Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0006436

Physical Location & Seq

Genomic Coordinates Forward (+)

71779290 .. 71779994

Gene Structure 705 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG450100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 297 bp

ATGTGTAGTTTTCTCAAAGGATGTAAGCTATGGCGTTATGCTACTGGAGATATTACTCAACCAACCAAGCTCAATAACGAAACTGATGACAAGTTTGCCGAACAACTTGAAGATTGGGACAGTAAGAACCATCAGGTCATCACTTGGTTTCGCAACACCTCATCTTCCTCAATCAACCATCAATTTGGCCCGTTCAACACAGCCAAGAGAGTTTGGAATTTTTTAAAGAAGCTCTATACAATCACAGATCTTGCTCACAGATATCAACTTTTGAGCACCCTTCACCGTATGCGCTAA

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

DUF4219 Retrotran_gag_2 gag_pre-integrs rve

Protein Analysis

98

Amino Acids

11.69

Weight (kDa)

9.47

Isoelectric Point (pI)

18.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Retrotran_gag_2	PF14223	5 - 97	3.9e-07	gag-polypeptide of LTR copia-type

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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: OG0006436)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G21280
fragaria_vesca	FvH4_3g37931 FvH4_3g37931 FvH4_3g37931
malus_domestica	MD01G1094300.v1.1 MD02G1156200.v1.1 MD10G1309400.v1.1 MD14G1005300.v1.1
pyrus_communis	pycom02g16670 pycom03g10030 pycom04g21390 pycom05g29420 pycom07g08570 pycom08g06430 pycom15g03080 pycom15g21690
rosa_chinensis	RchiOBHm_Chr4g0394011 RchiOBHm_Chr4g0436631
rosa_multiflora	Rmu_sc0002646.1_g000018 Rmu_sc0004135.1_g000007
rosa_roxburghii	Rroxscaffold_2G00099130
rosa_samantha	Rh1AG086000 Rh2BG003200 Rh5DG450100 Rh7AG095400
rosa_wichuraiana	Rw1G012660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcsI	RAATTY	1 cut(s)	217
AgsI	TTSAA	2 cut(s)	110, 196
AluBI	AGCT	3 cut(s)	28, 70, 232
AluI	AGCT	3 cut(s)	28, 70, 232
Alw21I	GWGCWC	1 cut(s)	278
AoxI	GGCC	1 cut(s)	187
ApoI	RAATTY	1 cut(s)	217
AspLEI	GCGC	1 cut(s)	294
AspS9I	GGNCC	1 cut(s)	188
AsuHPI	GGTGA	1 cut(s)	275
Bbv12I	GWGCWC	1 cut(s)	278
BccI	CCATC	2 cut(s)	138, 186
BglII	AGATCT	1 cut(s)	247
BmgT120I	GGNCC	1 cut(s)	188
BpmI	CTGGAG	1 cut(s)	66
Bse1I	ACTGG	1 cut(s)	49
BseGI	GGATG	1 cut(s)	26
BseNI	ACTGG	1 cut(s)	49
BshFI	GGCC	1 cut(s)	189
BsiHKAI	GWGCWC	1 cut(s)	278
BslFI	GGGAC	1 cut(s)	131
BsmFI	GGGAC	1 cut(s)	131
BsnI	GGCC	1 cut(s)	189
Bsp1286I	GDGCHC	1 cut(s)	278
Bsp143I	GATC	1 cut(s)	247
BspANI	GGCC	1 cut(s)	189
BsrI	ACTGG	1 cut(s)	49
BssMI	GATC	1 cut(s)	247
Bst4CI	ACNGT	2 cut(s)	122, 287
BstF5I	GGATG	1 cut(s)	26
BstHHI	GCGC	1 cut(s)	294
BstKTI	GATC	1 cut(s)	250
BstMBI	GATC	1 cut(s)	247
BstX2I	RGATCY	1 cut(s)	247
BstXI	CCANNNNNNTGG	1 cut(s)	185
BstYI	RGATCY	1 cut(s)	247
BsuRI	GGCC	1 cut(s)	189
BtsCI	GGATG	1 cut(s)	26
CfoI	GCGC	1 cut(s)	294
Cfr13I	GGNCC	1 cut(s)	188
CviJI	RGCY	5 cut(s)	28, 70, 189, 203, 232
CviKI_1	RGCY	5 cut(s)	28, 70, 189, 203, 232
DpnI	GATC	1 cut(s)	249
DpnII	GATC	1 cut(s)	247
DraI	TTTAAA	1 cut(s)	225
Eco32I	GATATC	1 cut(s)	263
EcoRV	GATATC	1 cut(s)	263
FaiI	YATR	4 cut(s)	31, 39, 237, 290
FaqI	GGGAC	1 cut(s)	131
FokI	GGATG	1 cut(s)	33
GlaI	GCGC	1 cut(s)	293
GsuI	CTGGAG	1 cut(s)	66
HaeIII	GGCC	1 cut(s)	189
HhaI	GCGC	1 cut(s)	294
Hin6I	GCGC	1 cut(s)	292
HinP1I	GCGC	1 cut(s)	292
HphI	GGTGA	1 cut(s)	275
HpyAV	CCTTC	1 cut(s)	290
HpyCH4III	ACNGT	2 cut(s)	122, 287
HspAI	GCGC	1 cut(s)	292
Kzo9I	GATC	1 cut(s)	247
LpnPI	CCDG	2 cut(s)	30, 119
MalI	GATC	1 cut(s)	249
MboI	GATC	1 cut(s)	247
MboII	GAAGA	2 cut(s)	122, 156
MflI	RGATCY	1 cut(s)	247
MhlI	GDGCHC	1 cut(s)	278
MluCI	AATT	2 cut(s)	182, 217
MnlI	CCTC	2 cut(s)	169, 178
MseI	TTAA	1 cut(s)	224
NdeII	GATC	1 cut(s)	247
PspPI	GGNCC	1 cut(s)	188
PsuI	RGATCY	1 cut(s)	247
SaqAI	TTAA	1 cut(s)	224
Sau3AI	GATC	1 cut(s)	247
Sau96I	GGNCC	1 cut(s)	188
SduI	GDGCHC	1 cut(s)	278
SetI	ASST	5 cut(s)	30, 72, 138, 161, 234
SgeI	CNNG	9 cut(s)	57, 79, 103, 119, 146, 156, 202, 217, 263
Sse9I	AATT	2 cut(s)	182, 217
TaaI	ACNGT	2 cut(s)	122, 287
TasI	AATT	2 cut(s)	182, 217
Tru1I	TTAA	1 cut(s)	224
Tru9I	TTAA	1 cut(s)	224
XapI	RAATTY	1 cut(s)	217

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