Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0000411

Physical Location & Seq

Genomic Coordinates Forward (+)

24256043 .. 24261783

Gene Structure 5741 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00019810.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 918 bp

ATGGCCTTCAATCTCCAACTGCAGGAAGCCATGGCCGACTCTCTCGCTCTCCAACCACCATCCACTTCTCAACTCAATCTCCACCCTCGGATTCACGACCACAATTTCGTAATCGACCTCACCGACTCGGCGGAGGCCTACTGCACGAACGACGCGTCGTCGTCCTGGTCGAAGGCGGCGGAGGAGGAGAGCGAGTGTTTTAGACTGTATTTCAAGGGGCTTGTGAGCGAGGAGAGGGTCAAGGACATGGATGTCATTGTGGCCGGGGTTGGGGTGGCCATTTGTGACGCTAGAGATAATCTTATTTTAGATGCCAAGAAGAATCTGGAGGCGTTCGGTGGTAGTGAGGTACTGGGCAATGAGGCTGCTAAGCTTGAGGCTCTTATTGAAGGGCTCAGTACAGCTCTCACTCTGGACTTGAGAAATGTCACATTTTTCTGTGATAACAACAAGCTTTACCAATGTGTCCACAACGTCCCGAGGACTATTGGAGCAAGTACGGCGATTACTACGAGAAGCGTCGACCGTGGCGACGGTACGTCGTCATTGTGGAAACCGGCGGTGGAGACCGAGTGTTTGAGATTATATTGCAAGGGTTTGGTTGGCAAAGAGGTGGTTAGGGATTCGAAGGTGGTGGTGGCGGGGTTGGGGTTGCGATTTGTGACCCTAGAGATAATCTCGATATTCGAGGCGAGGAAGAATGCGGAGGCGTTTGATGGTGGTGTGGTGATGAGCAATGAGGTGTGGAGCTTGAGGATCTCATTGAAGGGCTCAATACAGCTCTCACTCGGAGTTGAAAAATCTAACTACACTCCTTTCATGTCGCTTTCAGTGTCAGAGATGACCCTCAGTCATGGAAGACCGGACGAACGAAGACAACCGCTGCTCCATTCTCTCCAACCACCTCAGACACCTTAG

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

305

Amino Acids

33.41

Weight (kDa)

5.18

Isoelectric Point (pI)

47.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	88 - 158	9.2e-08	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: 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)
AasI	GACNNNNNNGTC	1 cut(s)	251
AccI	GTMKAC	1 cut(s)	522
AccII	CGCG	1 cut(s)	155
AciI	CCGC	7 cut(s)	131, 176, 179, 560, 641, 704, 881
AclWI	GGATC	1 cut(s)	764
AcoI	YGGCCR	3 cut(s)	33, 261, 276
AfaI	GTAC	4 cut(s)	351, 400, 499, 538
AfiI	CCNNNNNNNGG	2 cut(s)	22, 270
AflIII	ACRYGT	1 cut(s)	153
AgsI	TTSAA	5 cut(s)	10, 214, 389, 766, 797
AhdI	GACNNNNNGTC	3 cut(s)	157, 538, 849
AjnI	CCWGG	1 cut(s)	164
AluBI	AGCT	5 cut(s)	373, 404, 454, 750, 781
AluI	AGCT	5 cut(s)	373, 404, 454, 750, 781
Alw26I	GTCTC	1 cut(s)	560
AlwI	GGATC	1 cut(s)	764
Ama87I	CYCGRG	1 cut(s)	478
AoxI	GGCC	5 cut(s)	3, 33, 135, 261, 276
ApeKI	GCWGC	2 cut(s)	365, 883
ArsI	GACNNNNNNTTYG	6 cut(s)	89, 121, 140, 172, 559, 591
AsuC2I	CCSGG	1 cut(s)	265
AsuHPI	GGTGA	2 cut(s)	112, 739
AsuII	TTCGAA	1 cut(s)	626
AvaI	CYCGRG	1 cut(s)	478
BalI	TGGCCA	1 cut(s)	278
BanII	GRGCYC	2 cut(s)	396, 773
BbsI	GAAGAC	2 cut(s)	865, 880
BbvI	GCAGC	2 cut(s)	352, 870
BccI	CCATC	2 cut(s)	67, 710
BceAI	ACGGC	1 cut(s)	516
BciT130I	CCWGG	1 cut(s)	166
BcnI	CCSGG	1 cut(s)	265
BcoDI	GTCTC	1 cut(s)	560
BfaI	CTAG	2 cut(s)	291, 668
BfmI	CTRYAG	1 cut(s)	20
BisI	GCNGC	3 cut(s)	177, 366, 884
BlpI	GCTNAGC	1 cut(s)	369
BlsI	GCNGC	3 cut(s)	178, 367, 885
Bme1390I	CCNGG	2 cut(s)	166, 265
BmeRI	GACNNNNNGTC	3 cut(s)	157, 538, 849
BmeT110I	CYCGRG	1 cut(s)	478
BmrFI	CCNGG	2 cut(s)	166, 265
BmrI	ACTGGG	1 cut(s)	362
BmsI	GCATC	1 cut(s)	301
BmuI	ACTGGG	1 cut(s)	362
BpiI	GAAGAC	2 cut(s)	865, 880
BplI	GAGNNNNNCTC	2 cut(s)	662, 694
BpmI	CTGGAG	1 cut(s)	347
Bpu1102I	GCTNAGC	1 cut(s)	369
Bpu14I	TTCGAA	1 cut(s)	626
BpuEI	CTTGAG	3 cut(s)	395, 439, 772
BpuMI	CCSGG	1 cut(s)	265
BsaI	GGTCTC	1 cut(s)	560
BsaJI	CCNNGG	5 cut(s)	30, 86, 264, 479, 526
BsaWI	WCCGGW	1 cut(s)	862
BsaXI	ACNNNNNCTCC	8 cut(s)	63, 93, 179, 209, 557, 587, 870, 900
Bsc4I	CCNNNNNNNGG	2 cut(s)	22, 270
Bse118I	RCCGGY	1 cut(s)	556
Bse1I	ACTGG	1 cut(s)	357
Bse3DI	GCAATG	2 cut(s)	364, 742
BseBI	CCWGG	1 cut(s)	166
BseDI	CCNNGG	5 cut(s)	30, 86, 264, 479, 526
BseGI	GGATG	2 cut(s)	59, 256
BseLI	CCNNNNNNNGG	2 cut(s)	22, 270
BseMI	GCAATG	2 cut(s)	364, 742
BseMII	CTCAG	2 cut(s)	409, 862
BseNI	ACTGG	1 cut(s)	357
BseRI	GAGGAG	3 cut(s)	197, 200, 245
BseXI	GCAGC	2 cut(s)	352, 870
BsgI	GTGCAG	1 cut(s)	127
Bsh1236I	CGCG	1 cut(s)	155
Bsh1285I	CGRYCG	1 cut(s)	526
BshFI	GGCC	5 cut(s)	5, 35, 137, 263, 278
BsiEI	CGRYCG	1 cut(s)	526
BsiHKCI	CYCGRG	1 cut(s)	478
BsiSI	CCGG	3 cut(s)	264, 557, 863
BslFI	GGGAC	1 cut(s)	461
BslI	CCNNNNNNNGG	2 cut(s)	22, 270
BsmAI	GTCTC	1 cut(s)	560
BsmFI	GGGAC	1 cut(s)	461
BsmI	GAATGC	1 cut(s)	706
BsnI	GGCC	5 cut(s)	5, 35, 137, 263, 278
Bso31I	GGTCTC	1 cut(s)	560
BsoBI	CYCGRG	1 cut(s)	478
Bsp119I	TTCGAA	1 cut(s)	626
Bsp1286I	GDGCHC	2 cut(s)	396, 773
Bsp143I	GATC	1 cut(s)	756
Bsp1720I	GCTNAGC	1 cut(s)	369
Bsp19I	CCATGG	1 cut(s)	30
BspACI	CCGC	7 cut(s)	131, 176, 179, 560, 641, 704, 881
BspANI	GGCC	5 cut(s)	5, 35, 137, 263, 278
BspCNI	CTCAG	2 cut(s)	408, 861
BspFNI	CGCG	1 cut(s)	155
BspMAI	CTGCAG	1 cut(s)	24
BspPI	GGATC	1 cut(s)	764
BspT104I	TTCGAA	1 cut(s)	626
BspTNI	GGTCTC	1 cut(s)	560
BsrDI	GCAATG	2 cut(s)	364, 742
BsrFI	RCCGGY	1 cut(s)	556
BsrI	ACTGG	1 cut(s)	357
BssAI	RCCGGY	1 cut(s)	556
BssECI	CCNNGG	5 cut(s)	30, 86, 264, 479, 526
BssMI	GATC	1 cut(s)	756
BssT1I	CCWWGG	1 cut(s)	30
Bst2UI	CCWGG	1 cut(s)	166
Bst4CI	ACNGT	3 cut(s)	207, 527, 536
BstBI	TTCGAA	1 cut(s)	626
BstDEI	CTNAG	5 cut(s)	369, 395, 848, 906, 915
BstDSI	CCRYGG	2 cut(s)	30, 526
BstF5I	GGATG	2 cut(s)	59, 256
BstFNI	CGCG	1 cut(s)	155
BstKTI	GATC	1 cut(s)	759
BstMAI	GTCTC	1 cut(s)	560
BstMBI	GATC	1 cut(s)	756
BstMCI	CGRYCG	1 cut(s)	526
BstMWI	GCNNNNNNNGC	1 cut(s)	500
BstNI	CCWGG	1 cut(s)	166
BstSCI	CCNGG	2 cut(s)	164, 263
BstSFI	CTRYAG	1 cut(s)	20
BstUI	CGCG	1 cut(s)	155
BstV1I	GCAGC	2 cut(s)	352, 870
BstV2I	GAAGAC	2 cut(s)	865, 880
BstX2I	RGATCY	1 cut(s)	756
BstYI	RGATCY	1 cut(s)	756
BsuRI	GGCC	5 cut(s)	5, 35, 137, 263, 278
BtgI	CCRYGG	2 cut(s)	30, 526
BtsCI	GGATG	2 cut(s)	59, 256
BtsIMutI	CAGTG	1 cut(s)	837
Cfr10I	RCCGGY	1 cut(s)	556
CseI	GACGC	4 cut(s)	144, 161, 296, 508
Csp6I	GTAC	4 cut(s)	350, 399, 498, 537
CviAII	CATG	4 cut(s)	31, 247, 820, 854
CviQI	GTAC	4 cut(s)	350, 399, 498, 537
DdeI	CTNAG	5 cut(s)	369, 395, 848, 906, 915
DpnI	GATC	1 cut(s)	758
DpnII	GATC	1 cut(s)	756
DrdI	GACNNNNNNGTC	1 cut(s)	251
DriI	GACNNNNNGTC	3 cut(s)	157, 538, 849
DseDI	GACNNNNNNGTC	1 cut(s)	251
EaeI	YGGCCR	3 cut(s)	33, 261, 276
Eam1105I	GACNNNNNGTC	3 cut(s)	157, 538, 849
EciI	GGCGGA	2 cut(s)	146, 194
Eco130I	CCWWGG	1 cut(s)	30
Eco147I	AGGCCT	1 cut(s)	137
Eco24I	GRGCYC	2 cut(s)	396, 773
Eco31I	GGTCTC	1 cut(s)	560
Eco88I	CYCGRG	1 cut(s)	478
EcoRII	CCWGG	1 cut(s)	164
EcoT14I	CCWWGG	1 cut(s)	30
EcoT38I	GRGCYC	2 cut(s)	396, 773
ErhI	CCWWGG	1 cut(s)	30
FaeI	CATG	4 cut(s)	34, 250, 823, 857
FaiI	YATR	5 cut(s)	32, 248, 586, 821, 855
FaqI	GGGAC	1 cut(s)	461
FatI	CATG	4 cut(s)	30, 246, 819, 853
FauI	CCCGC	1 cut(s)	634
FblI	GTMKAC	1 cut(s)	522
Fnu4HI	GCNGC	3 cut(s)	177, 366, 884
FokI	GGATG	2 cut(s)	46, 263
FriOI	GRGCYC	2 cut(s)	396, 773
Fsp4HI	GCNGC	3 cut(s)	177, 366, 884
FspBI	CTAG	2 cut(s)	291, 668
GluI	GCNGC	3 cut(s)	177, 366, 884
GsuI	CTGGAG	1 cut(s)	347
HaeIII	GGCC	5 cut(s)	5, 35, 137, 263, 278
HapII	CCGG	3 cut(s)	264, 557, 863
HgaI	GACGC	4 cut(s)	144, 161, 296, 508
Hin1II	CATG	4 cut(s)	34, 250, 823, 857
HincII	GTYRAC	1 cut(s)	523
HindII	GTYRAC	1 cut(s)	523
HindIII	AAGCTT	2 cut(s)	371, 452
HinfI	GANTC	5 cut(s)	38, 91, 125, 322, 623
HpaII	CCGG	3 cut(s)	264, 557, 863
HphI	GGTGA	2 cut(s)	112, 739
Hpy166II	GTNNAC	2 cut(s)	469, 523
Hpy188I	TCNGA	4 cut(s)	90, 791, 838, 909
Hpy188III	TCNNGA	5 cut(s)	95, 326, 413, 478, 679
Hpy8I	GTNNAC	2 cut(s)	469, 523
Hpy99I	CGWCG	6 cut(s)	155, 160, 163, 524, 536, 544
HpyAV	CCTTC	5 cut(s)	16, 166, 383, 622, 760
HpyCH4III	ACNGT	3 cut(s)	207, 527, 536
HpyCH4IV	ACGT	2 cut(s)	474, 539
HpyCH4V	TGCA	3 cut(s)	22, 144, 591
HpyF10VI	GCNNNNNNNGC	1 cut(s)	500
HpyF3I	CTNAG	5 cut(s)	369, 395, 848, 906, 915
HpySE526I	ACGT	2 cut(s)	474, 539
Hsp92II	CATG	4 cut(s)	34, 250, 823, 857
Kzo9I	GATC	1 cut(s)	756
LmnI	GCTCC	3 cut(s)	491, 747, 891
LpnPI	CCDG	9 cut(s)	8, 151, 178, 277, 311, 338, 398, 570, 876
Lsp1109I	GCAGC	2 cut(s)	352, 870
LweI	GCATC	1 cut(s)	301
MaeI	CTAG	2 cut(s)	291, 668
MaeII	ACGT	2 cut(s)	474, 539
MaeIII	GTNAC	3 cut(s)	284, 427, 661
MalI	GATC	1 cut(s)	758
MboI	GATC	1 cut(s)	756
MboII	GAAGA	4 cut(s)	331, 709, 870, 885
MflI	RGATCY	1 cut(s)	756
MhlI	GDGCHC	2 cut(s)	396, 773
MlsI	TGGCCA	1 cut(s)	278
MluCI	AATT	1 cut(s)	103
MluI	ACGCGT	1 cut(s)	153
MluNI	TGGCCA	1 cut(s)	278
MlyI	GAGTC	2 cut(s)	32, 119
MmeI	TCCRAC	2 cut(s)	40, 76
Mox20I	TGGCCA	1 cut(s)	278
MscI	TGGCCA	1 cut(s)	278
Msp20I	TGGCCA	1 cut(s)	278
MspA1I	CMGCKG	1 cut(s)	883
MspI	CCGG	3 cut(s)	264, 557, 863
MspR9I	CCNGG	2 cut(s)	166, 265
Mva1269I	GAATGC	1 cut(s)	706
MvaI	CCWGG	1 cut(s)	166
MvnI	CGCG	1 cut(s)	155
MwoI	GCNNNNNNNGC	1 cut(s)	500
NciI	CCSGG	1 cut(s)	265
NcoI	CCATGG	1 cut(s)	30
NdeII	GATC	1 cut(s)	756
NlaIII	CATG	4 cut(s)	34, 250, 823, 857
NmeAIII	GCCGAG	1 cut(s)	107
NmuCI	GTSAC	3 cut(s)	284, 427, 661
NspV	TTCGAA	1 cut(s)	626
PceI	AGGCCT	1 cut(s)	137
PcsI	WCGNNNNNNNCGW	4 cut(s)	120, 152, 167, 528
PctI	GAATGC	1 cut(s)	706
PfeI	GAWTC	3 cut(s)	91, 322, 623
PkrI	GCNGC	3 cut(s)	178, 367, 885
PleI	GAGTC	2 cut(s)	32, 119
PpsI	GAGTC	2 cut(s)	32, 119
Psp6I	CCWGG	1 cut(s)	164
PspGI	CCWGG	1 cut(s)	164
PstI	CTGCAG	1 cut(s)	24
PsuI	RGATCY	1 cut(s)	756
RsaI	GTAC	4 cut(s)	351, 400, 499, 538
RsaNI	GTAC	4 cut(s)	350, 399, 498, 537
SalI	GTCGAC	1 cut(s)	521
SatI	GCNGC	3 cut(s)	177, 366, 884
Sau3AI	GATC	1 cut(s)	756
SchI	GAGTC	2 cut(s)	32, 119
ScrFI	CCNGG	2 cut(s)	166, 265
SduI	GDGCHC	2 cut(s)	396, 773
SfaNI	GCATC	1 cut(s)	301
SfcI	CTRYAG	1 cut(s)	20
SfuI	TTCGAA	1 cut(s)	626
SmlI	CTYRAG	3 cut(s)	374, 418, 751
SmoI	CTYRAG	3 cut(s)	374, 418, 751
Sse9I	AATT	1 cut(s)	103
SseBI	AGGCCT	1 cut(s)	137
SsiI	CCGC	7 cut(s)	131, 176, 179, 560, 641, 704, 881
SspMI	CTAG	2 cut(s)	291, 668
StuI	AGGCCT	1 cut(s)	137
StyD4I	CCNGG	2 cut(s)	164, 263
StyI	CCWWGG	1 cut(s)	30
TaaI	ACNGT	3 cut(s)	207, 527, 536
TaiI	ACGT	2 cut(s)	477, 542
TaqI	TCGA	6 cut(s)	114, 170, 522, 626, 680, 687
TaqII	GACCGA	1 cut(s)	584
TasI	AATT	1 cut(s)	103
TatI	WGTACW	1 cut(s)	398
TauI	GCSGC	1 cut(s)	179
TfiI	GAWTC	3 cut(s)	91, 322, 623
TscAI	CASTG	1 cut(s)	837
TseFI	GTSAC	3 cut(s)	284, 427, 661
TseI	GCWGC	2 cut(s)	365, 883
Tsp45I	GTSAC	3 cut(s)	284, 427, 661
TspDTI	ATGAA	1 cut(s)	808
TspRI	CASTG	1 cut(s)	837
XcmI	CCANNNNNNNNNTGG	1 cut(s)	322
XmiI	GTMKAC	1 cut(s)	522
XspI	CTAG	2 cut(s)	291, 668

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