Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr5

Orthogroup ID

OG0003077

Physical Location & Seq

Genomic Coordinates Reverse (-)

24260456 .. 24261657

Gene Structure 1202 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw5G018810.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1095 bp

ATGTCACAGCCACCTGGGTTTGTTGATCCCTCTCATCCCTCTCATGTTTGCAAGCTCCATAAGGCACTATATGGCCTCAAACAAGCTCCCCGCGCCTGGTTTCACCGCATGAGCTCGTTTCTATTATCAGTTGGTTTCCGTATTAGTAAGGCTGATTCTTCTTTGTTCATCTATCAACATGGCTCGCATATCATATATTTCTTACTATATGTTGATGATATTGTCACATCTCATTCCAATGGAATTCACGTAAATCAAGTCAAGTATGCCCATGACATCCTAGTCAAGCATAATCTGTTACTCAACAAACCCATCAGCACACCCATGTCTACTAAGTCTCTTCTCCGCACCAATGATGGGGTTTTACTTGACAATCCTACTGTGTTCCGCGAGATGGTTGACTCCTTACAATATCTCACCATTACTCGCCCTGACATAGCCTTTGCAGTCAATTCAGTATCTCAATTTATGAGCAAGCCCCGTGTTCCACATCTTATCGCTGCCAAACGTATCCTTCGTTTCATCAAAGGAACACTGGTTCATGGTTTGTCTTTTAGTCCTCAACGACAACCTGTTCATGTCTTGGCCTACTCGGATGCAGATTGGGTTGGCTGTCCGGACTCATGTTGTTCCACCTCTGGCTACCTCATCTATCTTGGCAGCAACTTAATCTCATGGTGCTCCAAAAAGCAGCCTACCATTGCGCGTTCAAGTGCAGAATCTGAATATCGCTCTCTTACTCATTCCAGTGTCGAAACCACCTGGTTAGGCTTCTTATTATATGAACTTGGTGCTCATATTCAGTTTCCTATCTTGCTTCACTGTGACAACCTCAGTGCAACCTACATGGCATCTAACCCGGTTTTCCATGCCTGTACAAAACATATTGAGTTAGATTATCACTTTGTCTGTGACAAAGTAGCACTTGGTAGTCATCATGTTAACTATGTCCCTTCGGTGGATCAACCTGCTGATCTTCTCACAAAACCACTTCATAAGCATCGTCATCTTCTCCTCCGTACCAAACTTGTGCATCCAGAACCGCTCAGTTTGAAGGAGGGTGTTAGAGAAAATAGTGCAGTGTCTACAATCTAG

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_2 Retrotran_gag_2 gag_pre-integrs

Protein Analysis

364

Amino Acids

40.91

Weight (kDa)

9.0

Isoelectric Point (pI)

43.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_2	PF07727	1 - 89	1.5e-18	Reverse transcriptase (RNA-dependent DNA polymerase)

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: OG0003077)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATMG00810
fragaria_vesca	FvH4_3g08011 FvH4_5g11221 FvH4_6g11491 FvH4_6g53931 FvH4_6g53931 FvH4_6g53931 FvH4_6g53931
rosa_chinensis	RchiOBHm_Chr1g0347991 RchiOBHm_Chr1g0348001 RchiOBHm_Chr1g0350631 RchiOBHm_Chr2g0100361 RchiOBHm_Chr2g0102931 RchiOBHm_Chr2g0122981 RchiOBHm_Chr2g0124571 RchiOBHm_Chr2g0134981 RchiOBHm_Chr4g0410941 RchiOBHm_Chr4g0410951 RchiOBHm_Chr5g0026511 RchiOBHm_Chr5g0078261 RchiOBHm_Chr5g0082731 RchiOBHm_Chr6g0261771 RchiOBHm_Chr6g0261781 RchiOBHm_Chr6g0276521 RchiOBHm_Chr6g0310171 RchiOBHm_Chr7g0180521 RchiOBHm_Chr7g0182281 RchiOBHm_Chr7g0231781 RchiOBHm_Chr7g0231971
rosa_roxburghii	Rroxscaffold_3G00242950
rosa_wichuraiana	Rw0G003700 Rw0G012710 Rw4G014500 Rw4G035380 Rw5G003190 Rw5G018810 Rw7G035270

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	281
Acc36I	ACCTGC	1 cut(s)	976
AccBSI	CCGCTC	1 cut(s)	1045
AccI	GTMKAC	2 cut(s)	329, 1085
AccII	CGCG	3 cut(s)	93, 390, 706
AccIII	TCCGGA	1 cut(s)	616
AciI	CCGC	5 cut(s)	91, 106, 346, 388, 1043
AclWI	GGATC	2 cut(s)	20, 969
AcsI	RAATTY	1 cut(s)	243
AfaI	GTAC	2 cut(s)	877, 1021
AfiI	CCNNNNNNNGG	4 cut(s)	96, 357, 394, 958
AgsI	TTSAA	2 cut(s)	711, 1054
AjnI	CCWGG	3 cut(s)	13, 95, 761
AloI	GAACNNNNNNTCC	2 cut(s)	522, 554
AluBI	AGCT	3 cut(s)	55, 86, 114
AluI	AGCT	3 cut(s)	55, 86, 114
Alw21I	GWGCWC	3 cut(s)	116, 683, 796
Alw26I	GTCTC	1 cut(s)	342
AlwI	GGATC	2 cut(s)	20, 969
AlwNI	CAGNNNCTG	1 cut(s)	722
Aor13HI	TCCGGA	1 cut(s)	616
AoxI	GGCC	2 cut(s)	73, 585
ApeKI	GCWGC	3 cut(s)	500, 660, 691
ApoI	RAATTY	1 cut(s)	243
ArsI	GACNNNNNNTTYG	2 cut(s)	425, 457
AspLEI	GCGC	2 cut(s)	95, 706
AsuC2I	CCSGG	1 cut(s)	860
AsuHPI	GGTGA	2 cut(s)	95, 409
BanII	GRGCYC	1 cut(s)	116
Bbv12I	GWGCWC	3 cut(s)	116, 683, 796
BbvI	GCAGC	3 cut(s)	487, 672, 703
BccI	CCATC	3 cut(s)	320, 350, 388
BciT130I	CCWGG	3 cut(s)	15, 97, 763
BciVI	GTATCC	1 cut(s)	521
BcnI	CCSGG	1 cut(s)	860
BcoDI	GTCTC	1 cut(s)	342
BfaI	CTAG	2 cut(s)	281, 1093
BfuAI	ACCTGC	1 cut(s)	976
BfuI	GTATCC	1 cut(s)	521
BisI	GCNGC	3 cut(s)	501, 661, 692
BlsI	GCNGC	3 cut(s)	502, 662, 693
Bme1390I	CCNGG	4 cut(s)	15, 97, 763, 860
BmrFI	CCNGG	4 cut(s)	15, 97, 763, 860
BmsI	GCATC	4 cut(s)	586, 860, 1009, 1042
BpuMI	CCSGG	1 cut(s)	860
BsaAI	YACGTR	1 cut(s)	250
BsaJI	CCNNGG	1 cut(s)	14
BsaWI	WCCGGW	1 cut(s)	616
Bsc4I	CCNNNNNNNGG	4 cut(s)	96, 357, 394, 958
Bse1I	ACTGG	2 cut(s)	540, 747
Bse3DI	GCAATG	1 cut(s)	699
BseAI	TCCGGA	1 cut(s)	616
BseBI	CCWGG	3 cut(s)	15, 97, 763
BseDI	CCNNGG	1 cut(s)	14
BseGI	GGATG	4 cut(s)	34, 276, 601, 1033
BseLI	CCNNNNNNNGG	4 cut(s)	96, 357, 394, 958
BseMI	GCAATG	1 cut(s)	699
BseMII	CTCAG	2 cut(s)	847, 1060
BseNI	ACTGG	2 cut(s)	540, 747
BseRI	GAGGAG	1 cut(s)	1004
BseXI	GCAGC	3 cut(s)	487, 672, 703
BsgI	GTGCAG	1 cut(s)	735
Bsh1236I	CGCG	3 cut(s)	93, 390, 706
BshFI	GGCC	2 cut(s)	75, 587
BsiHKAI	GWGCWC	3 cut(s)	116, 683, 796
BsiSI	CCGG	2 cut(s)	617, 860
BslFI	GGGAC	1 cut(s)	935
BslI	CCNNNNNNNGG	4 cut(s)	96, 357, 394, 958
BsmAI	GTCTC	1 cut(s)	342
BsmFI	GGGAC	1 cut(s)	935
BsnI	GGCC	2 cut(s)	75, 587
Bsp1286I	GDGCHC	3 cut(s)	116, 683, 796
Bsp13I	TCCGGA	1 cut(s)	616
Bsp1407I	TGTACA	1 cut(s)	875
Bsp143I	GATC	3 cut(s)	25, 961, 973
BspACI	CCGC	5 cut(s)	91, 106, 346, 388, 1043
BspANI	GGCC	2 cut(s)	75, 587
BspCNI	CTCAG	2 cut(s)	846, 1059
BspEI	TCCGGA	1 cut(s)	616
BspFNI	CGCG	3 cut(s)	93, 390, 706
BspMI	ACCTGC	1 cut(s)	976
BspPI	GGATC	2 cut(s)	20, 969
BsrBI	CCGCTC	1 cut(s)	1045
BsrDI	GCAATG	1 cut(s)	699
BsrGI	TGTACA	1 cut(s)	875
BsrI	ACTGG	2 cut(s)	540, 747
BssECI	CCNNGG	1 cut(s)	14
BssMI	GATC	3 cut(s)	25, 961, 973
Bst2UI	CCWGG	3 cut(s)	15, 97, 763
Bst4CI	ACNGT	2 cut(s)	382, 824
Bst6I	CTCTTC	1 cut(s)	345
BstAUI	TGTACA	1 cut(s)	875
BstBAI	YACGTR	1 cut(s)	250
BstC8I	GCNNGC	3 cut(s)	53, 185, 476
BstDEI	CTNAG	3 cut(s)	333, 833, 1046
BstF5I	GGATG	4 cut(s)	34, 276, 601, 1033
BstFNI	CGCG	3 cut(s)	93, 390, 706
BstHHI	GCGC	2 cut(s)	95, 706
BstKTI	GATC	3 cut(s)	28, 964, 976
BstMAI	GTCTC	1 cut(s)	342
BstMBI	GATC	3 cut(s)	25, 961, 973
BstMWI	GCNNNNNNNGC	1 cut(s)	92
BstNI	CCWGG	3 cut(s)	15, 97, 763
BstSCI	CCNGG	4 cut(s)	13, 95, 761, 858
BstUI	CGCG	3 cut(s)	93, 390, 706
BstV1I	GCAGC	3 cut(s)	487, 672, 703
BsuI	GTATCC	1 cut(s)	521
BsuRI	GGCC	2 cut(s)	75, 587
BtsCI	GGATG	4 cut(s)	34, 276, 601, 1033
BtsI	GCAGTG	1 cut(s)	1086
BtsIMutI	CAGTG	5 cut(s)	533, 754, 820, 841, 1086
BveI	ACCTGC	1 cut(s)	976
Cac8I	GCNNGC	3 cut(s)	53, 185, 476
CaiI	CAGNNNCTG	1 cut(s)	722
CfoI	GCGC	2 cut(s)	95, 706
CsiI	ACCWGGT	1 cut(s)	761
Csp6I	GTAC	2 cut(s)	876, 1020
CviQI	GTAC	2 cut(s)	876, 1020
DdeI	CTNAG	3 cut(s)	333, 833, 1046
DpnI	GATC	3 cut(s)	27, 963, 975
DpnII	GATC	3 cut(s)	25, 961, 973
DrdI	GACNNNNNNGTC	1 cut(s)	281
DseDI	GACNNNNNNGTC	1 cut(s)	281
Eam1104I	CTCTTC	1 cut(s)	345
EarI	CTCTTC	1 cut(s)	345
Ecl136II	GAGCTC	1 cut(s)	114
Eco24I	GRGCYC	1 cut(s)	116
Eco53kI	GAGCTC	1 cut(s)	114
EcoICRI	GAGCTC	1 cut(s)	114
EcoRI	GAATTC	1 cut(s)	243
EcoRII	CCWGG	3 cut(s)	13, 95, 761
EcoT38I	GRGCYC	1 cut(s)	116
FalI	AAGNNNNNCTT	2 cut(s)	909, 941
FaqI	GGGAC	1 cut(s)	935
FauI	CCCGC	1 cut(s)	98
FblI	GTMKAC	2 cut(s)	329, 1085
Fnu4HI	GCNGC	3 cut(s)	501, 661, 692
FokI	GGATG	4 cut(s)	21, 263, 608, 1020
FriOI	GRGCYC	1 cut(s)	116
Fsp4HI	GCNGC	3 cut(s)	501, 661, 692
FspBI	CTAG	2 cut(s)	281, 1093
GlaI	GCGC	2 cut(s)	94, 705
GluI	GCNGC	3 cut(s)	501, 661, 692
HaeIII	GGCC	2 cut(s)	75, 587
HapII	CCGG	2 cut(s)	617, 860
HhaI	GCGC	2 cut(s)	95, 706
Hin6I	GCGC	2 cut(s)	93, 704
HinP1I	GCGC	2 cut(s)	93, 704
HincII	GTYRAC	2 cut(s)	400, 943
HindII	GTYRAC	2 cut(s)	400, 943
HinfI	GANTC	4 cut(s)	155, 401, 620, 719
HpaI	GTTAAC	1 cut(s)	943
HpaII	CCGG	2 cut(s)	617, 860
HphI	GGTGA	2 cut(s)	95, 409
Hpy166II	GTNNAC	4 cut(s)	330, 400, 943, 1086
Hpy188I	TCNGA	2 cut(s)	595, 724
Hpy188III	TCNNGA	2 cut(s)	617, 1037
Hpy8I	GTNNAC	4 cut(s)	330, 400, 943, 1086
HpyAV	CCTTC	3 cut(s)	524, 963, 1048
HpyCH4III	ACNGT	2 cut(s)	382, 824
HpyCH4IV	ACGT	2 cut(s)	249, 508
HpyCH4V	TGCA	7 cut(s)	51, 446, 599, 716, 839, 1033, 1079
HpyF10VI	GCNNNNNNNGC	1 cut(s)	92
HpyF3I	CTNAG	3 cut(s)	333, 833, 1046
HpySE526I	ACGT	2 cut(s)	249, 508
HspAI	GCGC	2 cut(s)	93, 704
Kpn2I	TCCGGA	1 cut(s)	616
KspAI	GTTAAC	1 cut(s)	943
Kzo9I	GATC	3 cut(s)	25, 961, 973
LmnI	GCTCC	3 cut(s)	60, 91, 686
Lsp1109I	GCAGC	3 cut(s)	487, 672, 703
LweI	GCATC	4 cut(s)	586, 860, 1009, 1042
MabI	ACCWGGT	1 cut(s)	761
MaeI	CTAG	2 cut(s)	281, 1093
MaeII	ACGT	2 cut(s)	249, 508
MaeIII	GTNAC	5 cut(s)	3, 223, 297, 824, 911
MalI	GATC	3 cut(s)	27, 963, 975
MbiI	CCGCTC	1 cut(s)	1045
MboI	GATC	3 cut(s)	25, 961, 973
MboII	GAAGA	4 cut(s)	150, 332, 968, 1001
MhlI	GDGCHC	3 cut(s)	116, 683, 796
MluCI	AATT	3 cut(s)	243, 451, 464
MlyI	GAGTC	2 cut(s)	395, 614
MnlI	CCTC	9 cut(s)	40, 49, 86, 570, 646, 656, 842, 1025, 1051
MroI	TCCGGA	1 cut(s)	616
MseI	TTAA	2 cut(s)	668, 942
MslI	CAYNNNNRTG	3 cut(s)	237, 323, 747
MspI	CCGG	2 cut(s)	617, 860
MspR9I	CCNGG	4 cut(s)	15, 97, 763, 860
MvaI	CCWGG	3 cut(s)	15, 97, 763
MvnI	CGCG	3 cut(s)	93, 390, 706
MwoI	GCNNNNNNNGC	1 cut(s)	92
NciI	CCSGG	1 cut(s)	860
NdeII	GATC	3 cut(s)	25, 961, 973
NmuCI	GTSAC	4 cut(s)	3, 223, 824, 911
PcsI	WCGNNNNNNNCGW	1 cut(s)	514
PfeI	GAWTC	2 cut(s)	155, 719
PkrI	GCNGC	3 cut(s)	502, 662, 693
PleI	GAGTC	2 cut(s)	395, 614
PpsI	GAGTC	2 cut(s)	395, 614
Ppu21I	YACGTR	1 cut(s)	250
Psp124BI	GAGCTC	1 cut(s)	116
Psp6I	CCWGG	3 cut(s)	13, 95, 761
PspGI	CCWGG	3 cut(s)	13, 95, 761
PstNI	CAGNNNCTG	1 cut(s)	722
RsaI	GTAC	2 cut(s)	877, 1021
RsaNI	GTAC	2 cut(s)	876, 1020
RseI	CAYNNNNRTG	3 cut(s)	237, 323, 747
SacI	GAGCTC	1 cut(s)	116
SaqAI	TTAA	2 cut(s)	668, 942
SatI	GCNGC	3 cut(s)	501, 661, 692
Sau3AI	GATC	3 cut(s)	25, 961, 973
SchI	GAGTC	2 cut(s)	395, 614
ScrFI	CCNGG	4 cut(s)	15, 97, 763, 860
SduI	GDGCHC	3 cut(s)	116, 683, 796
SexAI	ACCWGGT	1 cut(s)	761
SfaNI	GCATC	4 cut(s)	586, 860, 1009, 1042
SmiMI	CAYNNNNRTG	3 cut(s)	237, 323, 747
Sse9I	AATT	3 cut(s)	243, 451, 464
SsiI	CCGC	5 cut(s)	91, 106, 346, 388, 1043
SspMI	CTAG	2 cut(s)	281, 1093
SstI	GAGCTC	1 cut(s)	116
StyD4I	CCNGG	4 cut(s)	13, 95, 761, 858
TaaI	ACNGT	2 cut(s)	382, 824
TaiI	ACGT	2 cut(s)	252, 511
TaqI	TCGA	1 cut(s)	753
TasI	AATT	3 cut(s)	243, 451, 464
TatI	WGTACW	1 cut(s)	875
TfiI	GAWTC	2 cut(s)	155, 719
Tru1I	TTAA	2 cut(s)	668, 942
Tru9I	TTAA	2 cut(s)	668, 942
TscAI	CASTG	5 cut(s)	540, 754, 827, 841, 1086
TseFI	GTSAC	4 cut(s)	3, 223, 824, 911
TseI	GCWGC	3 cut(s)	500, 660, 691
Tsp45I	GTSAC	4 cut(s)	3, 223, 824, 911
TspDTI	ATGAA	6 cut(s)	157, 511, 530, 566, 798, 983
TspGWI	ACGGA	2 cut(s)	128, 1007
TspRI	CASTG	5 cut(s)	540, 754, 827, 841, 1086
XapI	RAATTY	1 cut(s)	243
XmiI	GTMKAC	2 cut(s)	329, 1085
XspI	CTAG	2 cut(s)	281, 1093

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