Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0004276

Physical Location & Seq

Genomic Coordinates Forward (+)

40796431 .. 40796781

Gene Structure 351 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0336200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 351 bp

ATGCCCTTGTGGCGGAGGCTAACCCTAAACACTGTTCTCCTACACCACCATCCCAATGTAATAGTGGAAGGGGATTCCAAGCTCCTAATTGACTGTATTAAAGGCAAATGCCAGATTCCCTGGAGGATTCGGACTCTAATTTATGACATTAAGTCCCTGTTTCTTCAGTTTCAGTCAATTATTTTCCGACACACATACCGTGAGGCCAATTTTGTAGAAGATCGGTTAGCTTTGGCAACTCATACTTCTAATAATCTTTCTGTCCGGTTCTTTTGTTTACCCCTTTCGGTGTCCTCAGCGTTCCAGTTGGATCAGCTGGGAGGGGGTGTTTGTAGAGACTTTGTTTTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000213 GO:0000214 GO:0000278 GO:0000281 GO:0000379 GO:0000394 GO:0000910 GO:0003006 GO:0003674 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004540 GO:0004549 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006388 GO:0006396 GO:0006399 GO:0006725 GO:0006807 GO:0007049 GO:0007275 GO:0008033 GO:0008150 GO:0008152 GO:0008356 GO:0008380 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010069 GO:0010070 GO:0010154 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0016892 GO:0016894 GO:0022402 GO:0022414 GO:0032501 GO:0032502 GO:0032991 GO:0034470 GO:0034641 GO:0034660 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0051301 GO:0061458 GO:0061640 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0140098 GO:0140101 GO:1901360 GO:1902494 GO:1902555 GO:1903047 GO:1905348

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

tRNA_int_endo tRNA_int_endo_N

Protein Analysis

116

Amino Acids

13.47

Weight (kDa)

9.13

Isoelectric Point (pI)

28.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	9 - 77	9.6e-11	Reverse transcriptase-like

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

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Orthologous Genes (Group: OG0004276)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G38890
fragaria_vesca	FvH4_6g01503 FvH4_6g01503 FvH4_6g01503 FvH4_6g01503 FvH4_6g01510
malus_domestica	MD11G1123700.v1.1 MD11G1124300.v1.1 MD12G1250600.v1.1
prunus_persica	Prupe.6G093000_v2.0.a1 Prupe.6G093000_v2.0.a1 Prupe.6G352700_v2.0.a1 Prupe.6G352700_v2.0.a1
pyrus_communis	pycom11g10450 pycom12g23060
rosa_chinensis	RchiOBHm_Chr3g0449171 RchiOBHm_Chr3g0449181 RchiOBHm_Chr5g0061031
rosa_laevigata	RLG00000035421
rosa_multiflora	Rmu_co8387241.1_g000001 Rmu_sc0000640.1_g000004 Rmu_sc0004874.1_g000009 Rmu_sc0006661.1_g000007
rosa_roxburghii	Rroxscaffold_1G00019610 Rroxscaffold_6G00427230
rosa_rugosa	Rorug02G0618600 Rorug05G0336200
rosa_samantha	Rh1AG412000 Rh3AG016900
rosa_wichuraiana	Rw3G001270 Rw3G001280 Rw5G037580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	13
AclWI	GGATC	1 cut(s)	318
AcuI	CTGAAG	1 cut(s)	149
AfiI	CCNNNNNNNGG	1 cut(s)	12
AhdI	GACNNNNNGTC	1 cut(s)	151
AjnI	CCWGG	1 cut(s)	119
AluBI	AGCT	3 cut(s)	82, 230, 316
AluI	AGCT	3 cut(s)	82, 230, 316
Alw26I	GTCTC	1 cut(s)	330
AlwI	GGATC	1 cut(s)	318
AoxI	GGCC	1 cut(s)	204
BbvCI	CCTCAGC	1 cut(s)	295
BccI	CCATC	1 cut(s)	57
BciT130I	CCWGG	1 cut(s)	121
BcoDI	GTCTC	1 cut(s)	330
BglI	GCCNNNNNGGC	1 cut(s)	10
Bme1390I	CCNGG	1 cut(s)	121
BmeRI	GACNNNNNGTC	1 cut(s)	151
BmrFI	CCNGG	1 cut(s)	121
BpmI	CTGGAG	1 cut(s)	142
Bpu10I	CCTNAGC	1 cut(s)	295
BsaJI	CCNNGG	1 cut(s)	119
BsaWI	WCCGGW	1 cut(s)	264
BsaXI	ACNNNNNCTCC	2 cut(s)	312, 342
Bsc4I	CCNNNNNNNGG	1 cut(s)	12
Bse1I	ACTGG	1 cut(s)	304
BseBI	CCWGG	1 cut(s)	121
BseDI	CCNNGG	1 cut(s)	119
BseGI	GGATG	1 cut(s)	49
BseLI	CCNNNNNNNGG	1 cut(s)	12
BseMII	CTCAG	1 cut(s)	309
BseNI	ACTGG	1 cut(s)	304
BseYI	CCCAGC	1 cut(s)	316
BshFI	GGCC	1 cut(s)	206
BsiSI	CCGG	1 cut(s)	265
BslFI	GGGAC	1 cut(s)	139
BslI	CCNNNNNNNGG	1 cut(s)	12
BsmAI	GTCTC	1 cut(s)	330
BsmFI	GGGAC	1 cut(s)	139
BsnI	GGCC	1 cut(s)	206
Bsp143I	GATC	2 cut(s)	220, 310
BspACI	CCGC	1 cut(s)	13
BspANI	GGCC	1 cut(s)	206
BspCNI	CTCAG	1 cut(s)	308
BspPI	GGATC	1 cut(s)	318
BsrI	ACTGG	1 cut(s)	304
BssECI	CCNNGG	1 cut(s)	119
BssMI	GATC	2 cut(s)	220, 310
Bst2UI	CCWGG	1 cut(s)	121
Bst4CI	ACNGT	3 cut(s)	34, 95, 200
BstDEI	CTNAG	1 cut(s)	295
BstF5I	GGATG	1 cut(s)	49
BstKTI	GATC	2 cut(s)	223, 313
BstMAI	GTCTC	1 cut(s)	330
BstMBI	GATC	2 cut(s)	220, 310
BstMWI	GCNNNNNNNGC	1 cut(s)	10
BstNI	CCWGG	1 cut(s)	121
BstSCI	CCNGG	1 cut(s)	119
BsuRI	GGCC	1 cut(s)	206
BtsCI	GGATG	1 cut(s)	49
BtsIMutI	CAGTG	1 cut(s)	30
CviJI	RGCY	5 cut(s)	19, 82, 206, 230, 316
CviKI_1	RGCY	5 cut(s)	19, 82, 206, 230, 316
DdeI	CTNAG	1 cut(s)	295
DpnI	GATC	2 cut(s)	222, 312
DpnII	GATC	2 cut(s)	220, 310
DriI	GACNNNNNGTC	1 cut(s)	151
Eam1105I	GACNNNNNGTC	1 cut(s)	151
EciI	GGCGGA	1 cut(s)	28
Eco57I	CTGAAG	1 cut(s)	149
EcoRII	CCWGG	1 cut(s)	119
FaiI	YATR	3 cut(s)	144, 196, 243
FaqI	GGGAC	1 cut(s)	139
FokI	GGATG	1 cut(s)	36
GsaI	CCCAGC	1 cut(s)	320
GsuI	CTGGAG	1 cut(s)	142
HaeIII	GGCC	1 cut(s)	206
HapII	CCGG	1 cut(s)	265
HinfI	GANTC	4 cut(s)	74, 115, 127, 133
HpaII	CCGG	1 cut(s)	265
Hpy166II	GTNNAC	1 cut(s)	278
Hpy188I	TCNGA	2 cut(s)	132, 188
Hpy8I	GTNNAC	1 cut(s)	278
HpyAV	CCTTC	1 cut(s)	62
HpyCH4III	ACNGT	3 cut(s)	34, 95, 200
HpyF10VI	GCNNNNNNNGC	1 cut(s)	10
HpyF3I	CTNAG	1 cut(s)	295
Kzo9I	GATC	2 cut(s)	220, 310
LmnI	GCTCC	1 cut(s)	87
LpnPI	CCDG	7 cut(s)	106, 125, 133, 170, 278, 302, 317
MalI	GATC	2 cut(s)	222, 312
MboI	GATC	2 cut(s)	220, 310
MboII	GAAGA	2 cut(s)	155, 230
MluCI	AATT	4 cut(s)	87, 138, 177, 208
MlyI	GAGTC	1 cut(s)	127
MmeI	TCCRAC	2 cut(s)	211, 288
MnlI	CCTC	5 cut(s)	9, 117, 196, 304, 314
MseI	TTAA	2 cut(s)	99, 150
MslI	CAYNNNNRTG	1 cut(s)	54
MspA1I	CMGCKG	1 cut(s)	316
MspI	CCGG	1 cut(s)	265
MspR9I	CCNGG	1 cut(s)	121
MvaI	CCWGG	1 cut(s)	121
MwoI	GCNNNNNNNGC	1 cut(s)	10
NdeII	GATC	2 cut(s)	220, 310
PfeI	GAWTC	3 cut(s)	74, 115, 127
PleI	GAGTC	1 cut(s)	127
PpsI	GAGTC	1 cut(s)	127
Psp6I	CCWGG	1 cut(s)	119
PspFI	CCCAGC	1 cut(s)	316
PspGI	CCWGG	1 cut(s)	119
PvuII	CAGCTG	1 cut(s)	316
RseI	CAYNNNNRTG	1 cut(s)	54
SaqAI	TTAA	2 cut(s)	99, 150
Sau3AI	GATC	2 cut(s)	220, 310
SchI	GAGTC	1 cut(s)	127
ScrFI	CCNGG	1 cut(s)	121
SetI	ASST	3 cut(s)	84, 232, 318
SmiMI	CAYNNNNRTG	1 cut(s)	54
Sse9I	AATT	4 cut(s)	87, 138, 177, 208
SsiI	CCGC	1 cut(s)	13
StyD4I	CCNGG	1 cut(s)	119
TaaI	ACNGT	3 cut(s)	34, 95, 200
TasI	AATT	4 cut(s)	87, 138, 177, 208
TfiI	GAWTC	3 cut(s)	74, 115, 127
Tru1I	TTAA	2 cut(s)	99, 150
Tru9I	TTAA	2 cut(s)	99, 150
TscAI	CASTG	1 cut(s)	37
TspRI	CASTG	1 cut(s)	37
XcmI	CCANNNNNNNNNTGG	1 cut(s)	61

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