Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0000938

Physical Location & Seq

Genomic Coordinates Forward (+)

13768028 .. 13769016

Gene Structure 989 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0164800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 951 bp

ATGCCTAGTTCAGCGAAGATTCATATTTGGAGGGTTTGCCATAACATTCTCCCTTCAAAGGACAGGTTACTGTCTAGAAGAGTGCCTTTGGAAACACAGGTTTGTGTTCTTTGTGAAAGTGCAACTGAGACATCTTTGCACATTTGTCGTGATTGTCCTTTTACAAAACAGGTTTTACAGGGTAATGGTGTGTTGGTTCACACTTGTTTCAGTCCACAAGCTTTGAATTGTGACTTGCTAGGGTGGTTGAGCATCTGTGTTCAGGCTTTATCGTTAAAGGATTTGGGGGATCTTCTGTTTCTTTTGTGGAGTGTGTGGAAGGAAAGAAATAGTAGAGTATGGGATGATAAGACAGGTCAACCTTGGGATGTTCTGCTTAAGGCTACTACAAGATTACAGGATTTTCATTTTCATAATACTAGGCATACATTGAGGGAGACTAGCAGCTCCAGATTGGCTCGGTGGCGGGCTCCATCAGTGGGGATCTATAAAATTAATGTGGATGGAAGTTTTGATCATGTTTCAAGAAAAGGTAGCGCTGGTTTTGTGGTGCGTGATTGCAATGGCACCATGATAGCAGGTGGAGGGAAACCGCTGTATGGTTTGCTTTCAGCTGAACATGCCGAAGCATTGGCATGTAAACTAGCTTTTGATTTTGTCTTGGATCAGGTTTTGGTACCGGCCATAGTGGAGACTGACTCTCAGCTTGTGCAGCAGCAATTGTGCAGGTCTGAGGGGAGTAATTTCTCACAGCTTGGGAGGCTTTATGATGATTTGGGCTCCACCTTGAGAGCTCACTCTAATTTGAAGGTAGTTTATACTAGAAGAGGTGCTAATAAAGCAGCGCATCTGATGGCTGCATCTGCTAGTTCGTTATCTCGAGAATGTTTTTATTTTTCTCCTCCTCCCTTTCTGCTTGCTGTTATTGCAGCTGAGCAAGACCATATGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0005852 GO:0006412 GO:0006413 GO:0006518 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0019538 GO:0031369 GO:0032991 GO:0034641 GO:0034645 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0071704 GO:0097159 GO:1901363 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko03013 map03013

Pfam Domains

Protein Families

PCI eIF-3c_N

Protein Analysis

316

Amino Acids

35.19

Weight (kDa)

8.59

Isoelectric Point (pI)

52.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RVT	PF13966	2 - 58	4.1e-09	zinc-binding in reverse transcriptase
RVT_3	PF13456	166 - 289	2.1e-20	Reverse transcriptase-like

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: OG0000938)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G56150 AT3G56150
fragaria_vesca	FvH4_5g35510 FvH4_5g35510 FvH4_5g35510 FvH4_5g35510 FvH4_6g21351 FvH4_6g21351 FvH4_6g21360 FvH4_6g21360 FvH4_6g21360
malus_domestica	MD05G1153900.v1.1 MD08G1196100.v1.1 MD12G1050600.v1.1 MD15G1383900.v1.1
prunus_persica	Prupe.1G530000_v2.0.a1 Prupe.7G086100_v2.0.a1 Prupe.7G086100_v2.0.a1
pyrus_communis	pycom08g16830 pycom12g04510 pycom15g34350
rosa_chinensis	RchiOBHm_Chr3g0477961 RchiOBHm_Chr3g0477971 RchiOBHm_Chr7g0236891
rosa_laevigata	RLG00000001050 RLG00000023675 RLG00000023676
rosa_multiflora	Rmu_co8284977.1_g000001 Rmu_co8517169.1_g000001 Rmu_sc0005991.1_g000006 Rmu_sc0010895.1_g000001 Rmu_sc0013727.1_g000003 Rmu_sc0028822.1_g000002
rosa_roxburghii	Rroxscaffold_1G00032460 Rroxscaffold_1G00037610 Rroxscaffold_3G00224710 Rroxscaffold_6G00403560 Rroxscaffold_6G00403570
rosa_rugosa	Rorug03G0164400 Rorug03G0164500 Rorug03G0164600 Rorug03G0164700 Rorug03G0164800 Rorug03G0164900 Rorug07G0300800
rosa_samantha	Rh2AG276900 Rh3AG215100 Rh3AG215200 Rh3BG248700 Rh3BG248800 Rh3CG242600 Rh3CG242700 Rh3DG242000 Rh3DG242200 Rh3DG242300 Rh7AG455600 Rh7BG427000 Rh7CG474300 Rh7DG443500
rosa_wichuraiana	Rw0G010140 Rw0G010150 Rw3G019380 Rw3G019390 Rw7G037820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	569
Acc36I	ACCTGC	2 cut(s)	569, 717
Acc65I	GGTACC	1 cut(s)	676
AccB1I	GGYRCC	2 cut(s)	566, 676
AciI	CCGC	2 cut(s)	466, 593
AclWI	GGATC	3 cut(s)	297, 491, 672
AcoI	YGGCCR	1 cut(s)	681
AfaI	GTAC	1 cut(s)	678
AfeI	AGCGCT	1 cut(s)	538
AfiI	CCNNNNNNNGG	3 cut(s)	58, 479, 599
AflII	CTTAAG	1 cut(s)	377
AgsI	TTSAA	4 cut(s)	57, 226, 525, 808
AluBI	AGCT	8 cut(s)	221, 447, 614, 647, 706, 754, 794, 932
AluI	AGCT	8 cut(s)	221, 447, 614, 647, 706, 754, 794, 932
Alw21I	GWGCWC	1 cut(s)	796
Alw26I	GTCTC	3 cut(s)	122, 431, 686
AlwI	GGATC	3 cut(s)	297, 491, 672
Ama87I	CYCGRG	1 cut(s)	879
Aor51HI	AGCGCT	1 cut(s)	538
AoxI	GGCC	1 cut(s)	681
ApeKI	GCWGC	6 cut(s)	444, 712, 715, 842, 857, 929
AseI	ATTAAT	1 cut(s)	495
Asp718I	GGTACC	1 cut(s)	676
AspLEI	GCGC	2 cut(s)	539, 847
AvaI	CYCGRG	1 cut(s)	879
BanI	GGYRCC	2 cut(s)	566, 676
BanII	GRGCYC	3 cut(s)	472, 782, 796
Bbv12I	GWGCWC	1 cut(s)	796
BbvI	GCAGC	6 cut(s)	456, 724, 727, 844, 854, 941
BccI	CCATC	3 cut(s)	481, 497, 847
BcgI	CGANNNNNNTGC	2 cut(s)	128, 162
BclI	TGATCA	1 cut(s)	514
BcoDI	GTCTC	3 cut(s)	122, 431, 686
BfaI	CTAG	8 cut(s)	6, 75, 239, 420, 441, 644, 822, 867
BfoI	RGCGCY	1 cut(s)	540
BfrI	CTTAAG	1 cut(s)	377
BfuAI	ACCTGC	2 cut(s)	569, 717
BisI	GCNGC	6 cut(s)	445, 713, 716, 843, 858, 930
BlpI	GCTNAGC	1 cut(s)	933
BlsI	GCNGC	6 cut(s)	446, 714, 717, 844, 859, 931
BmeT110I	CYCGRG	1 cut(s)	879
BmiI	GGNNCC	4 cut(s)	471, 568, 678, 781
BmsI	GCATC	3 cut(s)	261, 856, 869
BplI	GAGNNNNNCTC	2 cut(s)	683, 715
BpmI	CTGGAG	1 cut(s)	433
Bpu1102I	GCTNAGC	1 cut(s)	933
BpuEI	CTTGAG	1 cut(s)	808
BsaJI	CCNNGG	1 cut(s)	362
Bsc4I	CCNNNNNNNGG	3 cut(s)	58, 479, 599
Bse118I	RCCGGY	1 cut(s)	679
Bse3DI	GCAATG	1 cut(s)	568
BseDI	CCNNGG	1 cut(s)	362
BseGI	GGATG	3 cut(s)	349, 373, 508
BseLI	CCNNNNNNNGG	3 cut(s)	58, 479, 599
BseMI	GCAATG	1 cut(s)	568
BseMII	CTCAG	4 cut(s)	117, 716, 723, 924
BseRI	GAGGAG	2 cut(s)	891, 894
BseXI	GCAGC	6 cut(s)	456, 724, 727, 844, 854, 941
BsgI	GTGCAG	2 cut(s)	731, 745
BshFI	GGCC	1 cut(s)	683
BshNI	GGYRCC	2 cut(s)	566, 676
BsiHKAI	GWGCWC	1 cut(s)	796
BsiHKCI	CYCGRG	1 cut(s)	879
BsiSI	CCGG	1 cut(s)	680
BslI	CCNNNNNNNGG	3 cut(s)	58, 479, 599
BsmAI	GTCTC	3 cut(s)	122, 431, 686
BsnI	GGCC	1 cut(s)	683
BsoBI	CYCGRG	1 cut(s)	879
Bsp1286I	GDGCHC	3 cut(s)	472, 782, 796
Bsp143I	GATC	4 cut(s)	289, 483, 514, 664
Bsp1720I	GCTNAGC	1 cut(s)	933
BspACI	CCGC	2 cut(s)	466, 593
BspANI	GGCC	1 cut(s)	683
BspCNI	CTCAG	4 cut(s)	118, 715, 724, 925
BspLI	GGNNCC	4 cut(s)	471, 568, 678, 781
BspMI	ACCTGC	2 cut(s)	569, 717
BspPI	GGATC	3 cut(s)	297, 491, 672
BspT107I	GGYRCC	2 cut(s)	566, 676
BspTI	CTTAAG	1 cut(s)	377
BsrDI	GCAATG	1 cut(s)	568
BsrFI	RCCGGY	1 cut(s)	679
BssAI	RCCGGY	1 cut(s)	679
BssECI	CCNNGG	1 cut(s)	362
BssMI	GATC	4 cut(s)	289, 483, 514, 664
BssT1I	CCWWGG	1 cut(s)	362
Bst4CI	ACNGT	1 cut(s)	72
Bst6I	CTCTTC	2 cut(s)	73, 820
BstAFI	CTTAAG	1 cut(s)	377
BstC8I	GCNNGC	2 cut(s)	468, 918
BstDEI	CTNAG	4 cut(s)	126, 702, 732, 933
BstF5I	GGATG	3 cut(s)	349, 373, 508
BstH2I	RGCGCY	1 cut(s)	540
BstHHI	GCGC	2 cut(s)	539, 847
BstKTI	GATC	4 cut(s)	292, 486, 517, 667
BstMAI	GTCTC	3 cut(s)	122, 431, 686
BstMBI	GATC	4 cut(s)	289, 483, 514, 664
BstMWI	GCNNNNNNNGC	6 cut(s)	620, 712, 760, 839, 863, 926
BstNSI	RCATGY	2 cut(s)	623, 639
BstV1I	GCAGC	6 cut(s)	456, 724, 727, 844, 854, 941
BstX2I	RGATCY	2 cut(s)	289, 483
BstYI	RGATCY	2 cut(s)	289, 483
BsuRI	GGCC	1 cut(s)	683
BtsCI	GGATG	3 cut(s)	349, 373, 508
BtsIMutI	CAGTG	1 cut(s)	483
BveI	ACCTGC	2 cut(s)	569, 717
Cac8I	GCNNGC	2 cut(s)	468, 918
CfoI	GCGC	2 cut(s)	539, 847
Cfr10I	RCCGGY	1 cut(s)	679
Csp6I	GTAC	1 cut(s)	677
CspCI	CAANNNNNGTGG	2 cut(s)	204, 239
CviAII	CATG	4 cut(s)	518, 571, 620, 636
CviQI	GTAC	1 cut(s)	677
DdeI	CTNAG	4 cut(s)	126, 702, 732, 933
DpnI	GATC	4 cut(s)	291, 485, 516, 666
DpnII	GATC	4 cut(s)	289, 483, 514, 664
EaeI	YGGCCR	1 cut(s)	681
Eam1104I	CTCTTC	2 cut(s)	73, 820
EarI	CTCTTC	2 cut(s)	73, 820
Ecl136II	GAGCTC	1 cut(s)	794
Eco130I	CCWWGG	1 cut(s)	362
Eco24I	GRGCYC	3 cut(s)	472, 782, 796
Eco47III	AGCGCT	1 cut(s)	538
Eco53kI	GAGCTC	1 cut(s)	794
Eco88I	CYCGRG	1 cut(s)	879
EcoICRI	GAGCTC	1 cut(s)	794
EcoT14I	CCWWGG	1 cut(s)	362
EcoT38I	GRGCYC	3 cut(s)	472, 782, 796
ErhI	CCWWGG	1 cut(s)	362
FaeI	CATG	4 cut(s)	521, 574, 623, 639
FalI	AAGNNNNNCTT	2 cut(s)	70, 102
FatI	CATG	4 cut(s)	517, 570, 619, 635
FauI	CCCGC	1 cut(s)	459
FauNDI	CATATG	1 cut(s)	945
FbaI	TGATCA	1 cut(s)	514
Fnu4HI	GCNGC	6 cut(s)	445, 713, 716, 843, 858, 930
FokI	GGATG	3 cut(s)	356, 380, 515
FriOI	GRGCYC	3 cut(s)	472, 782, 796
Fsp4HI	GCNGC	6 cut(s)	445, 713, 716, 843, 858, 930
FspBI	CTAG	8 cut(s)	6, 75, 239, 420, 441, 644, 822, 867
GlaI	GCGC	2 cut(s)	538, 846
GluI	GCNGC	6 cut(s)	445, 713, 716, 843, 858, 930
GsuI	CTGGAG	1 cut(s)	433
HaeII	RGCGCY	1 cut(s)	540
HaeIII	GGCC	1 cut(s)	683
HapII	CCGG	1 cut(s)	680
HhaI	GCGC	2 cut(s)	539, 847
Hin1II	CATG	4 cut(s)	521, 574, 623, 639
Hin6I	GCGC	2 cut(s)	537, 845
HinP1I	GCGC	2 cut(s)	537, 845
HincII	GTYRAC	1 cut(s)	359
HindII	GTYRAC	1 cut(s)	359
HindIII	AAGCTT	1 cut(s)	219
HinfI	GANTC	2 cut(s)	19, 698
HpaII	CCGG	1 cut(s)	680
Hpy166II	GTNNAC	4 cut(s)	199, 215, 359, 641
Hpy188I	TCNGA	2 cut(s)	733, 852
Hpy188III	TCNNGA	6 cut(s)	75, 149, 450, 525, 879, 881
Hpy8I	GTNNAC	4 cut(s)	199, 215, 359, 641
HpyAV	CCTTC	3 cut(s)	63, 313, 802
HpyCH4III	ACNGT	1 cut(s)	72
HpyCH4V	TGCA	7 cut(s)	122, 139, 561, 712, 726, 860, 929
HpyF10VI	GCNNNNNNNGC	6 cut(s)	620, 712, 760, 839, 863, 926
HpyF3I	CTNAG	4 cut(s)	126, 702, 732, 933
Hsp92II	CATG	4 cut(s)	521, 574, 623, 639
HspAI	GCGC	2 cut(s)	537, 845
KpnI	GGTACC	1 cut(s)	680
Ksp22I	TGATCA	1 cut(s)	514
Kzo9I	GATC	4 cut(s)	289, 483, 514, 664
LmnI	GCTCC	3 cut(s)	452, 475, 785
Lsp1109I	GCAGC	6 cut(s)	456, 724, 727, 844, 854, 941
LweI	GCATC	3 cut(s)	261, 856, 869
MaeI	CTAG	8 cut(s)	6, 75, 239, 420, 441, 644, 822, 867
MaeIII	GTNAC	2 cut(s)	66, 230
MalI	GATC	4 cut(s)	291, 485, 516, 666
MboI	GATC	4 cut(s)	289, 483, 514, 664
MboII	GAAGA	4 cut(s)	28, 90, 284, 837
MfeI	CAATTG	1 cut(s)	719
MflI	RGATCY	2 cut(s)	289, 483
MhlI	GDGCHC	3 cut(s)	472, 782, 796
MluCI	AATT	5 cut(s)	226, 492, 719, 742, 802
MlyI	GAGTC	1 cut(s)	692
MnlI	CCTC	8 cut(s)	24, 426, 578, 727, 753, 821, 912, 915
MseI	TTAA	3 cut(s)	275, 378, 495
MslI	CAYNNNNRTG	1 cut(s)	634
MspA1I	CMGCKG	3 cut(s)	595, 614, 932
MspCI	CTTAAG	1 cut(s)	377
MspI	CCGG	1 cut(s)	680
MunI	CAATTG	1 cut(s)	719
MwoI	GCNNNNNNNGC	6 cut(s)	620, 712, 760, 839, 863, 926
NdeI	CATATG	1 cut(s)	945
NdeII	GATC	4 cut(s)	289, 483, 514, 664
NlaIII	CATG	4 cut(s)	521, 574, 623, 639
NlaIV	GGNNCC	4 cut(s)	471, 568, 678, 781
NmuCI	GTSAC	1 cut(s)	230
NspI	RCATGY	2 cut(s)	623, 639
PaeR7I	CTCGAG	1 cut(s)	879
PaqCI	CACCTGC	1 cut(s)	569
PfeI	GAWTC	1 cut(s)	19
PkrI	GCNGC	6 cut(s)	446, 714, 717, 844, 859, 931
PleI	GAGTC	1 cut(s)	692
PpsI	GAGTC	1 cut(s)	692
PshBI	ATTAAT	1 cut(s)	495
Psp124BI	GAGCTC	1 cut(s)	796
PspN4I	GGNNCC	4 cut(s)	471, 568, 678, 781
PsuI	RGATCY	2 cut(s)	289, 483
PvuII	CAGCTG	2 cut(s)	614, 932
RsaI	GTAC	1 cut(s)	678
RsaNI	GTAC	1 cut(s)	677
RseI	CAYNNNNRTG	1 cut(s)	634
SacI	GAGCTC	1 cut(s)	796
SaqAI	TTAA	3 cut(s)	275, 378, 495
SatI	GCNGC	6 cut(s)	445, 713, 716, 843, 858, 930
Sau3AI	GATC	4 cut(s)	289, 483, 514, 664
SchI	GAGTC	1 cut(s)	692
SduI	GDGCHC	3 cut(s)	472, 782, 796
SfaNI	GCATC	3 cut(s)	261, 856, 869
Sfr274I	CTCGAG	1 cut(s)	879
SlaI	CTCGAG	1 cut(s)	879
SmiMI	CAYNNNNRTG	1 cut(s)	634
SmlI	CTYRAG	3 cut(s)	377, 787, 879
SmoI	CTYRAG	3 cut(s)	377, 787, 879
Sse9I	AATT	5 cut(s)	226, 492, 719, 742, 802
SsiI	CCGC	2 cut(s)	466, 593
SspMI	CTAG	8 cut(s)	6, 75, 239, 420, 441, 644, 822, 867
SstI	GAGCTC	1 cut(s)	796
StyI	CCWWGG	1 cut(s)	362
TaaI	ACNGT	1 cut(s)	72
TaqI	TCGA	1 cut(s)	880
TasI	AATT	5 cut(s)	226, 492, 719, 742, 802
TfiI	GAWTC	1 cut(s)	19
Tru1I	TTAA	3 cut(s)	275, 378, 495
Tru9I	TTAA	3 cut(s)	275, 378, 495
TscAI	CASTG	1 cut(s)	483
TseFI	GTSAC	1 cut(s)	230
TseI	GCWGC	6 cut(s)	444, 712, 715, 842, 857, 929
Tsp45I	GTSAC	1 cut(s)	230
TspDTI	ATGAA	3 cut(s)	11, 395, 401
TspRI	CASTG	1 cut(s)	483
Vha464I	CTTAAG	1 cut(s)	377
VspI	ATTAAT	1 cut(s)	495
XbaI	TCTAGA	1 cut(s)	74
XceI	RCATGY	2 cut(s)	623, 639
XhoI	CTCGAG	1 cut(s)	879
XspI	CTAG	8 cut(s)	6, 75, 239, 420, 441, 644, 822, 867

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