Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0003077

Physical Location & Seq

Genomic Coordinates Forward (+)

40730317 .. 40731233

Gene Structure 917 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ57405

Sequence Viewer

CDS Protein Promoter (2k)

Length: 897 bp

ATGACTACTCGACTTCGCGACGGAACTCGTCAGCTCAGACAACTCACTGATGGCACTGTCCGGTATCCTCTGCCTCGGGCTCTTCTCACCTTCCTTGAGACTGTTGAACCCACCTGCTACTCTCAGGCATCTCAGAAAGCCGAATGGCGTGCAGCCATGACAGAGGAGATCAATGCCCTGTTGAAGACCAACACATGGACTCTGGTGGCTTCCTCCCCAACACAGAATACGGTAGGCTGTAAGTGGGTGTTTAGGGTTAAGTGGAAGTCTGATGGTTCGATCGAGCGCTACAAGGCTCGGCTAGTAGCCAAGGGATTCCACCAGCAGCAAGGTATCGATTATGATGAAACCTTTAGCCCTGTGATTAAACCTGCAACTATTCGTACTGTGATTACACTTGCTGTGTCTCGCGGTTGGTCCCTCCGCCAATTGGATGTGAAGAATGCCTTTCTTCATGGCATTCTCAAGGAAGATGTCTATATGGTTCAGCCACCAGGTTTCATTGATCCGGCACGACCTTCCCATGTCTGCAAGCTCAACAAAGCCCTATACGGCCTGAAGCAGGCTCCCCGTGCCTGGTTTCATCGAATGAGTACTTTTCTATTATCTGTTGGTTTCGTTCAAAGTATTGCTGATTCCTCTCTGTTTATTTATCGTCAAGGGGTTCACACAATTTATTTCTTACTCTATGTTGATGATATTGTGGTGACGGGTAGCAGTAATCAGCTTCTCCAACGTTTTATTGATACTCTTGGGCATGGTTTTGACATCAAGGATTTAGGTCCTCTCCATTATTTCCTTGGTTTACAGGTCACTCCTCATTCTCATGGGATGCATATCAATCAAATTAAGTATGCACATGATCTTCTTTCCAAGCATGATCTCCTATTTCAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko04626 map04626

Pfam Domains

Protein Families

RVT_2 Retrotran_gag_2 Retrotran_gag_3

Protein Analysis

298

Amino Acids

33.99

Weight (kDa)

9.51

Isoelectric Point (pI)

37.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_2	PF07727	64 - 295	3.3e-66	Reverse transcriptase (RNA-dependent DNA polymerase)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

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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)
AarI	CACCTGC	1 cut(s)	122
Acc36I	ACCTGC	2 cut(s)	122, 379
AccB7I	CCANNNNNTGG	1 cut(s)	195
AccII	CGCG	2 cut(s)	18, 411
AciI	CCGC	2 cut(s)	411, 424
AclI	AACGTT	1 cut(s)	736
AclWI	GGATC	1 cut(s)	500
AcuI	CTGAAG	1 cut(s)	578
AfaI	GTAC	2 cut(s)	385, 595
AfeI	AGCGCT	1 cut(s)	287
AfiI	CCNNNNNNNGG	4 cut(s)	195, 430, 562, 576
AgsI	TTSAA	3 cut(s)	107, 184, 623
AjnI	CCWGG	2 cut(s)	493, 575
AluBI	AGCT	3 cut(s)	34, 535, 727
AluI	AGCT	3 cut(s)	34, 535, 727
Alw26I	GTCTC	2 cut(s)	92, 411
AlwI	GGATC	1 cut(s)	500
Ama87I	CYCGRG	1 cut(s)	75
Aor51HI	AGCGCT	1 cut(s)	287
AoxI	GGCC	1 cut(s)	553
ApeKI	GCWGC	2 cut(s)	152, 325
AspLEI	GCGC	1 cut(s)	288
AspS9I	GGNCC	2 cut(s)	417, 782
AsuHPI	GGTGA	2 cut(s)	79, 718
AvaI	CYCGRG	1 cut(s)	75
AvaII	GGWCC	2 cut(s)	417, 782
BanII	GRGCYC	1 cut(s)	82
BbsI	GAAGAC	1 cut(s)	191
BbvI	GCAGC	2 cut(s)	164, 337
BccI	CCATC	2 cut(s)	44, 266
BceAI	ACGGC	1 cut(s)	568
BcgI	CGANNNNNNTGC	2 cut(s)	131, 165
BciT130I	CCWGG	2 cut(s)	495, 577
BciVI	GTATCC	1 cut(s)	75
BcoDI	GTCTC	2 cut(s)	92, 411
BfaI	CTAG	1 cut(s)	302
BfoI	RGCGCY	1 cut(s)	289
BfuAI	ACCTGC	2 cut(s)	122, 379
BfuI	GTATCC	1 cut(s)	75
BisI	GCNGC	2 cut(s)	153, 326
BlsI	GCNGC	2 cut(s)	154, 327
BmcAI	AGTACT	1 cut(s)	595
Bme1390I	CCNGG	2 cut(s)	495, 577
Bme18I	GGWCC	2 cut(s)	417, 782
BmeT110I	CYCGRG	1 cut(s)	75
BmgT120I	GGNCC	2 cut(s)	417, 782
BmiI	GGNNCC	2 cut(s)	419, 567
BmrFI	CCNGG	2 cut(s)	495, 577
BmsI	GCATC	2 cut(s)	137, 822
BpiI	GAAGAC	1 cut(s)	191
BpuEI	CTTGAG	2 cut(s)	116, 449
Bsa29I	ATCGAT	1 cut(s)	336
BsaBI	GATNNNNATC	1 cut(s)	836
BsaJI	CCNNGG	3 cut(s)	74, 309, 799
BsaWI	WCCGGW	1 cut(s)	60
Bsc4I	CCNNNNNNNGG	4 cut(s)	195, 430, 562, 576
Bse8I	GATNNNNATC	1 cut(s)	836
BseBI	CCWGG	2 cut(s)	495, 577
BseCI	ATCGAT	1 cut(s)	336
BseDI	CCNNGG	3 cut(s)	74, 309, 799
BseGI	GGATG	2 cut(s)	439, 837
BseJI	GATNNNNATC	1 cut(s)	836
BseLI	CCNNNNNNNGG	4 cut(s)	195, 430, 562, 576
BseMII	CTCAG	3 cut(s)	49, 137, 146
BseRI	GAGGAG	2 cut(s)	179, 807
BseXI	GCAGC	2 cut(s)	164, 337
BsgI	GTGCAG	1 cut(s)	171
Bsh1236I	CGCG	2 cut(s)	18, 411
Bsh1285I	CGRYCG	1 cut(s)	282
BshFI	GGCC	1 cut(s)	555
BshVI	ATCGAT	1 cut(s)	336
BsiEI	CGRYCG	1 cut(s)	282
BsiHKCI	CYCGRG	1 cut(s)	75
BsiSI	CCGG	2 cut(s)	61, 509
BslFI	GGGAC	1 cut(s)	403
BslI	CCNNNNNNNGG	4 cut(s)	195, 430, 562, 576
BsmAI	GTCTC	2 cut(s)	92, 411
BsmFI	GGGAC	1 cut(s)	403
BsmI	GAATGC	2 cut(s)	448, 459
BsnI	GGCC	1 cut(s)	555
BsoBI	CYCGRG	1 cut(s)	75
Bsp1286I	GDGCHC	1 cut(s)	82
Bsp143I	GATC	5 cut(s)	168, 279, 505, 862, 880
Bsp68I	TCGCGA	1 cut(s)	18
BspACI	CCGC	2 cut(s)	411, 424
BspANI	GGCC	1 cut(s)	555
BspCNI	CTCAG	3 cut(s)	48, 136, 145
BspDI	ATCGAT	1 cut(s)	336
BspFNI	CGCG	2 cut(s)	18, 411
BspLI	GGNNCC	2 cut(s)	419, 567
BspMI	ACCTGC	2 cut(s)	122, 379
BspPI	GGATC	1 cut(s)	500
BspQI	GCTCTTC	1 cut(s)	87
BssECI	CCNNGG	3 cut(s)	74, 309, 799
BssMI	GATC	5 cut(s)	168, 279, 505, 862, 880
BssT1I	CCWWGG	2 cut(s)	309, 799
Bst2UI	CCWGG	2 cut(s)	495, 577
Bst4CI	ACNGT	4 cut(s)	58, 103, 232, 388
Bst6I	CTCTTC	1 cut(s)	87
BstC8I	GCNNGC	3 cut(s)	150, 533, 564
BstDEI	CTNAG	3 cut(s)	35, 123, 132
BstENI	CCTNNNNNAGG	1 cut(s)	560
BstF5I	GGATG	2 cut(s)	439, 837
BstFNI	CGCG	2 cut(s)	18, 411
BstH2I	RGCGCY	1 cut(s)	289
BstHHI	GCGC	1 cut(s)	288
BstKTI	GATC	5 cut(s)	171, 282, 508, 865, 883
BstMAI	GTCTC	2 cut(s)	92, 411
BstMBI	GATC	5 cut(s)	168, 279, 505, 862, 880
BstMCI	CGRYCG	1 cut(s)	282
BstMWI	GCNNNNNNNGC	1 cut(s)	572
BstNI	CCWGG	2 cut(s)	495, 577
BstSCI	CCNGG	2 cut(s)	493, 575
BstUI	CGCG	2 cut(s)	18, 411
BstV1I	GCAGC	2 cut(s)	164, 337
BstV2I	GAAGAC	1 cut(s)	191
Bsu15I	ATCGAT	1 cut(s)	336
BsuI	GTATCC	1 cut(s)	75
BsuRI	GGCC	1 cut(s)	555
BsuTUI	ATCGAT	1 cut(s)	336
BtsCI	GGATG	2 cut(s)	439, 837
BtsIMutI	CAGTG	2 cut(s)	45, 54
BtuMI	TCGCGA	1 cut(s)	18
BveI	ACCTGC	2 cut(s)	122, 379
Cac8I	GCNNGC	3 cut(s)	150, 533, 564
CfoI	GCGC	1 cut(s)	288
Cfr13I	GGNCC	2 cut(s)	417, 782
ClaI	ATCGAT	1 cut(s)	336
CsiI	ACCWGGT	1 cut(s)	493
Csp6I	GTAC	2 cut(s)	384, 594
CviAII	CATG	8 cut(s)	157, 195, 455, 524, 758, 827, 860, 878
CviQI	GTAC	2 cut(s)	384, 594
DdeI	CTNAG	3 cut(s)	35, 123, 132
DpnI	GATC	5 cut(s)	170, 281, 507, 864, 882
DpnII	GATC	5 cut(s)	168, 279, 505, 862, 880
Eam1104I	CTCTTC	1 cut(s)	87
EarI	CTCTTC	1 cut(s)	87
EciI	GGCGGA	1 cut(s)	413
Eco130I	CCWWGG	2 cut(s)	309, 799
Eco24I	GRGCYC	1 cut(s)	82
Eco47I	GGWCC	2 cut(s)	417, 782
Eco47III	AGCGCT	1 cut(s)	287
Eco57I	CTGAAG	1 cut(s)	578
Eco88I	CYCGRG	1 cut(s)	75
EcoNI	CCTNNNNNAGG	1 cut(s)	560
EcoO109I	RGGNCCY	1 cut(s)	782
EcoRII	CCWGG	2 cut(s)	493, 575
EcoT14I	CCWWGG	2 cut(s)	309, 799
EcoT22I	ATGCAT	1 cut(s)	837
EcoT38I	GRGCYC	1 cut(s)	82
ErhI	CCWWGG	2 cut(s)	309, 799
FaeI	CATG	8 cut(s)	160, 198, 458, 527, 761, 830, 863, 881
FalI	AAGNNNNNCTT	2 cut(s)	431, 463
FaqI	GGGAC	1 cut(s)	403
FatI	CATG	8 cut(s)	156, 194, 454, 523, 757, 826, 859, 877
Fnu4HI	GCNGC	2 cut(s)	153, 326
FokI	GGATG	2 cut(s)	446, 844
FriOI	GRGCYC	1 cut(s)	82
Fsp4HI	GCNGC	2 cut(s)	153, 326
FspBI	CTAG	1 cut(s)	302
GlaI	GCGC	1 cut(s)	287
GluI	GCNGC	2 cut(s)	153, 326
HaeII	RGCGCY	1 cut(s)	289
HaeIII	GGCC	1 cut(s)	555
HapII	CCGG	2 cut(s)	61, 509
HhaI	GCGC	1 cut(s)	288
Hin1II	CATG	8 cut(s)	160, 198, 458, 527, 761, 830, 863, 881
Hin6I	GCGC	1 cut(s)	286
HinP1I	GCGC	1 cut(s)	286
HinfI	GANTC	3 cut(s)	199, 315, 635
HpaII	CCGG	2 cut(s)	61, 509
HphI	GGTGA	2 cut(s)	79, 718
Hpy166II	GTNNAC	2 cut(s)	667, 806
Hpy188I	TCNGA	3 cut(s)	38, 135, 271
Hpy188III	TCNNGA	1 cut(s)	17
Hpy8I	GTNNAC	2 cut(s)	667, 806
Hpy99I	CGWCG	1 cut(s)	23
HpyAV	CCTTC	2 cut(s)	100, 528
HpyCH4III	ACNGT	4 cut(s)	58, 103, 232, 388
HpyCH4IV	ACGT	1 cut(s)	736
HpyCH4V	TGCA	5 cut(s)	152, 374, 531, 835, 857
HpyF10VI	GCNNNNNNNGC	1 cut(s)	572
HpyF3I	CTNAG	3 cut(s)	35, 123, 132
HpySE526I	ACGT	1 cut(s)	736
Hsp92II	CATG	8 cut(s)	160, 198, 458, 527, 761, 830, 863, 881
HspAI	GCGC	1 cut(s)	286
Kzo9I	GATC	5 cut(s)	168, 279, 505, 862, 880
LguI	GCTCTTC	1 cut(s)	87
LmnI	GCTCC	1 cut(s)	571
Lsp1109I	GCAGC	2 cut(s)	164, 337
LweI	GCATC	2 cut(s)	137, 822
MabI	ACCWGGT	1 cut(s)	493
MaeI	CTAG	1 cut(s)	302
MaeII	ACGT	1 cut(s)	736
MaeIII	GTNAC	2 cut(s)	706, 811
MalI	GATC	5 cut(s)	170, 281, 507, 864, 882
MboI	GATC	5 cut(s)	168, 279, 505, 862, 880
MboII	GAAGA	6 cut(s)	74, 196, 443, 451, 482, 857
MfeI	CAATTG	1 cut(s)	428
MhlI	GDGCHC	1 cut(s)	82
MluCI	AATT	3 cut(s)	428, 672, 846
MlyI	GAGTC	1 cut(s)	193
MmeI	TCCRAC	1 cut(s)	757
MnlI	CCTC	8 cut(s)	78, 84, 157, 223, 431, 649, 795, 828
Mph1103I	ATGCAT	1 cut(s)	837
MseI	TTAA	3 cut(s)	258, 366, 849
MslI	CAYNNNNRTG	1 cut(s)	825
MspI	CCGG	2 cut(s)	61, 509
MspR9I	CCNGG	2 cut(s)	495, 577
MunI	CAATTG	1 cut(s)	428
Mva1269I	GAATGC	2 cut(s)	448, 459
MvaI	CCWGG	2 cut(s)	495, 577
MvnI	CGCG	2 cut(s)	18, 411
MwoI	GCNNNNNNNGC	1 cut(s)	572
NdeII	GATC	5 cut(s)	168, 279, 505, 862, 880
NlaIII	CATG	8 cut(s)	160, 198, 458, 527, 761, 830, 863, 881
NlaIV	GGNNCC	2 cut(s)	419, 567
NmeAIII	GCCGAG	1 cut(s)	277
NmuCI	GTSAC	2 cut(s)	706, 811
NruI	TCGCGA	1 cut(s)	18
NsiI	ATGCAT	1 cut(s)	837
PaqCI	CACCTGC	1 cut(s)	122
PciSI	GCTCTTC	1 cut(s)	87
PctI	GAATGC	2 cut(s)	448, 459
PfeI	GAWTC	2 cut(s)	315, 635
PflMI	CCANNNNNTGG	1 cut(s)	195
PkrI	GCNGC	2 cut(s)	154, 327
Ple19I	CGATCG	1 cut(s)	282
PleI	GAGTC	1 cut(s)	193
PpsI	GAGTC	1 cut(s)	193
PpuMI	RGGWCCY	1 cut(s)	782
Psp1406I	AACGTT	1 cut(s)	736
Psp5II	RGGWCCY	1 cut(s)	782
Psp6I	CCWGG	2 cut(s)	493, 575
PspGI	CCWGG	2 cut(s)	493, 575
PspN4I	GGNNCC	2 cut(s)	419, 567
PspPI	GGNCC	2 cut(s)	417, 782
PspPPI	RGGWCCY	1 cut(s)	782
PvuI	CGATCG	1 cut(s)	282
RruI	TCGCGA	1 cut(s)	18
RsaI	GTAC	2 cut(s)	385, 595
RsaNI	GTAC	2 cut(s)	384, 594
RseI	CAYNNNNRTG	1 cut(s)	825
SapI	GCTCTTC	1 cut(s)	87
SaqAI	TTAA	3 cut(s)	258, 366, 849
SatI	GCNGC	2 cut(s)	153, 326
Sau3AI	GATC	5 cut(s)	168, 279, 505, 862, 880
Sau96I	GGNCC	2 cut(s)	417, 782
ScaI	AGTACT	1 cut(s)	595
SchI	GAGTC	1 cut(s)	193
ScrFI	CCNGG	2 cut(s)	495, 577
SduI	GDGCHC	1 cut(s)	82
SexAI	ACCWGGT	1 cut(s)	493
SfaNI	GCATC	2 cut(s)	137, 822
SinI	GGWCC	2 cut(s)	417, 782
SmiMI	CAYNNNNRTG	1 cut(s)	825
SmlI	CTYRAG	2 cut(s)	95, 464
SmoI	CTYRAG	2 cut(s)	95, 464
Sse9I	AATT	3 cut(s)	428, 672, 846
SsiI	CCGC	2 cut(s)	411, 424
SspMI	CTAG	1 cut(s)	302
StyD4I	CCNGG	2 cut(s)	493, 575
StyI	CCWWGG	2 cut(s)	309, 799
TaaI	ACNGT	4 cut(s)	58, 103, 232, 388
TaiI	ACGT	1 cut(s)	739
TaqI	TCGA	5 cut(s)	10, 278, 282, 336, 586
TasI	AATT	3 cut(s)	428, 672, 846
TatI	WGTACW	1 cut(s)	593
TfiI	GAWTC	2 cut(s)	315, 635
Tru1I	TTAA	3 cut(s)	258, 366, 849
Tru9I	TTAA	3 cut(s)	258, 366, 849
TscAI	CASTG	2 cut(s)	52, 61
TseFI	GTSAC	2 cut(s)	706, 811
TseI	GCWGC	2 cut(s)	152, 325
Tsp45I	GTSAC	2 cut(s)	706, 811
TspDTI	ATGAA	4 cut(s)	360, 443, 490, 572
TspGWI	ACGGA	1 cut(s)	36
TspRI	CASTG	2 cut(s)	52, 61
Van91I	CCANNNNNTGG	1 cut(s)	195
VpaK11BI	GGWCC	2 cut(s)	417, 782
XagI	CCTNNNNNAGG	1 cut(s)	560
XcmI	CCANNNNNNNNNTGG	1 cut(s)	797
XspI	CTAG	1 cut(s)	302
ZrmI	AGTACT	1 cut(s)	595
Zsp2I	ATGCAT	1 cut(s)	837

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