Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0014066

Physical Location & Seq

Genomic Coordinates Reverse (-)

7520004 .. 7520273

Gene Structure 270 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0087200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 270 bp

ATGGTTGAAAGTGATTGCCAAGTAGCAGTGGGGGCTGTCAATAGTGAGCTTGATGACCTATCTCAGCTTAGTGCTCTTATTGTAGAAGTTAAAGGTCTCCTAGATCCTAGTGAAGATATCAGTATTAGGTTTGTTTCTCGACATGCCAATACAGTAGCTCATAGGTTAGTCAATCACGGTTTTGAAGCTAATGTCGATCATGAATGGTTTGTAAATGCTCCAGACTTATTACTGGATGCCCTCATGTACGATCTTAATCGTACTCATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000785 GO:0000790 GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006950 GO:0006952 GO:0008150 GO:0009605 GO:0009607 GO:0009617 GO:0010035 GO:0010038 GO:0016514 GO:0030312 GO:0031974 GO:0031981 GO:0032991 GO:0042221 GO:0042742 GO:0043207 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0046686 GO:0050896 GO:0051704 GO:0051707 GO:0070013 GO:0070603 GO:0071944 GO:0098542 GO:1902494 GO:1904949

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HSA Helicase_C Myb_DNA-bind_6 SNF2_N

Protein Analysis

89

Amino Acids

9.9

Weight (kDa)

4.52

Isoelectric Point (pI)

21.55

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	2 - 59	7.7e-08	Reverse transcriptase-like

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0014066)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G12810 AT3G12810
fragaria_vesca	FvH4_3g15170
malus_domestica	MD10G1206600.v1.1
prunus_persica	Prupe.4G135700_v2.0.a1 Prupe.4G135700_v2.0.a1
pyrus_communis	pycom10g17640
rosa_chinensis	RchiOBHm_Chr5g0025621
rosa_laevigata	RLG00000032852
rosa_multiflora	Rmu_sc0004107.1_g000018
rosa_roxburghii	Rroxscaffold_1G00054140
rosa_rugosa	Rorug05G0087200
rosa_samantha	Rh5AG179000 Rh5BG178100 Rh5CG195700 Rh5DG177300
rosa_wichuraiana	Rw5G016250

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	98
AfaI	GTAC	2 cut(s)	248, 262
AgsI	TTSAA	2 cut(s)	8, 185
AluBI	AGCT	4 cut(s)	49, 67, 158, 188
AluI	AGCT	4 cut(s)	49, 67, 158, 188
Alw21I	GWGCWC	1 cut(s)	76
Alw26I	GTCTC	1 cut(s)	101
AlwI	GGATC	1 cut(s)	98
Bbv12I	GWGCWC	1 cut(s)	76
BcoDI	GTCTC	1 cut(s)	101
BfaI	CTAG	2 cut(s)	101, 108
BmsI	GCATC	1 cut(s)	226
BpmI	CTGGAG	1 cut(s)	204
BsaBI	GATNNNNATC	1 cut(s)	255
BsaI	GGTCTC	1 cut(s)	101
Bse1I	ACTGG	1 cut(s)	237
Bse8I	GATNNNNATC	1 cut(s)	255
BseGI	GGATG	1 cut(s)	241
BseJI	GATNNNNATC	1 cut(s)	255
BseMII	CTCAG	1 cut(s)	77
BseNI	ACTGG	1 cut(s)	237
BsiHKAI	GWGCWC	1 cut(s)	76
BsmAI	GTCTC	1 cut(s)	101
Bso31I	GGTCTC	1 cut(s)	101
Bsp1286I	GDGCHC	1 cut(s)	76
Bsp143I	GATC	3 cut(s)	103, 196, 250
BspCNI	CTCAG	1 cut(s)	76
BspHI	TCATGA	1 cut(s)	199
BspPI	GGATC	1 cut(s)	98
BspTNI	GGTCTC	1 cut(s)	101
BsrI	ACTGG	1 cut(s)	237
BssMI	GATC	3 cut(s)	103, 196, 250
Bst4CI	ACNGT	2 cut(s)	154, 179
BstDEI	CTNAG	2 cut(s)	63, 68
BstF5I	GGATG	1 cut(s)	241
BstKTI	GATC	3 cut(s)	106, 199, 253
BstMAI	GTCTC	1 cut(s)	101
BstMBI	GATC	3 cut(s)	103, 196, 250
BstMWI	GCNNNNNNNGC	1 cut(s)	32
BstNSI	RCATGY	1 cut(s)	146
BstX2I	RGATCY	1 cut(s)	103
BstYI	RGATCY	1 cut(s)	103
BtsCI	GGATG	1 cut(s)	241
BtsI	GCAGTG	1 cut(s)	33
BtsIMutI	CAGTG	1 cut(s)	33
CciI	TCATGA	1 cut(s)	199
Csp6I	GTAC	2 cut(s)	247, 261
CviAII	CATG	3 cut(s)	143, 200, 244
CviJI	RGCY	5 cut(s)	35, 49, 67, 158, 188
CviKI_1	RGCY	5 cut(s)	35, 49, 67, 158, 188
CviQI	GTAC	2 cut(s)	247, 261
DdeI	CTNAG	2 cut(s)	63, 68
DpnI	GATC	3 cut(s)	105, 198, 252
DpnII	GATC	3 cut(s)	103, 196, 250
Eco31I	GGTCTC	1 cut(s)	101
Eco32I	GATATC	1 cut(s)	118
EcoRV	GATATC	1 cut(s)	118
FaeI	CATG	3 cut(s)	146, 203, 247
FaiI	YATR	4 cut(s)	144, 162, 201, 245
FatI	CATG	3 cut(s)	142, 199, 243
FokI	GGATG	1 cut(s)	248
FspBI	CTAG	2 cut(s)	101, 108
GsuI	CTGGAG	1 cut(s)	204
Hin1II	CATG	3 cut(s)	146, 203, 247
Hpy188III	TCNNGA	3 cut(s)	138, 200, 221
HpyCH4III	ACNGT	2 cut(s)	154, 179
HpyF10VI	GCNNNNNNNGC	1 cut(s)	32
HpyF3I	CTNAG	2 cut(s)	63, 68
Hsp92II	CATG	3 cut(s)	146, 203, 247
Kzo9I	GATC	3 cut(s)	103, 196, 250
LmnI	GCTCC	1 cut(s)	223
LpnPI	CCDG	2 cut(s)	218, 234
LweI	GCATC	1 cut(s)	226
MaeI	CTAG	2 cut(s)	101, 108
MalI	GATC	3 cut(s)	105, 198, 252
MboI	GATC	3 cut(s)	103, 196, 250
MboII	GAAGA	1 cut(s)	125
MflI	RGATCY	1 cut(s)	103
MhlI	GDGCHC	1 cut(s)	76
MnlI	CCTC	1 cut(s)	251
MseI	TTAA	3 cut(s)	90, 255, 268
MwoI	GCNNNNNNNGC	1 cut(s)	32
NdeII	GATC	3 cut(s)	103, 196, 250
NlaIII	CATG	3 cut(s)	146, 203, 247
NspI	RCATGY	1 cut(s)	146
PagI	TCATGA	1 cut(s)	199
PsuI	RGATCY	1 cut(s)	103
RsaI	GTAC	2 cut(s)	248, 262
RsaNI	GTAC	2 cut(s)	247, 261
SaqAI	TTAA	3 cut(s)	90, 255, 268
Sau3AI	GATC	3 cut(s)	103, 196, 250
SduI	GDGCHC	1 cut(s)	76
SetI	ASST	8 cut(s)	51, 60, 69, 97, 131, 160, 167, 190
SfaNI	GCATC	1 cut(s)	226
SspMI	CTAG	2 cut(s)	101, 108
TaaI	ACNGT	2 cut(s)	154, 179
TaqI	TCGA	2 cut(s)	139, 195
Tru1I	TTAA	3 cut(s)	90, 255, 268
Tru9I	TTAA	3 cut(s)	90, 255, 268
TscAI	CASTG	1 cut(s)	33
TspDTI	ATGAA	1 cut(s)	216
TspRI	CASTG	1 cut(s)	33
XceI	RCATGY	1 cut(s)	146
XspI	CTAG	2 cut(s)	101, 108

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