Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0004029

Physical Location & Seq

Genomic Coordinates Forward (+)

78443125 .. 78444198

Gene Structure 1074 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG554800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 306 bp

ATGTCAGGAGTTGCGAGCCAGCCCCAGGAGGAGGACAAGAAGCCCAACGATCAGGGTGCTCACATCAACCTCAAAGTGAAAGGCCAGGATGGGAACGAAGTCTTCTTTAGGATCAAAAGAAGCACTCAACTCAAGAAGCTGATGAATGCCTACTGTGATCGCCAATCTGTTGAGCTCAACTCCATTGCCTTCCTGTTTGACGGCCGTCGTCTGCGAGCAGAGCAGACCCCTGATGAGCTTGAAATGGAAGATGGGGATGAGATAGATGCTATGTTGCACCAGACTGGAGGAGCTGCACAGCTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006355 GO:0006464 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0009266 GO:0009408 GO:0009628 GO:0009889 GO:0009987 GO:0010286 GO:0010468 GO:0010556 GO:0016925 GO:0018193 GO:0018205 GO:0019219 GO:0019222 GO:0019538 GO:0031323 GO:0031326 GO:0031386 GO:0032446 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043433 GO:0044092 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044444 GO:0044464 GO:0048519 GO:0050789 GO:0050794 GO:0050896 GO:0051090 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0065009 GO:0070647 GO:0071704 GO:0080090 GO:1901564 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03013 ko05418 map03013 map05418

Pfam Domains

Protein Families

Rad60-SLD

Protein Analysis

101

Amino Acids

11.35

Weight (kDa)

4.95

Isoelectric Point (pI)

51.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rad60-SLD	PF11976	22 - 92	1.4e-25	Ubiquitin-2 like Rad60 SUMO-like
ubiquitin	PF00240	24 - 94	1.8e-16	Ubiquitin family

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: OG0004029)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G55160 AT5G55160
fragaria_vesca	FvH4_3g23390 FvH4_3g23390 FvH4_6g42200
malus_domestica	MD03G1194700.v1.1 MD09G1113800.v1.1 MD11G1211000.v1.1 MD17G1103900.v1.1
prunus_persica	Prupe.3G210800_v2.0.a1 Prupe.4G221800_v2.0.a1
pyrus_communis	pycom03g14680 pycom09g03780 pycom17g09800
rosa_chinensis	RchiOBHm_Chr2g0158121 RchiOBHm_Chr5g0041181
rosa_laevigata	RLG00000021061
rosa_multiflora	Rmu_sc0005982.1_g000009 Rmu_sc0007618.1_g000017 Rmu_sc0032555.1_g000001 Rmu_sc0037123.1_g000001
rosa_roxburghii	Rroxscaffold_1G00039460 Rroxscaffold_2G00091650
rosa_rugosa	Rorug05G0190200
rosa_samantha	Rh2AG532200 Rh2BG546300 Rh2CG516100 Rh2DG554800 Rh5AG276300 Rh5CG313300 Rh5DG289300
rosa_wichuraiana	Rw2G044000 Rw5G025990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	119
AcoI	YGGCCR	1 cut(s)	202
AfiI	CCNNNNNNNGG	2 cut(s)	25, 31
AgsI	TTSAA	1 cut(s)	242
AjnI	CCWGG	2 cut(s)	24, 84
AluBI	AGCT	5 cut(s)	139, 175, 238, 293, 301
AluI	AGCT	5 cut(s)	139, 175, 238, 293, 301
Alw21I	GWGCWC	2 cut(s)	61, 177
AlwI	GGATC	1 cut(s)	119
AoxI	GGCC	2 cut(s)	82, 202
ApeKI	GCWGC	1 cut(s)	293
BanII	GRGCYC	1 cut(s)	177
BbsI	GAAGAC	1 cut(s)	94
Bbv12I	GWGCWC	2 cut(s)	61, 177
BbvI	GCAGC	1 cut(s)	280
BccI	CCATC	2 cut(s)	83, 245
BceAI	ACGGC	2 cut(s)	189, 217
BcgI	CGANNNNNNTGC	2 cut(s)	38, 72
BciT130I	CCWGG	2 cut(s)	26, 86
BisI	GCNGC	1 cut(s)	294
BlsI	GCNGC	1 cut(s)	295
Bme1390I	CCNGG	2 cut(s)	26, 86
BmrFI	CCNGG	2 cut(s)	26, 86
BmsI	GCATC	1 cut(s)	256
BoxI	GACNNNNGTC	1 cut(s)	204
BpiI	GAAGAC	1 cut(s)	94
BplI	GAGNNNNNCTC	2 cut(s)	164, 196
BpmI	CTGGAG	1 cut(s)	306
BpuEI	CTTGAG	1 cut(s)	116
BsaJI	CCNNGG	1 cut(s)	24
Bsc4I	CCNNNNNNNGG	2 cut(s)	25, 31
Bse1I	ACTGG	1 cut(s)	289
Bse3DI	GCAATG	1 cut(s)	183
BseBI	CCWGG	2 cut(s)	26, 86
BseDI	CCNNGG	1 cut(s)	24
BseGI	GGATG	2 cut(s)	94, 262
BseLI	CCNNNNNNNGG	2 cut(s)	25, 31
BseMI	GCAATG	1 cut(s)	183
BseNI	ACTGG	1 cut(s)	289
BseRI	GAGGAG	2 cut(s)	44, 303
BseX3I	CGGCCG	1 cut(s)	202
BseXI	GCAGC	1 cut(s)	280
BsgI	GTGCAG	1 cut(s)	279
Bsh1285I	CGRYCG	1 cut(s)	205
BshFI	GGCC	2 cut(s)	84, 204
BsiEI	CGRYCG	1 cut(s)	205
BsiHKAI	GWGCWC	2 cut(s)	61, 177
BslI	CCNNNNNNNGG	2 cut(s)	25, 31
BsmI	GAATGC	1 cut(s)	151
BsnI	GGCC	2 cut(s)	84, 204
Bsp1286I	GDGCHC	2 cut(s)	61, 177
Bsp143I	GATC	3 cut(s)	49, 111, 157
BspANI	GGCC	2 cut(s)	84, 204
BspPI	GGATC	1 cut(s)	119
BsrDI	GCAATG	1 cut(s)	183
BsrI	ACTGG	1 cut(s)	289
BssECI	CCNNGG	1 cut(s)	24
BssMI	GATC	3 cut(s)	49, 111, 157
Bst2UI	CCWGG	2 cut(s)	26, 86
Bst4CI	ACNGT	1 cut(s)	155
BstC8I	GCNNGC	3 cut(s)	16, 20, 216
BstF5I	GGATG	2 cut(s)	94, 262
BstKTI	GATC	3 cut(s)	52, 114, 160
BstMBI	GATC	3 cut(s)	49, 111, 157
BstMCI	CGRYCG	1 cut(s)	205
BstMWI	GCNNNNNNNGC	1 cut(s)	220
BstNI	CCWGG	2 cut(s)	26, 86
BstPAI	GACNNNNGTC	1 cut(s)	204
BstSCI	CCNGG	2 cut(s)	24, 84
BstV1I	GCAGC	1 cut(s)	280
BstV2I	GAAGAC	1 cut(s)	94
BstZI	CGGCCG	1 cut(s)	202
BsuRI	GGCC	2 cut(s)	84, 204
BtsCI	GGATG	2 cut(s)	94, 262
Cac8I	GCNNGC	3 cut(s)	16, 20, 216
DpnI	GATC	3 cut(s)	51, 113, 159
DpnII	GATC	3 cut(s)	49, 111, 157
EaeI	YGGCCR	1 cut(s)	202
EagI	CGGCCG	1 cut(s)	202
Ecl136II	GAGCTC	1 cut(s)	175
EclXI	CGGCCG	1 cut(s)	202
Eco24I	GRGCYC	1 cut(s)	177
Eco52I	CGGCCG	1 cut(s)	202
Eco53kI	GAGCTC	1 cut(s)	175
EcoICRI	GAGCTC	1 cut(s)	175
EcoRII	CCWGG	2 cut(s)	24, 84
EcoT38I	GRGCYC	1 cut(s)	177
FaiI	YATR	1 cut(s)	272
Fnu4HI	GCNGC	1 cut(s)	294
FokI	GGATG	2 cut(s)	101, 269
FriOI	GRGCYC	1 cut(s)	177
Fsp4HI	GCNGC	1 cut(s)	294
GluI	GCNGC	1 cut(s)	294
GsuI	CTGGAG	1 cut(s)	306
HaeIII	GGCC	2 cut(s)	84, 204
Hpy188III	TCNNGA	2 cut(s)	6, 133
Hpy99I	CGWCG	1 cut(s)	210
HpyAV	CCTTC	1 cut(s)	199
HpyCH4III	ACNGT	1 cut(s)	155
HpyCH4V	TGCA	2 cut(s)	277, 296
HpyF10VI	GCNNNNNNNGC	1 cut(s)	220
Kzo9I	GATC	3 cut(s)	49, 111, 157
LmnI	GCTCC	1 cut(s)	290
Lsp1109I	GCAGC	1 cut(s)	280
LweI	GCATC	1 cut(s)	256
MalI	GATC	3 cut(s)	51, 113, 159
MboI	GATC	3 cut(s)	49, 111, 157
MboII	GAAGA	2 cut(s)	94, 260
MhlI	GDGCHC	2 cut(s)	61, 177
MnlI	CCTC	4 cut(s)	22, 25, 80, 281
MspR9I	CCNGG	2 cut(s)	26, 86
Mva1269I	GAATGC	1 cut(s)	151
MvaI	CCWGG	2 cut(s)	26, 86
MwoI	GCNNNNNNNGC	1 cut(s)	220
NdeII	GATC	3 cut(s)	49, 111, 157
PctI	GAATGC	1 cut(s)	151
PkrI	GCNGC	1 cut(s)	295
PshAI	GACNNNNGTC	1 cut(s)	204
Psp124BI	GAGCTC	1 cut(s)	177
Psp6I	CCWGG	2 cut(s)	24, 84
PspGI	CCWGG	2 cut(s)	24, 84
SacI	GAGCTC	1 cut(s)	177
SatI	GCNGC	1 cut(s)	294
Sau3AI	GATC	3 cut(s)	49, 111, 157
ScrFI	CCNGG	2 cut(s)	26, 86
SduI	GDGCHC	2 cut(s)	61, 177
SetI	ASST	6 cut(s)	72, 141, 177, 240, 295, 303
SfaNI	GCATC	1 cut(s)	256
SmlI	CTYRAG	1 cut(s)	131
SmoI	CTYRAG	1 cut(s)	131
SstI	GAGCTC	1 cut(s)	177
StyD4I	CCNGG	2 cut(s)	24, 84
TaaI	ACNGT	1 cut(s)	155
TseI	GCWGC	1 cut(s)	293
TspDTI	ATGAA	1 cut(s)	158

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