Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0001406

Physical Location & Seq

Genomic Coordinates Reverse (-)

52164955 .. 52165905

Gene Structure 951 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG395000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 951 bp

ATGGAGGTGACTCTGAATCGAATGCCGATTTGGATCCAGATCAGAGGATTGTCGTTGGCCTATTCCACACGGAGTTGGGAAAGGAAGGTTGTTGGGTGCTTGGGTCGGGTTGTTCATGTGGATGAAAGGAGATTGAAACGGCATGAGGAAGTGAAGGTGTTGGTGGTGGTGGATCTCGTTCGTCCCCTTCCTCGGCCTTTTAGGTACTCTTTTTCTAATTCTTGTGTGAAAGAGATTGATATTAAGTATTTGAATGTCAGGGGTTTGTGCTTGGTCTGTGGGTTCTTTGAGCATGGTGTGGGAGATTGTGGTGGTCCTCCAAAGGAAGTGTGGAATACAGGTCTGGCTGTAACCTCATCTAGAGGTGGACAGCGGAGTGTGGTTTTGCAGGGTGATTCATCGGTGGTGGTGGAGGCTGTTCCCCGTCCGAGTGGGATGGGAGTACCACCGGGTTTTGAAGCTTTACTGGGATCTAAGGGGGTGGGTGACCATCCTGGGATTGGGCCATTAATGTTGGAAGGGAAGATGGATTCTCGGCCGCTGGTGTTGGAGGAGAGTGTTGATGAGGTACAGGTTATGGTTAGGTCAATGCTTGGGAAAAAGGGTGGTGATGGTGAAGTCACGTCTCCATTGAAGAAAGGGAGGTTGGGTTCTGGATCTAGTGTTGATCGAGGGTTTAGTGACTCATCTAGAGTTGTTGTGGGAGGTGTGCCATTGGCTCCTGGTGGTCCGGATTCCTTGGGTCATTGGAAGCTTAGGATATCTGTTTCCACTTTCAGTTTTGGGATGGAGGGCTCCCCTACCAAAGGTTTGCAGTTTGAGGTGGGGAAGTCTTCCTCTCTTGCTATTGGTAAGGTTGGGGATGGGAAGAAACATAAACGAAAGATTATCTCAGCTGCAAAGCGTCGTGCACTGCTCTCTCGGCTTGAGGAGGAGGCCTCTGCTCCTTGA

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

RVT_1 RVT_3 zf-CCHC_4 zf-RVT

Protein Analysis

316

Amino Acids

33.92

Weight (kDa)

9.68

Isoelectric Point (pI)

43.64

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001406)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g23711
prunus_persica	Prupe.1G407700_v2.0.a1 Prupe.3G281700_v2.0.a1
pyrus_communis	pycom08g05620 pycom17g03380
rosa_chinensis	RchiOBHm_Chr2g0170881 RchiOBHm_Chr6g0289031 RchiOBHm_Chr7g0222271
rosa_laevigata	RLG00000001172 RLG00000008907 RLG00000008913 RLG00000014117 RLG00000014203 RLG00000014204 RLG00000021990 RLG00000023949 RLG00000024929 RLG00000034655
rosa_multiflora	Rmu_sc0000220.1_g000012 Rmu_sc0003110.1_g000018 Rmu_sc0003395.1_g000004 Rmu_sc0011277.1_g000007 Rmu_sc0011582.1_g000018
rosa_roxburghii	Rroxscaffold_3G00237240
rosa_rugosa	Rorug02G0497700 Rorug02G0552100 Rorug05G0351900
rosa_samantha	Rh1BG311600 Rh1CG326800 Rh2AG624800 Rh2BG635500 Rh2CG472000 Rh2CG604200 Rh2DG647100 Rh3BG187400 Rh3BG187500 Rh3DG188300 Rh5AG461800 Rh5BG373200 Rh5BG373300 Rh5BG480000 Rh5CG377900 Rh5CG395000 Rh5CG504200 Rh6AG138900 Rh6BG513600 Rh7AG348400 Rh7AG474700 Rh7CG182200 Rh7CG366000
rosa_wichuraiana	Rw3G015310 Rw5G034010 Rw7G036470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	730
AciI	CCGC	2 cut(s)	373, 539
AclWI	GGATC	5 cut(s)	28, 41, 180, 478, 664
AcoI	YGGCCR	1 cut(s)	536
AfaI	GTAC	3 cut(s)	206, 444, 570
AfiI	CCNNNNNNNGG	3 cut(s)	192, 500, 806
AgsI	TTSAA	4 cut(s)	136, 253, 458, 634
AjiI	CACGTC	1 cut(s)	624
AjnI	CCWGG	2 cut(s)	493, 721
AjuI	GAANNNNNNNTTGG	4 cut(s)	13, 45, 629, 661
AloI	GAACNNNNNNTCC	2 cut(s)	634, 666
AluBI	AGCT	3 cut(s)	461, 754, 896
AluI	AGCT	3 cut(s)	461, 754, 896
Alw21I	GWGCWC	1 cut(s)	913
Alw26I	GTCTC	1 cut(s)	630
Alw44I	GTGCAC	1 cut(s)	909
AlwI	GGATC	5 cut(s)	28, 41, 180, 478, 664
Aor13HI	TCCGGA	1 cut(s)	730
AoxI	GGCC	5 cut(s)	57, 194, 503, 536, 936
ApaLI	GTGCAC	1 cut(s)	909
ApeKI	GCWGC	1 cut(s)	896
AseI	ATTAAT	1 cut(s)	509
AspS9I	GGNCC	3 cut(s)	314, 503, 728
AsuC2I	CCSGG	1 cut(s)	450
AsuHPI	GGTGA	5 cut(s)	19, 404, 497, 620, 626
AvaII	GGWCC	2 cut(s)	314, 728
BaeGI	GKGCMC	1 cut(s)	913
BamHI	GGATCC	1 cut(s)	33
BanII	GRGCYC	1 cut(s)	797
BbsI	GAAGAC	1 cut(s)	825
Bbv12I	GWGCWC	1 cut(s)	913
BbvI	GCAGC	1 cut(s)	883
BccI	CCATC	6 cut(s)	430, 498, 520, 605, 781, 857
BceAI	ACGGC	1 cut(s)	155
BciT130I	CCWGG	2 cut(s)	495, 723
BcnI	CCSGG	1 cut(s)	450
BcoDI	GTCTC	1 cut(s)	630
BfaI	CTAG	3 cut(s)	360, 660, 690
BisI	GCNGC	2 cut(s)	539, 897
BlsI	GCNGC	2 cut(s)	540, 898
Bme1390I	CCNGG	3 cut(s)	450, 495, 723
Bme18I	GGWCC	2 cut(s)	314, 728
BmgBI	CACGTC	1 cut(s)	624
BmgT120I	GGNCC	3 cut(s)	314, 503, 728
BmiI	GGNNCC	3 cut(s)	35, 720, 796
BmrFI	CCNGG	3 cut(s)	450, 495, 723
BmrI	ACTGGG	1 cut(s)	476
BmuI	ACTGGG	1 cut(s)	476
BpiI	GAAGAC	1 cut(s)	825
BplI	GAGNNNNNCTC	1 cut(s)	923
Bpu10I	CCTNAGC	1 cut(s)	755
BpuEI	CTTGAG	1 cut(s)	947
BpuMI	CCSGG	1 cut(s)	450
BsaBI	GATNNNNATC	2 cut(s)	32, 38
BsaJI	CCNNGG	3 cut(s)	191, 494, 738
BsaWI	WCCGGW	1 cut(s)	730
BsaXI	ACNNNNNCTCC	2 cut(s)	634, 664
Bsc4I	CCNNNNNNNGG	3 cut(s)	192, 500, 806
Bse1I	ACTGG	1 cut(s)	471
Bse8I	GATNNNNATC	2 cut(s)	32, 38
BseAI	TCCGGA	1 cut(s)	730
BseBI	CCWGG	2 cut(s)	495, 723
BseDI	CCNNGG	3 cut(s)	191, 494, 738
BseGI	GGATG	5 cut(s)	127, 441, 490, 792, 868
BseJI	GATNNNNATC	2 cut(s)	32, 38
BseLI	CCNNNNNNNGG	3 cut(s)	192, 500, 806
BseMII	CTCAG	1 cut(s)	906
BseNI	ACTGG	1 cut(s)	471
BseRI	GAGGAG	3 cut(s)	566, 944, 947
BseSI	GKGCMC	1 cut(s)	913
BseX3I	CGGCCG	1 cut(s)	536
BseXI	GCAGC	1 cut(s)	883
Bsh1285I	CGRYCG	1 cut(s)	539
BshFI	GGCC	5 cut(s)	59, 196, 505, 538, 938
BsiEI	CGRYCG	1 cut(s)	539
BsiHKAI	GWGCWC	1 cut(s)	913
BsiSI	CCGG	2 cut(s)	449, 731
BslFI	GGGAC	1 cut(s)	168
BslI	CCNNNNNNNGG	3 cut(s)	192, 500, 806
BsmAI	GTCTC	1 cut(s)	630
BsmBI	CGTCTC	1 cut(s)	630
BsmFI	GGGAC	1 cut(s)	168
BsmI	GAATGC	1 cut(s)	27
BsnI	GGCC	5 cut(s)	59, 196, 505, 538, 938
Bsp1286I	GDGCHC	2 cut(s)	797, 913
Bsp13I	TCCGGA	1 cut(s)	730
Bsp143I	GATC	6 cut(s)	33, 39, 172, 470, 656, 667
BspACI	CCGC	2 cut(s)	373, 539
BspANI	GGCC	5 cut(s)	59, 196, 505, 538, 938
BspCNI	CTCAG	1 cut(s)	905
BspEI	TCCGGA	1 cut(s)	730
BspLI	GGNNCC	3 cut(s)	35, 720, 796
BspPI	GGATC	5 cut(s)	28, 41, 180, 478, 664
BsrI	ACTGG	1 cut(s)	471
BssECI	CCNNGG	3 cut(s)	191, 494, 738
BssMI	GATC	6 cut(s)	33, 39, 172, 470, 656, 667
BssT1I	CCWWGG	1 cut(s)	738
Bst2UI	CCWGG	2 cut(s)	495, 723
BstDEI	CTNAG	3 cut(s)	474, 755, 892
BstEII	GGTNACC	1 cut(s)	485
BstENI	CCTNNNNNAGG	1 cut(s)	804
BstF5I	GGATG	5 cut(s)	127, 441, 490, 792, 868
BstKTI	GATC	6 cut(s)	36, 42, 175, 473, 659, 670
BstMAI	GTCTC	1 cut(s)	630
BstMBI	GATC	6 cut(s)	33, 39, 172, 470, 656, 667
BstMCI	CGRYCG	1 cut(s)	539
BstMWI	GCNNNNNNNGC	1 cut(s)	922
BstNI	CCWGG	2 cut(s)	495, 723
BstPI	GGTNACC	1 cut(s)	485
BstSCI	CCNGG	3 cut(s)	448, 493, 721
BstSLI	GKGCMC	1 cut(s)	913
BstV1I	GCAGC	1 cut(s)	883
BstV2I	GAAGAC	1 cut(s)	825
BstX2I	RGATCY	4 cut(s)	33, 172, 470, 656
BstYI	RGATCY	4 cut(s)	33, 172, 470, 656
BstZI	CGGCCG	1 cut(s)	536
BsuRI	GGCC	5 cut(s)	59, 196, 505, 538, 938
BtrI	CACGTC	1 cut(s)	624
BtsCI	GGATG	5 cut(s)	127, 441, 490, 792, 868
BtsI	GCAGTG	1 cut(s)	911
BtsIMutI	CAGTG	1 cut(s)	911
Cfr13I	GGNCC	3 cut(s)	314, 503, 728
CseI	GACGC	1 cut(s)	893
Csp6I	GTAC	3 cut(s)	205, 443, 569
CviAII	CATG	3 cut(s)	116, 143, 293
CviQI	GTAC	3 cut(s)	205, 443, 569
DdeI	CTNAG	3 cut(s)	474, 755, 892
DpnI	GATC	6 cut(s)	35, 41, 174, 472, 658, 669
DpnII	GATC	6 cut(s)	33, 39, 172, 470, 656, 667
EaeI	YGGCCR	1 cut(s)	536
EagI	CGGCCG	1 cut(s)	536
EclXI	CGGCCG	1 cut(s)	536
Eco130I	CCWWGG	1 cut(s)	738
Eco147I	AGGCCT	1 cut(s)	938
Eco24I	GRGCYC	1 cut(s)	797
Eco32I	GATATC	1 cut(s)	762
Eco47I	GGWCC	2 cut(s)	314, 728
Eco52I	CGGCCG	1 cut(s)	536
Eco91I	GGTNACC	1 cut(s)	485
EcoNI	CCTNNNNNAGG	1 cut(s)	804
EcoO65I	GGTNACC	1 cut(s)	485
EcoRII	CCWGG	2 cut(s)	493, 721
EcoRV	GATATC	1 cut(s)	762
EcoT14I	CCWWGG	1 cut(s)	738
EcoT38I	GRGCYC	1 cut(s)	797
ErhI	CCWWGG	1 cut(s)	738
Esp3I	CGTCTC	1 cut(s)	630
FaeI	CATG	3 cut(s)	119, 146, 296
FaiI	YATR	5 cut(s)	117, 144, 294, 578, 876
FaqI	GGGAC	1 cut(s)	168
FatI	CATG	3 cut(s)	115, 142, 292
Fnu4HI	GCNGC	2 cut(s)	539, 897
FokI	GGATG	5 cut(s)	134, 448, 477, 799, 875
FriOI	GRGCYC	1 cut(s)	797
Fsp4HI	GCNGC	2 cut(s)	539, 897
FspBI	CTAG	3 cut(s)	360, 660, 690
GluI	GCNGC	2 cut(s)	539, 897
HaeIII	GGCC	5 cut(s)	59, 196, 505, 538, 938
HapII	CCGG	2 cut(s)	449, 731
HgaI	GACGC	1 cut(s)	893
Hin1II	CATG	3 cut(s)	119, 146, 296
HindIII	AAGCTT	2 cut(s)	459, 752
HinfI	GANTC	6 cut(s)	10, 16, 395, 530, 683, 734
HpaII	CCGG	2 cut(s)	449, 731
HphI	GGTGA	5 cut(s)	19, 404, 497, 620, 626
Hpy166II	GTNNAC	2 cut(s)	368, 911
Hpy188I	TCNGA	3 cut(s)	15, 44, 429
Hpy188III	TCNNGA	5 cut(s)	37, 360, 654, 690, 731
Hpy8I	GTNNAC	2 cut(s)	368, 911
Hpy99I	CGWCG	1 cut(s)	909
HpyAV	CCTTC	4 cut(s)	79, 148, 197, 512
HpyCH4IV	ACGT	1 cut(s)	623
HpyCH4V	TGCA	4 cut(s)	388, 814, 899, 911
HpyF10VI	GCNNNNNNNGC	1 cut(s)	922
HpyF3I	CTNAG	3 cut(s)	474, 755, 892
HpySE526I	ACGT	1 cut(s)	623
Hsp92II	CATG	3 cut(s)	119, 146, 296
Kpn2I	TCCGGA	1 cut(s)	730
Kzo9I	GATC	6 cut(s)	33, 39, 172, 470, 656, 667
LmnI	GCTCC	3 cut(s)	724, 800, 949
Lsp1109I	GCAGC	1 cut(s)	883
MaeI	CTAG	3 cut(s)	360, 660, 690
MaeII	ACGT	1 cut(s)	623
MaeIII	GTNAC	5 cut(s)	7, 349, 485, 619, 680
MalI	GATC	6 cut(s)	35, 41, 174, 472, 658, 669
MboI	GATC	6 cut(s)	33, 39, 172, 470, 656, 667
MboII	GAAGA	4 cut(s)	535, 646, 825, 880
MflI	RGATCY	4 cut(s)	33, 172, 470, 656
MhlI	GDGCHC	2 cut(s)	797, 913
MluCI	AATT	1 cut(s)	217
MlyI	GAGTC	2 cut(s)	4, 677
MmeI	TCCRAC	2 cut(s)	495, 528
MroI	TCCGGA	1 cut(s)	730
MseI	TTAA	2 cut(s)	243, 509
MslI	CAYNNNNRTG	1 cut(s)	120
MspA1I	CMGCKG	3 cut(s)	373, 541, 896
MspI	CCGG	2 cut(s)	449, 731
MspR9I	CCNGG	3 cut(s)	450, 495, 723
Mva1269I	GAATGC	1 cut(s)	27
MvaI	CCWGG	2 cut(s)	495, 723
MwoI	GCNNNNNNNGC	1 cut(s)	922
NciI	CCSGG	1 cut(s)	450
NdeII	GATC	6 cut(s)	33, 39, 172, 470, 656, 667
NlaIII	CATG	3 cut(s)	119, 146, 296
NlaIV	GGNNCC	3 cut(s)	35, 720, 796
NmeAIII	GCCGAG	3 cut(s)	172, 514, 901
NmuCI	GTSAC	4 cut(s)	7, 485, 619, 680
PceI	AGGCCT	1 cut(s)	938
PctI	GAATGC	1 cut(s)	27
PfeI	GAWTC	4 cut(s)	16, 395, 530, 734
PkrI	GCNGC	2 cut(s)	540, 898
PleI	GAGTC	2 cut(s)	4, 677
PpsI	GAGTC	2 cut(s)	4, 677
PshBI	ATTAAT	1 cut(s)	509
Psp6I	CCWGG	2 cut(s)	493, 721
PspEI	GGTNACC	1 cut(s)	485
PspGI	CCWGG	2 cut(s)	493, 721
PspN4I	GGNNCC	3 cut(s)	35, 720, 796
PspPI	GGNCC	3 cut(s)	314, 503, 728
PsuI	RGATCY	4 cut(s)	33, 172, 470, 656
PvuII	CAGCTG	1 cut(s)	896
RsaI	GTAC	3 cut(s)	206, 444, 570
RsaNI	GTAC	3 cut(s)	205, 443, 569
RseI	CAYNNNNRTG	1 cut(s)	120
SaqAI	TTAA	2 cut(s)	243, 509
SatI	GCNGC	2 cut(s)	539, 897
Sau3AI	GATC	6 cut(s)	33, 39, 172, 470, 656, 667
Sau96I	GGNCC	3 cut(s)	314, 503, 728
SchI	GAGTC	2 cut(s)	4, 677
ScrFI	CCNGG	3 cut(s)	450, 495, 723
SduI	GDGCHC	2 cut(s)	797, 913
SinI	GGWCC	2 cut(s)	314, 728
SmiMI	CAYNNNNRTG	1 cut(s)	120
SmlI	CTYRAG	1 cut(s)	926
SmoI	CTYRAG	1 cut(s)	926
Sse9I	AATT	1 cut(s)	217
SseBI	AGGCCT	1 cut(s)	938
SsiI	CCGC	2 cut(s)	373, 539
SspMI	CTAG	3 cut(s)	360, 660, 690
StuI	AGGCCT	1 cut(s)	938
StyD4I	CCNGG	3 cut(s)	448, 493, 721
StyI	CCWWGG	1 cut(s)	738
TaiI	ACGT	1 cut(s)	626
TaqI	TCGA	2 cut(s)	19, 670
TasI	AATT	1 cut(s)	217
TauI	GCSGC	1 cut(s)	541
TfiI	GAWTC	4 cut(s)	16, 395, 530, 734
Tru1I	TTAA	2 cut(s)	243, 509
Tru9I	TTAA	2 cut(s)	243, 509
TscAI	CASTG	1 cut(s)	918
TseFI	GTSAC	4 cut(s)	7, 485, 619, 680
TseI	GCWGC	1 cut(s)	896
Tsp45I	GTSAC	4 cut(s)	7, 485, 619, 680
TspDTI	ATGAA	3 cut(s)	104, 138, 387
TspGWI	ACGGA	1 cut(s)	85
TspRI	CASTG	1 cut(s)	918
VneI	GTGCAC	1 cut(s)	909
VpaK11BI	GGWCC	2 cut(s)	314, 728
VspI	ATTAAT	1 cut(s)	509
XagI	CCTNNNNNAGG	1 cut(s)	804
XbaI	TCTAGA	2 cut(s)	359, 689
XcmI	CCANNNNNNNNNTGG	2 cut(s)	327, 497
XspI	CTAG	3 cut(s)	360, 660, 690

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