Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0006381

Physical Location & Seq

Genomic Coordinates Forward (+)

58384837 .. 58386191

Gene Structure 1355 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ26623

Sequence Viewer

CDS Protein Promoter (2k)

Length: 939 bp

ATGTGCTCCCAACATCTGCTCTCAGAGATGCGCGTTCTGCCGCAATCTCAGCCCTCCGGGCAACTCTATCCACCACCACCTAACGCCTCTGCTCAACCACCCACAACCTCATCACTCCAAAATCAAATCTCCAGCCTTCAACAGTCTCTTGATTTGCTCCAAGCCCAAAATGAAGTGCTTCACCGCTCCATTCAAACACTAATCCAAAACCAAATCTCCTTCCAAAACCACATCACTGCTCAACTGGGAGCCCTTCACAGCACCGTCCTAGCCTGGACAGGTCTGGGAATGTCAAACCCCCCATCTCCACACCCACCCATTTCATCACCACACCCAAATTACTACCCTTCCCCTCCACCACCGCACTACCACTCAACACCCTTCTCATTGAACCATTTCCATTCTCCCAATCAACACCAAACTGACCTGGGCTCATTTCAGCCTCCCAACCTTAACCTCCCGCGGTTCAACGGCGAAGACGCCGTCGGTTGGCTTGCGATGGCGGAGAGGTATCTTCGAGTCCACAAGGTACCTCTCCACGAGCGCGTACTCATAGTTGGTGCTCACCTCGGTCCCGACGCCTCCTTGTGGATGAACGCCTTCGAGTCACGCCACCCAGCACCAACCTGGGATTGTTTTGTATCTGCCTTCCTAGACCGCTTTGGGGGTTCTTGCAACACCACACTGGACTTGATGACTCAGCTTTCTCATCTGCAACACCACAACACAGTCGATGAGTACATCACAGAGTTCACAACGCTTTCTTGCCGCGCTCCGGGATGGACGGACACCCAGCTCATACCCATTTTCTGCGGTGGCCTGAAGCCGGAGCTCCGCCACGACGTCATGGCCATGGACCCCCACTCCCTCGCGCAGGCAAAACGCGTAGCCAGAATCTACGAAGCGAAGCTTCAGGACATCAAAGGCCTGTGCTTTTAA

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

RVP_2 RVT_1 Retrotrans_gag gag-asp_proteas rve

Protein Analysis

312

Amino Acids

34.8

Weight (kDa)

6.45

Isoelectric Point (pI)

54.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ty3_capsid	PF19259	177 - 301	2.6e-14	Ty3 transposon capsid-like protein
Retrotrans_gag	PF03732	189 - 276	2.4e-12	Retrotransposon gag 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

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Orthologous Genes (Group: OG0006381)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g06201 FvH4_1g08061 FvH4_1g08061 FvH4_5g27691 FvH4_6g16962 FvH4_7g30611
rosa_chinensis	RchiOBHm_Chr2g0094121 RchiOBHm_Chr6g0296601
rosa_laevigata	RLG00000008247 RLG00000016457
rosa_roxburghii	Rroxscaffold_2G00076380 Rroxscaffold_2G00132740 Rroxscaffold_2G00147460 Rroxscaffold_3G00257090 Rroxscaffold_7G00171340
rosa_rugosa	Rorug03G0253300 Rorug03G0304200
rosa_samantha	Rh1DG093900 Rh2AG088700 Rh2AG365300 Rh2BG088800 Rh2BG325600 Rh2CG091200 Rh2DG087800 Rh4AG227300 Rh4CG009100
rosa_wichuraiana	Rw4G001570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	846
Acc65I	GGTACC	1 cut(s)	529
AccB1I	GGYRCC	1 cut(s)	529
AccBSI	CCGCTC	1 cut(s)	186
AccII	CGCG	6 cut(s)	33, 463, 546, 771, 872, 885
AcoI	YGGCCR	1 cut(s)	849
AcuI	CTGAAG	2 cut(s)	842, 896
AcyI	GRCGYC	3 cut(s)	480, 579, 843
AfaI	GTAC	3 cut(s)	531, 549, 740
AfiI	CCNNNNNNNGG	6 cut(s)	489, 588, 664, 775, 826, 874
AflIII	ACRYGT	1 cut(s)	883
AgsI	TTSAA	4 cut(s)	140, 194, 391, 469
AjnI	CCWGG	3 cut(s)	272, 426, 626
AluBI	AGCT	4 cut(s)	703, 796, 832, 910
AluI	AGCT	4 cut(s)	703, 796, 832, 910
Alw21I	GWGCWC	3 cut(s)	8, 565, 834
Alw26I	GTCTC	1 cut(s)	150
AoxI	GGCC	3 cut(s)	817, 849, 925
ArsI	GACNNNNNNTTYG	2 cut(s)	468, 500
Asp700I	GAANNNNTTC	3 cut(s)	177, 395, 599
Asp718I	GGTACC	1 cut(s)	529
AspLEI	GCGC	4 cut(s)	33, 546, 773, 874
AspS9I	GGNCC	2 cut(s)	572, 856
AsuC2I	CCSGG	2 cut(s)	58, 777
AsuHPI	GGTGA	3 cut(s)	173, 318, 557
AvaII	GGWCC	2 cut(s)	572, 856
BalI	TGGCCA	1 cut(s)	851
BanI	GGYRCC	1 cut(s)	529
BanII	GRGCYC	3 cut(s)	253, 434, 834
BauI	CACGAG	1 cut(s)	539
BbsI	GAAGAC	1 cut(s)	483
Bbv12I	GWGCWC	3 cut(s)	8, 565, 834
BccI	CCATC	3 cut(s)	310, 493, 774
BceAI	ACGGC	2 cut(s)	467, 487
BciT130I	CCWGG	3 cut(s)	274, 428, 628
BcnI	CCSGG	2 cut(s)	58, 777
BcoDI	GTCTC	1 cut(s)	150
BfaI	CTAG	2 cut(s)	269, 653
BglI	GCCNNNNNGGC	1 cut(s)	58
BisI	GCNGC	2 cut(s)	41, 769
BlsI	GCNGC	2 cut(s)	42, 770
Bme1390I	CCNGG	5 cut(s)	58, 274, 428, 628, 777
Bme18I	GGWCC	2 cut(s)	572, 856
BmgT120I	GGNCC	2 cut(s)	572, 856
BmiI	GGNNCC	4 cut(s)	250, 531, 574, 858
BmrFI	CCNGG	5 cut(s)	58, 274, 428, 628, 777
BmrI	ACTGGG	1 cut(s)	254
BmsI	GCATC	1 cut(s)	18
BmuI	ACTGGG	1 cut(s)	254
BpiI	GAAGAC	1 cut(s)	483
BpmI	CTGGAG	1 cut(s)	115
BpuMI	CCSGG	2 cut(s)	58, 777
BsaHI	GRCGYC	3 cut(s)	480, 579, 843
BsaJI	CCNNGG	5 cut(s)	427, 461, 568, 627, 852
BsaXI	ACNNNNNCTCC	4 cut(s)	200, 230, 848, 878
Bsc4I	CCNNNNNNNGG	6 cut(s)	489, 588, 664, 775, 826, 874
Bse1I	ACTGG	2 cut(s)	249, 690
BseBI	CCWGG	3 cut(s)	274, 428, 628
BseDI	CCNNGG	5 cut(s)	427, 461, 568, 627, 852
BseGI	GGATG	2 cut(s)	597, 785
BseLI	CCNNNNNNNGG	6 cut(s)	489, 588, 664, 775, 826, 874
BseMII	CTCAG	3 cut(s)	36, 62, 713
BseNI	ACTGG	2 cut(s)	249, 690
BseYI	CCCAGC	2 cut(s)	616, 792
Bsh1236I	CGCG	6 cut(s)	33, 463, 546, 771, 872, 885
BshFI	GGCC	3 cut(s)	819, 851, 927
BshNI	GGYRCC	1 cut(s)	529
BsiHKAI	GWGCWC	3 cut(s)	8, 565, 834
BsiSI	CCGG	3 cut(s)	57, 776, 827
BslFI	GGGAC	1 cut(s)	558
BslI	CCNNNNNNNGG	6 cut(s)	489, 588, 664, 775, 826, 874
BsmAI	GTCTC	1 cut(s)	150
BsmFI	GGGAC	1 cut(s)	558
BsnI	GGCC	3 cut(s)	819, 851, 927
Bsp1286I	GDGCHC	5 cut(s)	8, 253, 434, 565, 834
Bsp19I	CCATGG	1 cut(s)	852
BspANI	GGCC	3 cut(s)	819, 851, 927
BspCNI	CTCAG	3 cut(s)	35, 61, 712
BspFNI	CGCG	6 cut(s)	33, 463, 546, 771, 872, 885
BspLI	GGNNCC	4 cut(s)	250, 531, 574, 858
BspT107I	GGYRCC	1 cut(s)	529
BsrBI	CCGCTC	1 cut(s)	186
BsrI	ACTGG	2 cut(s)	249, 690
BssECI	CCNNGG	5 cut(s)	427, 461, 568, 627, 852
BssNI	GRCGYC	3 cut(s)	480, 579, 843
BssSI	CACGAG	1 cut(s)	539
BssT1I	CCWWGG	1 cut(s)	852
Bst2BI	CACGAG	1 cut(s)	539
Bst2UI	CCWGG	3 cut(s)	274, 428, 628
Bst4CI	ACNGT	3 cut(s)	144, 265, 730
BstACI	GRCGYC	3 cut(s)	480, 579, 843
BstC8I	GCNNGC	2 cut(s)	495, 876
BstDEI	CTNAG	3 cut(s)	22, 48, 699
BstDSI	CCRYGG	2 cut(s)	461, 852
BstENI	CCTNNNNNAGG	1 cut(s)	872
BstF5I	GGATG	2 cut(s)	597, 785
BstFNI	CGCG	6 cut(s)	33, 463, 546, 771, 872, 885
BstHHI	GCGC	4 cut(s)	33, 546, 773, 874
BstMAI	GTCTC	1 cut(s)	150
BstMWI	GCNNNNNNNGC	3 cut(s)	37, 49, 58
BstNI	CCWGG	3 cut(s)	274, 428, 628
BstSCI	CCNGG	5 cut(s)	56, 272, 426, 626, 775
BstUI	CGCG	6 cut(s)	33, 463, 546, 771, 872, 885
BstV2I	GAAGAC	1 cut(s)	483
BsuRI	GGCC	3 cut(s)	819, 851, 927
BtgI	CCRYGG	2 cut(s)	461, 852
BtgZI	GCGATG	1 cut(s)	512
BtsCI	GGATG	2 cut(s)	597, 785
BtsI	GCAGTG	1 cut(s)	234
BtsIMutI	CAGTG	2 cut(s)	234, 683
Cac8I	GCNNGC	2 cut(s)	495, 876
CfoI	GCGC	4 cut(s)	33, 546, 773, 874
Cfr13I	GGNCC	2 cut(s)	572, 856
Cfr42I	CCGCGG	1 cut(s)	464
CseI	GACGC	2 cut(s)	488, 587
Csp6I	GTAC	3 cut(s)	530, 548, 739
CviAII	CATG	2 cut(s)	847, 853
CviQI	GTAC	3 cut(s)	530, 548, 739
DdeI	CTNAG	3 cut(s)	22, 48, 699
EaeI	YGGCCR	1 cut(s)	849
EciI	GGCGGA	2 cut(s)	518, 824
Ecl136II	GAGCTC	1 cut(s)	832
Eco130I	CCWWGG	1 cut(s)	852
Eco147I	AGGCCT	1 cut(s)	927
Eco24I	GRGCYC	3 cut(s)	253, 434, 834
Eco47I	GGWCC	2 cut(s)	572, 856
Eco53kI	GAGCTC	1 cut(s)	832
Eco57I	CTGAAG	2 cut(s)	842, 896
EcoICRI	GAGCTC	1 cut(s)	832
EcoNI	CCTNNNNNAGG	1 cut(s)	872
EcoRII	CCWGG	3 cut(s)	272, 426, 626
EcoT14I	CCWWGG	1 cut(s)	852
EcoT38I	GRGCYC	3 cut(s)	253, 434, 834
ErhI	CCWWGG	1 cut(s)	852
FaeI	CATG	2 cut(s)	850, 856
FaiI	YATR	4 cut(s)	554, 800, 848, 854
FalI	AAGNNNNNCTT	2 cut(s)	894, 926
FaqI	GGGAC	1 cut(s)	558
FatI	CATG	2 cut(s)	846, 852
FauI	CCCGC	1 cut(s)	468
Fnu4HI	GCNGC	2 cut(s)	41, 769
FokI	GGATG	2 cut(s)	604, 792
FriOI	GRGCYC	3 cut(s)	253, 434, 834
Fsp4HI	GCNGC	2 cut(s)	41, 769
FspBI	CTAG	2 cut(s)	269, 653
GlaI	GCGC	4 cut(s)	32, 545, 772, 873
GluI	GCNGC	2 cut(s)	41, 769
GsaI	CCCAGC	2 cut(s)	620, 796
GsuI	CTGGAG	1 cut(s)	115
HaeIII	GGCC	3 cut(s)	819, 851, 927
HapII	CCGG	3 cut(s)	57, 776, 827
HgaI	GACGC	2 cut(s)	488, 587
HhaI	GCGC	4 cut(s)	33, 546, 773, 874
Hin1I	GRCGYC	3 cut(s)	480, 579, 843
Hin1II	CATG	2 cut(s)	850, 856
Hin6I	GCGC	4 cut(s)	31, 544, 771, 872
HinP1I	GCGC	4 cut(s)	31, 544, 771, 872
HindIII	AAGCTT	1 cut(s)	908
HinfI	GANTC	4 cut(s)	519, 605, 697, 894
HpaII	CCGG	3 cut(s)	57, 776, 827
HphI	GGTGA	3 cut(s)	173, 318, 557
Hpy166II	GTNNAC	2 cut(s)	523, 753
Hpy188I	TCNGA	1 cut(s)	25
Hpy188III	TCNNGA	3 cut(s)	149, 575, 914
Hpy8I	GTNNAC	2 cut(s)	523, 753
Hpy99I	CGWCG	3 cut(s)	488, 581, 845
HpyAV	CCTTC	7 cut(s)	146, 229, 263, 357, 391, 610, 658
HpyCH4III	ACNGT	3 cut(s)	144, 265, 730
HpyCH4IV	ACGT	1 cut(s)	843
HpyCH4V	TGCA	2 cut(s)	675, 715
HpyF10VI	GCNNNNNNNGC	3 cut(s)	37, 49, 58
HpyF3I	CTNAG	3 cut(s)	22, 48, 699
HpySE526I	ACGT	1 cut(s)	843
Hsp92I	GRCGYC	3 cut(s)	480, 579, 843
Hsp92II	CATG	2 cut(s)	850, 856
HspAI	GCGC	4 cut(s)	31, 544, 771, 872
KpnI	GGTACC	1 cut(s)	533
KspI	CCGCGG	1 cut(s)	464
LmnI	GCTCC	7 cut(s)	11, 162, 191, 248, 778, 829, 837
LweI	GCATC	1 cut(s)	18
MaeI	CTAG	2 cut(s)	269, 653
MaeII	ACGT	1 cut(s)	843
MaeIII	GTNAC	1 cut(s)	606
MbiI	CCGCTC	1 cut(s)	186
MboII	GAAGA	2 cut(s)	488, 506
MhlI	GDGCHC	5 cut(s)	8, 253, 434, 565, 834
MlsI	TGGCCA	1 cut(s)	851
MluCI	AATT	1 cut(s)	337
MluI	ACGCGT	1 cut(s)	883
MluNI	TGGCCA	1 cut(s)	851
MlyI	GAGTC	3 cut(s)	528, 614, 691
Mox20I	TGGCCA	1 cut(s)	851
MroXI	GAANNNNTTC	3 cut(s)	177, 395, 599
MscI	TGGCCA	1 cut(s)	851
MseI	TTAA	2 cut(s)	453, 937
MslI	CAYNNNNRTG	1 cut(s)	851
Msp20I	TGGCCA	1 cut(s)	851
MspA1I	CMGCKG	1 cut(s)	463
MspI	CCGG	3 cut(s)	57, 776, 827
MspR9I	CCNGG	5 cut(s)	58, 274, 428, 628, 777
MvaI	CCWGG	3 cut(s)	274, 428, 628
MvnI	CGCG	6 cut(s)	33, 463, 546, 771, 872, 885
MwoI	GCNNNNNNNGC	3 cut(s)	37, 49, 58
NciI	CCSGG	2 cut(s)	58, 777
NcoI	CCATGG	1 cut(s)	852
NlaIII	CATG	2 cut(s)	850, 856
NlaIV	GGNNCC	4 cut(s)	250, 531, 574, 858
NmuCI	GTSAC	1 cut(s)	606
PceI	AGGCCT	1 cut(s)	927
PdmI	GAANNNNTTC	3 cut(s)	177, 395, 599
PfeI	GAWTC	1 cut(s)	894
PflFI	GACNNNGTC	1 cut(s)	482
PfoI	TCCNGGA	1 cut(s)	775
PkrI	GCNGC	2 cut(s)	42, 770
PleI	GAGTC	3 cut(s)	527, 613, 691
PpsI	GAGTC	3 cut(s)	527, 613, 691
Psp124BI	GAGCTC	1 cut(s)	834
Psp6I	CCWGG	3 cut(s)	272, 426, 626
PspFI	CCCAGC	2 cut(s)	616, 792
PspGI	CCWGG	3 cut(s)	272, 426, 626
PspN4I	GGNNCC	4 cut(s)	250, 531, 574, 858
PspPI	GGNCC	2 cut(s)	572, 856
PsyI	GACNNNGTC	1 cut(s)	482
RsaI	GTAC	3 cut(s)	531, 549, 740
RsaNI	GTAC	3 cut(s)	530, 548, 739
RseI	CAYNNNNRTG	1 cut(s)	851
SacI	GAGCTC	1 cut(s)	834
SacII	CCGCGG	1 cut(s)	464
SaqAI	TTAA	2 cut(s)	453, 937
SatI	GCNGC	2 cut(s)	41, 769
Sau96I	GGNCC	2 cut(s)	572, 856
SchI	GAGTC	3 cut(s)	528, 614, 691
ScrFI	CCNGG	5 cut(s)	58, 274, 428, 628, 777
SduI	GDGCHC	5 cut(s)	8, 253, 434, 565, 834
SfaNI	GCATC	1 cut(s)	18
Sfr303I	CCGCGG	1 cut(s)	464
SgrBI	CCGCGG	1 cut(s)	464
SinI	GGWCC	2 cut(s)	572, 856
SmiMI	CAYNNNNRTG	1 cut(s)	851
Sse9I	AATT	1 cut(s)	337
SseBI	AGGCCT	1 cut(s)	927
SspMI	CTAG	2 cut(s)	269, 653
SstI	GAGCTC	1 cut(s)	834
StuI	AGGCCT	1 cut(s)	927
StyD4I	CCNGG	5 cut(s)	56, 272, 426, 626, 775
StyI	CCWWGG	1 cut(s)	852
TaaI	ACNGT	3 cut(s)	144, 265, 730
TaiI	ACGT	1 cut(s)	846
TaqI	TCGA	3 cut(s)	517, 603, 732
TaqII	GACCGA	1 cut(s)	560
TasI	AATT	1 cut(s)	337
TatI	WGTACW	1 cut(s)	738
TauI	GCSGC	2 cut(s)	43, 771
TfiI	GAWTC	1 cut(s)	894
Tru1I	TTAA	2 cut(s)	453, 937
Tru9I	TTAA	2 cut(s)	453, 937
TscAI	CASTG	2 cut(s)	241, 690
TseFI	GTSAC	1 cut(s)	606
Tsp45I	GTSAC	1 cut(s)	606
TspDTI	ATGAA	3 cut(s)	186, 312, 608
TspGWI	ACGGA	1 cut(s)	800
TspRI	CASTG	2 cut(s)	241, 690
Tth111I	GACNNNGTC	1 cut(s)	482
VpaK11BI	GGWCC	2 cut(s)	572, 856
XagI	CCTNNNNNAGG	1 cut(s)	872
XcmI	CCANNNNNNNNNTGG	1 cut(s)	624
XmnI	GAANNNNTTC	3 cut(s)	177, 395, 599
XspI	CTAG	2 cut(s)	269, 653
ZraI	GACGTC	1 cut(s)	844

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