Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0001431

Physical Location & Seq

Genomic Coordinates Forward (+)

44371693 .. 44373086

Gene Structure 1394 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG213800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 333 bp

ATGCTTATATTAGAAAATAGGATTTGCGGTAACCTTAGGGCTGGTGAGCTGTCTGGTCAGGAGATTGAGAACCTGATGTACATTGTGAGTAATCCCCGCCAGTTCAAGATCCCTGACTGGTTTCTCAACAGAAAGAAGGATTACAAGGATGGTAAATATTCCCAGGTCACCGCCAATGCCTTGGATATGAAGCTCAGGGATGATCTCGAGAGGCTCAAGAAGATCAGGAATCACCGTGGTCTTCGACACTACTGGGGCCTTCGTGTGCGTGGACAGCACACCAAGACCACCGGCCGCAGGGGGAAGACTGTTGGTGTGTCCAAGAAACGTTGA

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

110

Amino Acids

12.98

Weight (kDa)

10.56

Isoelectric Point (pI)

28.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_S13	PF00416	7 - 100	5.2e-37	Ribosomal protein S13/S18

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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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)
AciI	CCGC	4 cut(s)	27, 97, 171, 295
AclI	AACGTT	1 cut(s)	328
AclWI	GGATC	1 cut(s)	103
AcoI	YGGCCR	1 cut(s)	292
AfaI	GTAC	1 cut(s)	80
AfiI	CCNNNNNNNGG	1 cut(s)	297
AgsI	TTSAA	1 cut(s)	106
AjnI	CCWGG	1 cut(s)	162
AluBI	AGCT	2 cut(s)	49, 193
AluI	AGCT	2 cut(s)	49, 193
AlwI	GGATC	1 cut(s)	103
Ama87I	CYCGRG	1 cut(s)	206
AoxI	GGCC	2 cut(s)	256, 292
AspS9I	GGNCC	1 cut(s)	256
AsuHPI	GGTGA	3 cut(s)	56, 160, 224
AvaI	CYCGRG	1 cut(s)	206
AxyI	CCTNAGG	1 cut(s)	35
BbsI	GAAGAC	2 cut(s)	233, 311
BccI	CCATC	1 cut(s)	143
BciT130I	CCWGG	1 cut(s)	164
BisI	GCNGC	1 cut(s)	295
BlsI	GCNGC	1 cut(s)	296
Bme1390I	CCNGG	1 cut(s)	164
BmeT110I	CYCGRG	1 cut(s)	206
BmgT120I	GGNCC	1 cut(s)	256
BmiI	GGNNCC	1 cut(s)	257
BmrFI	CCNGG	1 cut(s)	164
BmrI	ACTGGG	1 cut(s)	262
BmuI	ACTGGG	1 cut(s)	262
BpiI	GAAGAC	2 cut(s)	233, 311
Bpu10I	CCTNAGC	1 cut(s)	194
BpuEI	CTTGAG	1 cut(s)	200
BsaJI	CCNNGG	3 cut(s)	162, 180, 235
Bsc4I	CCNNNNNNNGG	1 cut(s)	297
Bse118I	RCCGGY	1 cut(s)	290
Bse1I	ACTGG	3 cut(s)	100, 122, 257
Bse21I	CCTNAGG	1 cut(s)	35
BseBI	CCWGG	1 cut(s)	164
BseDI	CCNNGG	3 cut(s)	162, 180, 235
BseGI	GGATG	2 cut(s)	154, 205
BseLI	CCNNNNNNNGG	1 cut(s)	297
BseMII	CTCAG	1 cut(s)	208
BseNI	ACTGG	3 cut(s)	100, 122, 257
BseX3I	CGGCCG	1 cut(s)	292
Bsh1285I	CGRYCG	1 cut(s)	295
BshFI	GGCC	2 cut(s)	258, 294
BsiEI	CGRYCG	1 cut(s)	295
BsiHKCI	CYCGRG	1 cut(s)	206
BsiSI	CCGG	1 cut(s)	291
BslI	CCNNNNNNNGG	1 cut(s)	297
BsnI	GGCC	2 cut(s)	258, 294
BsoBI	CYCGRG	1 cut(s)	206
Bsp1407I	TGTACA	1 cut(s)	78
Bsp143I	GATC	3 cut(s)	108, 202, 222
BspACI	CCGC	4 cut(s)	27, 97, 171, 295
BspANI	GGCC	2 cut(s)	258, 294
BspCNI	CTCAG	1 cut(s)	207
BspLI	GGNNCC	1 cut(s)	257
BspPI	GGATC	1 cut(s)	103
BsrFI	RCCGGY	1 cut(s)	290
BsrGI	TGTACA	1 cut(s)	78
BsrI	ACTGG	3 cut(s)	100, 122, 257
BssAI	RCCGGY	1 cut(s)	290
BssECI	CCNNGG	3 cut(s)	162, 180, 235
BssMI	GATC	3 cut(s)	108, 202, 222
BssT1I	CCWWGG	1 cut(s)	180
Bst2UI	CCWGG	1 cut(s)	164
Bst4CI	ACNGT	2 cut(s)	236, 310
BstAUI	TGTACA	1 cut(s)	78
BstDEI	CTNAG	2 cut(s)	35, 194
BstDSI	CCRYGG	1 cut(s)	235
BstEII	GGTNACC	2 cut(s)	29, 166
BstF5I	GGATG	2 cut(s)	154, 205
BstKTI	GATC	3 cut(s)	111, 205, 225
BstMBI	GATC	3 cut(s)	108, 202, 222
BstMCI	CGRYCG	1 cut(s)	295
BstMWI	GCNNNNNNNGC	1 cut(s)	274
BstNI	CCWGG	1 cut(s)	164
BstPI	GGTNACC	2 cut(s)	29, 166
BstSCI	CCNGG	1 cut(s)	162
BstV2I	GAAGAC	2 cut(s)	233, 311
BstX2I	RGATCY	1 cut(s)	108
BstXI	CCANNNNNNTGG	1 cut(s)	181
BstYI	RGATCY	1 cut(s)	108
BstZI	CGGCCG	1 cut(s)	292
Bsu36I	CCTNAGG	1 cut(s)	35
BsuRI	GGCC	2 cut(s)	258, 294
BtgI	CCRYGG	1 cut(s)	235
BtsCI	GGATG	2 cut(s)	154, 205
Cfr10I	RCCGGY	1 cut(s)	290
Cfr13I	GGNCC	1 cut(s)	256
Csp6I	GTAC	1 cut(s)	79
CviJI	RGCY	6 cut(s)	41, 49, 193, 214, 258, 294
CviKI_1	RGCY	6 cut(s)	41, 49, 193, 214, 258, 294
CviQI	GTAC	1 cut(s)	79
DdeI	CTNAG	2 cut(s)	35, 194
DpnI	GATC	3 cut(s)	110, 204, 224
DpnII	GATC	3 cut(s)	108, 202, 222
EaeI	YGGCCR	1 cut(s)	292
EagI	CGGCCG	1 cut(s)	292
EclXI	CGGCCG	1 cut(s)	292
Eco130I	CCWWGG	1 cut(s)	180
Eco52I	CGGCCG	1 cut(s)	292
Eco81I	CCTNAGG	1 cut(s)	35
Eco88I	CYCGRG	1 cut(s)	206
Eco91I	GGTNACC	2 cut(s)	29, 166
EcoO109I	RGGNCCY	1 cut(s)	256
EcoO65I	GGTNACC	2 cut(s)	29, 166
EcoRII	CCWGG	1 cut(s)	162
EcoT14I	CCWWGG	1 cut(s)	180
ErhI	CCWWGG	1 cut(s)	180
FaiI	YATR	2 cut(s)	8, 188
FauI	CCCGC	1 cut(s)	104
Fnu4HI	GCNGC	1 cut(s)	295
FokI	GGATG	2 cut(s)	161, 212
Fsp4HI	GCNGC	1 cut(s)	295
GluI	GCNGC	1 cut(s)	295
HaeIII	GGCC	2 cut(s)	258, 294
HapII	CCGG	1 cut(s)	291
HinfI	GANTC	1 cut(s)	229
HpaII	CCGG	1 cut(s)	291
HphI	GGTGA	3 cut(s)	56, 160, 224
Hpy166II	GTNNAC	1 cut(s)	272
Hpy188III	TCNNGA	6 cut(s)	59, 106, 206, 208, 217, 226
Hpy8I	GTNNAC	1 cut(s)	272
HpyAV	CCTTC	2 cut(s)	130, 269
HpyCH4III	ACNGT	2 cut(s)	236, 310
HpyCH4IV	ACGT	1 cut(s)	328
HpyF10VI	GCNNNNNNNGC	1 cut(s)	274
HpyF3I	CTNAG	2 cut(s)	35, 194
HpySE526I	ACGT	1 cut(s)	328
Kzo9I	GATC	3 cut(s)	108, 202, 222
MaeII	ACGT	1 cut(s)	328
MaeIII	GTNAC	2 cut(s)	29, 166
MalI	GATC	3 cut(s)	110, 204, 224
MboI	GATC	3 cut(s)	108, 202, 222
MboII	GAAGA	3 cut(s)	232, 233, 316
MflI	RGATCY	1 cut(s)	108
MnlI	CCTC	1 cut(s)	204
MspI	CCGG	1 cut(s)	291
MspR9I	CCNGG	1 cut(s)	164
MvaI	CCWGG	1 cut(s)	164
MwoI	GCNNNNNNNGC	1 cut(s)	274
NdeII	GATC	3 cut(s)	108, 202, 222
NlaIV	GGNNCC	1 cut(s)	257
NmuCI	GTSAC	1 cut(s)	166
PaeR7I	CTCGAG	1 cut(s)	206
PfeI	GAWTC	1 cut(s)	229
PkrI	GCNGC	1 cut(s)	296
Psp1406I	AACGTT	1 cut(s)	328
Psp6I	CCWGG	1 cut(s)	162
PspEI	GGTNACC	2 cut(s)	29, 166
PspGI	CCWGG	1 cut(s)	162
PspN4I	GGNNCC	1 cut(s)	257
PspPI	GGNCC	1 cut(s)	256
PsrI	GAACNNNNNNTAC	2 cut(s)	62, 94
PsuI	RGATCY	1 cut(s)	108
RsaI	GTAC	1 cut(s)	80
RsaNI	GTAC	1 cut(s)	79
SatI	GCNGC	1 cut(s)	295
Sau3AI	GATC	3 cut(s)	108, 202, 222
Sau96I	GGNCC	1 cut(s)	256
ScrFI	CCNGG	1 cut(s)	164
SetI	ASST	6 cut(s)	36, 51, 75, 168, 195, 331
Sfr274I	CTCGAG	1 cut(s)	206
SlaI	CTCGAG	1 cut(s)	206
SmlI	CTYRAG	2 cut(s)	206, 215
SmoI	CTYRAG	2 cut(s)	206, 215
SsiI	CCGC	4 cut(s)	27, 97, 171, 295
SspI	AATATT	1 cut(s)	158
StyD4I	CCNGG	1 cut(s)	162
StyI	CCWWGG	1 cut(s)	180
TaaI	ACNGT	2 cut(s)	236, 310
TaiI	ACGT	1 cut(s)	331
TaqI	TCGA	2 cut(s)	207, 244
TatI	WGTACW	1 cut(s)	78
TauI	GCSGC	1 cut(s)	297
TfiI	GAWTC	1 cut(s)	229
TseFI	GTSAC	1 cut(s)	166
Tsp45I	GTSAC	1 cut(s)	166
TspDTI	ATGAA	1 cut(s)	203
XhoI	CTCGAG	1 cut(s)	206

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