Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0000703

Physical Location & Seq

Genomic Coordinates Reverse (-)

62441042 .. 62448371

Gene Structure 7330 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00382590.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 639 bp

ATGAGCAATATTATTCAAATAGTTGTAAGACTTAGAACTGATCATGGAACTGAATTTGAAAATGCTTCATTTGATAAGTTTTGTTGTGAAATGGGAATTAAGCATGAGTTCTCGGCTCCCAAAACTCCTCAACAAAATGGTGTTGTGGAAAGGAAAAACAGGGTCTTAATTGAAATGGGGACAGTTATGTTAAACTCTACTGGTCTTGCTCATACTTTTTGGGCAGAAGCGGTTAGCAATGCTTGCTATACCATAAATAGAGTCATCTTTAGACCGGGAACTGAAAAAACTCCTTATGAGATTTTGAAAGGAAAGAAACCAAATGTGAGCCATTTGAGAGTGTTTGGTAGCCCTTGTTACATCTATAGGGATAGAGAATATCTTGCCAAATTTGATACTAAAAGTGATAAAGGAGTCTTTCTTGGTTACTCATTGAATAGTAGAGCTTATAGGGTGTATAACAAGAGAACTTGTTCTGTGATGGAAACCATTAATGTCTCTATTGATGACTCAACTGTGTGCCTCTCTCAACCGCTGAAGCCGAGTACATTGCAGCTGGTAGCTGTTCGCCCAAATGCTATGGATGAAACAAATGTTGAACGACTATGGTTTTCCTCAAGGCCTCAAACACTCGGATGA

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 rve zf-CCHC

Protein Analysis

212

Amino Acids

24.12

Weight (kDa)

9.14

Isoelectric Point (pI)

32.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SH3_retrovirus	PF25597	117 - 172	6.1e-15	Retroviral polymerase SH3-like domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000703)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g12811 FvH4_1g24841 FvH4_2g03460 FvH4_2g30311 FvH4_3g16731 FvH4_3g16931 FvH4_3g21841 FvH4_3g31692 FvH4_3g35772 FvH4_3g37482 FvH4_4g03991 FvH4_4g08241 FvH4_4g09290 FvH4_4g14651 FvH4_4g18201 FvH4_5g17842 FvH4_5g18993 FvH4_6g19711 FvH4_6g36421 FvH4_6g45941 FvH4_6g45942 FvH4_7g03942 FvH4_7g10731 FvH4_7g33141
prunus_persica	Prupe.1G185200_v2.0.a1
pyrus_communis	pycom01g05340 pycom05g05480 pycom14g05470
rosa_chinensis	RchiOBHm_Chr2g0143791 RchiOBHm_Chr2g0164531 RchiOBHm_Chr2g0174931 RchiOBHm_Chr3g0456701 RchiOBHm_Chr3g0462591 RchiOBHm_Chr3g0488601 RchiOBHm_Chr3g0489031 RchiOBHm_Chr4g0421211 RchiOBHm_Chr4g0421221 RchiOBHm_Chr6g0278461 RchiOBHm_Chr7g0183661 RchiOBHm_Chr7g0219131
rosa_multiflora	Rmu_co8327135.1_g000001 Rmu_co8385793.1_g000001 Rmu_co8398081.1_g000001 Rmu_sc0000721.1_g000029 Rmu_sc0000898.1_g000075 Rmu_sc0001156.1_g000001 Rmu_sc0003339.1_g000002 Rmu_sc0003505.1_g000007 Rmu_sc0003673.1_g000008 Rmu_sc0005071.1_g000010 Rmu_sc0005087.1_g000005 Rmu_sc0005350.1_g000007 Rmu_ssc0000118.1_g000016 Rmu_ssc0000162.1_g000012
rosa_roxburghii	Rroxscaffold_2G00123320 Rroxscaffold_3G00238750 Rroxscaffold_4G00300220 Rroxscaffold_5G00382590 Rroxscaffold_7G00206960
rosa_samantha	Rh1CG187800 Rh2BG032400 Rh4DG325100 Rh5CG260800 Rh6AG171500 Rh6AG472000
rosa_wichuraiana	Rw1G003490 Rw1G007660 Rw2G031060 Rw3G014070 Rw3G014230 Rw6G006100 Rw6G019680 Rw7G016530 Rw7G032660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	230, 533
AcsI	RAATTY	2 cut(s)	53, 389
AcuI	CTGAAG	1 cut(s)	557
AfaI	GTAC	1 cut(s)	547
AgsI	TTSAA	6 cut(s)	17, 59, 173, 307, 436, 599
AluBI	AGCT	3 cut(s)	446, 556, 563
AluI	AGCT	3 cut(s)	446, 556, 563
Alw26I	GTCTC	1 cut(s)	502
AoxI	GGCC	1 cut(s)	620
ApeKI	GCWGC	1 cut(s)	553
ApoI	RAATTY	2 cut(s)	53, 389
AseI	ATTAAT	1 cut(s)	492
Asp700I	GAANNNNTTC	1 cut(s)	472
AsuC2I	CCSGG	1 cut(s)	276
BbvI	GCAGC	1 cut(s)	565
BccI	CCATC	1 cut(s)	475
BcgI	CGANNNNNNTGC	2 cut(s)	532, 566
BclI	TGATCA	1 cut(s)	40
BcnI	CCSGG	1 cut(s)	276
BcoDI	GTCTC	1 cut(s)	502
BfmI	CTRYAG	1 cut(s)	364
BisI	GCNGC	1 cut(s)	554
BlsI	GCNGC	1 cut(s)	555
Bme1390I	CCNGG	1 cut(s)	276
BmiI	GGNNCC	1 cut(s)	117
BmrFI	CCNGG	1 cut(s)	276
BpuEI	CTTGAG	1 cut(s)	601
BpuMI	CCSGG	1 cut(s)	276
Bse1I	ACTGG	1 cut(s)	205
Bse3DI	GCAATG	2 cut(s)	244, 548
BseGI	GGATG	1 cut(s)	589
BseMI	GCAATG	2 cut(s)	244, 548
BseNI	ACTGG	1 cut(s)	205
BseRI	GAGGAG	1 cut(s)	117
BseXI	GCAGC	1 cut(s)	565
BshFI	GGCC	1 cut(s)	622
BsiSI	CCGG	1 cut(s)	275
BslFI	GGGAC	1 cut(s)	193
BsmAI	GTCTC	1 cut(s)	502
BsmFI	GGGAC	1 cut(s)	193
BsnI	GGCC	1 cut(s)	622
Bsp143I	GATC	1 cut(s)	40
BspACI	CCGC	2 cut(s)	230, 533
BspANI	GGCC	1 cut(s)	622
BspLI	GGNNCC	1 cut(s)	117
BsrDI	GCAATG	2 cut(s)	244, 548
BsrI	ACTGG	1 cut(s)	205
BssMI	GATC	1 cut(s)	40
Bst4CI	ACNGT	2 cut(s)	184, 517
BstAPI	GCANNNNNTGC	1 cut(s)	243
BstC8I	GCNNGC	1 cut(s)	244
BstDEI	CTNAG	1 cut(s)	32
BstF5I	GGATG	1 cut(s)	589
BstKTI	GATC	1 cut(s)	43
BstMAI	GTCTC	1 cut(s)	502
BstMBI	GATC	1 cut(s)	40
BstMWI	GCNNNNNNNGC	1 cut(s)	243
BstSCI	CCNGG	1 cut(s)	274
BstSFI	CTRYAG	1 cut(s)	364
BstV1I	GCAGC	1 cut(s)	565
BsuRI	GGCC	1 cut(s)	622
BtsCI	GGATG	1 cut(s)	589
Cac8I	GCNNGC	1 cut(s)	244
Csp6I	GTAC	1 cut(s)	546
CviAII	CATG	2 cut(s)	44, 104
CviJI	RGCY	8 cut(s)	116, 330, 351, 446, 541, 556, 563, 622
CviKI_1	RGCY	8 cut(s)	116, 330, 351, 446, 541, 556, 563, 622
CviQI	GTAC	1 cut(s)	546
DdeI	CTNAG	1 cut(s)	32
DpnI	GATC	1 cut(s)	42
DpnII	GATC	1 cut(s)	40
Eco147I	AGGCCT	1 cut(s)	622
Eco57I	CTGAAG	1 cut(s)	557
FaeI	CATG	2 cut(s)	47, 107
FaqI	GGGAC	1 cut(s)	193
FatI	CATG	2 cut(s)	43, 103
FbaI	TGATCA	1 cut(s)	40
Fnu4HI	GCNGC	1 cut(s)	554
FokI	GGATG	1 cut(s)	596
Fsp4HI	GCNGC	1 cut(s)	554
GluI	GCNGC	1 cut(s)	554
HaeIII	GGCC	1 cut(s)	622
HapII	CCGG	1 cut(s)	275
Hin1II	CATG	2 cut(s)	47, 107
HinfI	GANTC	3 cut(s)	261, 414, 509
HpaII	CCGG	1 cut(s)	275
Hpy188I	TCNGA	1 cut(s)	635
HpyCH4III	ACNGT	2 cut(s)	184, 517
HpyCH4V	TGCA	1 cut(s)	553
HpyF10VI	GCNNNNNNNGC	1 cut(s)	243
HpyF3I	CTNAG	1 cut(s)	32
Hsp92II	CATG	2 cut(s)	47, 107
Ksp22I	TGATCA	1 cut(s)	40
Kzo9I	GATC	1 cut(s)	40
LmnI	GCTCC	1 cut(s)	121
LpnPI	CCDG	4 cut(s)	145, 186, 288, 542
Lsp1109I	GCAGC	1 cut(s)	565
MaeIII	GTNAC	2 cut(s)	356, 425
MalI	GATC	1 cut(s)	42
MboI	GATC	1 cut(s)	40
MluCI	AATT	4 cut(s)	53, 96, 168, 389
MlyI	GAGTC	3 cut(s)	270, 423, 503
MnlI	CCTC	4 cut(s)	138, 533, 625, 633
MroXI	GAANNNNTTC	1 cut(s)	472
MseI	TTAA	4 cut(s)	99, 167, 191, 492
MslI	CAYNNNNRTG	1 cut(s)	634
MspA1I	CMGCKG	2 cut(s)	535, 556
MspI	CCGG	1 cut(s)	275
MspR9I	CCNGG	1 cut(s)	276
MwoI	GCNNNNNNNGC	1 cut(s)	243
NciI	CCSGG	1 cut(s)	276
NdeII	GATC	1 cut(s)	40
NlaIII	CATG	2 cut(s)	47, 107
NlaIV	GGNNCC	1 cut(s)	117
NmeAIII	GCCGAG	2 cut(s)	92, 567
PceI	AGGCCT	1 cut(s)	622
PdmI	GAANNNNTTC	1 cut(s)	472
PkrI	GCNGC	1 cut(s)	555
PleI	GAGTC	3 cut(s)	269, 422, 503
PpsI	GAGTC	3 cut(s)	269, 422, 503
PshBI	ATTAAT	1 cut(s)	492
PspN4I	GGNNCC	1 cut(s)	117
PvuII	CAGCTG	1 cut(s)	556
RsaI	GTAC	1 cut(s)	547
RsaNI	GTAC	1 cut(s)	546
RseI	CAYNNNNRTG	1 cut(s)	634
SaqAI	TTAA	4 cut(s)	99, 167, 191, 492
SatI	GCNGC	1 cut(s)	554
Sau3AI	GATC	1 cut(s)	40
SchI	GAGTC	3 cut(s)	270, 423, 503
ScrFI	CCNGG	1 cut(s)	276
SetI	ASST	3 cut(s)	448, 558, 565
SfcI	CTRYAG	1 cut(s)	364
SmiMI	CAYNNNNRTG	1 cut(s)	634
SmlI	CTYRAG	1 cut(s)	616
SmoI	CTYRAG	1 cut(s)	616
Sse9I	AATT	4 cut(s)	53, 96, 168, 389
SseBI	AGGCCT	1 cut(s)	622
SsiI	CCGC	2 cut(s)	230, 533
SspI	AATATT	1 cut(s)	10
StuI	AGGCCT	1 cut(s)	622
StyD4I	CCNGG	1 cut(s)	274
TaaI	ACNGT	2 cut(s)	184, 517
TasI	AATT	4 cut(s)	53, 96, 168, 389
TatI	WGTACW	1 cut(s)	545
Tru1I	TTAA	4 cut(s)	99, 167, 191, 492
Tru9I	TTAA	4 cut(s)	99, 167, 191, 492
TseI	GCWGC	1 cut(s)	553
TspDTI	ATGAA	2 cut(s)	57, 600
VspI	ATTAAT	1 cut(s)	492
XapI	RAATTY	2 cut(s)	53, 389
XmnI	GAANNNNTTC	1 cut(s)	472

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