	180, 329, 728, 864, 935
TscAI	CASTG	2 cut(s)	96, 165
TseFI	GTSAC	1 cut(s)	341
TseI	GCWGC	5 cut(s)	62, 548, 591, 973, 996
Tsp45I	GTSAC	1 cut(s)	341
TspDTI	ATGAA	3 cut(s)	35, 347, 371
TspRI	CASTG	2 cut(s)	96, 165
Van91I	CCANNNNNTGG	1 cut(s)	892
VspI	ATTAAT	2 cut(s)	329, 935
XapI	RAATTY	2 cut(s)	164, 483
XcmI	CCANNNNNNNNNTGG	2 cut(s)	96, 807
XmnI	GAANNNNTTC	1 cut(s)	483

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