Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0008406

Physical Location & Seq

Genomic Coordinates Reverse (-)

15111326 .. 15111682

Gene Structure 357 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0095900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 357 bp

ATGTTAATTCTGCAAAGCATGCATGTTGAACTGTTAGCCATTAGAGCTGGTGTTGACCTTGCCAAGCAGCTGCAACTTCACCAAGCAACAATTGAATCCGATTGCCTGCAAGCGGTTCAAGATATTGCATTTGCAGATTATCAGTCTTTGGACTTTGGAAGTATCATAGACGACATTCGAGTTGGGATGATGGACATTCAGGGGGTACAAATCTATTTTGCACCTAGAACGAGCAACAAAGTTGCTCACAGGCTAGCCAATATGGCTTTTGAATCAGATCAAAATGAAACTTGGTTTGGTTCAATTCCAAATTGTATTTTGGACATTGTACAAGAGGAGACTCATCCTCCTATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000373 GO:0000375 GO:0000377 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009451 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0022414 GO:0031425 GO:0032501 GO:0032502 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0061458 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3

Protein Analysis

118

Amino Acids

13.23

Weight (kDa)

4.43

Isoelectric Point (pI)

48.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	6 - 89	6.2e-12	Reverse transcriptase-like

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0008406)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G39620 AT4G39620
fragaria_vesca	FvH4_4g12030 FvH4_4g12030
malus_domestica	MD03G1187700.v1.1 MD11G1203200.v1.1
prunus_persica	Prupe.4G236100_v2.0.a1
pyrus_communis	pycom03g14050 pycom11g17630
rosa_chinensis	RchiOBHm_Chr4g0409671
rosa_laevigata	RLG00000008536
rosa_multiflora	Rmu_co8330861.1_g000001 Rmu_sc0008746.1_g000016 Rmu_sc0015305.1_g000009
rosa_roxburghii	Rroxscaffold_5G00354190
rosa_rugosa	Rorug04G0095900 Rorug04G0096000
rosa_samantha	Rh4AG157400 Rh4BG157000 Rh4CG167600 Rh4DG151400
rosa_wichuraiana	Rw4G012880 Rw4G012990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	113
AfaI	GTAC	2 cut(s)	207, 330
AfiI	CCNNNNNNNGG	1 cut(s)	112
AgsI	TTSAA	5 cut(s)	29, 95, 119, 272, 303
AjuI	GAANNNNNNNTTGG	2 cut(s)	279, 311
AluBI	AGCT	2 cut(s)	47, 70
AluI	AGCT	2 cut(s)	47, 70
Alw26I	GTCTC	1 cut(s)	332
ApeKI	GCWGC	2 cut(s)	67, 70
AsuHPI	GGTGA	1 cut(s)	71
AsuNHI	GCTAGC	1 cut(s)	253
BbvI	GCAGC	2 cut(s)	57, 79
BccI	CCATC	1 cut(s)	184
BcoDI	GTCTC	1 cut(s)	332
BfaI	CTAG	2 cut(s)	225, 254
BglI	GCCNNNNNGGC	1 cut(s)	263
BisI	GCNGC	2 cut(s)	68, 71
BlsI	GCNGC	2 cut(s)	69, 72
BmtI	GCTAGC	1 cut(s)	257
BsaXI	ACNNNNNCTCC	1 cut(s)	331
Bsc4I	CCNNNNNNNGG	1 cut(s)	112
BseGI	GGATG	2 cut(s)	192, 343
BseLI	CCNNNNNNNGG	1 cut(s)	112
BseRI	GAGGAG	1 cut(s)	350
BseXI	GCAGC	2 cut(s)	57, 79
BslI	CCNNNNNNNGG	1 cut(s)	112
BsmAI	GTCTC	1 cut(s)	332
Bsp1407I	TGTACA	1 cut(s)	328
Bsp143I	GATC	1 cut(s)	277
BspACI	CCGC	1 cut(s)	113
BspOI	GCTAGC	1 cut(s)	257
BsrGI	TGTACA	1 cut(s)	328
BssMI	GATC	1 cut(s)	277
Bst4CI	ACNGT	1 cut(s)	33
BstAPI	GCANNNNNTGC	1 cut(s)	19
BstAUI	TGTACA	1 cut(s)	328
BstC8I	GCNNGC	4 cut(s)	20, 107, 111, 255
BstF5I	GGATG	2 cut(s)	192, 343
BstKTI	GATC	1 cut(s)	280
BstMAI	GTCTC	1 cut(s)	332
BstMBI	GATC	1 cut(s)	277
BstMWI	GCNNNNNNNGC	3 cut(s)	19, 44, 263
BstNSI	RCATGY	2 cut(s)	22, 26
BstV1I	GCAGC	2 cut(s)	57, 79
BtsCI	GGATG	2 cut(s)	192, 343
Cac8I	GCNNGC	4 cut(s)	20, 107, 111, 255
Csp6I	GTAC	2 cut(s)	206, 329
CviAII	CATG	2 cut(s)	19, 23
CviJI	RGCY	6 cut(s)	38, 47, 70, 253, 257, 266
CviKI_1	RGCY	6 cut(s)	38, 47, 70, 253, 257, 266
CviQI	GTAC	2 cut(s)	206, 329
DpnI	GATC	1 cut(s)	279
DpnII	GATC	1 cut(s)	277
EcoT22I	ATGCAT	1 cut(s)	24
FaeI	CATG	2 cut(s)	22, 26
FaiI	YATR	4 cut(s)	20, 24, 167, 263
FatI	CATG	2 cut(s)	18, 22
Fnu4HI	GCNGC	2 cut(s)	68, 71
FokI	GGATG	2 cut(s)	199, 330
Fsp4HI	GCNGC	2 cut(s)	68, 71
FspBI	CTAG	2 cut(s)	225, 254
GluI	GCNGC	2 cut(s)	68, 71
Hin1II	CATG	2 cut(s)	22, 26
HincII	GTYRAC	1 cut(s)	55
HindII	GTYRAC	1 cut(s)	55
HinfI	GANTC	3 cut(s)	95, 272, 340
HphI	GGTGA	1 cut(s)	71
Hpy166II	GTNNAC	1 cut(s)	55
Hpy188I	TCNGA	2 cut(s)	100, 277
Hpy188III	TCNNGA	1 cut(s)	119
Hpy8I	GTNNAC	1 cut(s)	55
HpyCH4III	ACNGT	1 cut(s)	33
HpyCH4V	TGCA	7 cut(s)	13, 22, 73, 109, 128, 134, 221
HpyF10VI	GCNNNNNNNGC	3 cut(s)	19, 44, 263
Hsp92II	CATG	2 cut(s)	22, 26
Kzo9I	GATC	1 cut(s)	277
LpnPI	CCDG	4 cut(s)	33, 119, 185, 235
Lsp1109I	GCAGC	2 cut(s)	57, 79
MaeI	CTAG	2 cut(s)	225, 254
MalI	GATC	1 cut(s)	279
MboI	GATC	1 cut(s)	277
MfeI	CAATTG	1 cut(s)	90
MluCI	AATT	4 cut(s)	6, 90, 303, 310
MlyI	GAGTC	1 cut(s)	334
MnlI	CCTC	2 cut(s)	328, 357
Mph1103I	ATGCAT	1 cut(s)	24
MseI	TTAA	1 cut(s)	5
MspA1I	CMGCKG	1 cut(s)	70
MunI	CAATTG	1 cut(s)	90
MwoI	GCNNNNNNNGC	3 cut(s)	19, 44, 263
NdeII	GATC	1 cut(s)	277
NheI	GCTAGC	1 cut(s)	253
NlaIII	CATG	2 cut(s)	22, 26
NsiI	ATGCAT	1 cut(s)	24
NspI	RCATGY	2 cut(s)	22, 26
PaeI	GCATGC	1 cut(s)	22
PfeI	GAWTC	2 cut(s)	95, 272
PkrI	GCNGC	2 cut(s)	69, 72
PleI	GAGTC	1 cut(s)	334
PpsI	GAGTC	1 cut(s)	334
PvuII	CAGCTG	1 cut(s)	70
RsaI	GTAC	2 cut(s)	207, 330
RsaNI	GTAC	2 cut(s)	206, 329
SaqAI	TTAA	1 cut(s)	5
SatI	GCNGC	2 cut(s)	68, 71
Sau3AI	GATC	1 cut(s)	277
SchI	GAGTC	1 cut(s)	334
SetI	ASST	4 cut(s)	49, 60, 72, 226
SphI	GCATGC	1 cut(s)	22
Sse9I	AATT	4 cut(s)	6, 90, 303, 310
SsiI	CCGC	1 cut(s)	113
SspMI	CTAG	2 cut(s)	225, 254
TaaI	ACNGT	1 cut(s)	33
TaqI	TCGA	1 cut(s)	178
TasI	AATT	4 cut(s)	6, 90, 303, 310
TatI	WGTACW	1 cut(s)	328
TfiI	GAWTC	2 cut(s)	95, 272
Tru1I	TTAA	1 cut(s)	5
Tru9I	TTAA	1 cut(s)	5
TseI	GCWGC	2 cut(s)	67, 70
TspDTI	ATGAA	1 cut(s)	300
XceI	RCATGY	2 cut(s)	22, 26
XspI	CTAG	2 cut(s)	225, 254
Zsp2I	ATGCAT	1 cut(s)	24

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