Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0001431

Physical Location & Seq

Genomic Coordinates Reverse (-)

34297220 .. 34299523

Gene Structure 2304 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG199500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 378 bp

ATGTCTCTCGTGGCGAACGAGGAGTTCCAGCACATTCTGCGTGTTCTGAACACCAACGTCGATGGAAAGCAGAAGATCATGTTCGCTCTCACCTCCATCAAGGGTATCGGTCGCCGTTTAGCCAACATCGTCTGCAAGAAGGCCGACGTCGACATGAACAAGAGGGCTGGTGAGCTGTCTGCTCAGGAGATTGATAACCTGATGCACATTGTGAGTAATCCCCGCCAGTTCAAGATCCCTGACTGGTTTCTCAACAGAAAGAAGGATTACAAGGATGGTAAATATTCCCAGGTGGTTGCCAATGCCTTGGATATGAAGCTCAGGGATGATCTCGAGAGGCTCAAGAAGATCAGGTCTGAATTTGTTTTCAACTCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0005773 GO:0005774 GO:0005829 GO:0005840 GO:0005886 GO:0005911 GO:0006412 GO:0006413 GO:0006518 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009506 GO:0009987 GO:0010467 GO:0015935 GO:0016020 GO:0019538 GO:0022613 GO:0022626 GO:0022627 GO:0030054 GO:0030312 GO:0031090 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0034645 GO:0042254 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043603 GO:0043604 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044391 GO:0044422 GO:0044424 GO:0044428 GO:0044437 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0055044 GO:0070013 GO:0071704 GO:0071840 GO:0071944 GO:0097159 GO:0098588 GO:0098805 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_S13

Protein Analysis

125

Amino Acids

14.48

Weight (kDa)

9.67

Isoelectric Point (pI)

40.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_S13	PF00416	14 - 119	1.7e-39	Ribosomal protein S13/S18

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: OG0001431)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G22780 AT1G34030 AT4G09800
fragaria_vesca	FvH4_2g23320 FvH4_4g15530
malus_domestica	MD03G1262600.v1.1 MD04G1097100.v1.1 MD06G1071000.v1.1 MD11G1283300.v1.1 MD13G1192900.v1.1 MD16G1193800.v1.1
prunus_persica	Prupe.1G013500_v2.0.a1 Prupe.8G238900_v2.0.a1 Prupe.8G238900_v2.0.a1
pyrus_communis	pycom03g21010 pycom06g11700 pycom11g25080 pycom13g16520 pycom16g16350
rosa_chinensis	RchiOBHm_Chr1g0330651 RchiOBHm_Chr4g0416231 RchiOBHm_Chr6g0290731
rosa_laevigata	RLG00000008004 RLG00000012183
rosa_multiflora	Rmu_sc0003600.1_g000001 Rmu_sc0032929.1_g000002 Rmu_sc0037025.1_g000001 Rmu_ssc0000042.1_g000046
rosa_roxburghii	Rroxscaffold_5G00360080 Rroxscaffold_7G00176770
rosa_rugosa	Rorug04G0140200 Rorug05G0191200 Rorug06G0088300 Rorug06G0088400
rosa_samantha	Rh4AG202100 Rh4BG096000 Rh4BG199500 Rh4CG213800 Rh4DG117400 Rh4DG199300 Rh5AG168200 Rh5CG236300 Rh5CG262700 Rh6AG324900 Rh6BG332500 Rh6CG338200 Rh6DG325700
rosa_wichuraiana	Rw0G012060 Rw2G037960 Rw4G017090 Rw5G015280 Rw6G028210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	150
AccI	GTMKAC	1 cut(s)	150
AciI	CCGC	1 cut(s)	223
AclWI	GGATC	1 cut(s)	229
AcsI	RAATTY	1 cut(s)	359
AcyI	GRCGYC	1 cut(s)	147
AdeI	CACNNNGTG	1 cut(s)	211
AgsI	TTSAA	2 cut(s)	232, 370
AjnI	CCWGG	1 cut(s)	288
AluBI	AGCT	2 cut(s)	175, 319
AluI	AGCT	2 cut(s)	175, 319
Alw26I	GTCTC	1 cut(s)	9
AlwI	GGATC	1 cut(s)	229
Ama87I	CYCGRG	1 cut(s)	332
AoxI	GGCC	1 cut(s)	141
ApoI	RAATTY	1 cut(s)	359
AsuHPI	GGTGA	2 cut(s)	82, 182
AvaI	CYCGRG	1 cut(s)	332
BauI	CACGAG	1 cut(s)	8
BccI	CCATC	3 cut(s)	56, 104, 269
BceAI	ACGGC	1 cut(s)	99
BciT130I	CCWGG	1 cut(s)	290
BcoDI	GTCTC	1 cut(s)	9
Bme1390I	CCNGG	1 cut(s)	290
BmeT110I	CYCGRG	1 cut(s)	332
BmrFI	CCNGG	1 cut(s)	290
BmsI	GCATC	1 cut(s)	192
Bpu10I	CCTNAGC	2 cut(s)	183, 320
BpuEI	CTTGAG	1 cut(s)	326
BsaHI	GRCGYC	1 cut(s)	147
BsaJI	CCNNGG	2 cut(s)	288, 306
Bse1I	ACTGG	2 cut(s)	226, 248
BseBI	CCWGG	1 cut(s)	290
BseDI	CCNNGG	2 cut(s)	288, 306
BseGI	GGATG	2 cut(s)	280, 331
BseMII	CTCAG	2 cut(s)	197, 334
BseNI	ACTGG	2 cut(s)	226, 248
BseRI	GAGGAG	1 cut(s)	35
Bsh1285I	CGRYCG	1 cut(s)	112
BshFI	GGCC	1 cut(s)	143
BsiEI	CGRYCG	1 cut(s)	112
BsiHKCI	CYCGRG	1 cut(s)	332
BsmAI	GTCTC	1 cut(s)	9
BsnI	GGCC	1 cut(s)	143
BsoBI	CYCGRG	1 cut(s)	332
Bsp143I	GATC	4 cut(s)	75, 234, 328, 348
BspACI	CCGC	1 cut(s)	223
BspANI	GGCC	1 cut(s)	143
BspCNI	CTCAG	2 cut(s)	196, 333
BspPI	GGATC	1 cut(s)	229
BsrI	ACTGG	2 cut(s)	226, 248
BssECI	CCNNGG	2 cut(s)	288, 306
BssMI	GATC	4 cut(s)	75, 234, 328, 348
BssNI	GRCGYC	1 cut(s)	147
BssSI	CACGAG	1 cut(s)	8
BssT1I	CCWWGG	1 cut(s)	306
Bst2BI	CACGAG	1 cut(s)	8
Bst2UI	CCWGG	1 cut(s)	290
BstACI	GRCGYC	1 cut(s)	147
BstAPI	GCANNNNNTGC	1 cut(s)	37
BstDEI	CTNAG	2 cut(s)	183, 320
BstF5I	GGATG	2 cut(s)	280, 331
BstKTI	GATC	4 cut(s)	78, 237, 331, 351
BstMAI	GTCTC	1 cut(s)	9
BstMBI	GATC	4 cut(s)	75, 234, 328, 348
BstMCI	CGRYCG	1 cut(s)	112
BstMWI	GCNNNNNNNGC	1 cut(s)	37
BstNI	CCWGG	1 cut(s)	290
BstSCI	CCNGG	1 cut(s)	288
BstX2I	RGATCY	1 cut(s)	234
BstXI	CCANNNNNNTGG	1 cut(s)	307
BstYI	RGATCY	1 cut(s)	234
BsuRI	GGCC	1 cut(s)	143
BtsCI	GGATG	2 cut(s)	280, 331
CviAII	CATG	2 cut(s)	79, 154
CviJI	RGCY	6 cut(s)	122, 143, 167, 175, 319, 340
CviKI_1	RGCY	6 cut(s)	122, 143, 167, 175, 319, 340
DdeI	CTNAG	2 cut(s)	183, 320
DpnI	GATC	4 cut(s)	77, 236, 330, 350
DpnII	GATC	4 cut(s)	75, 234, 328, 348
DraIII	CACNNNGTG	1 cut(s)	211
Eco130I	CCWWGG	1 cut(s)	306
Eco88I	CYCGRG	1 cut(s)	332
EcoRII	CCWGG	1 cut(s)	288
EcoT14I	CCWWGG	1 cut(s)	306
ErhI	CCWWGG	1 cut(s)	306
FaeI	CATG	2 cut(s)	82, 157
FaiI	YATR	3 cut(s)	80, 155, 314
FatI	CATG	2 cut(s)	78, 153
FauI	CCCGC	1 cut(s)	230
FblI	GTMKAC	1 cut(s)	150
FokI	GGATG	2 cut(s)	287, 338
HaeIII	GGCC	1 cut(s)	143
Hin1I	GRCGYC	1 cut(s)	147
Hin1II	CATG	2 cut(s)	82, 157
HincII	GTYRAC	1 cut(s)	151
HindII	GTYRAC	1 cut(s)	151
HphI	GGTGA	2 cut(s)	82, 182
Hpy166II	GTNNAC	1 cut(s)	151
Hpy188I	TCNGA	2 cut(s)	48, 358
Hpy188III	TCNNGA	5 cut(s)	185, 232, 332, 334, 343
Hpy8I	GTNNAC	1 cut(s)	151
Hpy99I	CGWCG	3 cut(s)	62, 149, 152
HpyAV	CCTTC	2 cut(s)	133, 256
HpyCH4IV	ACGT	2 cut(s)	57, 147
HpyCH4V	TGCA	2 cut(s)	135, 205
HpyF10VI	GCNNNNNNNGC	1 cut(s)	37
HpyF3I	CTNAG	2 cut(s)	183, 320
HpySE526I	ACGT	2 cut(s)	57, 147
Hsp92I	GRCGYC	1 cut(s)	147
Hsp92II	CATG	2 cut(s)	82, 157
Kzo9I	GATC	4 cut(s)	75, 234, 328, 348
LweI	GCATC	1 cut(s)	192
MaeII	ACGT	2 cut(s)	57, 147
MalI	GATC	4 cut(s)	77, 236, 330, 350
MboI	GATC	4 cut(s)	75, 234, 328, 348
MboII	GAAGA	2 cut(s)	85, 358
MflI	RGATCY	1 cut(s)	234
MluCI	AATT	1 cut(s)	359
MnlI	CCTC	4 cut(s)	13, 103, 156, 330
MseI	TTAA	1 cut(s)	376
MspR9I	CCNGG	1 cut(s)	290
MvaI	CCWGG	1 cut(s)	290
MwoI	GCNNNNNNNGC	1 cut(s)	37
NdeII	GATC	4 cut(s)	75, 234, 328, 348
NlaIII	CATG	2 cut(s)	82, 157
PaeR7I	CTCGAG	1 cut(s)	332
PcsI	WCGNNNNNNNCGW	1 cut(s)	15
Psp6I	CCWGG	1 cut(s)	288
PspGI	CCWGG	1 cut(s)	288
PsuI	RGATCY	1 cut(s)	234
SalI	GTCGAC	1 cut(s)	149
SaqAI	TTAA	1 cut(s)	376
Sau3AI	GATC	4 cut(s)	75, 234, 328, 348
ScrFI	CCNGG	1 cut(s)	290
SetI	ASST	8 cut(s)	60, 95, 150, 177, 201, 294, 321, 356
SfaNI	GCATC	1 cut(s)	192
Sfr274I	CTCGAG	1 cut(s)	332
SlaI	CTCGAG	1 cut(s)	332
SmlI	CTYRAG	2 cut(s)	332, 341
SmoI	CTYRAG	2 cut(s)	332, 341
Sse9I	AATT	1 cut(s)	359
SsiI	CCGC	1 cut(s)	223
SspI	AATATT	1 cut(s)	284
StyD4I	CCNGG	1 cut(s)	288
StyI	CCWWGG	1 cut(s)	306
TaiI	ACGT	2 cut(s)	60, 150
TaqI	TCGA	3 cut(s)	60, 150, 333
TaqII	GACCGA	1 cut(s)	98
TasI	AATT	1 cut(s)	359
Tru1I	TTAA	1 cut(s)	376
Tru9I	TTAA	1 cut(s)	376
TspDTI	ATGAA	2 cut(s)	170, 329
XapI	RAATTY	1 cut(s)	359
XhoI	CTCGAG	1 cut(s)	332
XmiI	GTMKAC	1 cut(s)	150
ZraI	GACGTC	1 cut(s)	148

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