Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Contig00452

Orthogroup ID

OG0001006

Physical Location & Seq

Genomic Coordinates Reverse (-)

13490 .. 14788

Gene Structure 1299 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw0G010510.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 555 bp

ATGGCCTTAGTAGCTCACTACAACTTGGAGCTGCATCAAATGGATGTCAAGACAGCGTTTTTGAATGGAGAATTAGTGGAGGACATTTATATGATGCAGCCACCAGGTTTTGTTGAAAAGGGGAAGGATCAAATGGTATGCAAACTCAGAAAGTCTATCTACGGCCTCAAGCAAGCTTCAAGGCAATGGTATCTCAAATTTGATGAGATAATTTCTGATTTTGGTTTCGTTGAAAACAAGATGGATGAGTGCATTTACCTAAAGATGAGAGTGGTGGATTCTATTTCAAGGCCCTTGAAGATGTTATGTGACAATGAAGCTGCTGTGTTCTTTTCAAAGAACAATAAAAGGACTTCTGCTTCAAGACTCATGGATGTTAAGTATCTAGTTATGAGGGACAAGGTCAAAGACAAAGAAATCACCATTGAGTACATTTCTTCGAAGTCAAACATTGCTGATCCTCTTACCAAGGGTTTACCAGTGGGAGTGTTTCAAAATCATGTTGCTAATATGGGAATACTCGAGTCTTTTGATGCAGCAGATCAGTGGGAGTGA

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

GRAS RVT_2

Protein Analysis

184

Amino Acids

21.22

Weight (kDa)

6.33

Isoelectric Point (pI)

41.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_2	PF07727	2 - 89	5.2e-26	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: OG0001006)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g28582 FvH4_4g04791 FvH4_5g37183 FvH4_6g21376 FvH4_7g12362
malus_domestica	MD04G1043200.v1.1 MD08G1171400.v1.1 MD16G1163300.v1.1
pyrus_communis	pycom01g08240 pycom02g13280 pycom02g13290 pycom03g16600 pycom04g18500 pycom06g06360 pycom12g01620 pycom15g38160
rosa_chinensis	RchiOBHm_Chr1g0317711 RchiOBHm_Chr1g0337471 RchiOBHm_Chr1g0365501 RchiOBHm_Chr1g0375591 RchiOBHm_Chr1g0383411 RchiOBHm_Chr2g0115341 RchiOBHm_Chr2g0144381 RchiOBHm_Chr2g0150761 RchiOBHm_Chr2g0159601 RchiOBHm_Chr3g0453781 RchiOBHm_Chr3g0467131 RchiOBHm_Chr3g0491311 RchiOBHm_Chr3g0495711 RchiOBHm_Chr4g0385651 RchiOBHm_Chr4g0390931 RchiOBHm_Chr4g0441701 RchiOBHm_Chr5g0040291 RchiOBHm_Chr5g0040891 RchiOBHm_Chr5g0066231 RchiOBHm_Chr5g0076641 RchiOBHm_Chr6g0259091 RchiOBHm_Chr6g0300011 RchiOBHm_Chr6g0304531 RchiOBHm_Chr7g0192701 RchiOBHm_Chr7g0194431
rosa_roxburghii	Rroxscaffold_2G00112920 Rroxscaffold_3G00225970 Rroxscaffold_3G00227430 Rroxscaffold_4G00301360 Rroxscaffold_4G00305440 Rroxscaffold_5G00386330
rosa_wichuraiana	Rw0G010510 Rw1G007900 Rw1G018220 Rw1G022080 Rw2G040570 Rw2G046740 Rw4G002540 Rw5G013410 Rw5G017210 Rw5G017940 Rw7G005960 Rw7G007520 Rw7G012200 Rw7G030860 Rw7G032010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	2 cut(s)	135, 452
AcsI	RAATTY	1 cut(s)	197
AfaI	GTAC	1 cut(s)	431
AgsI	TTSAA	9 cut(s)	64, 116, 180, 233, 288, 298, 336, 363, 494
AjnI	CCWGG	1 cut(s)	103
AluBI	AGCT	4 cut(s)	14, 31, 176, 320
AluI	AGCT	4 cut(s)	14, 31, 176, 320
AlwI	GGATC	2 cut(s)	135, 452
Ama87I	CYCGRG	1 cut(s)	521
AoxI	GGCC	3 cut(s)	3, 163, 290
ApeKI	GCWGC	4 cut(s)	31, 97, 320, 536
ApoI	RAATTY	1 cut(s)	197
ArsI	GACNNNNNNTTYG	2 cut(s)	43, 75
AspS9I	GGNCC	1 cut(s)	291
AsuHPI	GGTGA	1 cut(s)	412
AsuII	TTCGAA	1 cut(s)	440
AvaI	CYCGRG	1 cut(s)	521
BbvI	GCAGC	4 cut(s)	18, 109, 307, 548
BccI	CCATC	1 cut(s)	235
BceAI	ACGGC	1 cut(s)	178
BciT130I	CCWGG	1 cut(s)	105
BfaI	CTAG	1 cut(s)	386
BisI	GCNGC	4 cut(s)	32, 98, 321, 537
BlsI	GCNGC	4 cut(s)	33, 99, 322, 538
Bme1390I	CCNGG	1 cut(s)	105
BmeT110I	CYCGRG	1 cut(s)	521
BmgT120I	GGNCC	1 cut(s)	291
BmrFI	CCNGG	1 cut(s)	105
BmsI	GCATC	3 cut(s)	43, 84, 523
Bpu14I	TTCGAA	1 cut(s)	440
BpuEI	CTTGAG	1 cut(s)	152
BsaJI	CCNNGG	1 cut(s)	468
BsaXI	ACNNNNNCTCC	2 cut(s)	60, 90
Bse1I	ACTGG	1 cut(s)	479
Bse3DI	GCAATG	2 cut(s)	191, 450
BseBI	CCWGG	1 cut(s)	105
BseDI	CCNNGG	1 cut(s)	468
BseGI	GGATG	3 cut(s)	49, 250, 379
BseMI	GCAATG	2 cut(s)	191, 450
BseMII	CTCAG	1 cut(s)	160
BseNI	ACTGG	1 cut(s)	479
BseXI	GCAGC	4 cut(s)	18, 109, 307, 548
BshFI	GGCC	3 cut(s)	5, 165, 292
BsiHKCI	CYCGRG	1 cut(s)	521
BslFI	GGGAC	1 cut(s)	410
BsmFI	GGGAC	1 cut(s)	410
BsnI	GGCC	3 cut(s)	5, 165, 292
BsoBI	CYCGRG	1 cut(s)	521
Bsp119I	TTCGAA	1 cut(s)	440
Bsp143I	GATC	3 cut(s)	127, 457, 541
BspANI	GGCC	3 cut(s)	5, 165, 292
BspCNI	CTCAG	1 cut(s)	159
BspPI	GGATC	2 cut(s)	135, 452
BspT104I	TTCGAA	1 cut(s)	440
BsrDI	GCAATG	2 cut(s)	191, 450
BsrI	ACTGG	1 cut(s)	479
BssECI	CCNNGG	1 cut(s)	468
BssMI	GATC	3 cut(s)	127, 457, 541
BssT1I	CCWWGG	1 cut(s)	468
Bst2UI	CCWGG	1 cut(s)	105
BstBI	TTCGAA	1 cut(s)	440
BstC8I	GCNNGC	1 cut(s)	174
BstDEI	CTNAG	2 cut(s)	7, 146
BstF5I	GGATG	3 cut(s)	49, 250, 379
BstKTI	GATC	3 cut(s)	130, 460, 544
BstMBI	GATC	3 cut(s)	127, 457, 541
BstMWI	GCNNNNNNNGC	1 cut(s)	11
BstNI	CCWGG	1 cut(s)	105
BstSCI	CCNGG	1 cut(s)	103
BstV1I	GCAGC	4 cut(s)	18, 109, 307, 548
BsuRI	GGCC	3 cut(s)	5, 165, 292
BtsCI	GGATG	3 cut(s)	49, 250, 379
BtsIMutI	CAGTG	2 cut(s)	486, 551
Cac8I	GCNNGC	1 cut(s)	174
Cfr13I	GGNCC	1 cut(s)	291
CsiI	ACCWGGT	1 cut(s)	103
Csp6I	GTAC	1 cut(s)	430
CviAII	CATG	2 cut(s)	370, 500
CviJI	RGCY	8 cut(s)	5, 14, 31, 100, 165, 176, 292, 320
CviKI_1	RGCY	8 cut(s)	5, 14, 31, 100, 165, 176, 292, 320
CviQI	GTAC	1 cut(s)	430
DdeI	CTNAG	2 cut(s)	7, 146
DpnI	GATC	3 cut(s)	129, 459, 543
DpnII	GATC	3 cut(s)	127, 457, 541
Eco130I	CCWWGG	1 cut(s)	468
Eco88I	CYCGRG	1 cut(s)	521
EcoO109I	RGGNCCY	1 cut(s)	291
EcoRII	CCWGG	1 cut(s)	103
EcoT14I	CCWWGG	1 cut(s)	468
ErhI	CCWWGG	1 cut(s)	468
FaeI	CATG	2 cut(s)	373, 503
FaiI	YATR	8 cut(s)	90, 92, 139, 307, 371, 392, 501, 512
FaqI	GGGAC	1 cut(s)	410
FatI	CATG	2 cut(s)	369, 499
Fnu4HI	GCNGC	4 cut(s)	32, 98, 321, 537
FokI	GGATG	3 cut(s)	56, 257, 386
Fsp4HI	GCNGC	4 cut(s)	32, 98, 321, 537
FspBI	CTAG	1 cut(s)	386
GluI	GCNGC	4 cut(s)	32, 98, 321, 537
HaeIII	GGCC	3 cut(s)	5, 165, 292
Hin1II	CATG	2 cut(s)	373, 503
HindIII	AAGCTT	1 cut(s)	174
HinfI	GANTC	3 cut(s)	278, 366, 524
HphI	GGTGA	1 cut(s)	412
Hpy166II	GTNNAC	1 cut(s)	476
Hpy188I	TCNGA	2 cut(s)	149, 217
Hpy188III	TCNNGA	2 cut(s)	49, 363
Hpy8I	GTNNAC	1 cut(s)	476
HpyAV	CCTTC	1 cut(s)	118
HpyCH4V	TGCA	5 cut(s)	34, 97, 141, 252, 536
HpyF10VI	GCNNNNNNNGC	1 cut(s)	11
HpyF3I	CTNAG	2 cut(s)	7, 146
Hsp92II	CATG	2 cut(s)	373, 503
Kzo9I	GATC	3 cut(s)	127, 457, 541
LmnI	GCTCC	1 cut(s)	28
LpnPI	CCDG	3 cut(s)	90, 117, 492
Lsp1109I	GCAGC	4 cut(s)	18, 109, 307, 548
LweI	GCATC	3 cut(s)	43, 84, 523
MabI	ACCWGGT	1 cut(s)	103
MaeI	CTAG	1 cut(s)	386
MaeIII	GTNAC	1 cut(s)	308
MalI	GATC	3 cut(s)	129, 459, 543
MboI	GATC	3 cut(s)	127, 457, 541
MboII	GAAGA	2 cut(s)	310, 429
MluCI	AATT	3 cut(s)	71, 197, 210
MlyI	GAGTC	2 cut(s)	360, 533
MnlI	CCTC	4 cut(s)	73, 176, 387, 471
MseI	TTAA	1 cut(s)	378
MslI	CAYNNNNRTG	1 cut(s)	89
MspR9I	CCNGG	1 cut(s)	105
MvaI	CCWGG	1 cut(s)	105
MwoI	GCNNNNNNNGC	1 cut(s)	11
NdeII	GATC	3 cut(s)	127, 457, 541
NlaIII	CATG	2 cut(s)	373, 503
NmuCI	GTSAC	1 cut(s)	308
NspV	TTCGAA	1 cut(s)	440
PaeR7I	CTCGAG	1 cut(s)	521
PfeI	GAWTC	1 cut(s)	278
PflFI	GACNNNGTC	1 cut(s)	401
PkrI	GCNGC	4 cut(s)	33, 99, 322, 538
PleI	GAGTC	2 cut(s)	360, 532
PpsI	GAGTC	2 cut(s)	360, 532
Psp6I	CCWGG	1 cut(s)	103
PspGI	CCWGG	1 cut(s)	103
PspPI	GGNCC	1 cut(s)	291
PspXI	VCTCGAGB	1 cut(s)	521
PsyI	GACNNNGTC	1 cut(s)	401
RsaI	GTAC	1 cut(s)	431
RsaNI	GTAC	1 cut(s)	430
RseI	CAYNNNNRTG	1 cut(s)	89
SaqAI	TTAA	1 cut(s)	378
SatI	GCNGC	4 cut(s)	32, 98, 321, 537
Sau3AI	GATC	3 cut(s)	127, 457, 541
Sau96I	GGNCC	1 cut(s)	291
SchI	GAGTC	2 cut(s)	360, 533
ScrFI	CCNGG	1 cut(s)	105
SetI	ASST	7 cut(s)	16, 33, 109, 178, 261, 322, 405
SexAI	ACCWGGT	1 cut(s)	103
SfaNI	GCATC	3 cut(s)	43, 84, 523
Sfr274I	CTCGAG	1 cut(s)	521
SfuI	TTCGAA	1 cut(s)	440
SlaI	CTCGAG	1 cut(s)	521
SmiMI	CAYNNNNRTG	1 cut(s)	89
SmlI	CTYRAG	2 cut(s)	167, 521
SmoI	CTYRAG	2 cut(s)	167, 521
Sse9I	AATT	3 cut(s)	71, 197, 210
SspMI	CTAG	1 cut(s)	386
StyD4I	CCNGG	1 cut(s)	103
StyI	CCWWGG	1 cut(s)	468
TaqI	TCGA	2 cut(s)	440, 522
TasI	AATT	3 cut(s)	71, 197, 210
TatI	WGTACW	1 cut(s)	429
TfiI	GAWTC	1 cut(s)	278
Tru1I	TTAA	1 cut(s)	378
Tru9I	TTAA	1 cut(s)	378
TscAI	CASTG	2 cut(s)	486, 551
TseFI	GTSAC	1 cut(s)	308
TseI	GCWGC	4 cut(s)	31, 97, 320, 536
Tsp45I	GTSAC	1 cut(s)	308
TspDTI	ATGAA	1 cut(s)	330
TspRI	CASTG	2 cut(s)	486, 551
Tth111I	GACNNNGTC	1 cut(s)	401
XapI	RAATTY	1 cut(s)	197
XhoI	CTCGAG	1 cut(s)	521
XspI	CTAG	1 cut(s)	386

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