Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0018370

Physical Location & Seq

Genomic Coordinates Reverse (-)

79938124 .. 79938333

Gene Structure 210 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG502900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 210 bp

ATGGTAATCACAATCAAGAGCTCTGAACCCAAGGGAAAAAGCTTCGAGGTTGAAGAGTCTGCTGCCCTTGCATCCCAGACCAAGCACATGATCGAGGATCTTGAGGATCCCATCCATGAGAGTACTATTCCCCAAGTGACAAGCGCAATCCTTGCCAAGGCGGTCGAATACCTCAACATGCACAGGCAATGTTGCCTGTGTCGGCATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000018 GO:0000226 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005819 GO:0005829 GO:0005856 GO:0005886 GO:0006996 GO:0007010 GO:0007017 GO:0008150 GO:0009524 GO:0009892 GO:0009987 GO:0010035 GO:0010038 GO:0010605 GO:0015630 GO:0016020 GO:0016043 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0042221 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044422 GO:0044424 GO:0044430 GO:0044444 GO:0044446 GO:0044464 GO:0045910 GO:0045934 GO:0046686 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051052 GO:0051053 GO:0051171 GO:0051172 GO:0060255 GO:0065007 GO:0071840 GO:0071944 GO:0080090

KEGG Pathways

Metabolic & Signaling

ko04110 ko04111 ko04114 ko04120 ko04141 ko04310 ko04341 ko04350 ko04710 ko05168 ko05200 map04110 map04111 map04114 map04120 map04141 map04310 map04341 map04350 map04710 map05168 map05200

Pfam Domains

Protein Families

Skp1 Skp1_POZ

Protein Analysis

69

Amino Acids

7.72

Weight (kDa)

5.72

Isoelectric Point (pI)

59.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Skp1_POZ	PF03931	2 - 63	2.4e-14	Skp1 family, tetramerisation domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Orthologous Genes (Group: OG0018370)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g05250 FvH4_5g29420
rosa_multiflora	Rmu_sc0004101.1_g000052 Rmu_sc0006045.1_g000003
rosa_roxburghii	Rroxscaffold_1G00007680 Rroxscaffold_1G00023770
rosa_samantha	Rh5BG502900 Rh5CG526000 Rh5DG395400 Rh5DG395500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	161
AclWI	GGATC	3 cut(s)	101, 105, 114
AfaI	GTAC	1 cut(s)	124
AfiI	CCNNNNNNNGG	1 cut(s)	157
AgsI	TTSAA	1 cut(s)	53
AluBI	AGCT	2 cut(s)	21, 42
AluI	AGCT	2 cut(s)	21, 42
Alw21I	GWGCWC	1 cut(s)	23
AlwI	GGATC	3 cut(s)	101, 105, 114
ApeKI	GCWGC	1 cut(s)	62
AspLEI	GCGC	1 cut(s)	146
BamHI	GGATCC	1 cut(s)	106
BanII	GRGCYC	1 cut(s)	23
Bbv12I	GWGCWC	1 cut(s)	23
BbvI	GCAGC	1 cut(s)	49
BccI	CCATC	1 cut(s)	119
BisI	GCNGC	1 cut(s)	63
BlsI	GCNGC	1 cut(s)	64
BmcAI	AGTACT	1 cut(s)	124
BmiI	GGNNCC	1 cut(s)	108
BmsI	GCATC	1 cut(s)	80
BpuEI	CTTGAG	1 cut(s)	122
BsaJI	CCNNGG	2 cut(s)	30, 156
Bsc4I	CCNNNNNNNGG	1 cut(s)	157
Bse3DI	GCAATG	1 cut(s)	194
BseDI	CCNNGG	2 cut(s)	30, 156
BseGI	GGATG	2 cut(s)	71, 111
BseLI	CCNNNNNNNGG	1 cut(s)	157
BseMI	GCAATG	1 cut(s)	194
BseXI	GCAGC	1 cut(s)	49
Bsh1285I	CGRYCG	1 cut(s)	165
BsiEI	CGRYCG	1 cut(s)	165
BsiHKAI	GWGCWC	1 cut(s)	23
BslI	CCNNNNNNNGG	1 cut(s)	157
Bsp1286I	GDGCHC	1 cut(s)	23
Bsp143I	GATC	3 cut(s)	90, 97, 106
BspACI	CCGC	1 cut(s)	161
BspLI	GGNNCC	1 cut(s)	108
BspPI	GGATC	3 cut(s)	101, 105, 114
BsrDI	GCAATG	1 cut(s)	194
BssECI	CCNNGG	2 cut(s)	30, 156
BssMI	GATC	3 cut(s)	90, 97, 106
BssT1I	CCWWGG	2 cut(s)	30, 156
Bst6I	CTCTTC	1 cut(s)	48
BstAPI	GCANNNNNTGC	1 cut(s)	152
BstENI	CCTNNNNNAGG	1 cut(s)	155
BstF5I	GGATG	2 cut(s)	71, 111
BstHHI	GCGC	1 cut(s)	146
BstKTI	GATC	3 cut(s)	93, 100, 109
BstMBI	GATC	3 cut(s)	90, 97, 106
BstMCI	CGRYCG	1 cut(s)	165
BstMWI	GCNNNNNNNGC	2 cut(s)	68, 152
BstNSI	RCATGY	1 cut(s)	181
BstV1I	GCAGC	1 cut(s)	49
BstX2I	RGATCY	2 cut(s)	97, 106
BstYI	RGATCY	2 cut(s)	97, 106
BtsCI	GGATG	2 cut(s)	71, 111
CfoI	GCGC	1 cut(s)	146
Csp6I	GTAC	1 cut(s)	123
CviAII	CATG	3 cut(s)	88, 116, 178
CviJI	RGCY	2 cut(s)	21, 42
CviKI_1	RGCY	2 cut(s)	21, 42
CviQI	GTAC	1 cut(s)	123
DpnI	GATC	3 cut(s)	92, 99, 108
DpnII	GATC	3 cut(s)	90, 97, 106
Eam1104I	CTCTTC	1 cut(s)	48
EarI	CTCTTC	1 cut(s)	48
Ecl136II	GAGCTC	1 cut(s)	21
Eco130I	CCWWGG	2 cut(s)	30, 156
Eco24I	GRGCYC	1 cut(s)	23
Eco53kI	GAGCTC	1 cut(s)	21
EcoICRI	GAGCTC	1 cut(s)	21
EcoNI	CCTNNNNNAGG	1 cut(s)	155
EcoT14I	CCWWGG	2 cut(s)	30, 156
EcoT38I	GRGCYC	1 cut(s)	23
ErhI	CCWWGG	2 cut(s)	30, 156
FaeI	CATG	3 cut(s)	91, 119, 181
FaiI	YATR	3 cut(s)	89, 117, 179
FatI	CATG	3 cut(s)	87, 115, 177
Fnu4HI	GCNGC	1 cut(s)	63
FokI	GGATG	2 cut(s)	58, 98
FriOI	GRGCYC	1 cut(s)	23
Fsp4HI	GCNGC	1 cut(s)	63
GlaI	GCGC	1 cut(s)	145
GluI	GCNGC	1 cut(s)	63
HhaI	GCGC	1 cut(s)	146
Hin1II	CATG	3 cut(s)	91, 119, 181
Hin6I	GCGC	1 cut(s)	144
HinP1I	GCGC	1 cut(s)	144
HindIII	AAGCTT	1 cut(s)	40
HinfI	GANTC	1 cut(s)	56
Hpy188I	TCNGA	1 cut(s)	25
Hpy188III	TCNNGA	2 cut(s)	16, 101
HpyCH4V	TGCA	2 cut(s)	71, 181
HpyF10VI	GCNNNNNNNGC	2 cut(s)	68, 152
Hsp92II	CATG	3 cut(s)	91, 119, 181
HspAI	GCGC	1 cut(s)	144
Kzo9I	GATC	3 cut(s)	90, 97, 106
LpnPI	CCDG	2 cut(s)	89, 169
Lsp1109I	GCAGC	1 cut(s)	49
LweI	GCATC	1 cut(s)	80
MaeIII	GTNAC	1 cut(s)	136
MalI	GATC	3 cut(s)	92, 99, 108
MboI	GATC	3 cut(s)	90, 97, 106
MboII	GAAGA	1 cut(s)	65
MflI	RGATCY	2 cut(s)	97, 106
MhlI	GDGCHC	1 cut(s)	23
MlyI	GAGTC	1 cut(s)	65
MnlI	CCTC	4 cut(s)	40, 88, 97, 182
MseI	TTAA	1 cut(s)	208
MwoI	GCNNNNNNNGC	2 cut(s)	68, 152
NdeII	GATC	3 cut(s)	90, 97, 106
NlaIII	CATG	3 cut(s)	91, 119, 181
NlaIV	GGNNCC	1 cut(s)	108
NmuCI	GTSAC	1 cut(s)	136
NspI	RCATGY	1 cut(s)	181
PkrI	GCNGC	1 cut(s)	64
PleI	GAGTC	1 cut(s)	64
PpsI	GAGTC	1 cut(s)	64
Psp124BI	GAGCTC	1 cut(s)	23
PspN4I	GGNNCC	1 cut(s)	108
PsuI	RGATCY	2 cut(s)	97, 106
RsaI	GTAC	1 cut(s)	124
RsaNI	GTAC	1 cut(s)	123
SacI	GAGCTC	1 cut(s)	23
SaqAI	TTAA	1 cut(s)	208
SatI	GCNGC	1 cut(s)	63
Sau3AI	GATC	3 cut(s)	90, 97, 106
ScaI	AGTACT	1 cut(s)	124
SchI	GAGTC	1 cut(s)	65
SduI	GDGCHC	1 cut(s)	23
SetI	ASST	4 cut(s)	23, 44, 51, 174
SfaNI	GCATC	1 cut(s)	80
SmlI	CTYRAG	1 cut(s)	101
SmoI	CTYRAG	1 cut(s)	101
SsiI	CCGC	1 cut(s)	161
SstI	GAGCTC	1 cut(s)	23
StyI	CCWWGG	2 cut(s)	30, 156
TaqI	TCGA	3 cut(s)	45, 93, 165
TatI	WGTACW	1 cut(s)	122
Tru1I	TTAA	1 cut(s)	208
Tru9I	TTAA	1 cut(s)	208
TseFI	GTSAC	1 cut(s)	136
TseI	GCWGC	1 cut(s)	62
Tsp45I	GTSAC	1 cut(s)	136
XagI	CCTNNNNNAGG	1 cut(s)	155
XceI	RCATGY	1 cut(s)	181
ZrmI	AGTACT	1 cut(s)	124

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