Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0006170

Physical Location & Seq

Genomic Coordinates Reverse (-)

48259782 .. 48262013

Gene Structure 2232 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG264200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 699 bp

ATGGACGCGAGAGACGGAGACGGGTCAACGGAGGAATACGAGACGTTGATTCAGACGACCGACGTCGAGCTTCTGAAGAGGGCGTGGCGGCAAGAGAAGGCGGCTCCGGAGATTTTGAAATTCGAGACTGATTTGATTGCCAGGCTCACTGGACAGATCGAATTGGTGGAAGAAAATGTGGAGCAAGATGCTCAATCTGGTATTGATCCACTTACTGTATCACTCTACCAGATGGATTTGGACAGGTCTCAGTTCTTGTTGAGATCTTATCTTCGAATTCGGCTGCAGAAGATTGAGAAATACATCTTTCACATCTTAGCTACTGCTGAACTCTACAACCGTCTCTCTAAACAGGAGAAGGCATTTGCAAAAACGTGTCTTGTTGATTTGGAGAAGCATCTTGATGAGAGTGTTCTGTCGAAATTGCCTAATAACTATCAGTCTATATTCAAGCAATCCATGATCAGTGAAGAGAATGACATGGTGGCAAAACCCCAATTAGACACATTTGTTGTATGCAAAACCAATTACTATCTTGGACATATCCAGCTCGAGGACAATGAAGATGGACCATCAGATGACAGGGCGAACCAGAGACCATTGGAGGAACCGTTCGAAATGGAGCCTGATGTTTTATACTTTGTGCGTTACAAAGCAATAAAGAGATTCGTAGAGGAAGGGAGGATTGATTTATTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

SLD5_C Sld5

Protein Analysis

232

Amino Acids

27.14

Weight (kDa)

4.69

Isoelectric Point (pI)

55.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sld5	PF05916	71 - 135	2.6e-11	GINS complex protein helical bundle domain
SLD5_C	PF16922	165 - 231	1.2e-11	DNA replication complex GINS protein SLD5 C-terminus

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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Publication-ready

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Orthologous Genes (Group: OG0006170)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G49010 AT5G49010
fragaria_vesca	FvH4_4g13700 FvH4_4g13700 FvH4_4g13700 FvH4_4g20000 FvH4_4g20000
malus_domestica	MD13G1151200.v1.1 MD16G1152100.v1.1
prunus_persica	Prupe.1G115500_v2.0.a1 Prupe.1G115500_v2.0.a1 Prupe.1G115500_v2.0.a1
pyrus_communis	pycom13g12990 pycom16g12950
rosa_chinensis	RchiOBHm_Chr4g0425721 RchiOBHm_Chr6g0255221 RchiOBHm_Chr7g0210081
rosa_laevigata	RLG00000007344 RLG00000031854
rosa_multiflora	Rmu_sc0003958.1_g000010
rosa_roxburghii	Rroxscaffold_5G00367700
rosa_rugosa	Rorug04G0205400
rosa_samantha	Rh4AG262300 Rh4BG268600 Rh4CG279800 Rh4DG264200
rosa_wichuraiana	Rw4G022680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	66
AccII	CGCG	1 cut(s)	8
AccIII	TCCGGA	1 cut(s)	106
AciI	CCGC	2 cut(s)	88, 101
AclWI	GGATC	1 cut(s)	200
AcsI	RAATTY	2 cut(s)	119, 276
AcuI	CTGAAG	1 cut(s)	95
AcyI	GRCGYC	1 cut(s)	63
AfiI	CCNNNNNNNGG	1 cut(s)	553
AflIII	ACRYGT	1 cut(s)	374
AgsI	TTSAA	2 cut(s)	118, 451
AjnI	CCWGG	1 cut(s)	140
AloI	GAACNNNNNNTCC	2 cut(s)	596, 628
AluBI	AGCT	3 cut(s)	70, 320, 550
AluI	AGCT	3 cut(s)	70, 320, 550
Alw26I	GTCTC	7 cut(s)	6, 12, 35, 119, 252, 347, 589
AlwI	GGATC	1 cut(s)	200
Ama87I	CYCGRG	1 cut(s)	551
Aor13HI	TCCGGA	1 cut(s)	106
ApeKI	GCWGC	1 cut(s)	283
ApoI	RAATTY	2 cut(s)	119, 276
AspS9I	GGNCC	1 cut(s)	569
AsuII	TTCGAA	2 cut(s)	274, 615
AvaI	CYCGRG	1 cut(s)	551
AvaII	GGWCC	1 cut(s)	569
BbvI	GCAGC	1 cut(s)	270
BccI	CCATC	3 cut(s)	226, 560, 580
BciT130I	CCWGG	1 cut(s)	142
BclI	TGATCA	1 cut(s)	462
BcoDI	GTCTC	7 cut(s)	6, 12, 35, 119, 252, 347, 589
BfmI	CTRYAG	1 cut(s)	284
BglII	AGATCT	1 cut(s)	263
BisI	GCNGC	3 cut(s)	89, 102, 284
BlsI	GCNGC	3 cut(s)	90, 103, 285
Bme1390I	CCNGG	1 cut(s)	142
Bme18I	GGWCC	1 cut(s)	569
BmeT110I	CYCGRG	1 cut(s)	551
BmgT120I	GGNCC	1 cut(s)	569
BmiI	GGNNCC	3 cut(s)	105, 609, 624
BmrFI	CCNGG	1 cut(s)	142
BmsI	GCATC	2 cut(s)	178, 406
BoxI	GACNNNNGTC	1 cut(s)	62
Bpu14I	TTCGAA	2 cut(s)	274, 615
BsaHI	GRCGYC	1 cut(s)	63
BsaI	GGTCTC	2 cut(s)	252, 589
BsaWI	WCCGGW	1 cut(s)	106
BsaXI	ACNNNNNCTCC	2 cut(s)	596, 626
Bsc4I	CCNNNNNNNGG	1 cut(s)	553
Bse1I	ACTGG	1 cut(s)	154
BseAI	TCCGGA	1 cut(s)	106
BseBI	CCWGG	1 cut(s)	142
BseLI	CCNNNNNNNGG	1 cut(s)	553
BseMII	CTCAG	1 cut(s)	263
BseNI	ACTGG	1 cut(s)	154
BseXI	GCAGC	1 cut(s)	270
Bsh1236I	CGCG	1 cut(s)	8
Bsh1285I	CGRYCG	1 cut(s)	60
BsiEI	CGRYCG	1 cut(s)	60
BsiHKCI	CYCGRG	1 cut(s)	551
BsiSI	CCGG	1 cut(s)	107
BslI	CCNNNNNNNGG	1 cut(s)	553
BsmAI	GTCTC	7 cut(s)	6, 12, 35, 119, 252, 347, 589
BsmBI	CGTCTC	4 cut(s)	6, 12, 35, 347
Bso31I	GGTCTC	2 cut(s)	252, 589
BsoBI	CYCGRG	1 cut(s)	551
Bsp119I	TTCGAA	2 cut(s)	274, 615
Bsp13I	TCCGGA	1 cut(s)	106
Bsp143I	GATC	4 cut(s)	156, 205, 263, 462
BspACI	CCGC	2 cut(s)	88, 101
BspCNI	CTCAG	1 cut(s)	262
BspEI	TCCGGA	1 cut(s)	106
BspFNI	CGCG	1 cut(s)	8
BspLI	GGNNCC	3 cut(s)	105, 609, 624
BspMAI	CTGCAG	1 cut(s)	288
BspPI	GGATC	1 cut(s)	200
BspT104I	TTCGAA	2 cut(s)	274, 615
BspTNI	GGTCTC	2 cut(s)	252, 589
BsrI	ACTGG	1 cut(s)	154
BssMI	GATC	4 cut(s)	156, 205, 263, 462
BssNI	GRCGYC	1 cut(s)	63
Bst2UI	CCWGG	1 cut(s)	142
Bst4CI	ACNGT	3 cut(s)	217, 341, 612
Bst6I	CTCTTC	2 cut(s)	71, 465
BstACI	GRCGYC	1 cut(s)	63
BstBI	TTCGAA	2 cut(s)	274, 615
BstDEI	CTNAG	2 cut(s)	249, 316
BstFNI	CGCG	1 cut(s)	8
BstKTI	GATC	4 cut(s)	159, 208, 266, 465
BstMAI	GTCTC	7 cut(s)	6, 12, 35, 119, 252, 347, 589
BstMBI	GATC	4 cut(s)	156, 205, 263, 462
BstMCI	CGRYCG	1 cut(s)	60
BstNI	CCWGG	1 cut(s)	142
BstPAI	GACNNNNGTC	1 cut(s)	62
BstSCI	CCNGG	1 cut(s)	140
BstSFI	CTRYAG	1 cut(s)	284
BstUI	CGCG	1 cut(s)	8
BstV1I	GCAGC	1 cut(s)	270
BstX2I	RGATCY	1 cut(s)	263
BstYI	RGATCY	1 cut(s)	263
BtsIMutI	CAGTG	2 cut(s)	147, 472
Cfr13I	GGNCC	1 cut(s)	569
CseI	GACGC	1 cut(s)	14
CviAII	CATG	2 cut(s)	460, 481
CviJI	RGCY	7 cut(s)	70, 104, 145, 283, 320, 550, 625
CviKI_1	RGCY	7 cut(s)	70, 104, 145, 283, 320, 550, 625
DdeI	CTNAG	2 cut(s)	249, 316
DpnI	GATC	4 cut(s)	158, 207, 265, 464
DpnII	GATC	4 cut(s)	156, 205, 263, 462
Eam1104I	CTCTTC	2 cut(s)	71, 465
EarI	CTCTTC	2 cut(s)	71, 465
Eco31I	GGTCTC	2 cut(s)	252, 589
Eco47I	GGWCC	1 cut(s)	569
Eco57I	CTGAAG	1 cut(s)	95
Eco88I	CYCGRG	1 cut(s)	551
EcoRI	GAATTC	1 cut(s)	276
EcoRII	CCWGG	1 cut(s)	140
Esp3I	CGTCTC	4 cut(s)	6, 12, 35, 347
FaeI	CATG	2 cut(s)	463, 484
FaiI	YATR	6 cut(s)	446, 461, 482, 517, 543, 637
FatI	CATG	2 cut(s)	459, 480
FbaI	TGATCA	1 cut(s)	462
Fnu4HI	GCNGC	3 cut(s)	89, 102, 284
Fsp4HI	GCNGC	3 cut(s)	89, 102, 284
GluI	GCNGC	3 cut(s)	89, 102, 284
HapII	CCGG	1 cut(s)	107
HgaI	GACGC	1 cut(s)	14
Hin1I	GRCGYC	1 cut(s)	63
Hin1II	CATG	2 cut(s)	463, 484
HincII	GTYRAC	1 cut(s)	27
HindII	GTYRAC	1 cut(s)	27
HinfI	GANTC	2 cut(s)	49, 666
HpaII	CCGG	1 cut(s)	107
Hpy166II	GTNNAC	1 cut(s)	27
Hpy188I	TCNGA	4 cut(s)	54, 75, 577, 698
Hpy188III	TCNNGA	3 cut(s)	107, 124, 401
Hpy8I	GTNNAC	1 cut(s)	27
Hpy99I	CGWCG	2 cut(s)	65, 68
HpyAV	CCTTC	3 cut(s)	91, 352, 671
HpyCH4III	ACNGT	3 cut(s)	217, 341, 612
HpyCH4IV	ACGT	3 cut(s)	44, 63, 374
HpyCH4V	TGCA	3 cut(s)	286, 368, 519
HpyF3I	CTNAG	2 cut(s)	249, 316
HpySE526I	ACGT	3 cut(s)	44, 63, 374
Hsp92I	GRCGYC	1 cut(s)	63
Hsp92II	CATG	2 cut(s)	463, 484
Kpn2I	TCCGGA	1 cut(s)	106
Ksp22I	TGATCA	1 cut(s)	462
Kzo9I	GATC	4 cut(s)	156, 205, 263, 462
LmnI	GCTCC	3 cut(s)	109, 181, 622
Lsp1109I	GCAGC	1 cut(s)	270
LweI	GCATC	2 cut(s)	178, 406
MaeII	ACGT	3 cut(s)	44, 63, 374
MaeIII	GTNAC	1 cut(s)	647
MalI	GATC	4 cut(s)	158, 207, 265, 464
MboI	GATC	4 cut(s)	156, 205, 263, 462
MboII	GAAGA	6 cut(s)	88, 182, 263, 301, 482, 575
MflI	RGATCY	1 cut(s)	263
MluCI	AATT	6 cut(s)	119, 161, 276, 422, 497, 526
MnlI	CCTC	6 cut(s)	25, 72, 547, 598, 667, 675
MroI	TCCGGA	1 cut(s)	106
MslI	CAYNNNNRTG	1 cut(s)	402
MspI	CCGG	1 cut(s)	107
MspR9I	CCNGG	1 cut(s)	142
MvaI	CCWGG	1 cut(s)	142
MvnI	CGCG	1 cut(s)	8
NdeII	GATC	4 cut(s)	156, 205, 263, 462
NlaIII	CATG	2 cut(s)	463, 484
NlaIV	GGNNCC	3 cut(s)	105, 609, 624
NspV	TTCGAA	2 cut(s)	274, 615
PaeR7I	CTCGAG	1 cut(s)	551
PfeI	GAWTC	2 cut(s)	49, 666
PkrI	GCNGC	3 cut(s)	90, 103, 285
PshAI	GACNNNNGTC	1 cut(s)	62
Psp6I	CCWGG	1 cut(s)	140
PspGI	CCWGG	1 cut(s)	140
PspN4I	GGNNCC	3 cut(s)	105, 609, 624
PspPI	GGNCC	1 cut(s)	569
PspXI	VCTCGAGB	1 cut(s)	551
PstI	CTGCAG	1 cut(s)	288
PsuI	RGATCY	1 cut(s)	263
RseI	CAYNNNNRTG	1 cut(s)	402
SatI	GCNGC	3 cut(s)	89, 102, 284
Sau3AI	GATC	4 cut(s)	156, 205, 263, 462
Sau96I	GGNCC	1 cut(s)	569
ScrFI	CCNGG	1 cut(s)	142
SetI	ASST	7 cut(s)	47, 66, 72, 248, 322, 377, 552
SfaNI	GCATC	2 cut(s)	178, 406
SfcI	CTRYAG	1 cut(s)	284
Sfr274I	CTCGAG	1 cut(s)	551
SfuI	TTCGAA	2 cut(s)	274, 615
SinI	GGWCC	1 cut(s)	569
SlaI	CTCGAG	1 cut(s)	551
SmiMI	CAYNNNNRTG	1 cut(s)	402
SmlI	CTYRAG	1 cut(s)	551
SmoI	CTYRAG	1 cut(s)	551
Sse9I	AATT	6 cut(s)	119, 161, 276, 422, 497, 526
SsiI	CCGC	2 cut(s)	88, 101
StyD4I	CCNGG	1 cut(s)	140
TaaI	ACNGT	3 cut(s)	217, 341, 612
TaiI	ACGT	3 cut(s)	47, 66, 377
TaqI	TCGA	7 cut(s)	66, 123, 159, 274, 419, 552, 615
TaqII	GACCGA	1 cut(s)	74
TasI	AATT	6 cut(s)	119, 161, 276, 422, 497, 526
TauI	GCSGC	2 cut(s)	91, 104
TfiI	GAWTC	2 cut(s)	49, 666
TscAI	CASTG	2 cut(s)	154, 472
TseI	GCWGC	1 cut(s)	283
TspDTI	ATGAA	1 cut(s)	576
TspGWI	ACGGA	2 cut(s)	30, 44
TspRI	CASTG	2 cut(s)	154, 472
VpaK11BI	GGWCC	1 cut(s)	569
XapI	RAATTY	2 cut(s)	119, 276
XhoI	CTCGAG	1 cut(s)	551
ZraI	GACGTC	1 cut(s)	64

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