Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0001357

Physical Location & Seq

Genomic Coordinates Reverse (-)

23619115 .. 23620922

Gene Structure 1808 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ48543

Sequence Viewer

CDS Protein Promoter (2k)

Length: 903 bp

ATGGATTCTGTTGAGAAATATTTGATAAAAATCACACGTGCAAGGAACCAATTAGATGCTTTGGGAGTAAAGATGGAAGACCAGGATATTGTTGTGGTTTTACTCAATGGTTTGCCTGCAGAATTTAATCCCATAAAAGCAATTATTCGGGCAAGGAAAACCCCAATTACAATGCAAGAATTGAGGATTCAATTACTAGCTGCTGAAAGAGATATTGCAAATAGGGCTATTCTGAATATAATGCCAGCCTTCTCTACTAGGAGAACTAAGAAGAATGTGTCTAAGAGGTGTCTGAATGGCAATGAGAATAACATTGGCAGCATGTTTGAAAATGGTGGAGGCTACAAGAATAATTTTGGGTTGTCTCCAGAGTGTCAAATATGTAGGAAGAAAGGCCACACTGCTGCATATTGCTTCTACAGGAATGACATCCCTCCTGATCATCTCTCTAACTCTGTGATCATTTGTCAAATCTGTGGTCTGAAGGGACATGCAGCCTTAGACTGCCATCACAGGTCAAACTTTGCATTGCAAGGAGCTGAACCACCTTCTACTCTTGCTGCAATGACTATGCATAATACCAATGGAGCTAGTACTTCTGGTGATTCTATTACTACACAGGGTTTCTCATATGCAGGTACTAGTTCTCCTCATCCTTCTTTTAGTCCGGATCAGTCACAAGTTCTTCCTACCTGTTCTGCTTTGGGTAACTCTCTTAACACCCACATTGGAGTCTCTCTTGTTGTAGTTGATGGGGGAGATCAGAATGTGATAAATAATGATCAAGCTGATGCACAGTTGCAGTTACCTCATGAACAATTTGATCAAAGAAGCAGTCAGATTTATGAGAAATCCATGCTTACCAAAGCCAAAGGTTTGAGTATCAAGAAGAAGACATTTTAG

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

Protein Analysis

300

Amino Acids

32.79

Weight (kDa)

8.86

Isoelectric Point (pI)

43.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Retrotran_gag_2	PF14223	3 - 71	3.9e-11	gag-polypeptide of LTR copia-type

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0001357)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G12000
fragaria_vesca	FvH4_3g01360 FvH4_3g01360 FvH4_3g22340 FvH4_5g38692
malus_domestica	MD05G1352800.v1.1 MD05G1354700.v1.1 MD05G1354900.v1.1 MD08G1183700.v1.1 MD09G1228400.v1.1 MD10G1133500.v1.1 MD10G1327400.v1.1 MD12G1211800.v1.1 MD13G1182600.v1.1 MD17G1176400.v1.1 MD17G1211800.v1.1
prunus_persica	Prupe.4G014600_v2.0.a1 Prupe.4G014600_v2.0.a1 Prupe.4G014600_v2.0.a1
pyrus_communis	pycom01g09830 pycom05g15580 pycom05g32000 pycom10g04820 pycom10g27690 pycom111g03470 pycom12g06510 pycom14g19720 pycom15g20870 pycom15g34000 pycom17g07230 pycom17g26290
rosa_chinensis	RchiOBHm_Chr1g0337721 RchiOBHm_Chr2g0111881 RchiOBHm_Chr2g0137981 RchiOBHm_Chr4g0422781 RchiOBHm_Chr5g0001981 RchiOBHm_Chr6g0245811 RchiOBHm_Chr7g0178941
rosa_laevigata	RLG00000030986
rosa_multiflora	Rmu_co8429625.1_g000001 Rmu_sc0000378.1_g000018 Rmu_sc0006008.1_g000007
rosa_roxburghii	Rroxscaffold_1G00071370 Rroxscaffold_1G00074370 Rroxscaffold_4G00281720
rosa_rugosa	Rorug02G0348600 Rorug04G0394100 Rorug04G0394200
rosa_samantha	Rh1AG166900 Rh2BG004000 Rh5CG016600 Rh5DG017200
rosa_wichuraiana	Rw5G001500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	626
AccIII	TCCGGA	1 cut(s)	667
AclWI	GGATC	1 cut(s)	678
AcsI	RAATTY	1 cut(s)	122
AcuI	CTGAAG	1 cut(s)	503
AcvI	CACGTG	1 cut(s)	38
AfaI	GTAC	2 cut(s)	595, 640
AflIII	ACRYGT	1 cut(s)	35
AgsI	TTSAA	2 cut(s)	191, 329
AhlI	ACTAGT	1 cut(s)	641
AjnI	CCWGG	1 cut(s)	81
AluBI	AGCT	4 cut(s)	200, 539, 590, 788
AluI	AGCT	4 cut(s)	200, 539, 590, 788
Alw26I	GTCTC	2 cut(s)	369, 739
AlwI	GGATC	1 cut(s)	678
Aor13HI	TCCGGA	1 cut(s)	667
AoxI	GGCC	1 cut(s)	394
ApeKI	GCWGC	5 cut(s)	200, 318, 404, 494, 560
ApoI	RAATTY	1 cut(s)	122
ArsI	GACNNNNNNTTYG	4 cut(s)	463, 495, 820, 852
AsuHPI	GGTGA	1 cut(s)	614
BbrPI	CACGTG	1 cut(s)	38
BbsI	GAAGAC	2 cut(s)	84, 899
BbvI	GCAGC	5 cut(s)	187, 330, 391, 506, 547
BccI	CCATC	3 cut(s)	67, 516, 746
BciT130I	CCWGG	1 cut(s)	83
BclI	TGATCA	4 cut(s)	439, 459, 781, 823
BcoDI	GTCTC	2 cut(s)	369, 739
BcuI	ACTAGT	1 cut(s)	641
BfaI	CTAG	4 cut(s)	197, 258, 591, 642
BfmI	CTRYAG	2 cut(s)	117, 418
BfuAI	ACCTGC	1 cut(s)	626
BisI	GCNGC	5 cut(s)	201, 319, 405, 495, 561
BlsI	GCNGC	5 cut(s)	202, 320, 406, 496, 562
BmcAI	AGTACT	1 cut(s)	595
Bme1390I	CCNGG	1 cut(s)	83
BmiI	GGNNCC	1 cut(s)	47
BmrFI	CCNGG	1 cut(s)	83
BmsI	GCATC	2 cut(s)	46, 781
BpiI	GAAGAC	2 cut(s)	84, 899
BpmI	CTGGAG	1 cut(s)	351
BsaAI	YACGTR	1 cut(s)	38
BsaBI	GATNNNNATC	1 cut(s)	29
BsaWI	WCCGGW	1 cut(s)	667
BsaXI	ACNNNNNCTCC	2 cut(s)	631, 661
Bse3DI	GCAATG	3 cut(s)	307, 527, 570
Bse8I	GATNNNNATC	1 cut(s)	29
BseAI	TCCGGA	1 cut(s)	667
BseBI	CCWGG	1 cut(s)	83
BseGI	GGATG	2 cut(s)	429, 652
BseJI	GATNNNNATC	1 cut(s)	29
BseMI	GCAATG	3 cut(s)	307, 527, 570
BseRI	GAGGAG	1 cut(s)	639
BseXI	GCAGC	5 cut(s)	187, 330, 391, 506, 547
BshFI	GGCC	1 cut(s)	396
BsiSI	CCGG	1 cut(s)	668
BslFI	GGGAC	1 cut(s)	501
BsmAI	GTCTC	2 cut(s)	369, 739
BsmFI	GGGAC	1 cut(s)	501
BsnI	GGCC	1 cut(s)	396
Bsp13I	TCCGGA	1 cut(s)	667
Bsp143I	GATC	6 cut(s)	439, 459, 670, 760, 781, 823
BspANI	GGCC	1 cut(s)	396
BspEI	TCCGGA	1 cut(s)	667
BspHI	TCATGA	1 cut(s)	811
BspLI	GGNNCC	1 cut(s)	47
BspMAI	CTGCAG	1 cut(s)	121
BspMI	ACCTGC	1 cut(s)	626
BspPI	GGATC	1 cut(s)	678
BsrDI	GCAATG	3 cut(s)	307, 527, 570
BssMI	GATC	6 cut(s)	439, 459, 670, 760, 781, 823
Bst2UI	CCWGG	1 cut(s)	83
Bst4CI	ACNGT	1 cut(s)	798
BstBAI	YACGTR	1 cut(s)	38
BstC8I	GCNNGC	2 cut(s)	117, 246
BstDEI	CTNAG	3 cut(s)	267, 282, 499
BstF5I	GGATG	2 cut(s)	429, 652
BstKTI	GATC	6 cut(s)	442, 462, 673, 763, 784, 826
BstMAI	GTCTC	2 cut(s)	369, 739
BstMBI	GATC	6 cut(s)	439, 459, 670, 760, 781, 823
BstMWI	GCNNNNNNNGC	1 cut(s)	224
BstNI	CCWGG	1 cut(s)	83
BstNSI	RCATGY	2 cut(s)	325, 494
BstSCI	CCNGG	1 cut(s)	81
BstSFI	CTRYAG	2 cut(s)	117, 418
BstV1I	GCAGC	5 cut(s)	187, 330, 391, 506, 547
BstV2I	GAAGAC	2 cut(s)	84, 899
BsuRI	GGCC	1 cut(s)	396
BtsCI	GGATG	2 cut(s)	429, 652
BtsI	GCAGTG	1 cut(s)	399
BtsIMutI	CAGTG	1 cut(s)	399
BveI	ACCTGC	1 cut(s)	626
Cac8I	GCNNGC	2 cut(s)	117, 246
CciI	TCATGA	1 cut(s)	811
Csp6I	GTAC	2 cut(s)	594, 639
CviAII	CATG	4 cut(s)	322, 491, 812, 856
CviQI	GTAC	2 cut(s)	594, 639
DdeI	CTNAG	3 cut(s)	267, 282, 499
DpnI	GATC	6 cut(s)	441, 461, 672, 762, 783, 825
DpnII	GATC	6 cut(s)	439, 459, 670, 760, 781, 823
Eco57I	CTGAAG	1 cut(s)	503
Eco72I	CACGTG	1 cut(s)	38
EcoRII	CCWGG	1 cut(s)	81
EcoT22I	ATGCAT	1 cut(s)	576
FaeI	CATG	4 cut(s)	325, 494, 815, 859
FaqI	GGGAC	1 cut(s)	501
FatI	CATG	4 cut(s)	321, 490, 811, 855
FauNDI	CATATG	1 cut(s)	631
FbaI	TGATCA	4 cut(s)	439, 459, 781, 823
Fnu4HI	GCNGC	5 cut(s)	201, 319, 405, 495, 561
FokI	GGATG	2 cut(s)	416, 639
Fsp4HI	GCNGC	5 cut(s)	201, 319, 405, 495, 561
FspBI	CTAG	4 cut(s)	197, 258, 591, 642
GluI	GCNGC	5 cut(s)	201, 319, 405, 495, 561
GsuI	CTGGAG	1 cut(s)	351
HaeIII	GGCC	1 cut(s)	396
HapII	CCGG	1 cut(s)	668
Hin1II	CATG	4 cut(s)	325, 494, 815, 859
HinfI	GANTC	4 cut(s)	5, 187, 605, 732
HpaII	CCGG	1 cut(s)	668
HphI	GGTGA	1 cut(s)	614
Hpy188I	TCNGA	5 cut(s)	234, 294, 483, 765, 840
Hpy188III	TCNNGA	5 cut(s)	368, 437, 668, 812, 886
HpyAV	CCTTC	4 cut(s)	259, 478, 558, 666
HpyCH4III	ACNGT	1 cut(s)	798
HpyCH4IV	ACGT	1 cut(s)	37
HpyF10VI	GCNNNNNNNGC	1 cut(s)	224
HpyF3I	CTNAG	3 cut(s)	267, 282, 499
HpySE526I	ACGT	1 cut(s)	37
Hsp92II	CATG	4 cut(s)	325, 494, 815, 859
Kpn2I	TCCGGA	1 cut(s)	667
Ksp22I	TGATCA	4 cut(s)	439, 459, 781, 823
Kzo9I	GATC	6 cut(s)	439, 459, 670, 760, 781, 823
LmnI	GCTCC	2 cut(s)	536, 587
Lsp1109I	GCAGC	5 cut(s)	187, 330, 391, 506, 547
LweI	GCATC	2 cut(s)	46, 781
MaeI	CTAG	4 cut(s)	197, 258, 591, 642
MaeII	ACGT	1 cut(s)	37
MaeIII	GTNAC	3 cut(s)	675, 707, 804
MalI	GATC	6 cut(s)	441, 461, 672, 762, 783, 825
MboI	GATC	6 cut(s)	439, 459, 670, 760, 781, 823
MboII	GAAGA	5 cut(s)	89, 283, 400, 677, 901
MluCI	AATT	8 cut(s)	50, 122, 141, 165, 179, 191, 352, 818
MlyI	GAGTC	1 cut(s)	741
MnlI	CCTC	6 cut(s)	177, 279, 332, 444, 660, 819
Mph1103I	ATGCAT	1 cut(s)	576
MroI	TCCGGA	1 cut(s)	667
MseI	TTAA	2 cut(s)	126, 717
MspI	CCGG	1 cut(s)	668
MspR9I	CCNGG	1 cut(s)	83
MvaI	CCWGG	1 cut(s)	83
MwoI	GCNNNNNNNGC	1 cut(s)	224
NdeI	CATATG	1 cut(s)	631
NdeII	GATC	6 cut(s)	439, 459, 670, 760, 781, 823
NlaIII	CATG	4 cut(s)	325, 494, 815, 859
NlaIV	GGNNCC	1 cut(s)	47
NmuCI	GTSAC	1 cut(s)	675
NsiI	ATGCAT	1 cut(s)	576
NspI	RCATGY	2 cut(s)	325, 494
PagI	TCATGA	1 cut(s)	811
PfeI	GAWTC	3 cut(s)	5, 187, 605
PkrI	GCNGC	5 cut(s)	202, 320, 406, 496, 562
PleI	GAGTC	1 cut(s)	740
PmaCI	CACGTG	1 cut(s)	38
PmlI	CACGTG	1 cut(s)	38
PpsI	GAGTC	1 cut(s)	740
Ppu21I	YACGTR	1 cut(s)	38
Psp6I	CCWGG	1 cut(s)	81
PspCI	CACGTG	1 cut(s)	38
PspGI	CCWGG	1 cut(s)	81
PspN4I	GGNNCC	1 cut(s)	47
PstI	CTGCAG	1 cut(s)	121
RsaI	GTAC	2 cut(s)	595, 640
RsaNI	GTAC	2 cut(s)	594, 639
SaqAI	TTAA	2 cut(s)	126, 717
SatI	GCNGC	5 cut(s)	201, 319, 405, 495, 561
Sau3AI	GATC	6 cut(s)	439, 459, 670, 760, 781, 823
ScaI	AGTACT	1 cut(s)	595
SchI	GAGTC	1 cut(s)	741
ScrFI	CCNGG	1 cut(s)	83
SfaNI	GCATC	2 cut(s)	46, 781
SfcI	CTRYAG	2 cut(s)	117, 418
SpeI	ACTAGT	1 cut(s)	641
Sse9I	AATT	8 cut(s)	50, 122, 141, 165, 179, 191, 352, 818
SspI	AATATT	1 cut(s)	20
SspMI	CTAG	4 cut(s)	197, 258, 591, 642
StyD4I	CCNGG	1 cut(s)	81
TaaI	ACNGT	1 cut(s)	798
TaiI	ACGT	1 cut(s)	40
TasI	AATT	8 cut(s)	50, 122, 141, 165, 179, 191, 352, 818
TatI	WGTACW	1 cut(s)	593
TfiI	GAWTC	3 cut(s)	5, 187, 605
Tru1I	TTAA	2 cut(s)	126, 717
Tru9I	TTAA	2 cut(s)	126, 717
TscAI	CASTG	1 cut(s)	406
TseFI	GTSAC	1 cut(s)	675
TseI	GCWGC	5 cut(s)	200, 318, 404, 494, 560
Tsp45I	GTSAC	1 cut(s)	675
TspDTI	ATGAA	1 cut(s)	828
TspRI	CASTG	1 cut(s)	406
XapI	RAATTY	1 cut(s)	122
XceI	RCATGY	2 cut(s)	325, 494
XspI	CTAG	4 cut(s)	197, 258, 591, 642
ZrmI	AGTACT	1 cut(s)	595
Zsp2I	ATGCAT	1 cut(s)	576

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