Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0000411

Physical Location & Seq

Genomic Coordinates Reverse (-)

40522508 .. 40523587

Gene Structure 1080 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0334500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1080 bp

ATGGATATAAGAGCGTCTTCTTCTGGAATGAATACAAGAAGCGAAACTATGTGGAAAAAACTGTGGAAAGTGAACGTACCTCCAAAGGTACGCATGCATGCATGGAGGTTAGTTAAGGGGATACTACCAACCAAAGGTGCCCTAGCAAAAAAAGGGGTACTATTGGATATGAGGTGTCCTTTATGTTTTGTGGAGTGGGAAGATGGCATGCATGTGTTCAAAAATTGTAGTGTGGTGAACATTTTCTGGAAGTGCGGTCTTATTAAGTTATGCCCAGCAGTGCACCTAGCTCCAGACTTGGTGGAATGGTTCTATGCCATGATTGATTTGCTGCATGGTGAGCGTCTTGAGTTTTTCTTATTGTCTCTTTGGGCTATATGGAATGAAAGGAATAACCTTGTATGGAAAGGTGGATGCTTCATTCCAATGAATGTGGCCAAATGGATGTGTACGTACCTTGATGAGTATAAGAAGCTCCATGCACGTTGTGCTAAGAAGAACAGAAGGCATGTTACCAAATGGCAGTGTCCACCAAGTGGACGACTTAAAGTGAACATTGATGGAAGCTTTAGAGCTGGAAATGGCTATGGTGGTATAGGAGTTATTGTCCGGGATGAACATGGAGATTGCGTAGCTGCGTTGGCTAGACCTCTCCCTTATGTACAGTCTGCATTGCATGCTGAGGTGGAGTCACTCCGCGCCGGCTTACTGGTAGCTATAAATCAAGGTTGGGATGAGATTGAGGTAGAGTCAGATTGTGCTATGCTTGTAAATGCCCTTGATGGGGAGGAGGAGGACTTGTCAGAGATAGGCCGGATTGTAGAGGATTGTAAAAGATATGCTAGTTCTTTTAAGTCCTTTCAATTTCGGCATGTCTTTCGTGAAGCAAATGGGGTGGCCAATAGGTTAGCACACCTTGCTAGTTGGAATAGTATTGATGAATTTTGGGTAGAAGAGACGCCTGTTATTATTCGGGACGTTCTCTATGAGGATATGTGTAATGGTTCTAGGGGTTCAGGCAATATGTCCCCCCCATTGTACTCTTTCCCTATTAATAATATGAACGAGGCACCTAGCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0000209 GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006464 GO:0006807 GO:0008150 GO:0008152 GO:0009653 GO:0009893 GO:0009894 GO:0009896 GO:0009987 GO:0010604 GO:0016567 GO:0016740 GO:0019222 GO:0019538 GO:0019787 GO:0019899 GO:0030154 GO:0030162 GO:0030435 GO:0031323 GO:0031325 GO:0031329 GO:0031331 GO:0031624 GO:0032268 GO:0032270 GO:0032434 GO:0032436 GO:0032446 GO:0032502 GO:0032991 GO:0036211 GO:0042176 GO:0043170 GO:0043412 GO:0043934 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044390 GO:0044424 GO:0044464 GO:0045732 GO:0045862 GO:0048518 GO:0048522 GO:0048646 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0060255 GO:0061136 GO:0061630 GO:0061659 GO:0065007 GO:0070647 GO:0071704 GO:0080090 GO:0140096 GO:1901564 GO:1901800 GO:1902494 GO:1903050 GO:1903052 GO:1903362 GO:1903364 GO:1990234 GO:2000058 GO:2000060

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

IBR RVT_3 zf-C3HC4

Protein Analysis

359

Amino Acids

40.81

Weight (kDa)

7.53

Isoelectric Point (pI)

40.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RVT	PF13966	13 - 83	7.6e-15	zinc-binding in reverse transcriptase
RVT_3	PF13456	185 - 306	6.8e-30	Reverse transcriptase-like

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: OG0000411)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G45470 AT3G45555 AT5G60250
fragaria_vesca	FvH4_3g33450 FvH4_3g33450 FvH4_3g33450 FvH4_3g33450 FvH4_3g33450 FvH4_3g33470 FvH4_3g33471 FvH4_3g33480 FvH4_3g33480
malus_domestica	MD03G1130800.v1.1 MD11G1125600.v1.1 MD11G1125700.v1.1 MD11G1125800.v1.1 MD11G1126100.v1.1 MD11G1152600.v1.1
prunus_persica	Prupe.6G094100_v2.0.a1 Prupe.6G094100_v2.0.a1 Prupe.6G094200_v2.0.a1 Prupe.6G094500_v2.0.a1 Prupe.6G094500_v2.0.a1 Prupe.6G115600_v2.0.a1 Prupe.6G115700_v2.0.a1 Prupe.6G115700_v2.0.a1 Prupe.6G115700_v2.0.a1 Prupe.6G115700_v2.0.a1
pyrus_communis	pycom11g10590 pycom11g10600 pycom11g10620 pycom11g10640 pycom11g12510
rosa_chinensis	RchiOBHm_Chr5g0060811 RchiOBHm_Chr5g0060821 RchiOBHm_Chr5g0060851 RchiOBHm_Chr5g0060881 RchiOBHm_Chr5g0060891
rosa_laevigata	RLG00000035404 RLG00000035405 RLG00000035407 RLG00000035408
rosa_multiflora	Rmu_sc0000420.1_g000048 Rmu_sc0000420.1_g000049 Rmu_sc0000727.1_g000006 Rmu_sc0000727.1_g000007 Rmu_sc0000727.1_g000024 Rmu_sc0000727.1_g000025 Rmu_sc0024212.1_g000001 Rmu_sc0024212.1_g000003 Rmu_sc0027900.1_g000003 Rmu_sc0030258.1_g000001
rosa_roxburghii	Rroxscaffold_1G00019780 Rroxscaffold_1G00019790 Rroxscaffold_1G00019800 Rroxscaffold_1G00019810 Rroxscaffold_1G00019820 Rroxscaffold_1G00019840 Rroxscaffold_1G00019850
rosa_rugosa	Rorug05G0334200 Rorug05G0334300 Rorug05G0334400 Rorug05G0334500 Rorug05G0334600 Rorug05G0334700
rosa_samantha	Rh4BG359600 Rh4CG373900 Rh5AG397000 Rh5AG397100 Rh5AG397200 Rh5AG397300 Rh5AG397400 Rh5AG397500 Rh5AG397600 Rh5AG397700 Rh5BG409300 Rh5BG409400 Rh5BG409800 Rh5BG409900 Rh5BG410000 Rh5BG410100 Rh5CG434100 Rh5CG434200 Rh5CG434600 Rh5CG434700 Rh5CG434800 Rh5CG434900 Rh5CG435000 Rh5DG424100 Rh5DG424200 Rh5DG424400 Rh5DG424500 Rh5DG424600 Rh5DG424800
rosa_wichuraiana	Rw5G037420 Rw5G037430 Rw5G037480 Rw5G037490 Rw5G037500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	137, 1069
AccB7I	CCANNNNNTGG	1 cut(s)	536
AccII	CGCG	1 cut(s)	699
AciI	CCGC	2 cut(s)	255, 697
AcoI	YGGCCR	2 cut(s)	435, 897
AcsI	RAATTY	1 cut(s)	941
AcyI	GRCGYC	1 cut(s)	959
AdeI	CACNNNGTG	2 cut(s)	488, 536
AfaI	GTAC	7 cut(s)	78, 90, 159, 451, 455, 663, 1040
AfiI	CCNNNNNNNGG	4 cut(s)	134, 536, 783, 784
AgsI	TTSAA	2 cut(s)	220, 863
AluBI	AGCT	7 cut(s)	290, 475, 567, 575, 635, 716, 1077
AluI	AGCT	7 cut(s)	290, 475, 567, 575, 635, 716, 1077
Alw21I	GWGCWC	1 cut(s)	285
Alw26I	GTCTC	2 cut(s)	369, 950
Alw44I	GTGCAC	1 cut(s)	281
AoxI	GGCC	3 cut(s)	435, 811, 897
ApaLI	GTGCAC	1 cut(s)	281
ApeKI	GCWGC	2 cut(s)	331, 635
ApoI	RAATTY	1 cut(s)	941
AseI	ATTAAT	1 cut(s)	1053
Asp700I	GAANNNNTTC	1 cut(s)	242
AspLEI	GCGC	1 cut(s)	701
AsuC2I	CCSGG	1 cut(s)	611
AsuHPI	GGTGA	2 cut(s)	247, 350
BaeGI	GKGCMC	2 cut(s)	142, 285
BalI	TGGCCA	2 cut(s)	437, 899
BanI	GGYRCC	2 cut(s)	137, 1069
BarI	GAAGNNNNNNTAC	2 cut(s)	496, 528
BbsI	GAAGAC	1 cut(s)	9
Bbv12I	GWGCWC	1 cut(s)	285
BbvCI	CCTCAGC	1 cut(s)	681
BbvI	GCAGC	2 cut(s)	318, 622
BccI	CCATC	3 cut(s)	197, 554, 776
BcgI	CGANNNNNNTGC	2 cut(s)	860, 894
BciVI	GTATCC	1 cut(s)	114
BcnI	CCSGG	1 cut(s)	611
BcoDI	GTCTC	2 cut(s)	369, 950
BfaI	CTAG	8 cut(s)	143, 287, 645, 843, 921, 1008, 1074, 1078
BfuI	GTATCC	1 cut(s)	114
BisI	GCNGC	2 cut(s)	332, 636
BlsI	GCNGC	2 cut(s)	333, 637
Bme1390I	CCNGG	1 cut(s)	611
BmiI	GGNNCC	2 cut(s)	139, 1071
BmrFI	CCNGG	1 cut(s)	611
BmsI	GCATC	1 cut(s)	404
BpiI	GAAGAC	1 cut(s)	9
BpmI	CTGGAG	1 cut(s)	276
Bpu10I	CCTNAGC	1 cut(s)	681
BpuEI	CTTGAG	1 cut(s)	368
BpuMI	CCSGG	1 cut(s)	611
BsaAI	YACGTR	1 cut(s)	453
BsaHI	GRCGYC	1 cut(s)	959
BsaXI	ACNNNNNCTCC	6 cut(s)	591, 615, 621, 645, 785, 815
Bsc4I	CCNNNNNNNGG	4 cut(s)	134, 536, 783, 784
Bse118I	RCCGGY	1 cut(s)	701
Bse1I	ACTGG	1 cut(s)	714
Bse3DI	GCAATG	1 cut(s)	671
BseGI	GGATG	4 cut(s)	419, 450, 619, 739
BseLI	CCNNNNNNNGG	4 cut(s)	134, 536, 783, 784
BseMI	GCAATG	1 cut(s)	671
BseMII	CTCAG	1 cut(s)	672
BseNI	ACTGG	1 cut(s)	714
BseRI	GAGGAG	2 cut(s)	803, 806
BseSI	GKGCMC	2 cut(s)	142, 285
BseXI	GCAGC	2 cut(s)	318, 622
BseYI	CCCAGC	1 cut(s)	274
Bsh1236I	CGCG	1 cut(s)	699
BshFI	GGCC	3 cut(s)	437, 813, 899
BshNI	GGYRCC	2 cut(s)	137, 1069
BsiHKAI	GWGCWC	1 cut(s)	285
BsiSI	CCGG	3 cut(s)	610, 702, 814
BslFI	GGGAC	2 cut(s)	989, 1012
BslI	CCNNNNNNNGG	4 cut(s)	134, 536, 783, 784
BsmAI	GTCTC	2 cut(s)	369, 950
BsmBI	CGTCTC	1 cut(s)	950
BsmFI	GGGAC	2 cut(s)	989, 1012
BsnI	GGCC	3 cut(s)	437, 813, 899
Bsp1286I	GDGCHC	2 cut(s)	142, 285
Bsp1407I	TGTACA	1 cut(s)	661
BspACI	CCGC	2 cut(s)	255, 697
BspANI	GGCC	3 cut(s)	437, 813, 899
BspCNI	CTCAG	1 cut(s)	673
BspFNI	CGCG	1 cut(s)	699
BspLI	GGNNCC	2 cut(s)	139, 1071
BspT107I	GGYRCC	2 cut(s)	137, 1069
BsrDI	GCAATG	1 cut(s)	671
BsrFI	RCCGGY	1 cut(s)	701
BsrGI	TGTACA	1 cut(s)	661
BsrI	ACTGG	1 cut(s)	714
BssAI	RCCGGY	1 cut(s)	701
BssNI	GRCGYC	1 cut(s)	959
Bst4CI	ACNGT	2 cut(s)	63, 666
Bst6I	CTCTTC	1 cut(s)	948
BstACI	GRCGYC	1 cut(s)	959
BstAPI	GCANNNNNTGC	3 cut(s)	488, 677, 917
BstAUI	TGTACA	1 cut(s)	661
BstBAI	YACGTR	1 cut(s)	453
BstC8I	GCNNGC	5 cut(s)	95, 99, 209, 678, 703
BstDEI	CTNAG	2 cut(s)	492, 681
BstF5I	GGATG	4 cut(s)	419, 450, 619, 739
BstFNI	CGCG	1 cut(s)	699
BstHHI	GCGC	1 cut(s)	701
BstMAI	GTCTC	2 cut(s)	369, 950
BstMWI	GCNNNNNNNGC	5 cut(s)	340, 488, 641, 677, 917
BstNSI	RCATGY	7 cut(s)	97, 101, 211, 215, 512, 680, 875
BstSCI	CCNGG	1 cut(s)	609
BstSLI	GKGCMC	2 cut(s)	142, 285
BstSNI	TACGTA	1 cut(s)	453
BstUI	CGCG	1 cut(s)	699
BstV1I	GCAGC	2 cut(s)	318, 622
BstV2I	GAAGAC	1 cut(s)	9
BsuI	GTATCC	1 cut(s)	114
BsuRI	GGCC	3 cut(s)	437, 813, 899
BtsCI	GGATG	4 cut(s)	419, 450, 619, 739
BtsI	GCAGTG	2 cut(s)	285, 530
BtsIMutI	CAGTG	2 cut(s)	285, 530
Cac8I	GCNNGC	5 cut(s)	95, 99, 209, 678, 703
CfoI	GCGC	1 cut(s)	701
Cfr10I	RCCGGY	1 cut(s)	701
CseI	GACGC	3 cut(s)	3, 332, 967
Csp6I	GTAC	7 cut(s)	77, 89, 158, 450, 454, 662, 1039
CspCI	CAANNNNNGTGG	4 cut(s)	414, 449, 876, 911
CviQI	GTAC	7 cut(s)	77, 89, 158, 450, 454, 662, 1039
DdeI	CTNAG	2 cut(s)	492, 681
DraIII	CACNNNGTG	2 cut(s)	488, 536
EaeI	YGGCCR	2 cut(s)	435, 897
Eam1104I	CTCTTC	1 cut(s)	948
EarI	CTCTTC	1 cut(s)	948
Eco105I	TACGTA	1 cut(s)	453
EcoT22I	ATGCAT	3 cut(s)	99, 103, 213
Esp3I	CGTCTC	1 cut(s)	950
FalI	AAGNNNNNCTT	1 cut(s)	33
FaqI	GGGAC	2 cut(s)	989, 1012
Fnu4HI	GCNGC	2 cut(s)	332, 636
FokI	GGATG	4 cut(s)	426, 457, 626, 746
Fsp4HI	GCNGC	2 cut(s)	332, 636
FspBI	CTAG	8 cut(s)	143, 287, 645, 843, 921, 1008, 1074, 1078
GlaI	GCGC	1 cut(s)	700
GluI	GCNGC	2 cut(s)	332, 636
GsaI	CCCAGC	1 cut(s)	278
GsuI	CTGGAG	1 cut(s)	276
HaeIII	GGCC	3 cut(s)	437, 813, 899
HapII	CCGG	3 cut(s)	610, 702, 814
HgaI	GACGC	3 cut(s)	3, 332, 967
HhaI	GCGC	1 cut(s)	701
Hin1I	GRCGYC	1 cut(s)	959
Hin6I	GCGC	1 cut(s)	699
HinP1I	GCGC	1 cut(s)	699
HindIII	AAGCTT	1 cut(s)	565
HinfI	GANTC	2 cut(s)	689, 749
HpaII	CCGG	3 cut(s)	610, 702, 814
HphI	GGTGA	2 cut(s)	247, 350
Hpy166II	GTNNAC	7 cut(s)	73, 238, 283, 450, 530, 539, 553
Hpy188I	TCNGA	2 cut(s)	754, 805
Hpy188III	TCNNGA	6 cut(s)	24, 247, 293, 347, 881, 974
Hpy8I	GTNNAC	7 cut(s)	73, 238, 283, 450, 530, 539, 553
HpyAV	CCTTC	1 cut(s)	498
HpyCH4III	ACNGT	2 cut(s)	63, 666
HpyCH4IV	ACGT	4 cut(s)	75, 452, 484, 978
HpyCH4V	TGCA	8 cut(s)	97, 101, 211, 283, 334, 482, 671, 676
HpyF10VI	GCNNNNNNNGC	5 cut(s)	340, 488, 641, 677, 917
HpyF3I	CTNAG	2 cut(s)	492, 681
HpySE526I	ACGT	4 cut(s)	75, 452, 484, 978
Hsp92I	GRCGYC	1 cut(s)	959
HspAI	GCGC	1 cut(s)	699
KroI	GCCGGC	1 cut(s)	701
KroNI	GCCGGC	1 cut(s)	703
LmnI	GCTCC	2 cut(s)	295, 480
Lsp1109I	GCAGC	2 cut(s)	318, 622
LweI	GCATC	1 cut(s)	404
MaeI	CTAG	8 cut(s)	143, 287, 645, 843, 921, 1008, 1074, 1078
MaeII	ACGT	4 cut(s)	75, 452, 484, 978
MaeIII	GTNAC	2 cut(s)	511, 690
MboII	GAAGA	5 cut(s)	9, 12, 212, 508, 965
MhlI	GDGCHC	2 cut(s)	142, 285
MlsI	TGGCCA	2 cut(s)	437, 899
MluCI	AATT	3 cut(s)	223, 863, 941
MluNI	TGGCCA	2 cut(s)	437, 899
MlyI	GAGTC	2 cut(s)	698, 758
MmeI	TCCRAC	1 cut(s)	905
Mox20I	TGGCCA	2 cut(s)	437, 899
Mph1103I	ATGCAT	3 cut(s)	99, 103, 213
MroNI	GCCGGC	1 cut(s)	701
MroXI	GAANNNNTTC	1 cut(s)	242
MscI	TGGCCA	2 cut(s)	437, 899
MseI	TTAA	5 cut(s)	114, 264, 546, 852, 1053
MslI	CAYNNNNRTG	2 cut(s)	212, 425
Msp20I	TGGCCA	2 cut(s)	437, 899
MspI	CCGG	3 cut(s)	610, 702, 814
MspR9I	CCNGG	1 cut(s)	611
MvnI	CGCG	1 cut(s)	699
MwoI	GCNNNNNNNGC	5 cut(s)	340, 488, 641, 677, 917
NaeI	GCCGGC	1 cut(s)	703
NciI	CCSGG	1 cut(s)	611
NgoMIV	GCCGGC	1 cut(s)	701
NlaIV	GGNNCC	2 cut(s)	139, 1071
NmuCI	GTSAC	1 cut(s)	690
NsiI	ATGCAT	3 cut(s)	99, 103, 213
NspI	RCATGY	7 cut(s)	97, 101, 211, 215, 512, 680, 875
PaeI	GCATGC	4 cut(s)	97, 101, 211, 680
PdiI	GCCGGC	1 cut(s)	703
PdmI	GAANNNNTTC	1 cut(s)	242
PflMI	CCANNNNNTGG	1 cut(s)	536
PfoI	TCCNGGA	1 cut(s)	609
PkrI	GCNGC	2 cut(s)	333, 637
PleI	GAGTC	2 cut(s)	697, 757
PpsI	GAGTC	2 cut(s)	697, 757
Ppu21I	YACGTR	1 cut(s)	453
PshBI	ATTAAT	1 cut(s)	1053
PspFI	CCCAGC	1 cut(s)	274
PspN4I	GGNNCC	2 cut(s)	139, 1071
RsaI	GTAC	7 cut(s)	78, 90, 159, 451, 455, 663, 1040
RsaNI	GTAC	7 cut(s)	77, 89, 158, 450, 454, 662, 1039
RseI	CAYNNNNRTG	2 cut(s)	212, 425
SaqAI	TTAA	5 cut(s)	114, 264, 546, 852, 1053
SatI	GCNGC	2 cut(s)	332, 636
SchI	GAGTC	2 cut(s)	698, 758
ScrFI	CCNGG	1 cut(s)	611
SduI	GDGCHC	2 cut(s)	142, 285
SfaNI	GCATC	1 cut(s)	404
SmiMI	CAYNNNNRTG	2 cut(s)	212, 425
SmlI	CTYRAG	1 cut(s)	347
SmoI	CTYRAG	1 cut(s)	347
SnaBI	TACGTA	1 cut(s)	453
SphI	GCATGC	4 cut(s)	97, 101, 211, 680
Sse9I	AATT	3 cut(s)	223, 863, 941
SsiI	CCGC	2 cut(s)	255, 697
SspMI	CTAG	8 cut(s)	143, 287, 645, 843, 921, 1008, 1074, 1078
StyD4I	CCNGG	1 cut(s)	609
TaaI	ACNGT	2 cut(s)	63, 666
TaiI	ACGT	4 cut(s)	78, 455, 487, 981
TasI	AATT	3 cut(s)	223, 863, 941
TatI	WGTACW	2 cut(s)	661, 1038
Tru1I	TTAA	5 cut(s)	114, 264, 546, 852, 1053
Tru9I	TTAA	5 cut(s)	114, 264, 546, 852, 1053
TscAI	CASTG	2 cut(s)	285, 530
TseFI	GTSAC	1 cut(s)	690
TseI	GCWGC	2 cut(s)	331, 635
Tsp45I	GTSAC	1 cut(s)	690
TspDTI	ATGAA	7 cut(s)	44, 399, 409, 443, 630, 954, 1076
TspRI	CASTG	2 cut(s)	285, 530
Van91I	CCANNNNNTGG	1 cut(s)	536
VneI	GTGCAC	1 cut(s)	281
VspI	ATTAAT	1 cut(s)	1053
XapI	RAATTY	1 cut(s)	941
XceI	RCATGY	7 cut(s)	97, 101, 211, 215, 512, 680, 875
XmnI	GAANNNNTTC	1 cut(s)	242
XspI	CTAG	8 cut(s)	143, 287, 645, 843, 921, 1008, 1074, 1078
Zsp2I	ATGCAT	3 cut(s)	99, 103, 213

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