Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0000580

Physical Location & Seq

Genomic Coordinates Reverse (-)

44066392 .. 44066691

Gene Structure 300 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0353000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 300 bp

ATGAGATTCTGTTTAGTGGAAGGCTTCAAGAAGATTGAAGTCGAGTATGATGCTTTGAACGTTATCAAGGCTATAAATAGTACTGAAAGTGATCTTAGCTTGGAAGGTCCAATTTTTGTTGAAGTGAGATATCTCAAACAGGCCTTTGAAGACATAAGTTGGAAGAAAGTTCATAGAAGCTGTAACAGGGTTGCACATTGCCTTGCTAAGGAAGCAGTCAACTTCATTGGGATTCAGTTTTGGAAGGAAGCTGGGCCTCCTTGGCTCAACGAGGTTGTAATAGAAGATATGTCTAGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006950 GO:0006970 GO:0006972 GO:0006979 GO:0008150 GO:0009266 GO:0009314 GO:0009408 GO:0009409 GO:0009411 GO:0009416 GO:0009611 GO:0009628 GO:0009631 GO:0009642 GO:0009643 GO:0009651 GO:0009889 GO:0010033 GO:0010200 GO:0010224 GO:0010243 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0040008 GO:0042221 GO:0042493 GO:0042538 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0045926 GO:0048519 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1901698 GO:1901700 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C2H2_6

Protein Analysis

99

Amino Acids

11.48

Weight (kDa)

5.68

Isoelectric Point (pI)

41.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	1 - 72	6e-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: OG0000580)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G28710 AT3G46070 AT3G46080 AT3G46090 AT5G59820
fragaria_vesca	FvH4_3g35020 FvH4_3g35040 FvH4_3g35041 FvH4_3g35050 FvH4_6g51080 FvH4_7g21880
malus_domestica	MD01G1123300.v1.1 MD03G1099300.v1.1 MD07G1192900.v1.1 MD11G1113200.v1.1 MD11G1113500.v1.1
prunus_persica	Prupe.2G230800_v2.0.a1 Prupe.6G084100_v2.0.a1
pyrus_communis	pycom01g15010 pycom07g18240 pycom11g09560
rosa_chinensis	RchiOBHm_Chr1g0366121 RchiOBHm_Chr5g0062941 RchiOBHm_Chr5g0062951 RchiOBHm_Chr5g0062991 RchiOBHm_Chr5g0063011 RchiOBHm_Chr5g0063021
rosa_laevigata	RLG00000027366 RLG00000035592 RLG00000035593 RLG00000035594 RLG00000035595 RLG00000035596
rosa_multiflora	Rmu_co8212408.1_g000001 Rmu_sc0000696.1_g000016 Rmu_sc0003987.1_g000002 Rmu_sc0005045.1_g000054 Rmu_sc0008359.1_g000003 Rmu_sc0010322.1_g000010 Rmu_sc0010322.1_g000014 Rmu_sc0010322.1_g000015
rosa_roxburghii	Rroxscaffold_1G00017640 Rroxscaffold_1G00017650 Rroxscaffold_1G00017660 Rroxscaffold_1G00017670 Rroxscaffold_1G00017690 Rroxscaffold_4G00290480
rosa_rugosa	Rorug01G0327700 Rorug05G0353000 Rorug05G0353100 Rorug05G0353200 Rorug05G0353300 Rorug05G0353500
rosa_samantha	Rh1AG335700 Rh1BG297100 Rh1DG328900 Rh5AG414000 Rh5AG414100 Rh5AG414200 Rh5BG428300 Rh5BG428600 Rh5BG428700 Rh5BG428800 Rh5BG428900 Rh5CG451800 Rh5CG452100 Rh5CG452200 Rh5CG452300 Rh5CG452400 Rh5DG441900 Rh5DG442100 Rh5DG442200 Rh5DG442300 Rh5DG442400 Rh5DG442500
rosa_wichuraiana	Rw1G029780 Rw5G038890 Rw5G038910 Rw5G038920 Rw5G038930 Rw5G038940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclI	AACGTT	1 cut(s)	60
AfaI	GTAC	1 cut(s)	82
AfiI	CCNNNNNNNGG	1 cut(s)	208
AgsI	TTSAA	5 cut(s)	28, 38, 58, 122, 149
AluBI	AGCT	3 cut(s)	99, 180, 251
AluI	AGCT	3 cut(s)	99, 180, 251
AoxI	GGCC	2 cut(s)	141, 254
AspS9I	GGNCC	2 cut(s)	107, 254
AvaII	GGWCC	1 cut(s)	107
BbsI	GAAGAC	1 cut(s)	156
BcgI	CGANNNNNNTGC	2 cut(s)	32, 66
BfaI	CTAG	1 cut(s)	294
BglI	GCCNNNNNGGC	1 cut(s)	262
BmcAI	AGTACT	1 cut(s)	82
Bme18I	GGWCC	1 cut(s)	107
BmgT120I	GGNCC	2 cut(s)	107, 254
BmsI	GCATC	1 cut(s)	40
BpiI	GAAGAC	1 cut(s)	156
Bpu10I	CCTNAGC	1 cut(s)	207
BsaJI	CCNNGG	1 cut(s)	260
Bsc4I	CCNNNNNNNGG	1 cut(s)	208
Bse3DI	GCAATG	1 cut(s)	196
BseDI	CCNNGG	1 cut(s)	260
BseLI	CCNNNNNNNGG	1 cut(s)	208
BseMI	GCAATG	1 cut(s)	196
BseYI	CCCAGC	1 cut(s)	251
BshFI	GGCC	2 cut(s)	143, 256
BslI	CCNNNNNNNGG	1 cut(s)	208
BsnI	GGCC	2 cut(s)	143, 256
Bsp143I	GATC	1 cut(s)	91
BspANI	GGCC	2 cut(s)	143, 256
BsrDI	GCAATG	1 cut(s)	196
BssECI	CCNNGG	1 cut(s)	260
BssMI	GATC	1 cut(s)	91
BssT1I	CCWWGG	1 cut(s)	260
BstDEI	CTNAG	2 cut(s)	95, 207
BstENI	CCTNNNNNAGG	1 cut(s)	206
BstKTI	GATC	1 cut(s)	94
BstMBI	GATC	1 cut(s)	91
BstMWI	GCNNNNNNNGC	2 cut(s)	212, 262
BstV2I	GAAGAC	1 cut(s)	156
BsuRI	GGCC	2 cut(s)	143, 256
Cfr13I	GGNCC	2 cut(s)	107, 254
Csp6I	GTAC	1 cut(s)	81
CviJI	RGCY	8 cut(s)	24, 71, 99, 143, 180, 251, 256, 265
CviKI_1	RGCY	8 cut(s)	24, 71, 99, 143, 180, 251, 256, 265
CviQI	GTAC	1 cut(s)	81
DdeI	CTNAG	2 cut(s)	95, 207
DpnI	GATC	1 cut(s)	93
DpnII	GATC	1 cut(s)	91
Eco130I	CCWWGG	1 cut(s)	260
Eco147I	AGGCCT	1 cut(s)	143
Eco32I	GATATC	1 cut(s)	131
Eco47I	GGWCC	1 cut(s)	107
EcoNI	CCTNNNNNAGG	1 cut(s)	206
EcoRV	GATATC	1 cut(s)	131
EcoT14I	CCWWGG	1 cut(s)	260
ErhI	CCWWGG	1 cut(s)	260
FaiI	YATR	5 cut(s)	48, 74, 155, 174, 290
FspBI	CTAG	1 cut(s)	294
GsaI	CCCAGC	1 cut(s)	255
HaeIII	GGCC	2 cut(s)	143, 256
HincII	GTYRAC	1 cut(s)	220
HindII	GTYRAC	1 cut(s)	220
HinfI	GANTC	2 cut(s)	6, 232
Hpy166II	GTNNAC	1 cut(s)	220
Hpy188III	TCNNGA	2 cut(s)	28, 294
Hpy8I	GTNNAC	1 cut(s)	220
HpyAV	CCTTC	3 cut(s)	14, 98, 238
HpyCH4IV	ACGT	1 cut(s)	60
HpyCH4V	TGCA	1 cut(s)	194
HpyF10VI	GCNNNNNNNGC	2 cut(s)	212, 262
HpyF3I	CTNAG	2 cut(s)	95, 207
HpySE526I	ACGT	1 cut(s)	60
Kzo9I	GATC	1 cut(s)	91
LpnPI	CCDG	3 cut(s)	125, 172, 237
LweI	GCATC	1 cut(s)	40
MaeI	CTAG	1 cut(s)	294
MaeII	ACGT	1 cut(s)	60
MaeIII	GTNAC	1 cut(s)	182
MalI	GATC	1 cut(s)	93
MboI	GATC	1 cut(s)	91
MboII	GAAGA	4 cut(s)	43, 161, 175, 296
MluCI	AATT	1 cut(s)	111
MmeI	TCCRAC	1 cut(s)	140
MnlI	CCTC	2 cut(s)	265, 267
MwoI	GCNNNNNNNGC	2 cut(s)	212, 262
NdeII	GATC	1 cut(s)	91
PceI	AGGCCT	1 cut(s)	143
PfeI	GAWTC	2 cut(s)	6, 232
Psp1406I	AACGTT	1 cut(s)	60
PspFI	CCCAGC	1 cut(s)	251
PspPI	GGNCC	2 cut(s)	107, 254
RsaI	GTAC	1 cut(s)	82
RsaNI	GTAC	1 cut(s)	81
Sau3AI	GATC	1 cut(s)	91
Sau96I	GGNCC	2 cut(s)	107, 254
ScaI	AGTACT	1 cut(s)	82
SetI	ASST	6 cut(s)	63, 101, 109, 182, 253, 276
SfaNI	GCATC	1 cut(s)	40
SinI	GGWCC	1 cut(s)	107
Sse9I	AATT	1 cut(s)	111
SseBI	AGGCCT	1 cut(s)	143
SspMI	CTAG	1 cut(s)	294
StuI	AGGCCT	1 cut(s)	143
StyI	CCWWGG	1 cut(s)	260
TaiI	ACGT	1 cut(s)	63
TaqI	TCGA	1 cut(s)	42
TasI	AATT	1 cut(s)	111
TatI	WGTACW	1 cut(s)	80
TfiI	GAWTC	2 cut(s)	6, 232
TspDTI	ATGAA	2 cut(s)	161, 214
VpaK11BI	GGWCC	1 cut(s)	107
XagI	CCTNNNNNAGG	1 cut(s)	206
XbaI	TCTAGA	1 cut(s)	293
XspI	CTAG	1 cut(s)	294
ZrmI	AGTACT	1 cut(s)	82

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