Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0005559

Physical Location & Seq

Genomic Coordinates Forward (+)

21155011 .. 21157650

Gene Structure 2640 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG115600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 870 bp

ATGGACTTATCTGGGTTTTATTCCGAGCAAGCATATGGCTCCAACACATATTCAATGTCCAAAAATAATTCATATTCATGGGATGCTCCTTCATGGCCACAACAAGAACCCTATAATTGCAACATGGGATGGGTAGATCATTCCAACTACTCATGGTCTGAAAATTCATATTATGAAACTGCACAGTGGTCGTATCCCTCTAGCAATGTCCCATTATCCTATCAAGCTCCAATCTATTTGCAAGAAGATCCTACTATAAAGGAGATGGTGGTTGAACTATTGAAGAGATCAGAAAAATTTGATCACGAGGTTGAAAGGCTTAAACATGATCAATCAAAGCTTGAAGAAAGGCAATCCAAGCTTGCACAAGCACTATTGGAAATTGAATTTCATATATCGGAGGTTGCTAATGCTTGGGAGTTAGAGGATGAAAGACATGCTAGTGGAAGAGAAGAAAATTTTGATCATAAGCCCGATGAGGAAGATGACTATTTTGAGCTAAATATTATTGATGATCAAGCTACCGAGAGCACCTATCTTCCTTCTTCTACTAAAGTTCCTATGAAGCTATGTGCTAACAAGCCAAAGAATGAAGAACCTGAATTTAAAGACGTGAGATCTCATACATTGGATGCTCTTGATGAAGTCACCACTGTGGTAGTTGATGCACCAAATTTTCAAGCATCTGTGGAGCACCAAATTTGTGAAGTTTTTCCTTCTTTACCCTTCGAGCTCGTTCTTCCCATTATTCCAGCTCCAAGACTTGAGCTCATATGTGCTCTCACGCCTCCCTCAAATTCTAAGGATGAGTTCCTCCCACAATCACTTCAACCTCCTTGGCCACCTCCTTTGCAATTGATGATGCTCTAA

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

Retrotrans_gag

Protein Analysis

289

Amino Acids

33.38

Weight (kDa)

4.43

Isoelectric Point (pI)

59.85

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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0005559)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0101141 RchiOBHm_Chr2g0146981 RchiOBHm_Chr6g0270591
rosa_laevigata	RLG00000006277 RLG00000008803
rosa_multiflora	Rmu_sc0000082.1_g000035 Rmu_sc0026180.1_g000001
rosa_roxburghii	Rroxscaffold_1G00045610 Rroxscaffold_2G00076120 Rroxscaffold_2G00139700 Rroxscaffold_3G00249380 Rroxscaffold_5G00347260 Rroxscaffold_5G00366700 Rroxscaffold_6G00413360
rosa_samantha	Rh1BG176700 Rh1DG115600 Rh1DG206200 Rh2BG631300 Rh3DG307000 Rh4BG059000 Rh4BG132000 Rh4BG315900 Rh4CG331400 Rh4DG065100 Rh5DG576200 Rh7BG306600 Rh7BG306700 Rh7BG307100 Rh7CG322600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	242
AcoI	YGGCCR	2 cut(s)	95, 839
AcsI	RAATTY	8 cut(s)	163, 296, 386, 457, 602, 673, 699, 796
AgsI	TTSAA	8 cut(s)	54, 275, 283, 314, 344, 386, 680, 830
AjiI	CACGTC	1 cut(s)	613
AleI	CACNNNNGTG	1 cut(s)	653
AluBI	AGCT	9 cut(s)	227, 340, 361, 499, 521, 568, 733, 755, 769
AluI	AGCT	9 cut(s)	227, 340, 361, 499, 521, 568, 733, 755, 769
Alw21I	GWGCWC	5 cut(s)	533, 696, 735, 771, 781
AlwI	GGATC	1 cut(s)	242
AoxI	GGCC	2 cut(s)	95, 839
ApoI	RAATTY	8 cut(s)	163, 296, 386, 457, 602, 673, 699, 796
Asp700I	GAANNNNTTC	1 cut(s)	711
AsuHPI	GGTGA	1 cut(s)	640
BalI	TGGCCA	2 cut(s)	97, 841
BanII	GRGCYC	2 cut(s)	735, 771
BauI	CACGAG	1 cut(s)	305
Bbv12I	GWGCWC	5 cut(s)	533, 696, 735, 771, 781
BccI	CCATC	2 cut(s)	123, 259
BcgI	CGANNNNNNTGC	2 cut(s)	171, 205
BciVI	GTATCC	1 cut(s)	204
BclI	TGATCA	4 cut(s)	301, 328, 463, 514
BfaI	CTAG	2 cut(s)	201, 441
BfuI	GTATCC	1 cut(s)	204
BglII	AGATCT	1 cut(s)	617
BmgBI	CACGTC	1 cut(s)	613
BmiI	GGNNCC	1 cut(s)	40
BmsI	GCATC	5 cut(s)	73, 622, 655, 692, 852
BpuEI	CTTGAG	1 cut(s)	785
BsaJI	CCNNGG	1 cut(s)	836
Bse3DI	GCAATG	1 cut(s)	211
BseDI	CCNNGG	1 cut(s)	836
BseGI	GGATG	5 cut(s)	88, 134, 433, 637, 811
BseMI	GCAATG	1 cut(s)	211
BsgI	GTGCAG	1 cut(s)	165
BshFI	GGCC	2 cut(s)	97, 841
BsiHKAI	GWGCWC	5 cut(s)	533, 696, 735, 771, 781
BslFI	GGGAC	1 cut(s)	194
BsmFI	GGGAC	1 cut(s)	194
BsnI	GGCC	2 cut(s)	97, 841
Bsp1286I	GDGCHC	5 cut(s)	533, 696, 735, 771, 781
Bsp143I	GATC	8 cut(s)	136, 247, 287, 301, 328, 463, 514, 617
BspANI	GGCC	2 cut(s)	97, 841
BspLI	GGNNCC	1 cut(s)	40
BspPI	GGATC	1 cut(s)	242
BsrDI	GCAATG	1 cut(s)	211
BssECI	CCNNGG	1 cut(s)	836
BssMI	GATC	8 cut(s)	136, 247, 287, 301, 328, 463, 514, 617
BssSI	CACGAG	1 cut(s)	305
BssT1I	CCWWGG	1 cut(s)	836
Bst2BI	CACGAG	1 cut(s)	305
Bst4CI	ACNGT	2 cut(s)	186, 655
Bst6I	CTCTTC	2 cut(s)	278, 442
BstC8I	GCNNGC	2 cut(s)	30, 363
BstDEI	CTNAG	1 cut(s)	801
BstF5I	GGATG	5 cut(s)	88, 134, 433, 637, 811
BstKTI	GATC	8 cut(s)	139, 250, 290, 304, 331, 466, 517, 620
BstMBI	GATC	8 cut(s)	136, 247, 287, 301, 328, 463, 514, 617
BstMWI	GCNNNNNNNGC	1 cut(s)	358
BstNSI	RCATGY	1 cut(s)	440
BstX2I	RGATCY	2 cut(s)	247, 617
BstYI	RGATCY	2 cut(s)	247, 617
BsuI	GTATCC	1 cut(s)	204
BsuRI	GGCC	2 cut(s)	97, 841
BtrI	CACGTC	1 cut(s)	613
BtsCI	GGATG	5 cut(s)	88, 134, 433, 637, 811
BtsIMutI	CAGTG	2 cut(s)	191, 651
Cac8I	GCNNGC	2 cut(s)	30, 363
CspCI	CAANNNNNGTGG	2 cut(s)	831, 866
CviAII	CATG	6 cut(s)	78, 93, 124, 153, 326, 437
DdeI	CTNAG	1 cut(s)	801
DpnI	GATC	8 cut(s)	138, 249, 289, 303, 330, 465, 516, 619
DpnII	GATC	8 cut(s)	136, 247, 287, 301, 328, 463, 514, 617
DraI	TTTAAA	1 cut(s)	607
EaeI	YGGCCR	2 cut(s)	95, 839
Eam1104I	CTCTTC	2 cut(s)	278, 442
EarI	CTCTTC	2 cut(s)	278, 442
Ecl136II	GAGCTC	2 cut(s)	733, 769
Eco130I	CCWWGG	1 cut(s)	836
Eco24I	GRGCYC	2 cut(s)	735, 771
Eco53kI	GAGCTC	2 cut(s)	733, 769
EcoICRI	GAGCTC	2 cut(s)	733, 769
EcoT14I	CCWWGG	1 cut(s)	836
EcoT38I	GRGCYC	2 cut(s)	735, 771
ErhI	CCWWGG	1 cut(s)	836
FaeI	CATG	6 cut(s)	81, 96, 127, 156, 329, 440
FaqI	GGGAC	1 cut(s)	194
FatI	CATG	6 cut(s)	77, 92, 123, 152, 325, 436
FauNDI	CATATG	2 cut(s)	34, 773
FbaI	TGATCA	4 cut(s)	301, 328, 463, 514
FokI	GGATG	5 cut(s)	95, 141, 440, 644, 818
FriOI	GRGCYC	2 cut(s)	735, 771
FspBI	CTAG	2 cut(s)	201, 441
HaeIII	GGCC	2 cut(s)	97, 841
Hin1II	CATG	6 cut(s)	81, 96, 127, 156, 329, 440
HindIII	AAGCTT	2 cut(s)	338, 359
HphI	GGTGA	1 cut(s)	640
Hpy188I	TCNGA	4 cut(s)	25, 160, 292, 400
Hpy188III	TCNNGA	2 cut(s)	305, 638
HpyAV	CCTTC	4 cut(s)	99, 552, 726, 736
HpyCH4III	ACNGT	2 cut(s)	186, 655
HpyCH4IV	ACGT	1 cut(s)	612
HpyCH4V	TGCA	6 cut(s)	120, 182, 241, 365, 668, 853
HpyF10VI	GCNNNNNNNGC	1 cut(s)	358
HpyF3I	CTNAG	1 cut(s)	801
HpySE526I	ACGT	1 cut(s)	612
Hsp92II	CATG	6 cut(s)	81, 96, 127, 156, 329, 440
Ksp22I	TGATCA	4 cut(s)	301, 328, 463, 514
Kzo9I	GATC	8 cut(s)	136, 247, 287, 301, 328, 463, 514, 617
LmnI	GCTCC	5 cut(s)	44, 91, 232, 691, 760
LpnPI	CCDG	2 cut(s)	612, 765
LweI	GCATC	5 cut(s)	73, 622, 655, 692, 852
MaeI	CTAG	2 cut(s)	201, 441
MaeII	ACGT	1 cut(s)	612
MaeIII	GTNAC	1 cut(s)	646
MalI	GATC	8 cut(s)	138, 249, 289, 303, 330, 465, 516, 619
MboI	GATC	8 cut(s)	136, 247, 287, 301, 328, 463, 514, 617
MfeI	CAATTG	1 cut(s)	854
MflI	RGATCY	2 cut(s)	247, 617
MhlI	GDGCHC	5 cut(s)	533, 696, 735, 771, 781
MlsI	TGGCCA	2 cut(s)	97, 841
MluNI	TGGCCA	2 cut(s)	97, 841
MmeI	TCCRAC	2 cut(s)	66, 168
Mox20I	TGGCCA	2 cut(s)	97, 841
MroXI	GAANNNNTTC	1 cut(s)	711
MscI	TGGCCA	2 cut(s)	97, 841
MseI	TTAA	2 cut(s)	321, 606
MslI	CAYNNNNRTG	3 cut(s)	76, 441, 653
Msp20I	TGGCCA	2 cut(s)	97, 841
MunI	CAATTG	1 cut(s)	854
MwoI	GCNNNNNNNGC	1 cut(s)	358
NdeI	CATATG	2 cut(s)	34, 773
NdeII	GATC	8 cut(s)	136, 247, 287, 301, 328, 463, 514, 617
NlaIII	CATG	6 cut(s)	81, 96, 127, 156, 329, 440
NlaIV	GGNNCC	1 cut(s)	40
NmuCI	GTSAC	1 cut(s)	646
NspI	RCATGY	1 cut(s)	440
OliI	CACNNNNGTG	1 cut(s)	653
PdmI	GAANNNNTTC	1 cut(s)	711
Psp124BI	GAGCTC	2 cut(s)	735, 771
PspN4I	GGNNCC	1 cut(s)	40
PsuI	RGATCY	2 cut(s)	247, 617
RseI	CAYNNNNRTG	3 cut(s)	76, 441, 653
SacI	GAGCTC	2 cut(s)	735, 771
SaqAI	TTAA	2 cut(s)	321, 606
Sau3AI	GATC	8 cut(s)	136, 247, 287, 301, 328, 463, 514, 617
SduI	GDGCHC	5 cut(s)	533, 696, 735, 771, 781
SfaNI	GCATC	5 cut(s)	73, 622, 655, 692, 852
SmiMI	CAYNNNNRTG	3 cut(s)	76, 441, 653
SmlI	CTYRAG	1 cut(s)	764
SmoI	CTYRAG	1 cut(s)	764
SspI	AATATT	1 cut(s)	505
SspMI	CTAG	2 cut(s)	201, 441
SstI	GAGCTC	2 cut(s)	735, 771
StyI	CCWWGG	1 cut(s)	836
TaaI	ACNGT	2 cut(s)	186, 655
TaiI	ACGT	1 cut(s)	615
TaqI	TCGA	1 cut(s)	729
Tru1I	TTAA	2 cut(s)	321, 606
Tru9I	TTAA	2 cut(s)	321, 606
TscAI	CASTG	2 cut(s)	191, 658
TseFI	GTSAC	1 cut(s)	646
Tsp45I	GTSAC	1 cut(s)	646
TspRI	CASTG	2 cut(s)	191, 658
XapI	RAATTY	8 cut(s)	163, 296, 386, 457, 602, 673, 699, 796
XceI	RCATGY	1 cut(s)	440
XmnI	GAANNNNTTC	1 cut(s)	711
XspI	CTAG	2 cut(s)	201, 441

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