Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr4

Orthogroup ID

OG0003077

Physical Location & Seq

Genomic Coordinates Forward (+)

62208442 .. 62209704

Gene Structure 1263 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw4G035380.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1155 bp

ATGACTCAGCCTCCTGGCTTCGTCGATTCCTCTCGGCCCTCCTATGTCTGTAAGCTTCACAAGGCACTTTATGGCCTCAAACAAGCACCCCGTGCTTGGTTTCAACGCATGAGCTCTTTTCTGCTTTCTGTTGGCTTTCGACATAGTAAAGCTGACTCATCTTTATTCATCTATCAACATGGATTGCATACAATTTTCTTTTTACTCTATGTTGATGACATTGTCAAGCCTCATTCCAACGGCCTTCACATCAATCAACTCAAGTATGCTCATGATATTTTAAAGAAGCATGATCTATTACTCAGTCAACCAGTGAGCACCCCAATGTCGGCAAAGGCTGTCCTCACCATACATGATGGTGATCTTCTTGAAAATCCAACTGCCTTTCGTGAGATAGTTGGCTCCTTGCAGTACCTAACCATTACACGCCCTAACATAGCCTTTGCGGTCAATTCTGTGTCACAATTCATGAGTCAACCTCGTGCTCCACATCTCATTGCAGCCAAACGTATTCTCCGCTATGTCAAAGGCACACTAGGCCATGGTCTCCATTTTGGTCCACAACGCCAACCTGCCCACCTTTCTGCTTACTCTGATGCGGATTGGGCTGGCTGCCCAGAATCTCGTCGTTCCACTTCCGGCTATCTCATTTACCTTGGCAATACCCTTGTCTCTTGGTGTTCCAAAAAGCAACCTACCATTGCTCGCTCCAGTGCCGAATCTGAATATCGATCCCTTGCTCATTCCAGTGCCGAGACAACTTGGTTAGGCTTCTTACTATATGAACTTGGTGTCCATATTCAGTACCCCATTCGGCTTTACTGTGATAACCTAAGTGCCACATACATGGCTTCTAATCCGGTCTTTCACGCTCGCACCAAGCACATCGAGTTAGATTATCACTTTGTTCGTGAAAAGGTCGCACTTGGGAGTCATCAGGTTCATTTTGTCCCTTCCGTCGATCAACCAGCTGATCTTCTTACTAAACCACTTCACAAGCAGCGGCATAATCTCCTGTGTACCAAACTTGTGCGTCCTGAGCCGCCCAGTTTGAAGGGGGGTGTTAGAGCACATCACTCTCCTACATTGATTTCCTCCCTCTCCACAATCAAAACTGATTGTGTAACCTCTCCACAATCAAAACTAATTGTGTAA

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

384

Amino Acids

43.06

Weight (kDa)

9.58

Isoelectric Point (pI)

49.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_2	PF07727	1 - 88	3.7e-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)

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Tree File

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Publication-ready

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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)
Acc36I	ACCTGC	1 cut(s)	580
AciI	CCGC	5 cut(s)	446, 517, 599, 1003, 1043
AclWI	GGATC	1 cut(s)	726
AdeI	CACNNNGTG	1 cut(s)	92
AfaI	GTAC	3 cut(s)	413, 806, 1021
AfiI	CCNNNNNNNGG	2 cut(s)	96, 328
AgsI	TTSAA	3 cut(s)	104, 371, 1054
AjnI	CCWGG	1 cut(s)	13
AloI	GAACNNNNNNTCC	2 cut(s)	777, 809
AluBI	AGCT	4 cut(s)	55, 114, 152, 971
AluI	AGCT	4 cut(s)	55, 114, 152, 971
Alw21I	GWGCWC	4 cut(s)	116, 320, 487, 1072
Alw26I	GTCTC	3 cut(s)	551, 676, 749
AlwI	GGATC	1 cut(s)	726
AoxI	GGCC	4 cut(s)	35, 73, 241, 538
ApeKI	GCWGC	3 cut(s)	500, 612, 1000
AspS9I	GGNCC	2 cut(s)	36, 557
AsuHPI	GGTGA	2 cut(s)	337, 371
AvaII	GGWCC	1 cut(s)	557
BanII	GRGCYC	1 cut(s)	116
BauI	CACGAG	1 cut(s)	480
Bbv12I	GWGCWC	4 cut(s)	116, 320, 487, 1072
BbvI	GCAGC	3 cut(s)	512, 599, 1012
BccI	CCATC	1 cut(s)	350
BceAI	ACGGC	1 cut(s)	256
BciT130I	CCWGG	1 cut(s)	15
BcoDI	GTCTC	3 cut(s)	551, 676, 749
BfaI	CTAG	1 cut(s)	536
BfuAI	ACCTGC	1 cut(s)	580
BisI	GCNGC	5 cut(s)	501, 613, 1001, 1004, 1043
BlsI	GCNGC	5 cut(s)	502, 614, 1002, 1005, 1044
Bme1390I	CCNGG	1 cut(s)	15
Bme18I	GGWCC	1 cut(s)	557
BmgT120I	GGNCC	2 cut(s)	36, 557
BmiI	GGNNCC	1 cut(s)	403
BmrFI	CCNGG	1 cut(s)	15
BmrI	ACTGGG	1 cut(s)	1041
BmsI	GCATC	1 cut(s)	586
BmuI	ACTGGG	1 cut(s)	1041
BplI	GAGNNNNNCTC	2 cut(s)	463, 495
BpmI	CTGGAG	1 cut(s)	694
Bpu10I	CCTNAGC	1 cut(s)	1038
BpuEI	CTTGAG	1 cut(s)	245
Bsa29I	ATCGAT	1 cut(s)	730
BsaBI	GATNNNNATC	1 cut(s)	360
BsaI	GGTCTC	1 cut(s)	551
BsaJI	CCNNGG	2 cut(s)	541, 655
BsaWI	WCCGGW	1 cut(s)	859
BsaXI	ACNNNNNCTCC	3 cut(s)	25, 498, 528
Bsc4I	CCNNNNNNNGG	2 cut(s)	96, 328
Bse1I	ACTGG	4 cut(s)	311, 711, 747, 1047
Bse3DI	GCAATG	2 cut(s)	495, 699
Bse8I	GATNNNNATC	1 cut(s)	360
BseBI	CCWGG	1 cut(s)	15
BseCI	ATCGAT	1 cut(s)	730
BseDI	CCNNGG	2 cut(s)	541, 655
BseJI	GATNNNNATC	1 cut(s)	360
BseLI	CCNNNNNNNGG	2 cut(s)	96, 328
BseMI	GCAATG	2 cut(s)	495, 699
BseMII	CTCAG	3 cut(s)	20, 316, 1029
BseNI	ACTGG	4 cut(s)	311, 711, 747, 1047
BseXI	GCAGC	3 cut(s)	512, 599, 1012
BshFI	GGCC	4 cut(s)	37, 75, 243, 540
BshVI	ATCGAT	1 cut(s)	730
BsiHKAI	GWGCWC	4 cut(s)	116, 320, 487, 1072
BsiSI	CCGG	2 cut(s)	639, 860
BslFI	GGGAC	1 cut(s)	935
BslI	CCNNNNNNNGG	2 cut(s)	96, 328
BsmAI	GTCTC	3 cut(s)	551, 676, 749
BsmFI	GGGAC	1 cut(s)	935
BsnI	GGCC	4 cut(s)	37, 75, 243, 540
Bso31I	GGTCTC	1 cut(s)	551
Bsp1286I	GDGCHC	4 cut(s)	116, 320, 487, 1072
Bsp143I	GATC	5 cut(s)	292, 361, 731, 961, 973
Bsp19I	CCATGG	1 cut(s)	541
BspACI	CCGC	5 cut(s)	446, 517, 599, 1003, 1043
BspANI	GGCC	4 cut(s)	37, 75, 243, 540
BspCNI	CTCAG	3 cut(s)	19, 315, 1030
BspDI	ATCGAT	1 cut(s)	730
BspHI	TCATGA	2 cut(s)	271, 468
BspLI	GGNNCC	1 cut(s)	403
BspMI	ACCTGC	1 cut(s)	580
BspPI	GGATC	1 cut(s)	726
BspTNI	GGTCTC	1 cut(s)	551
BsrDI	GCAATG	2 cut(s)	495, 699
BsrI	ACTGG	4 cut(s)	311, 711, 747, 1047
BssECI	CCNNGG	2 cut(s)	541, 655
BssMI	GATC	5 cut(s)	292, 361, 731, 961, 973
BssSI	CACGAG	1 cut(s)	480
BssT1I	CCWWGG	2 cut(s)	541, 655
Bst2BI	CACGAG	1 cut(s)	480
Bst2UI	CCWGG	1 cut(s)	15
Bst4CI	ACNGT	1 cut(s)	824
BstAPI	GCANNNNNTGC	1 cut(s)	92
BstC8I	GCNNGC	3 cut(s)	610, 706, 874
BstDEI	CTNAG	4 cut(s)	6, 302, 833, 1038
BstDSI	CCRYGG	1 cut(s)	541
BstKTI	GATC	5 cut(s)	295, 364, 734, 964, 976
BstMAI	GTCTC	3 cut(s)	551, 676, 749
BstMBI	GATC	5 cut(s)	292, 361, 731, 961, 973
BstMWI	GCNNNNNNNGC	4 cut(s)	92, 537, 605, 1039
BstNI	CCWGG	1 cut(s)	15
BstSCI	CCNGG	1 cut(s)	13
BstV1I	GCAGC	3 cut(s)	512, 599, 1012
BstXI	CCANNNNNNTGG	1 cut(s)	847
Bsu15I	ATCGAT	1 cut(s)	730
BsuRI	GGCC	4 cut(s)	37, 75, 243, 540
BsuTUI	ATCGAT	1 cut(s)	730
BtgI	CCRYGG	1 cut(s)	541
BtsIMutI	CAGTG	3 cut(s)	318, 718, 754
BveI	ACCTGC	1 cut(s)	580
Cac8I	GCNNGC	3 cut(s)	610, 706, 874
CciI	TCATGA	2 cut(s)	271, 468
Cfr13I	GGNCC	2 cut(s)	36, 557
ClaI	ATCGAT	1 cut(s)	730
CseI	GACGC	1 cut(s)	1022
Csp6I	GTAC	3 cut(s)	412, 805, 1020
CviAII	CATG	8 cut(s)	109, 179, 272, 290, 353, 469, 542, 847
CviQI	GTAC	3 cut(s)	412, 805, 1020
DdeI	CTNAG	4 cut(s)	6, 302, 833, 1038
DpnI	GATC	5 cut(s)	294, 363, 733, 963, 975
DpnII	GATC	5 cut(s)	292, 361, 731, 961, 973
DraI	TTTAAA	1 cut(s)	282
DraIII	CACNNNGTG	1 cut(s)	92
Ecl136II	GAGCTC	1 cut(s)	114
Eco130I	CCWWGG	2 cut(s)	541, 655
Eco24I	GRGCYC	1 cut(s)	116
Eco31I	GGTCTC	1 cut(s)	551
Eco47I	GGWCC	1 cut(s)	557
Eco53kI	GAGCTC	1 cut(s)	114
EcoICRI	GAGCTC	1 cut(s)	114
EcoRII	CCWGG	1 cut(s)	13
EcoT14I	CCWWGG	2 cut(s)	541, 655
EcoT38I	GRGCYC	1 cut(s)	116
ErhI	CCWWGG	2 cut(s)	541, 655
FaeI	CATG	8 cut(s)	112, 182, 275, 293, 356, 472, 545, 850
FaqI	GGGAC	1 cut(s)	935
FatI	CATG	8 cut(s)	108, 178, 271, 289, 352, 468, 541, 846
Fnu4HI	GCNGC	5 cut(s)	501, 613, 1001, 1004, 1043
FriOI	GRGCYC	1 cut(s)	116
Fsp4HI	GCNGC	5 cut(s)	501, 613, 1001, 1004, 1043
FspBI	CTAG	1 cut(s)	536
GluI	GCNGC	5 cut(s)	501, 613, 1001, 1004, 1043
GsuI	CTGGAG	1 cut(s)	694
HaeIII	GGCC	4 cut(s)	37, 75, 243, 540
HapII	CCGG	2 cut(s)	639, 860
HgaI	GACGC	1 cut(s)	1022
Hin1II	CATG	8 cut(s)	112, 182, 275, 293, 356, 472, 545, 850
HincII	GTYRAC	2 cut(s)	308, 476
HindII	GTYRAC	2 cut(s)	308, 476
HindIII	AAGCTT	1 cut(s)	53
HinfI	GANTC	7 cut(s)	4, 26, 155, 472, 620, 719, 931
HpaII	CCGG	2 cut(s)	639, 860
HphI	GGTGA	2 cut(s)	337, 371
Hpy166II	GTNNAC	4 cut(s)	308, 476, 560, 1020
Hpy188I	TCNGA	2 cut(s)	595, 724
Hpy188III	TCNNGA	6 cut(s)	272, 368, 389, 469, 911, 1037
Hpy8I	GTNNAC	4 cut(s)	308, 476, 560, 1020
Hpy99I	CGWCG	3 cut(s)	26, 630, 962
HpyAV	CCTTC	3 cut(s)	254, 963, 1048
HpyCH4III	ACNGT	1 cut(s)	824
HpyCH4IV	ACGT	1 cut(s)	508
HpyCH4V	TGCA	3 cut(s)	187, 409, 500
HpyF10VI	GCNNNNNNNGC	4 cut(s)	92, 537, 605, 1039
HpyF3I	CTNAG	4 cut(s)	6, 302, 833, 1038
HpySE526I	ACGT	1 cut(s)	508
Hsp92II	CATG	8 cut(s)	112, 182, 275, 293, 356, 472, 545, 850
Kzo9I	GATC	5 cut(s)	292, 361, 731, 961, 973
LmnI	GCTCC	3 cut(s)	407, 490, 713
Lsp1109I	GCAGC	3 cut(s)	512, 599, 1012
LweI	GCATC	1 cut(s)	586
MaeI	CTAG	1 cut(s)	536
MaeII	ACGT	1 cut(s)	508
MaeIII	GTNAC	2 cut(s)	459, 1123
MalI	GATC	5 cut(s)	294, 363, 733, 963, 975
MboI	GATC	5 cut(s)	292, 361, 731, 961, 973
MboII	GAAGA	2 cut(s)	356, 968
MhlI	GDGCHC	4 cut(s)	116, 320, 487, 1072
MluCI	AATT	4 cut(s)	192, 451, 464, 1146
MlyI	GAGTC	3 cut(s)	149, 481, 940
MmeI	TCCRAC	2 cut(s)	261, 401
MseI	TTAA	1 cut(s)	281
MslI	CAYNNNNRTG	4 cut(s)	323, 357, 747, 845
MspA1I	CMGCKG	2 cut(s)	971, 1003
MspI	CCGG	2 cut(s)	639, 860
MspR9I	CCNGG	1 cut(s)	15
MvaI	CCWGG	1 cut(s)	15
MwoI	GCNNNNNNNGC	4 cut(s)	92, 537, 605, 1039
NcoI	CCATGG	1 cut(s)	541
NdeII	GATC	5 cut(s)	292, 361, 731, 961, 973
NlaIII	CATG	8 cut(s)	112, 182, 275, 293, 356, 472, 545, 850
NlaIV	GGNNCC	1 cut(s)	403
NmeAIII	GCCGAG	2 cut(s)	13, 778
NmuCI	GTSAC	1 cut(s)	459
PagI	TCATGA	2 cut(s)	271, 468
PfeI	GAWTC	3 cut(s)	26, 620, 719
PflFI	GACNNNGTC	1 cut(s)	221
PkrI	GCNGC	5 cut(s)	502, 614, 1002, 1005, 1044
PleI	GAGTC	3 cut(s)	149, 480, 939
PpsI	GAGTC	3 cut(s)	149, 480, 939
Psp124BI	GAGCTC	1 cut(s)	116
Psp6I	CCWGG	1 cut(s)	13
PspGI	CCWGG	1 cut(s)	13
PspN4I	GGNNCC	1 cut(s)	403
PspPI	GGNCC	2 cut(s)	36, 557
PsyI	GACNNNGTC	1 cut(s)	221
PvuII	CAGCTG	1 cut(s)	971
RsaI	GTAC	3 cut(s)	413, 806, 1021
RsaNI	GTAC	3 cut(s)	412, 805, 1020
RseI	CAYNNNNRTG	4 cut(s)	323, 357, 747, 845
SacI	GAGCTC	1 cut(s)	116
SaqAI	TTAA	1 cut(s)	281
SatI	GCNGC	5 cut(s)	501, 613, 1001, 1004, 1043
Sau3AI	GATC	5 cut(s)	292, 361, 731, 961, 973
Sau96I	GGNCC	2 cut(s)	36, 557
SchI	GAGTC	3 cut(s)	149, 481, 940
ScrFI	CCNGG	1 cut(s)	15
SduI	GDGCHC	4 cut(s)	116, 320, 487, 1072
SfaNI	GCATC	1 cut(s)	586
SinI	GGWCC	1 cut(s)	557
SmiMI	CAYNNNNRTG	4 cut(s)	323, 357, 747, 845
SmlI	CTYRAG	1 cut(s)	260
SmoI	CTYRAG	1 cut(s)	260
Sse9I	AATT	4 cut(s)	192, 451, 464, 1146
SsiI	CCGC	5 cut(s)	446, 517, 599, 1003, 1043
SspMI	CTAG	1 cut(s)	536
SstI	GAGCTC	1 cut(s)	116
StyD4I	CCNGG	1 cut(s)	13
StyI	CCWWGG	2 cut(s)	541, 655
TaaI	ACNGT	1 cut(s)	824
TaiI	ACGT	1 cut(s)	511
TaqI	TCGA	5 cut(s)	24, 139, 730, 888, 960
TasI	AATT	4 cut(s)	192, 451, 464, 1146
TauI	GCSGC	2 cut(s)	1006, 1045
TfiI	GAWTC	3 cut(s)	26, 620, 719
Tru1I	TTAA	1 cut(s)	281
Tru9I	TTAA	1 cut(s)	281
TscAI	CASTG	3 cut(s)	318, 718, 754
TseFI	GTSAC	1 cut(s)	459
TseI	GCWGC	3 cut(s)	500, 612, 1000
Tsp45I	GTSAC	1 cut(s)	459
TspDTI	ATGAA	4 cut(s)	157, 457, 798, 932
TspGWI	ACGGA	1 cut(s)	946
TspRI	CASTG	3 cut(s)	318, 718, 754
Tth111I	GACNNNGTC	1 cut(s)	221
VpaK11BI	GGWCC	1 cut(s)	557
XspI	CTAG	1 cut(s)	536

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