Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr5

Orthogroup ID

OG0001157

Physical Location & Seq

Genomic Coordinates Forward (+)

35307680 .. 35308288

Gene Structure 609 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000024377

Sequence Viewer

CDS Protein Promoter (2k)

Length: 306 bp

ATGTACAAAGGCAAGTTCTTTGTTCATTCTTCATCGGATTGGCGCACAAAGCTATTGTATGAGTTTCACTCGTCCCTCCAAGCTGGGCATTCCGGTTATTTGGGCACTTACCATCGCCTCTCTTGCAATTTTGCATGGCCGGGTATGCGCAAAGAAATTAAGGCCTTCATTGCAGCCTGTGATCAGTGTCAAAGGCAAACATATGAGACTATCAACCCTCCGAGACTACTTCAACCTCTTCCCATTCCGGATCACATTTGGCTTGACATCTCAATGGACTTTGTAGATGGGTTTACTCTATCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000943 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0003887 GO:0003964 GO:0004518 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006278 GO:0006508 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008233 GO:0009058 GO:0009059 GO:0009987 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0016787 GO:0016788 GO:0018130 GO:0019438 GO:0019538 GO:0032196 GO:0032197 GO:0034061 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0071704 GO:0071897 GO:0090304 GO:0090305 GO:0090501 GO:0097159 GO:0140096 GO:0140097 GO:0140098 GO:1901360 GO:1901362 GO:1901363 GO:1901564 GO:1901576

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Chromo RVP_2 RVT_1 Retrotrans_gag rve

Protein Analysis

102

Amino Acids

11.76

Weight (kDa)

7.77

Isoelectric Point (pI)

35.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Integrase_H2C2	PF17921	13 - 66	9.3e-18	Integrase zinc binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0001157)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATMG00850
fragaria_vesca	FvH4_1g23441 FvH4_2g05351 FvH4_3g42702 FvH4_4g00102 FvH4_4g14286 FvH4_4g15489 FvH4_6g15081 FvH4_6g32371 FvH4_7g29723 FvH4_7g29724
malus_domestica	MD03G1059800.v1.1
pyrus_communis	pycom02g17090 pycom04g00340
rosa_chinensis	RchiOBHm_Chr1g0313301 RchiOBHm_Chr1g0339801 RchiOBHm_Chr1g0384471 RchiOBHm_Chr2g0098581 RchiOBHm_Chr2g0099161 RchiOBHm_Chr2g0174581 RchiOBHm_Chr3g0488331 RchiOBHm_Chr5g0056121 RchiOBHm_Chr5g0056131 RchiOBHm_Chr5g0082941 RchiOBHm_Chr6g0250891 RchiOBHm_Chr6g0258591 RchiOBHm_Chr6g0290351
rosa_laevigata	RLG00000002118 RLG00000010853 RLG00000024377 RLG00000030355
rosa_roxburghii	Rroxscaffold_155G00443850 Rroxscaffold_159G00432700 Rroxscaffold_1G00045030 Rroxscaffold_1G00066280 Rroxscaffold_3G00276420 Rroxscaffold_5G00359430 Rroxscaffold_5G00378120
rosa_rugosa	Rorug06G0154800
rosa_samantha	Rh1AG114400 Rh3BG237700 Rh3CG227400
rosa_wichuraiana	Rw0G004600 Rw0G007090 Rw1G026280 Rw1G036440 Rw2G004680 Rw2G015650 Rw3G000560 Rw3G014520 Rw3G020520 Rw4G027690 Rw5G014430 Rw5G014610 Rw6G001250 Rw7G007160 Rw7G031470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	149
AccIII	TCCGGA	1 cut(s)	247
AclWI	GGATC	1 cut(s)	258
AcoI	YGGCCR	1 cut(s)	137
AfaI	GTAC	1 cut(s)	5
AgsI	TTSAA	1 cut(s)	233
AluBI	AGCT	2 cut(s)	52, 83
AluI	AGCT	2 cut(s)	52, 83
Alw26I	GTCTC	2 cut(s)	200, 217
AlwI	GGATC	1 cut(s)	258
Aor13HI	TCCGGA	1 cut(s)	247
AoxI	GGCC	2 cut(s)	137, 162
ApeKI	GCWGC	1 cut(s)	173
AspLEI	GCGC	2 cut(s)	45, 150
AsuC2I	CCSGG	1 cut(s)	141
BaeGI	GKGCMC	1 cut(s)	107
BbvI	GCAGC	1 cut(s)	185
BccI	CCATC	2 cut(s)	120, 281
BclI	TGATCA	1 cut(s)	181
BcnI	CCSGG	1 cut(s)	141
BcoDI	GTCTC	2 cut(s)	200, 217
BisI	GCNGC	1 cut(s)	174
BlsI	GCNGC	1 cut(s)	175
Bme1390I	CCNGG	1 cut(s)	141
BmrFI	CCNGG	1 cut(s)	141
BplI	GAGNNNNNCTC	2 cut(s)	53, 85
BpuMI	CCSGG	1 cut(s)	141
BsaWI	WCCGGW	2 cut(s)	92, 247
Bse3DI	GCAATG	1 cut(s)	168
BseAI	TCCGGA	1 cut(s)	247
BseMI	GCAATG	1 cut(s)	168
BseSI	GKGCMC	1 cut(s)	107
BseXI	GCAGC	1 cut(s)	185
BseYI	CCCAGC	1 cut(s)	83
BshFI	GGCC	2 cut(s)	139, 164
BsiSI	CCGG	3 cut(s)	93, 140, 248
BslFI	GGGAC	1 cut(s)	58
BsmAI	GTCTC	2 cut(s)	200, 217
BsmFI	GGGAC	1 cut(s)	58
BsmI	GAATGC	1 cut(s)	88
BsnI	GGCC	2 cut(s)	139, 164
Bsp1286I	GDGCHC	1 cut(s)	107
Bsp13I	TCCGGA	1 cut(s)	247
Bsp1407I	TGTACA	1 cut(s)	3
Bsp143I	GATC	2 cut(s)	181, 250
BspANI	GGCC	2 cut(s)	139, 164
BspEI	TCCGGA	1 cut(s)	247
BspPI	GGATC	1 cut(s)	258
BsrDI	GCAATG	1 cut(s)	168
BsrGI	TGTACA	1 cut(s)	3
BssMI	GATC	2 cut(s)	181, 250
Bst6I	CTCTTC	1 cut(s)	243
BstAUI	TGTACA	1 cut(s)	3
BstHHI	GCGC	2 cut(s)	45, 150
BstKTI	GATC	2 cut(s)	184, 253
BstMAI	GTCTC	2 cut(s)	200, 217
BstMBI	GATC	2 cut(s)	181, 250
BstMWI	GCNNNNNNNGC	4 cut(s)	49, 123, 145, 170
BstSCI	CCNGG	1 cut(s)	139
BstSLI	GKGCMC	1 cut(s)	107
BstV1I	GCAGC	1 cut(s)	185
BsuRI	GGCC	2 cut(s)	139, 164
BtgZI	GCGATG	1 cut(s)	98
BtsIMutI	CAGTG	1 cut(s)	191
CfoI	GCGC	2 cut(s)	45, 150
Csp6I	GTAC	1 cut(s)	4
CviAII	CATG	1 cut(s)	135
CviJI	RGCY	6 cut(s)	52, 83, 139, 164, 176, 262
CviKI_1	RGCY	6 cut(s)	52, 83, 139, 164, 176, 262
CviQI	GTAC	1 cut(s)	4
DpnI	GATC	2 cut(s)	183, 252
DpnII	GATC	2 cut(s)	181, 250
EaeI	YGGCCR	1 cut(s)	137
Eam1104I	CTCTTC	1 cut(s)	243
EarI	CTCTTC	1 cut(s)	243
Eco147I	AGGCCT	1 cut(s)	164
FaeI	CATG	1 cut(s)	138
FaiI	YATR	5 cut(s)	60, 136, 146, 202, 204
FaqI	GGGAC	1 cut(s)	58
FatI	CATG	1 cut(s)	134
FauNDI	CATATG	1 cut(s)	202
FbaI	TGATCA	1 cut(s)	181
Fnu4HI	GCNGC	1 cut(s)	174
Fsp4HI	GCNGC	1 cut(s)	174
FspI	TGCGCA	1 cut(s)	149
GlaI	GCGC	2 cut(s)	44, 149
GluI	GCNGC	1 cut(s)	174
GsaI	CCCAGC	1 cut(s)	87
HaeIII	GGCC	2 cut(s)	139, 164
HapII	CCGG	3 cut(s)	93, 140, 248
HhaI	GCGC	2 cut(s)	45, 150
Hin1II	CATG	1 cut(s)	138
Hin6I	GCGC	2 cut(s)	43, 148
HinP1I	GCGC	2 cut(s)	43, 148
HpaII	CCGG	3 cut(s)	93, 140, 248
Hpy166II	GTNNAC	1 cut(s)	294
Hpy188I	TCNGA	2 cut(s)	37, 222
Hpy188III	TCNNGA	1 cut(s)	248
Hpy8I	GTNNAC	1 cut(s)	294
HpyAV	CCTTC	1 cut(s)	175
HpyCH4V	TGCA	3 cut(s)	126, 134, 173
HpyF10VI	GCNNNNNNNGC	4 cut(s)	49, 123, 145, 170
Hsp92II	CATG	1 cut(s)	138
HspAI	GCGC	2 cut(s)	43, 148
Kpn2I	TCCGGA	1 cut(s)	247
Ksp22I	TGATCA	1 cut(s)	181
Kzo9I	GATC	2 cut(s)	181, 250
LpnPI	CCDG	5 cut(s)	69, 106, 153, 190, 261
Lsp1109I	GCAGC	1 cut(s)	185
MalI	GATC	2 cut(s)	183, 252
MboI	GATC	2 cut(s)	181, 250
MboII	GAAGA	2 cut(s)	21, 230
MhlI	GDGCHC	1 cut(s)	107
MluCI	AATT	2 cut(s)	127, 156
MnlI	CCTC	4 cut(s)	86, 128, 228, 246
MroI	TCCGGA	1 cut(s)	247
MseI	TTAA	2 cut(s)	159, 304
MslI	CAYNNNNRTG	1 cut(s)	272
MspI	CCGG	3 cut(s)	93, 140, 248
MspR9I	CCNGG	1 cut(s)	141
Mva1269I	GAATGC	1 cut(s)	88
MwoI	GCNNNNNNNGC	4 cut(s)	49, 123, 145, 170
NciI	CCSGG	1 cut(s)	141
NdeI	CATATG	1 cut(s)	202
NdeII	GATC	2 cut(s)	181, 250
NlaIII	CATG	1 cut(s)	138
NsbI	TGCGCA	1 cut(s)	149
PceI	AGGCCT	1 cut(s)	164
PctI	GAATGC	1 cut(s)	88
PkrI	GCNGC	1 cut(s)	175
PspFI	CCCAGC	1 cut(s)	83
RsaI	GTAC	1 cut(s)	5
RsaNI	GTAC	1 cut(s)	4
RseI	CAYNNNNRTG	1 cut(s)	272
SaqAI	TTAA	2 cut(s)	159, 304
SatI	GCNGC	1 cut(s)	174
Sau3AI	GATC	2 cut(s)	181, 250
ScrFI	CCNGG	1 cut(s)	141
SduI	GDGCHC	1 cut(s)	107
SetI	ASST	3 cut(s)	54, 85, 238
SmiMI	CAYNNNNRTG	1 cut(s)	272
Sse9I	AATT	2 cut(s)	127, 156
SseBI	AGGCCT	1 cut(s)	164
StuI	AGGCCT	1 cut(s)	164
StyD4I	CCNGG	1 cut(s)	139
TasI	AATT	2 cut(s)	127, 156
TatI	WGTACW	1 cut(s)	3
Tru1I	TTAA	2 cut(s)	159, 304
Tru9I	TTAA	2 cut(s)	159, 304
TscAI	CASTG	1 cut(s)	191
TseI	GCWGC	1 cut(s)	173
TspDTI	ATGAA	3 cut(s)	14, 21, 157
TspRI	CASTG	1 cut(s)	191

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