Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0000703

Physical Location & Seq

Genomic Coordinates Reverse (-)

87380402 .. 87380855

Gene Structure 454 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ54204

Sequence Viewer

CDS Protein Promoter (2k)

Length: 435 bp

ATGTGTGATGATTATGAAGGTGTTTATTTCAACAAAGATAACTGTGTTGTACTTGATAATGTTGGCAAAAGTATCATGGGAGGAAAGCGGTCCAAAGATAATTGTTTCTGCATTCATGCAAATGAAACTAACATGTCTCAGGTATGCATGAAGGTCAAAACCACAAGTGATATTTTGGAACTTTGGCACCAACGGTTGGGGCACATCAACTTTCAAGATCTTGTGAAGTTGTCCAGCAAGGAAGGCGTACGTGGCTTACCAAAATTAAGTGGACAAACAGATATTGTCTGTGAAGGTTGCAAGCTTGGTAAACAAATAAGGAGTTCACACCGTGTAATCAATGAAATCACAACCTCCCAACCCTTGGATCTAATGCACATGGATTTAGTCGGACCCATTCAGAAAGAAAGTATAGGAGAACAGGGTTTTGATTGA

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

144

Amino Acids

16.12

Weight (kDa)

6.19

Isoelectric Point (pI)

43.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
gag_pre-integrs	PF13976	41 - 105	6.9e-17	GAG-pre-integrase domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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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)
AccB1I	GGYRCC	1 cut(s)	186
AccB7I	CCANNNNNTGG	2 cut(s)	196, 364
AciI	CCGC	1 cut(s)	88
AclWI	GGATC	1 cut(s)	375
AdeI	CACNNNGTG	1 cut(s)	332
AfaI	GTAC	2 cut(s)	51, 249
AfiI	CCNNNNNNNGG	2 cut(s)	196, 364
AflIII	ACRYGT	1 cut(s)	132
AgsI	TTSAA	2 cut(s)	31, 215
AluBI	AGCT	1 cut(s)	304
AluI	AGCT	1 cut(s)	304
Alw26I	GTCTC	1 cut(s)	141
AlwI	GGATC	1 cut(s)	375
AspS9I	GGNCC	2 cut(s)	90, 392
AvaII	GGWCC	2 cut(s)	90, 392
BaeGI	GKGCMC	1 cut(s)	204
BanI	GGYRCC	1 cut(s)	186
BcoDI	GTCTC	1 cut(s)	141
BglII	AGATCT	1 cut(s)	217
Bme18I	GGWCC	2 cut(s)	90, 392
BmgT120I	GGNCC	2 cut(s)	90, 392
BmiI	GGNNCC	2 cut(s)	188, 394
BsaAI	YACGTR	1 cut(s)	251
BsaJI	CCNNGG	1 cut(s)	363
Bsc4I	CCNNNNNNNGG	2 cut(s)	196, 364
BseDI	CCNNGG	1 cut(s)	363
BseLI	CCNNNNNNNGG	2 cut(s)	196, 364
BseMII	CTCAG	1 cut(s)	152
BseSI	GKGCMC	1 cut(s)	204
BshNI	GGYRCC	1 cut(s)	186
BsiWI	CGTACG	1 cut(s)	247
BslI	CCNNNNNNNGG	2 cut(s)	196, 364
BsmAI	GTCTC	1 cut(s)	141
BsmI	GAATGC	1 cut(s)	111
Bsp1286I	GDGCHC	1 cut(s)	204
Bsp143I	GATC	2 cut(s)	217, 367
BspACI	CCGC	1 cut(s)	88
BspCNI	CTCAG	1 cut(s)	151
BspLI	GGNNCC	2 cut(s)	188, 394
BspPI	GGATC	1 cut(s)	375
BspT107I	GGYRCC	1 cut(s)	186
BssECI	CCNNGG	1 cut(s)	363
BssMI	GATC	2 cut(s)	217, 367
BssT1I	CCWWGG	1 cut(s)	363
Bst4CI	ACNGT	3 cut(s)	44, 195, 332
BstBAI	YACGTR	1 cut(s)	251
BstC8I	GCNNGC	1 cut(s)	302
BstDEI	CTNAG	1 cut(s)	138
BstKTI	GATC	2 cut(s)	220, 370
BstMAI	GTCTC	1 cut(s)	141
BstMBI	GATC	2 cut(s)	217, 367
BstMWI	GCNNNNNNNGC	2 cut(s)	243, 252
BstNSI	RCATGY	1 cut(s)	136
BstSLI	GKGCMC	1 cut(s)	204
BstX2I	RGATCY	2 cut(s)	217, 367
BstYI	RGATCY	2 cut(s)	217, 367
Cac8I	GCNNGC	1 cut(s)	302
Cfr13I	GGNCC	2 cut(s)	90, 392
Csp6I	GTAC	2 cut(s)	50, 248
CviAII	CATG	5 cut(s)	76, 116, 133, 148, 379
CviJI	RGCY	2 cut(s)	255, 304
CviKI_1	RGCY	2 cut(s)	255, 304
CviQI	GTAC	2 cut(s)	50, 248
DdeI	CTNAG	1 cut(s)	138
DpnI	GATC	2 cut(s)	219, 369
DpnII	GATC	2 cut(s)	217, 367
DraIII	CACNNNGTG	1 cut(s)	332
Eco130I	CCWWGG	1 cut(s)	363
Eco47I	GGWCC	2 cut(s)	90, 392
EcoT14I	CCWWGG	1 cut(s)	363
EcoT22I	ATGCAT	1 cut(s)	149
ErhI	CCWWGG	1 cut(s)	363
FaeI	CATG	5 cut(s)	79, 119, 136, 151, 382
FaiI	YATR	8 cut(s)	15, 77, 117, 134, 145, 149, 380, 413
FatI	CATG	5 cut(s)	75, 115, 132, 147, 378
Hin1II	CATG	5 cut(s)	79, 119, 136, 151, 382
HindIII	AAGCTT	1 cut(s)	302
Hpy166II	GTNNAC	3 cut(s)	272, 311, 326
Hpy188I	TCNGA	2 cut(s)	392, 402
Hpy188III	TCNNGA	1 cut(s)	215
Hpy8I	GTNNAC	3 cut(s)	272, 311, 326
HpyAV	CCTTC	4 cut(s)	11, 145, 236, 287
HpyCH4III	ACNGT	3 cut(s)	44, 195, 332
HpyCH4IV	ACGT	1 cut(s)	250
HpyCH4V	TGCA	5 cut(s)	111, 119, 147, 300, 376
HpyF10VI	GCNNNNNNNGC	2 cut(s)	243, 252
HpyF3I	CTNAG	1 cut(s)	138
HpySE526I	ACGT	1 cut(s)	250
Hsp92II	CATG	5 cut(s)	79, 119, 136, 151, 382
Kzo9I	GATC	2 cut(s)	217, 367
LpnPI	CCDG	3 cut(s)	125, 247, 407
MaeII	ACGT	1 cut(s)	250
MalI	GATC	2 cut(s)	219, 369
MboI	GATC	2 cut(s)	217, 367
MflI	RGATCY	2 cut(s)	217, 367
MhlI	GDGCHC	1 cut(s)	204
MluCI	AATT	2 cut(s)	100, 263
MmeI	TCCRAC	1 cut(s)	370
MnlI	CCTC	2 cut(s)	74, 364
Mph1103I	ATGCAT	1 cut(s)	149
MseI	TTAA	1 cut(s)	266
MslI	CAYNNNNRTG	1 cut(s)	120
Mva1269I	GAATGC	1 cut(s)	111
MwoI	GCNNNNNNNGC	2 cut(s)	243, 252
NdeII	GATC	2 cut(s)	217, 367
NlaIII	CATG	5 cut(s)	79, 119, 136, 151, 382
NlaIV	GGNNCC	2 cut(s)	188, 394
NsiI	ATGCAT	1 cut(s)	149
NspI	RCATGY	1 cut(s)	136
PciI	ACATGT	1 cut(s)	132
PctI	GAATGC	1 cut(s)	111
Pfl23II	CGTACG	1 cut(s)	247
PflMI	CCANNNNNTGG	2 cut(s)	196, 364
Ppu21I	YACGTR	1 cut(s)	251
PscI	ACATGT	1 cut(s)	132
PspLI	CGTACG	1 cut(s)	247
PspN4I	GGNNCC	2 cut(s)	188, 394
PspPI	GGNCC	2 cut(s)	90, 392
PsuI	RGATCY	2 cut(s)	217, 367
RsaI	GTAC	2 cut(s)	51, 249
RsaNI	GTAC	2 cut(s)	50, 248
RseI	CAYNNNNRTG	1 cut(s)	120
SaqAI	TTAA	1 cut(s)	266
Sau3AI	GATC	2 cut(s)	217, 367
Sau96I	GGNCC	2 cut(s)	90, 392
SduI	GDGCHC	1 cut(s)	204
SetI	ASST	7 cut(s)	22, 144, 156, 253, 298, 306, 356
SinI	GGWCC	2 cut(s)	90, 392
SmiMI	CAYNNNNRTG	1 cut(s)	120
Sse9I	AATT	2 cut(s)	100, 263
SsiI	CCGC	1 cut(s)	88
StyI	CCWWGG	1 cut(s)	363
TaaI	ACNGT	3 cut(s)	44, 195, 332
TaiI	ACGT	1 cut(s)	253
TasI	AATT	2 cut(s)	100, 263
TatI	WGTACW	1 cut(s)	49
Tru1I	TTAA	1 cut(s)	266
Tru9I	TTAA	1 cut(s)	266
TspDTI	ATGAA	5 cut(s)	30, 104, 138, 164, 357
Van91I	CCANNNNNTGG	2 cut(s)	196, 364
VpaK11BI	GGWCC	2 cut(s)	90, 392
XceI	RCATGY	1 cut(s)	136
Zsp2I	ATGCAT	1 cut(s)	149

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