Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0015486

Physical Location & Seq

Genomic Coordinates Forward (+)

60935230 .. 60938130

Gene Structure 2901 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG383400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 588 bp

ATGGCCTCAACTGCTTCGACTCTATCATGGAGTTCTACCTCATTGCTTCAAAGCTTTACAGGAAACATAAACCAAGCAACTAAAATAGCAGACAGAGGAACAGCCTTGGTCGTTATCGCTCAAAAGAAAGCCAAGAAAGCTCGAACGATAATTCTGAAGGAGGATGTAGCTGACCTGGGAAAGCAAGGGCAGCTTGTTAGTGTGAAAGCTGGTTATTACAGGAATTTTCTGCTTCCAACAGGAAAGGCCCAGATTGTTACTCCTGTGCTGCTCAAGGAAATGAAAATGGAAGAGGAAAGGATTGAGGCTGAGAAAAAGCGGGTAAAAGAAGAGGCACAGCAACTTGCTCTTATATTTGAAACTGTTGGAGGATTCAAGGTGAAGCGCAAAGGTGGAAAAGGAAAGCTGATTTTTGGAAGCGTCACACCTCAAGATCTTGTTGACATTATCAAGGCACAGCTTCAAAGGGATGTCGACAAGCGAATAGTATCTCTTCCAGAAATTCGTGAGATTGGAGAATATATTGCTGAACTAAAGCTTCATCCAGAAGTGAGTGCTAAAGTACGGGTGATTGTTTCTGCTAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000311 GO:0000313 GO:0000315 GO:0003674 GO:0003676 GO:0003723 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005840 GO:0006412 GO:0006518 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009507 GO:0009526 GO:0009532 GO:0009536 GO:0009547 GO:0009570 GO:0009941 GO:0009987 GO:0010467 GO:0015934 GO:0019538 GO:0031967 GO:0031975 GO:0032991 GO:0034641 GO:0034645 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044391 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0071704 GO:0097159 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_L9_C Ribosomal_L9_N

Protein Analysis

195

Amino Acids

21.49

Weight (kDa)

9.79

Isoelectric Point (pI)

30.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L9_N	PF01281	50 - 93	2.1e-17	Ribosomal protein L9, N-terminal domain
Ribosomal_L9_C	PF03948	110 - 193	3.7e-19	Ribosomal protein L9, C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0015486)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G44890
fragaria_vesca	FvH4_3g30600
malus_domestica	MD03G1128600.v1.1 MD11G1148800.v1.1
prunus_persica	Prupe.6G113200_v2.0.a1
pyrus_communis	pycom11g12170
rosa_chinensis	RchiOBHm_Chr5g0056671
rosa_laevigata	RLG00000035119
rosa_multiflora	Rmu_sc0005086.1_g000002
rosa_roxburghii	Rroxscaffold_1G00023680
rosa_rugosa	Rorug05G0301200
rosa_samantha	Rh5AG371500 Rh5BG383400 Rh5CG406500 Rh5DG396400
rosa_wichuraiana	Rw5G034850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	474
AciI	CCGC	1 cut(s)	319
AcsI	RAATTY	2 cut(s)	223, 501
AcuI	CTGAAG	1 cut(s)	176
AfaI	GTAC	1 cut(s)	564
AgsI	TTSAA	4 cut(s)	50, 359, 376, 464
AjnI	CCWGG	1 cut(s)	174
AluBI	AGCT	8 cut(s)	54, 140, 170, 193, 209, 406, 460, 538
AluI	AGCT	8 cut(s)	54, 140, 170, 193, 209, 406, 460, 538
AoxI	GGCC	2 cut(s)	3, 246
ApeKI	GCWGC	2 cut(s)	190, 268
ApoI	RAATTY	2 cut(s)	223, 501
AspLEI	GCGC	1 cut(s)	387
AspS9I	GGNCC	1 cut(s)	247
AsuHPI	GGTGA	2 cut(s)	391, 580
BbvI	GCAGC	2 cut(s)	202, 255
BciT130I	CCWGG	1 cut(s)	176
BglII	AGATCT	1 cut(s)	433
BisI	GCNGC	2 cut(s)	191, 269
BlsI	GCNGC	2 cut(s)	192, 270
Bme1390I	CCNGG	1 cut(s)	176
BmgT120I	GGNCC	1 cut(s)	247
BmrFI	CCNGG	1 cut(s)	176
BpuEI	CTTGAG	2 cut(s)	257, 414
BsaJI	CCNNGG	2 cut(s)	105, 175
Bse3DI	GCAATG	1 cut(s)	41
BseBI	CCWGG	1 cut(s)	176
BseDI	CCNNGG	2 cut(s)	105, 175
BseGI	GGATG	3 cut(s)	169, 475, 541
BseMI	GCAATG	1 cut(s)	41
BseMII	CTCAG	1 cut(s)	300
BseXI	GCAGC	2 cut(s)	202, 255
BshFI	GGCC	2 cut(s)	5, 248
BsnI	GGCC	2 cut(s)	5, 248
Bsp143I	GATC	1 cut(s)	433
BspACI	CCGC	1 cut(s)	319
BspANI	GGCC	2 cut(s)	5, 248
BspCNI	CTCAG	1 cut(s)	301
BsrDI	GCAATG	1 cut(s)	41
BssECI	CCNNGG	2 cut(s)	105, 175
BssMI	GATC	1 cut(s)	433
BssT1I	CCWWGG	1 cut(s)	105
Bst2UI	CCWGG	1 cut(s)	176
Bst4CI	ACNGT	1 cut(s)	364
Bst6I	CTCTTC	3 cut(s)	285, 324, 498
BstDEI	CTNAG	1 cut(s)	309
BstF5I	GGATG	3 cut(s)	169, 475, 541
BstHHI	GCGC	1 cut(s)	387
BstKTI	GATC	1 cut(s)	436
BstMBI	GATC	1 cut(s)	433
BstMWI	GCNNNNNNNGC	3 cut(s)	11, 137, 190
BstNI	CCWGG	1 cut(s)	176
BstSCI	CCNGG	1 cut(s)	174
BstV1I	GCAGC	2 cut(s)	202, 255
BstX2I	RGATCY	1 cut(s)	433
BstYI	RGATCY	1 cut(s)	433
BsuRI	GGCC	2 cut(s)	5, 248
BtsCI	GGATG	3 cut(s)	169, 475, 541
CfoI	GCGC	1 cut(s)	387
Cfr13I	GGNCC	1 cut(s)	247
CseI	GACGC	1 cut(s)	409
Csp6I	GTAC	1 cut(s)	563
CviAII	CATG	1 cut(s)	27
CviQI	GTAC	1 cut(s)	563
DdeI	CTNAG	1 cut(s)	309
DpnI	GATC	1 cut(s)	435
DpnII	GATC	1 cut(s)	433
Eam1104I	CTCTTC	3 cut(s)	285, 324, 498
EarI	CTCTTC	3 cut(s)	285, 324, 498
Eco130I	CCWWGG	1 cut(s)	105
Eco57I	CTGAAG	1 cut(s)	176
EcoRII	CCWGG	1 cut(s)	174
EcoT14I	CCWWGG	1 cut(s)	105
ErhI	CCWWGG	1 cut(s)	105
FaeI	CATG	1 cut(s)	30
FaiI	YATR	4 cut(s)	28, 68, 353, 522
FalI	AAGNNNNNCTT	2 cut(s)	177, 209
FatI	CATG	1 cut(s)	26
FauI	CCCGC	1 cut(s)	312
FblI	GTMKAC	1 cut(s)	474
Fnu4HI	GCNGC	2 cut(s)	191, 269
FokI	GGATG	3 cut(s)	176, 482, 528
Fsp4HI	GCNGC	2 cut(s)	191, 269
GlaI	GCGC	1 cut(s)	386
GluI	GCNGC	2 cut(s)	191, 269
HaeIII	GGCC	2 cut(s)	5, 248
HgaI	GACGC	1 cut(s)	409
HhaI	GCGC	1 cut(s)	387
Hin1II	CATG	1 cut(s)	30
Hin6I	GCGC	1 cut(s)	385
HinP1I	GCGC	1 cut(s)	385
HincII	GTYRAC	2 cut(s)	442, 475
HindII	GTYRAC	2 cut(s)	442, 475
HindIII	AAGCTT	2 cut(s)	52, 536
HinfI	GANTC	2 cut(s)	19, 372
HphI	GGTGA	2 cut(s)	391, 580
Hpy166II	GTNNAC	2 cut(s)	442, 475
Hpy188I	TCNGA	1 cut(s)	156
Hpy188III	TCNNGA	4 cut(s)	431, 497, 506, 545
Hpy8I	GTNNAC	2 cut(s)	442, 475
HpyAV	CCTTC	1 cut(s)	151
HpyCH4III	ACNGT	1 cut(s)	364
HpyF10VI	GCNNNNNNNGC	3 cut(s)	11, 137, 190
HpyF3I	CTNAG	1 cut(s)	309
Hsp92II	CATG	1 cut(s)	30
HspAI	GCGC	1 cut(s)	385
Kzo9I	GATC	1 cut(s)	433
Lsp1109I	GCAGC	2 cut(s)	202, 255
MaeIII	GTNAC	2 cut(s)	256, 421
MalI	GATC	1 cut(s)	435
MboI	GATC	1 cut(s)	433
MboII	GAAGA	3 cut(s)	302, 341, 485
MflI	RGATCY	1 cut(s)	433
MluCI	AATT	4 cut(s)	150, 223, 501, 583
MlyI	GAGTC	1 cut(s)	13
MmeI	TCCRAC	2 cut(s)	260, 346
MnlI	CCTC	9 cut(s)	16, 49, 89, 154, 286, 298, 325, 362, 438
MseI	TTAA	1 cut(s)	586
MspR9I	CCNGG	1 cut(s)	176
MvaI	CCWGG	1 cut(s)	176
MwoI	GCNNNNNNNGC	3 cut(s)	11, 137, 190
NdeII	GATC	1 cut(s)	433
NlaIII	CATG	1 cut(s)	30
NmuCI	GTSAC	1 cut(s)	421
PfeI	GAWTC	1 cut(s)	372
PkrI	GCNGC	2 cut(s)	192, 270
PleI	GAGTC	1 cut(s)	13
PpsI	GAGTC	1 cut(s)	13
Psp6I	CCWGG	1 cut(s)	174
PspGI	CCWGG	1 cut(s)	174
PspPI	GGNCC	1 cut(s)	247
PsuI	RGATCY	1 cut(s)	433
RsaI	GTAC	1 cut(s)	564
RsaNI	GTAC	1 cut(s)	563
SalI	GTCGAC	1 cut(s)	473
SaqAI	TTAA	1 cut(s)	586
SatI	GCNGC	2 cut(s)	191, 269
Sau3AI	GATC	1 cut(s)	433
Sau96I	GGNCC	1 cut(s)	247
SchI	GAGTC	1 cut(s)	13
ScrFI	CCNGG	1 cut(s)	176
SmlI	CTYRAG	2 cut(s)	272, 429
SmoI	CTYRAG	2 cut(s)	272, 429
Sse9I	AATT	4 cut(s)	150, 223, 501, 583
SsiI	CCGC	1 cut(s)	319
StyD4I	CCNGG	1 cut(s)	174
StyI	CCWWGG	1 cut(s)	105
TaaI	ACNGT	1 cut(s)	364
TaqI	TCGA	3 cut(s)	17, 142, 474
TasI	AATT	4 cut(s)	150, 223, 501, 583
TfiI	GAWTC	1 cut(s)	372
Tru1I	TTAA	1 cut(s)	586
Tru9I	TTAA	1 cut(s)	586
TseFI	GTSAC	1 cut(s)	421
TseI	GCWGC	2 cut(s)	190, 268
Tsp45I	GTSAC	1 cut(s)	421
TspDTI	ATGAA	2 cut(s)	296, 530
XapI	RAATTY	2 cut(s)	223, 501
XmiI	GTMKAC	1 cut(s)	474

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