Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0006963

Physical Location & Seq

Genomic Coordinates Forward (+)

74790138 .. 74790875

Gene Structure 738 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG539600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 738 bp

ATGAAACGTCACATGGATAGTGACCTACAGTTTGAGTTCATAAATGAGGATAGCGCCATACAGCTTTGGCATGCGCTTCGCGAACTATATGGCAATGTTCGTGACTCCATACTTCCGAATACAGAAGCAGAATGGAAAGATTTTCGCTTCTCTGAATTTGACACGGTCATGCTATTTTATTCGGAAGCCCTCCGCATCAGAGTAATGATGCGTCTCTGTGGAAAGATGATCACAGAAGACCAGTTGATTGAGAAAACCCTCAATACCTTCCCCGTCTATGCTATGAGGTCCTCTGACTTATTCCGGACTCATGTAAATGCAAGACGGATCACAAGTTTCCAACAGCTTATTGAAGCTATGGCCACTGCTGAAAGACATGGCAATGAACTTGTGCAAAGAAGATTTGATAGGCTTCAAGATAGCTATCAAGAGCATCATCCTATGGCTAGAGAAAGTCGCCATAGACGTCATGATCCATACGATCGAAATGCTCAAGAAGGTAATCGCTCAAGGCGACAATCTCACGACCGTAGGAGGCGTGATTTTGAGGGAAATAGGGTTGGAAACCATGGAGCCAACTTTGGCCATGGGCACCACTTTCCAACGCCACCAGTCCTAGGGACTATGCATATTGCGCCAATGCGCCTCAATCAAGGGAGAATCCTCTTTATGGTGTCTATTTCTGATATGGAACGTCTGATCAATGGACCTGAATTTGCAATGTACCTACGAAGGTAG

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

Retrotran_gag_2 zf-CCHC

Protein Analysis

245

Amino Acids

29.23

Weight (kDa)

9.45

Isoelectric Point (pI)

71.64

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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: OG0006963)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr1g0323081 RchiOBHm_Chr2g0168921 RchiOBHm_Chr3g0488021 RchiOBHm_Chr7g0240151
rosa_multiflora	Rmu_sc0000394.1_g000060 Rmu_sc0006867.1_g000028 Rmu_sc0015156.1_g000005
rosa_roxburghii	Rroxscaffold_2G00110370 Rroxscaffold_4G00296000 Rroxscaffold_4G00296010 Rroxscaffold_5G00378770
rosa_rugosa	Rorug06G0510400
rosa_samantha	Rh2BG204600 Rh2BG204700 Rh2BG440000 Rh2BG539600 Rh2DG026100 Rh2DG291000 Rh4CG266000 Rh5BG195600 Rh6AG373800 Rh6DG133200 Rh7CG424800 Rh7CG511100
rosa_wichuraiana	Rw4G020380 Rw6G018910

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	469
AccB1I	GGYRCC	1 cut(s)	591
AccII	CGCG	1 cut(s)	81
AccIII	TCCGGA	1 cut(s)	303
AciI	CCGC	1 cut(s)	193
AclWI	GGATC	2 cut(s)	335, 467
AcoI	YGGCCR	2 cut(s)	360, 583
AcsI	RAATTY	2 cut(s)	155, 713
AcyI	GRCGYC	1 cut(s)	466
AfaI	GTAC	1 cut(s)	725
AfiI	CCNNNNNNNGG	2 cut(s)	617, 670
AgsI	TTSAA	2 cut(s)	353, 416
AluBI	AGCT	4 cut(s)	64, 346, 356, 423
AluI	AGCT	4 cut(s)	64, 346, 356, 423
Alw26I	GTCTC	1 cut(s)	218
AlwI	GGATC	2 cut(s)	335, 467
Aor13HI	TCCGGA	1 cut(s)	303
AoxI	GGCC	2 cut(s)	360, 583
ApoI	RAATTY	2 cut(s)	155, 713
ArsI	GACNNNNNNTTYG	2 cut(s)	14, 46
AspA2I	CCTAGG	1 cut(s)	616
AspLEI	GCGC	4 cut(s)	56, 76, 637, 645
AspS9I	GGNCC	2 cut(s)	288, 707
AvaII	GGWCC	2 cut(s)	288, 707
AvrII	CCTAGG	1 cut(s)	616
BaeGI	GKGCMC	1 cut(s)	594
BalI	TGGCCA	2 cut(s)	362, 585
BanI	GGYRCC	1 cut(s)	591
BbsI	GAAGAC	1 cut(s)	243
BcgI	CGANNNNNNTGC	4 cut(s)	59, 93, 470, 504
BclI	TGATCA	2 cut(s)	228, 699
BcoDI	GTCTC	1 cut(s)	218
BfaI	CTAG	2 cut(s)	447, 617
BfmI	CTRYAG	1 cut(s)	26
BfoI	RGCGCY	1 cut(s)	57
BlnI	CCTAGG	1 cut(s)	616
Bme18I	GGWCC	2 cut(s)	288, 707
BmgT120I	GGNCC	2 cut(s)	288, 707
BmiI	GGNNCC	2 cut(s)	574, 593
BmsI	GCATC	3 cut(s)	198, 204, 442
BpiI	GAAGAC	1 cut(s)	243
BpuEI	CTTGAG	2 cut(s)	477, 493
BsaBI	GATNNNNATC	1 cut(s)	423
BsaHI	GRCGYC	1 cut(s)	466
BsaJI	CCNNGG	3 cut(s)	568, 586, 616
BsaWI	WCCGGW	1 cut(s)	303
Bsc4I	CCNNNNNNNGG	2 cut(s)	617, 670
Bse1I	ACTGG	2 cut(s)	241, 611
Bse3DI	GCAATG	3 cut(s)	100, 388, 726
Bse8I	GATNNNNATC	1 cut(s)	423
BseAI	TCCGGA	1 cut(s)	303
BseDI	CCNNGG	3 cut(s)	568, 586, 616
BseGI	GGATG	1 cut(s)	436
BseJI	GATNNNNATC	1 cut(s)	423
BseLI	CCNNNNNNNGG	2 cut(s)	617, 670
BseMI	GCAATG	3 cut(s)	100, 388, 726
BseNI	ACTGG	2 cut(s)	241, 611
BseSI	GKGCMC	1 cut(s)	594
Bsh1236I	CGCG	1 cut(s)	81
Bsh1285I	CGRYCG	2 cut(s)	484, 529
BshFI	GGCC	2 cut(s)	362, 585
BshNI	GGYRCC	1 cut(s)	591
BsiEI	CGRYCG	2 cut(s)	484, 529
BsiSI	CCGG	1 cut(s)	304
BslFI	GGGAC	1 cut(s)	634
BslI	CCNNNNNNNGG	2 cut(s)	617, 670
BsmAI	GTCTC	1 cut(s)	218
BsmBI	CGTCTC	1 cut(s)	218
BsmFI	GGGAC	1 cut(s)	634
BsnI	GGCC	2 cut(s)	362, 585
Bsp1286I	GDGCHC	1 cut(s)	594
Bsp13I	TCCGGA	1 cut(s)	303
Bsp143I	GATC	5 cut(s)	228, 327, 472, 481, 699
Bsp19I	CCATGG	2 cut(s)	568, 586
Bsp68I	TCGCGA	1 cut(s)	81
BspACI	CCGC	1 cut(s)	193
BspANI	GGCC	2 cut(s)	362, 585
BspEI	TCCGGA	1 cut(s)	303
BspFNI	CGCG	1 cut(s)	81
BspHI	TCATGA	1 cut(s)	469
BspLI	GGNNCC	2 cut(s)	574, 593
BspPI	GGATC	2 cut(s)	335, 467
BspT107I	GGYRCC	1 cut(s)	591
BsrDI	GCAATG	3 cut(s)	100, 388, 726
BsrI	ACTGG	2 cut(s)	241, 611
BssECI	CCNNGG	3 cut(s)	568, 586, 616
BssMI	GATC	5 cut(s)	228, 327, 472, 481, 699
BssNI	GRCGYC	1 cut(s)	466
BssT1I	CCWWGG	3 cut(s)	568, 586, 616
Bst4CI	ACNGT	3 cut(s)	30, 166, 530
BstACI	GRCGYC	1 cut(s)	466
BstC8I	GCNNGC	1 cut(s)	72
BstDSI	CCRYGG	2 cut(s)	568, 586
BstF5I	GGATG	1 cut(s)	436
BstFNI	CGCG	1 cut(s)	81
BstH2I	RGCGCY	1 cut(s)	57
BstHHI	GCGC	4 cut(s)	56, 76, 637, 645
BstKTI	GATC	5 cut(s)	231, 330, 475, 484, 702
BstMAI	GTCTC	1 cut(s)	218
BstMBI	GATC	5 cut(s)	228, 327, 472, 481, 699
BstMCI	CGRYCG	2 cut(s)	484, 529
BstMWI	GCNNNNNNNGC	1 cut(s)	634
BstNSI	RCATGY	1 cut(s)	74
BstSFI	CTRYAG	1 cut(s)	26
BstSLI	GKGCMC	1 cut(s)	594
BstUI	CGCG	1 cut(s)	81
BstV2I	GAAGAC	1 cut(s)	243
BsuRI	GGCC	2 cut(s)	362, 585
BtgI	CCRYGG	2 cut(s)	568, 586
BtsCI	GGATG	1 cut(s)	436
BtsI	GCAGTG	1 cut(s)	363
BtsIMutI	CAGTG	1 cut(s)	363
BtuMI	TCGCGA	1 cut(s)	81
Cac8I	GCNNGC	1 cut(s)	72
CciI	TCATGA	1 cut(s)	469
CfoI	GCGC	4 cut(s)	56, 76, 637, 645
Cfr13I	GGNCC	2 cut(s)	288, 707
CseI	GACGC	1 cut(s)	200
Csp6I	GTAC	1 cut(s)	724
CviAII	CATG	8 cut(s)	13, 71, 169, 311, 377, 470, 569, 587
CviQI	GTAC	1 cut(s)	724
DpnI	GATC	5 cut(s)	230, 329, 474, 483, 701
DpnII	GATC	5 cut(s)	228, 327, 472, 481, 699
EaeI	YGGCCR	2 cut(s)	360, 583
Eco130I	CCWWGG	3 cut(s)	568, 586, 616
Eco47I	GGWCC	2 cut(s)	288, 707
EcoO109I	RGGNCCY	1 cut(s)	288
EcoT14I	CCWWGG	3 cut(s)	568, 586, 616
EcoT22I	ATGCAT	1 cut(s)	630
ErhI	CCWWGG	3 cut(s)	568, 586, 616
Esp3I	CGTCTC	1 cut(s)	218
FaeI	CATG	8 cut(s)	16, 74, 172, 314, 380, 473, 572, 590
FaqI	GGGAC	1 cut(s)	634
FatI	CATG	8 cut(s)	12, 70, 168, 310, 376, 469, 568, 586
FbaI	TGATCA	2 cut(s)	228, 699
FokI	GGATG	1 cut(s)	423
FspBI	CTAG	2 cut(s)	447, 617
GlaI	GCGC	4 cut(s)	55, 75, 636, 644
HaeII	RGCGCY	1 cut(s)	57
HaeIII	GGCC	2 cut(s)	362, 585
HapII	CCGG	1 cut(s)	304
HgaI	GACGC	1 cut(s)	200
HhaI	GCGC	4 cut(s)	56, 76, 637, 645
Hin1I	GRCGYC	1 cut(s)	466
Hin1II	CATG	8 cut(s)	16, 74, 172, 314, 380, 473, 572, 590
Hin6I	GCGC	4 cut(s)	54, 74, 635, 643
HinP1I	GCGC	4 cut(s)	54, 74, 635, 643
HinfI	GANTC	3 cut(s)	104, 307, 660
HpaII	CCGG	1 cut(s)	304
Hpy188I	TCNGA	7 cut(s)	117, 154, 184, 200, 295, 685, 699
Hpy188III	TCNNGA	8 cut(s)	80, 101, 304, 416, 428, 470, 494, 524
HpyAV	CCTTC	3 cut(s)	277, 491, 726
HpyCH4III	ACNGT	3 cut(s)	30, 166, 530
HpyCH4IV	ACGT	3 cut(s)	7, 466, 694
HpyCH4V	TGCA	4 cut(s)	320, 394, 628, 719
HpyF10VI	GCNNNNNNNGC	1 cut(s)	634
HpySE526I	ACGT	3 cut(s)	7, 466, 694
Hsp92I	GRCGYC	1 cut(s)	466
Hsp92II	CATG	8 cut(s)	16, 74, 172, 314, 380, 473, 572, 590
HspAI	GCGC	4 cut(s)	54, 74, 635, 643
Kpn2I	TCCGGA	1 cut(s)	303
Ksp22I	TGATCA	2 cut(s)	228, 699
Kzo9I	GATC	5 cut(s)	228, 327, 472, 481, 699
LmnI	GCTCC	1 cut(s)	572
LpnPI	CCDG	4 cut(s)	254, 317, 624, 723
LweI	GCATC	3 cut(s)	198, 204, 442
MaeI	CTAG	2 cut(s)	447, 617
MaeII	ACGT	3 cut(s)	7, 466, 694
MaeIII	GTNAC	3 cut(s)	8, 20, 101
MalI	GATC	5 cut(s)	230, 329, 474, 483, 701
MboI	GATC	5 cut(s)	228, 327, 472, 481, 699
MboII	GAAGA	2 cut(s)	248, 411
MhlI	GDGCHC	1 cut(s)	594
MlsI	TGGCCA	2 cut(s)	362, 585
MluCI	AATT	2 cut(s)	155, 713
MluNI	TGGCCA	2 cut(s)	362, 585
MlyI	GAGTC	2 cut(s)	98, 301
MmeI	TCCRAC	3 cut(s)	364, 541, 626
MnlI	CCTC	9 cut(s)	40, 200, 269, 279, 301, 528, 541, 656, 674
Mox20I	TGGCCA	2 cut(s)	362, 585
Mph1103I	ATGCAT	1 cut(s)	630
MroI	TCCGGA	1 cut(s)	303
MscI	TGGCCA	2 cut(s)	362, 585
MslI	CAYNNNNRTG	3 cut(s)	167, 315, 381
Msp20I	TGGCCA	2 cut(s)	362, 585
MspI	CCGG	1 cut(s)	304
MvnI	CGCG	1 cut(s)	81
MwoI	GCNNNNNNNGC	1 cut(s)	634
NcoI	CCATGG	2 cut(s)	568, 586
NdeII	GATC	5 cut(s)	228, 327, 472, 481, 699
NlaIII	CATG	8 cut(s)	16, 74, 172, 314, 380, 473, 572, 590
NlaIV	GGNNCC	2 cut(s)	574, 593
NmuCI	GTSAC	3 cut(s)	8, 20, 101
NruI	TCGCGA	1 cut(s)	81
NsiI	ATGCAT	1 cut(s)	630
NspI	RCATGY	1 cut(s)	74
PaeI	GCATGC	1 cut(s)	74
PagI	TCATGA	1 cut(s)	469
PcsI	WCGNNNNNNNCGW	2 cut(s)	463, 511
PfeI	GAWTC	1 cut(s)	660
PflFI	GACNNNGTC	1 cut(s)	164
Ple19I	CGATCG	1 cut(s)	484
PleI	GAGTC	2 cut(s)	98, 301
PpsI	GAGTC	2 cut(s)	98, 301
PpuMI	RGGWCCY	1 cut(s)	288
Psp5II	RGGWCCY	1 cut(s)	288
PspN4I	GGNNCC	2 cut(s)	574, 593
PspPI	GGNCC	2 cut(s)	288, 707
PspPPI	RGGWCCY	1 cut(s)	288
PsyI	GACNNNGTC	1 cut(s)	164
PvuI	CGATCG	1 cut(s)	484
RruI	TCGCGA	1 cut(s)	81
RsaI	GTAC	1 cut(s)	725
RsaNI	GTAC	1 cut(s)	724
RseI	CAYNNNNRTG	3 cut(s)	167, 315, 381
Sau3AI	GATC	5 cut(s)	228, 327, 472, 481, 699
Sau96I	GGNCC	2 cut(s)	288, 707
SchI	GAGTC	2 cut(s)	98, 301
SduI	GDGCHC	1 cut(s)	594
SfaNI	GCATC	3 cut(s)	198, 204, 442
SfcI	CTRYAG	1 cut(s)	26
SinI	GGWCC	2 cut(s)	288, 707
SmiMI	CAYNNNNRTG	3 cut(s)	167, 315, 381
SmlI	CTYRAG	2 cut(s)	492, 508
SmoI	CTYRAG	2 cut(s)	492, 508
SphI	GCATGC	1 cut(s)	74
Sse9I	AATT	2 cut(s)	155, 713
SsiI	CCGC	1 cut(s)	193
SspMI	CTAG	2 cut(s)	447, 617
StyI	CCWWGG	3 cut(s)	568, 586, 616
TaaI	ACNGT	3 cut(s)	30, 166, 530
TaiI	ACGT	3 cut(s)	10, 469, 697
TaqI	TCGA	1 cut(s)	484
TasI	AATT	2 cut(s)	155, 713
TfiI	GAWTC	1 cut(s)	660
TscAI	CASTG	1 cut(s)	370
TseFI	GTSAC	3 cut(s)	8, 20, 101
Tsp45I	GTSAC	3 cut(s)	8, 20, 101
TspDTI	ATGAA	3 cut(s)	17, 28, 399
TspGWI	ACGGA	1 cut(s)	340
TspRI	CASTG	1 cut(s)	370
Tth111I	GACNNNGTC	1 cut(s)	164
VpaK11BI	GGWCC	2 cut(s)	288, 707
XapI	RAATTY	2 cut(s)	155, 713
XceI	RCATGY	1 cut(s)	74
XmaJI	CCTAGG	1 cut(s)	616
XspI	CTAG	2 cut(s)	447, 617
ZraI	GACGTC	1 cut(s)	467
Zsp2I	ATGCAT	1 cut(s)	630

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