Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0002733

Physical Location & Seq

Genomic Coordinates Forward (+)

70774760 .. 70779052

Gene Structure 4293 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG441600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 999 bp

ATGTCCAGAAAAACCTTTGACTACATATGCTCACTTGTGAGTGAAGAAATGATGGCTAAGTCAGCACATTTTGTGTTTAATAATGGTACGCCATTGTCTTTATATGATCAAGTAGCTGTGGCTTTAAGAAGACTGAGCTCTGGTGAGTCACTAGTAATGATCGGCGATTCATTTGGGCTGAACCACTCTGCCGTGTCTCAAGTGACCTGGCGATTTGTGGAAGCCATGGAACAAAAGGGACTTCACCACCTGCAATGGCCTTCAACTGAAGCAGAAATGGCAGAAATCAAATTGAAATTTCAGAAAATGCAAGGGTTTCCTAATTGTTGTGGTGCTGTTGATACTACTCACATCATGATGTGTTTACCAGCTTCAGACCCCACAAGCAATGCATGGCTCGATCAAGAGAAGAATTACAGCATGGTCTTGCAGGCCATTGTGGACCCGGACATGAGGTTCCGGGACATAATCACTGGATGGCCAGGGAAAATGAAGGACTGGTTGGTGTTTCAGAGTTCTAAGTTTCATGAACTCTGTGATAAAGGAGAGAGGTTGAATGGGAAAGTTTTAGAGCTCTCCAAAGGATTTGATATAAGGGAATACATAATTGGCGATTCAGGCTTTCCTTTACTGCCTTATCTTGTAATCCCCTATGAAGGGAAAGAACTCCCAGAACAAAAAGATGAGTTCAATAAGCGGCAGCGTGCCACCCAAATGGTGGCACAGAGAGCATTAGCAAGGTTGAAGGACTCATGGAGGATCATTGAAGGTGTGATGTGGAGACCTGACAAACACAGATTGCCGAGGATTATTCTCGTTTGCTGCTTGCTTCATAACATTGTCATCGACATGGAAGATGAAGTGCTGGATCACCTGCCTTTGTCTCACAACCATGATGACCCGGCTTACCACCAACAGATTTGTGGAACTCTTGACATAAATGGTGTTCATCTCAGAGATAAGCTGTCTCTCTACTTGTCTGGAAGGATGCCATCTTAA

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

332

Amino Acids

38.05

Weight (kDa)

6.11

Isoelectric Point (pI)

40.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Plant_tran	PF04827	95 - 287	1.6e-10	Plant transposon protein
DDE_Tnp_4	PF13359	113 - 279	4.5e-27	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)
AarI	CACCTGC	2 cut(s)	258, 882
Acc36I	ACCTGC	2 cut(s)	258, 882
AccB7I	CCANNNNNTGG	1 cut(s)	718
AciI	CCGC	1 cut(s)	697
AclWI	GGATC	2 cut(s)	767, 876
AcoI	YGGCCR	1 cut(s)	479
AcsI	RAATTY	1 cut(s)	296
AcuI	CTGAAG	2 cut(s)	288, 357
AfaI	GTAC	1 cut(s)	88
AfiI	CCNNNNNNNGG	3 cut(s)	656, 657, 718
AgsI	TTSAA	6 cut(s)	264, 295, 556, 691, 745, 767
AhlI	ACTAGT	1 cut(s)	151
AjnI	CCWGG	2 cut(s)	206, 481
AjuI	GAANNNNNNNTTGG	4 cut(s)	485, 517, 591, 623
AloI	GAACNNNNNNTCC	2 cut(s)	440, 472
AluBI	AGCT	5 cut(s)	116, 138, 371, 574, 964
AluI	AGCT	5 cut(s)	116, 138, 371, 574, 964
Alw21I	GWGCWC	2 cut(s)	140, 576
Alw26I	GTCTC	4 cut(s)	201, 775, 888, 972
AlwI	GGATC	2 cut(s)	767, 876
AoxI	GGCC	3 cut(s)	257, 432, 479
ApeKI	GCWGC	2 cut(s)	700, 822
ApoI	RAATTY	1 cut(s)	296
AspS9I	GGNCC	1 cut(s)	442
AsuC2I	CCSGG	3 cut(s)	446, 461, 902
AsuHPI	GGTGA	3 cut(s)	155, 236, 863
AvaII	GGWCC	1 cut(s)	442
BalI	TGGCCA	1 cut(s)	481
BanII	GRGCYC	2 cut(s)	140, 576
BbsI	GAAGAC	1 cut(s)	136
Bbv12I	GWGCWC	2 cut(s)	140, 576
BbvI	GCAGC	2 cut(s)	712, 809
BccI	CCATC	2 cut(s)	46, 471
BceAI	ACGGC	1 cut(s)	176
BciT130I	CCWGG	2 cut(s)	208, 483
BclI	TGATCA	1 cut(s)	106
BcnI	CCSGG	3 cut(s)	446, 461, 902
BcoDI	GTCTC	4 cut(s)	201, 775, 888, 972
BcuI	ACTAGT	1 cut(s)	151
BfaI	CTAG	1 cut(s)	152
BfuAI	ACCTGC	2 cut(s)	258, 882
BisI	GCNGC	3 cut(s)	698, 701, 823
BlsI	GCNGC	3 cut(s)	699, 702, 824
Bme1390I	CCNGG	5 cut(s)	208, 446, 461, 483, 902
Bme18I	GGWCC	1 cut(s)	442
BmgT120I	GGNCC	1 cut(s)	442
BmiI	GGNNCC	2 cut(s)	444, 458
BmrFI	CCNGG	5 cut(s)	208, 446, 461, 483, 902
BmsI	GCATC	1 cut(s)	978
BpiI	GAAGAC	1 cut(s)	136
BpuEI	CTTGAG	1 cut(s)	183
BpuMI	CCSGG	3 cut(s)	446, 461, 902
BsaI	GGTCTC	1 cut(s)	775
BsaJI	CCNNGG	3 cut(s)	225, 482, 803
Bsc4I	CCNNNNNNNGG	3 cut(s)	656, 657, 718
Bse1I	ACTGG	2 cut(s)	478, 503
Bse3DI	GCAATG	2 cut(s)	260, 394
BseBI	CCWGG	2 cut(s)	208, 483
BseDI	CCNNGG	3 cut(s)	225, 482, 803
BseGI	GGATG	2 cut(s)	482, 993
BseLI	CCNNNNNNNGG	3 cut(s)	656, 657, 718
BseMI	GCAATG	2 cut(s)	260, 394
BseMII	CTCAG	2 cut(s)	125, 967
BseNI	ACTGG	2 cut(s)	478, 503
BseXI	GCAGC	2 cut(s)	712, 809
BshFI	GGCC	3 cut(s)	259, 434, 481
BsiHKAI	GWGCWC	2 cut(s)	140, 576
BsiSI	CCGG	3 cut(s)	446, 460, 902
BslFI	GGGAC	2 cut(s)	252, 476
BslI	CCNNNNNNNGG	3 cut(s)	656, 657, 718
BsmAI	GTCTC	4 cut(s)	201, 775, 888, 972
BsmFI	GGGAC	2 cut(s)	252, 476
BsnI	GGCC	3 cut(s)	259, 434, 481
Bso31I	GGTCTC	1 cut(s)	775
Bsp1286I	GDGCHC	2 cut(s)	140, 576
Bsp143I	GATC	5 cut(s)	106, 159, 400, 759, 868
Bsp19I	CCATGG	1 cut(s)	225
BspACI	CCGC	1 cut(s)	697
BspANI	GGCC	3 cut(s)	259, 434, 481
BspCNI	CTCAG	2 cut(s)	126, 966
BspHI	TCATGA	2 cut(s)	354, 526
BspLI	GGNNCC	2 cut(s)	444, 458
BspMI	ACCTGC	2 cut(s)	258, 882
BspPI	GGATC	2 cut(s)	767, 876
BspTNI	GGTCTC	1 cut(s)	775
BsrDI	GCAATG	2 cut(s)	260, 394
BsrI	ACTGG	2 cut(s)	478, 503
BssECI	CCNNGG	3 cut(s)	225, 482, 803
BssMI	GATC	5 cut(s)	106, 159, 400, 759, 868
BssT1I	CCWWGG	1 cut(s)	225
Bst2UI	CCWGG	2 cut(s)	208, 483
BstC8I	GCNNGC	3 cut(s)	432, 705, 827
BstDEI	CTNAG	4 cut(s)	57, 134, 519, 953
BstDSI	CCRYGG	1 cut(s)	225
BstF5I	GGATG	2 cut(s)	482, 993
BstKTI	GATC	5 cut(s)	109, 162, 403, 762, 871
BstMAI	GTCTC	4 cut(s)	201, 775, 888, 972
BstMBI	GATC	5 cut(s)	106, 159, 400, 759, 868
BstMWI	GCNNNNNNNGC	4 cut(s)	62, 278, 618, 728
BstNI	CCWGG	2 cut(s)	208, 483
BstSCI	CCNGG	5 cut(s)	206, 444, 459, 481, 900
BstV1I	GCAGC	2 cut(s)	712, 809
BstV2I	GAAGAC	1 cut(s)	136
BstXI	CCANNNNNNTGG	1 cut(s)	715
BsuRI	GGCC	3 cut(s)	259, 434, 481
BtgI	CCRYGG	1 cut(s)	225
BtsCI	GGATG	2 cut(s)	482, 993
BtsIMutI	CAGTG	1 cut(s)	471
BveI	ACCTGC	2 cut(s)	258, 882
Cac8I	GCNNGC	3 cut(s)	432, 705, 827
CciI	TCATGA	2 cut(s)	354, 526
Cfr13I	GGNCC	1 cut(s)	442
Csp6I	GTAC	1 cut(s)	87
CviAII	CATG	9 cut(s)	226, 355, 393, 421, 451, 527, 753, 850, 893
CviQI	GTAC	1 cut(s)	87
DdeI	CTNAG	4 cut(s)	57, 134, 519, 953
DpnI	GATC	5 cut(s)	108, 161, 402, 761, 870
DpnII	GATC	5 cut(s)	106, 159, 400, 759, 868
EaeI	YGGCCR	1 cut(s)	479
Ecl136II	GAGCTC	2 cut(s)	138, 574
Eco130I	CCWWGG	1 cut(s)	225
Eco24I	GRGCYC	2 cut(s)	140, 576
Eco31I	GGTCTC	1 cut(s)	775
Eco47I	GGWCC	1 cut(s)	442
Eco53kI	GAGCTC	2 cut(s)	138, 574
Eco57I	CTGAAG	2 cut(s)	288, 357
EcoICRI	GAGCTC	2 cut(s)	138, 574
EcoRII	CCWGG	2 cut(s)	206, 481
EcoT14I	CCWWGG	1 cut(s)	225
EcoT22I	ATGCAT	1 cut(s)	394
EcoT38I	GRGCYC	2 cut(s)	140, 576
ErhI	CCWWGG	1 cut(s)	225
FaeI	CATG	9 cut(s)	229, 358, 396, 424, 454, 530, 756, 853, 896
FaqI	GGGAC	2 cut(s)	252, 476
FatI	CATG	9 cut(s)	225, 354, 392, 420, 450, 526, 752, 849, 892
FauNDI	CATATG	1 cut(s)	26
FbaI	TGATCA	1 cut(s)	106
Fnu4HI	GCNGC	3 cut(s)	698, 701, 823
FokI	GGATG	1 cut(s)	489
FriOI	GRGCYC	2 cut(s)	140, 576
Fsp4HI	GCNGC	3 cut(s)	698, 701, 823
FspBI	CTAG	1 cut(s)	152
GluI	GCNGC	3 cut(s)	698, 701, 823
HaeIII	GGCC	3 cut(s)	259, 434, 481
HapII	CCGG	3 cut(s)	446, 460, 902
Hin1II	CATG	9 cut(s)	229, 358, 396, 424, 454, 530, 756, 853, 896
HinfI	GANTC	4 cut(s)	146, 167, 614, 749
HpaII	CCGG	3 cut(s)	446, 460, 902
HphI	GGTGA	3 cut(s)	155, 236, 863
Hpy166II	GTNNAC	2 cut(s)	365, 442
Hpy188I	TCNGA	4 cut(s)	303, 376, 513, 956
Hpy188III	TCNNGA	6 cut(s)	6, 355, 404, 527, 932, 981
Hpy8I	GTNNAC	2 cut(s)	365, 442
HpyAV	CCTTC	6 cut(s)	270, 487, 650, 739, 761, 978
HpyCH4V	TGCA	4 cut(s)	253, 310, 392, 430
HpyF10VI	GCNNNNNNNGC	4 cut(s)	62, 278, 618, 728
HpyF3I	CTNAG	4 cut(s)	57, 134, 519, 953
Hsp92II	CATG	9 cut(s)	229, 358, 396, 424, 454, 530, 756, 853, 896
Ksp22I	TGATCA	1 cut(s)	106
Kzo9I	GATC	5 cut(s)	106, 159, 400, 759, 868
Lsp1109I	GCAGC	2 cut(s)	712, 809
LweI	GCATC	1 cut(s)	978
MaeI	CTAG	1 cut(s)	152
MaeIII	GTNAC	2 cut(s)	147, 202
MalI	GATC	5 cut(s)	108, 161, 402, 761, 870
MboI	GATC	5 cut(s)	106, 159, 400, 759, 868
MboII	GAAGA	4 cut(s)	56, 141, 421, 866
MhlI	GDGCHC	2 cut(s)	140, 576
MlsI	TGGCCA	1 cut(s)	481
MluCI	AATT	5 cut(s)	290, 296, 322, 412, 606
MluNI	TGGCCA	1 cut(s)	481
MlyI	GAGTC	2 cut(s)	155, 743
MnlI	CCTC	4 cut(s)	447, 543, 750, 798
Mox20I	TGGCCA	1 cut(s)	481
Mph1103I	ATGCAT	1 cut(s)	394
MscI	TGGCCA	1 cut(s)	481
MseI	TTAA	3 cut(s)	78, 125, 997
MslI	CAYNNNNRTG	4 cut(s)	356, 713, 848, 891
Msp20I	TGGCCA	1 cut(s)	481
MspI	CCGG	3 cut(s)	446, 460, 902
MspR9I	CCNGG	5 cut(s)	208, 446, 461, 483, 902
MvaI	CCWGG	2 cut(s)	208, 483
MwoI	GCNNNNNNNGC	4 cut(s)	62, 278, 618, 728
NciI	CCSGG	3 cut(s)	446, 461, 902
NcoI	CCATGG	1 cut(s)	225
NdeI	CATATG	1 cut(s)	26
NdeII	GATC	5 cut(s)	106, 159, 400, 759, 868
NlaIII	CATG	9 cut(s)	229, 358, 396, 424, 454, 530, 756, 853, 896
NlaIV	GGNNCC	2 cut(s)	444, 458
NmeAIII	GCCGAG	1 cut(s)	828
NmuCI	GTSAC	2 cut(s)	147, 202
NsiI	ATGCAT	1 cut(s)	394
PagI	TCATGA	2 cut(s)	354, 526
PaqCI	CACCTGC	2 cut(s)	258, 882
PfeI	GAWTC	2 cut(s)	167, 614
PflMI	CCANNNNNTGG	1 cut(s)	718
PfoI	TCCNGGA	1 cut(s)	459
PkrI	GCNGC	3 cut(s)	699, 702, 824
PleI	GAGTC	2 cut(s)	154, 743
PpsI	GAGTC	2 cut(s)	154, 743
Psp124BI	GAGCTC	2 cut(s)	140, 576
Psp6I	CCWGG	2 cut(s)	206, 481
PspGI	CCWGG	2 cut(s)	206, 481
PspN4I	GGNNCC	2 cut(s)	444, 458
PspPI	GGNCC	1 cut(s)	442
RsaI	GTAC	1 cut(s)	88
RsaNI	GTAC	1 cut(s)	87
RseI	CAYNNNNRTG	4 cut(s)	356, 713, 848, 891
SacI	GAGCTC	2 cut(s)	140, 576
SaqAI	TTAA	3 cut(s)	78, 125, 997
SatI	GCNGC	3 cut(s)	698, 701, 823
Sau3AI	GATC	5 cut(s)	106, 159, 400, 759, 868
Sau96I	GGNCC	1 cut(s)	442
SchI	GAGTC	2 cut(s)	155, 743
ScrFI	CCNGG	5 cut(s)	208, 446, 461, 483, 902
SduI	GDGCHC	2 cut(s)	140, 576
SfaNI	GCATC	1 cut(s)	978
SinI	GGWCC	1 cut(s)	442
SmiMI	CAYNNNNRTG	4 cut(s)	356, 713, 848, 891
SmlI	CTYRAG	1 cut(s)	198
SmoI	CTYRAG	1 cut(s)	198
SpeI	ACTAGT	1 cut(s)	151
Sse9I	AATT	5 cut(s)	290, 296, 322, 412, 606
SsiI	CCGC	1 cut(s)	697
SspMI	CTAG	1 cut(s)	152
SstI	GAGCTC	2 cut(s)	140, 576
StyD4I	CCNGG	5 cut(s)	206, 444, 459, 481, 900
StyI	CCWWGG	1 cut(s)	225
TaqI	TCGA	2 cut(s)	399, 846
TasI	AATT	5 cut(s)	290, 296, 322, 412, 606
TauI	GCSGC	1 cut(s)	700
TfiI	GAWTC	2 cut(s)	167, 614
Tru1I	TTAA	3 cut(s)	78, 125, 997
Tru9I	TTAA	3 cut(s)	78, 125, 997
TscAI	CASTG	1 cut(s)	478
TseFI	GTSAC	2 cut(s)	147, 202
TseI	GCWGC	2 cut(s)	700, 822
Tsp45I	GTSAC	2 cut(s)	147, 202
TspDTI	ATGAA	8 cut(s)	159, 506, 515, 543, 669, 821, 873, 938
TspRI	CASTG	1 cut(s)	478
Van91I	CCANNNNNTGG	1 cut(s)	718
VpaK11BI	GGWCC	1 cut(s)	442
XapI	RAATTY	1 cut(s)	296
XcmI	CCANNNNNNNNNTGG	2 cut(s)	715, 920
XspI	CTAG	1 cut(s)	152
Zsp2I	ATGCAT	1 cut(s)	394

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