Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0010535

Physical Location & Seq

Genomic Coordinates Reverse (-)

2268881 .. 2269816

Gene Structure 936 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG032300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 603 bp

ATGATGATGATGCATCAGCAAGTTGGTAACAGACACGGTGCAAACTCATATGCACCTCCTTTTCTTCCTATGCTACATTATCAACCTCAGGTTCTTCCTCTTTCTGGGTATAACTACCAGCCATATCTTGCTGGATACCATCCTTTTGTGCACCAAACTACACCTCAACCGCCATACTATGCTACCACATTTTATAATCCTGTAGAACCAGATTACTTTGGCGCTTTCGGAACTTGGCCTTCTGTTGAACCTCAGTTTTCTTGTCATGCTCCGAGTTTTGTGCCAAATATGGGATCTCATTCTTTGAATTCAAGGGATGCAGTAGCCTCGTTAAGGGGTGATATTATGCAGCAGATAGAGTACTATTTTAGTGACGAAAATTTGAATAAGCCTGACCTTTACCTGATTTCGTTGATGGATGACAAAGGGTGGGTTCCAGTACCTATCATTGCCGGGTTTCATAGGGTTAAAGCAATGTGTAAATCTGTAACCTTCATTCTTGAGTCGCTGTTAGACTCGAGTATAGTAGAAGTCCGAGGTAACAGGATAAGAAGACGTGATGTGTGGTCAAAGTGGATTTCATCAGCTAAGCTAGCTACATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000932 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005844 GO:0006139 GO:0006401 GO:0006402 GO:0006725 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009266 GO:0009408 GO:0009628 GO:0009892 GO:0009987 GO:0010286 GO:0010468 GO:0010605 GO:0010629 GO:0016070 GO:0016071 GO:0019222 GO:0019439 GO:0032991 GO:0034641 GO:0034655 GO:0035770 GO:0036464 GO:0043170 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0046700 GO:0048519 GO:0050789 GO:0050896 GO:0060255 GO:0065007 GO:0071704 GO:0090304 GO:1901360 GO:1901361 GO:1901575 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Protein Analysis

200

Amino Acids

22.84

Weight (kDa)

7.09

Isoelectric Point (pI)

54.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
La	PF05383	115 - 170	2.8e-18	La 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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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010535)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g02470 FvH4_4g29920 FvH4_4g29960
malus_domestica	MD11G1176000.v1.1
prunus_persica	Prupe.3G218300_v2.0.a1
pyrus_communis	pycom17g09190
rosa_laevigata	RLG00000006380 RLG00000031169
rosa_multiflora	Rmu_sc0002682.1_g000003
rosa_roxburghii	Rroxscaffold_5G00379320
rosa_rugosa	Rorug04G0406200
rosa_samantha	Rh4BG370000 Rh4CG384100 Rh4DG364900 Rh5AG033300 Rh5BG031700 Rh5CG036000 Rh5DG032300
rosa_wichuraiana	Rw0G006370 Rw0G016310 Rw5G003070

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	195
AciI	CCGC	1 cut(s)	170
AclWI	GGATC	1 cut(s)	301
AcsI	RAATTY	2 cut(s)	307, 379
AfaI	GTAC	2 cut(s)	362, 441
AfiI	CCNNNNNNNGG	3 cut(s)	104, 290, 333
AgsI	TTSAA	4 cut(s)	248, 307, 312, 385
AjiI	CACGTC	1 cut(s)	557
AluBI	AGCT	3 cut(s)	587, 592, 596
AluI	AGCT	3 cut(s)	587, 592, 596
Alw21I	GWGCWC	1 cut(s)	153
Alw44I	GTGCAC	1 cut(s)	149
AlwI	GGATC	1 cut(s)	301
Ama87I	CYCGRG	1 cut(s)	517
AoxI	GGCC	1 cut(s)	236
ApaLI	GTGCAC	1 cut(s)	149
ApeKI	GCWGC	1 cut(s)	349
ApoI	RAATTY	2 cut(s)	307, 379
AspLEI	GCGC	1 cut(s)	224
AsuC2I	CCSGG	1 cut(s)	454
AsuHPI	GGTGA	1 cut(s)	350
AsuNHI	GCTAGC	1 cut(s)	592
AvaI	CYCGRG	1 cut(s)	517
AxyI	CCTNAGG	1 cut(s)	87
BaeGI	GKGCMC	1 cut(s)	153
BbsI	GAAGAC	1 cut(s)	559
Bbv12I	GWGCWC	1 cut(s)	153
BbvI	GCAGC	1 cut(s)	361
BccI	CCATC	2 cut(s)	147, 409
BcgI	CGANNNNNNTGC	4 cut(s)	262, 296, 309, 343
BciVI	GTATCC	1 cut(s)	128
BcnI	CCSGG	1 cut(s)	454
BfaI	CTAG	1 cut(s)	593
BfmI	CTRYAG	1 cut(s)	201
BfoI	RGCGCY	1 cut(s)	225
BfuI	GTATCC	1 cut(s)	128
BisI	GCNGC	1 cut(s)	350
BlpI	GCTNAGC	1 cut(s)	588
BlsI	GCNGC	1 cut(s)	351
BmcAI	AGTACT	1 cut(s)	362
Bme1390I	CCNGG	1 cut(s)	454
BmeT110I	CYCGRG	1 cut(s)	517
BmgBI	CACGTC	1 cut(s)	557
BmiI	GGNNCC	1 cut(s)	435
BmrFI	CCNGG	1 cut(s)	454
BmsI	GCATC	2 cut(s)	22, 307
BmtI	GCTAGC	1 cut(s)	596
BpiI	GAAGAC	1 cut(s)	559
Bpu1102I	GCTNAGC	1 cut(s)	588
BpuEI	CTTGAG	1 cut(s)	521
BpuMI	CCSGG	1 cut(s)	454
BsaJI	CCNNGG	1 cut(s)	535
Bsc4I	CCNNNNNNNGG	3 cut(s)	104, 290, 333
Bse1I	ACTGG	1 cut(s)	437
Bse21I	CCTNAGG	1 cut(s)	87
Bse3DI	GCAATG	2 cut(s)	447, 480
BseDI	CCNNGG	1 cut(s)	535
BseGI	GGATG	3 cut(s)	139, 322, 424
BseLI	CCNNNNNNNGG	3 cut(s)	104, 290, 333
BseMI	GCAATG	2 cut(s)	447, 480
BseMII	CTCAG	2 cut(s)	101, 266
BseNI	ACTGG	1 cut(s)	437
BseSI	GKGCMC	1 cut(s)	153
BseXI	GCAGC	1 cut(s)	361
BshFI	GGCC	1 cut(s)	238
BsiHKAI	GWGCWC	1 cut(s)	153
BsiHKCI	CYCGRG	1 cut(s)	517
BsiSI	CCGG	1 cut(s)	453
BslI	CCNNNNNNNGG	3 cut(s)	104, 290, 333
BsnI	GGCC	1 cut(s)	238
BsoBI	CYCGRG	1 cut(s)	517
Bsp1286I	GDGCHC	1 cut(s)	153
Bsp143I	GATC	1 cut(s)	293
Bsp1720I	GCTNAGC	1 cut(s)	588
BspACI	CCGC	1 cut(s)	170
BspANI	GGCC	1 cut(s)	238
BspCNI	CTCAG	2 cut(s)	100, 265
BspLI	GGNNCC	1 cut(s)	435
BspOI	GCTAGC	1 cut(s)	596
BspPI	GGATC	1 cut(s)	301
BsrDI	GCAATG	2 cut(s)	447, 480
BsrI	ACTGG	1 cut(s)	437
BssECI	CCNNGG	1 cut(s)	535
BssMI	GATC	1 cut(s)	293
Bst4CI	ACNGT	1 cut(s)	38
BstC8I	GCNNGC	1 cut(s)	594
BstDEI	CTNAG	3 cut(s)	87, 252, 588
BstENI	CCTNNNNNAGG	1 cut(s)	331
BstF5I	GGATG	3 cut(s)	139, 322, 424
BstH2I	RGCGCY	1 cut(s)	225
BstHHI	GCGC	1 cut(s)	224
BstKTI	GATC	1 cut(s)	296
BstMBI	GATC	1 cut(s)	293
BstMWI	GCNNNNNNNGC	1 cut(s)	593
BstSCI	CCNGG	1 cut(s)	452
BstSFI	CTRYAG	1 cut(s)	201
BstSLI	GKGCMC	1 cut(s)	153
BstV1I	GCAGC	1 cut(s)	361
BstV2I	GAAGAC	1 cut(s)	559
BstX2I	RGATCY	1 cut(s)	293
BstYI	RGATCY	1 cut(s)	293
Bsu36I	CCTNAGG	1 cut(s)	87
BsuI	GTATCC	1 cut(s)	128
BsuRI	GGCC	1 cut(s)	238
BtrI	CACGTC	1 cut(s)	557
BtsCI	GGATG	3 cut(s)	139, 322, 424
Cac8I	GCNNGC	1 cut(s)	594
CfoI	GCGC	1 cut(s)	224
Csp6I	GTAC	2 cut(s)	361, 440
CviAII	CATG	2 cut(s)	266, 600
CviJI	RGCY	7 cut(s)	121, 238, 326, 391, 587, 592, 596
CviKI_1	RGCY	7 cut(s)	121, 238, 326, 391, 587, 592, 596
CviQI	GTAC	2 cut(s)	361, 440
DdeI	CTNAG	3 cut(s)	87, 252, 588
DpnI	GATC	1 cut(s)	295
DpnII	GATC	1 cut(s)	293
Eco81I	CCTNAGG	1 cut(s)	87
Eco88I	CYCGRG	1 cut(s)	517
EcoNI	CCTNNNNNAGG	1 cut(s)	331
EcoRI	GAATTC	1 cut(s)	307
EcoT22I	ATGCAT	1 cut(s)	15
FaeI	CATG	2 cut(s)	269, 603
FatI	CATG	2 cut(s)	265, 599
FauNDI	CATATG	1 cut(s)	49
Fnu4HI	GCNGC	1 cut(s)	350
FokI	GGATG	3 cut(s)	126, 329, 431
Fsp4HI	GCNGC	1 cut(s)	350
FspBI	CTAG	1 cut(s)	593
GlaI	GCGC	1 cut(s)	223
GluI	GCNGC	1 cut(s)	350
HaeII	RGCGCY	1 cut(s)	225
HaeIII	GGCC	1 cut(s)	238
HapII	CCGG	1 cut(s)	453
HhaI	GCGC	1 cut(s)	224
Hin1II	CATG	2 cut(s)	269, 603
Hin6I	GCGC	1 cut(s)	222
HinP1I	GCGC	1 cut(s)	222
HinfI	GANTC	2 cut(s)	503, 515
HpaII	CCGG	1 cut(s)	453
HphI	GGTGA	1 cut(s)	350
Hpy166II	GTNNAC	1 cut(s)	151
Hpy188I	TCNGA	3 cut(s)	230, 273, 536
Hpy188III	TCNNGA	1 cut(s)	500
Hpy8I	GTNNAC	1 cut(s)	151
HpyAV	CCTTC	2 cut(s)	249, 502
HpyCH4III	ACNGT	1 cut(s)	38
HpyCH4IV	ACGT	1 cut(s)	556
HpyCH4V	TGCA	6 cut(s)	13, 41, 53, 151, 320, 349
HpyF10VI	GCNNNNNNNGC	1 cut(s)	593
HpyF3I	CTNAG	3 cut(s)	87, 252, 588
HpySE526I	ACGT	1 cut(s)	556
Hsp92II	CATG	2 cut(s)	269, 603
HspAI	GCGC	1 cut(s)	222
Kzo9I	GATC	1 cut(s)	293
LmnI	GCTCC	1 cut(s)	274
Lsp1109I	GCAGC	1 cut(s)	361
LweI	GCATC	2 cut(s)	22, 307
MaeI	CTAG	1 cut(s)	593
MaeII	ACGT	1 cut(s)	556
MaeIII	GTNAC	4 cut(s)	26, 371, 487, 539
MalI	GATC	1 cut(s)	295
MboI	GATC	1 cut(s)	293
MboII	GAAGA	3 cut(s)	56, 86, 564
MflI	RGATCY	1 cut(s)	293
MhlI	GDGCHC	1 cut(s)	153
MluCI	AATT	2 cut(s)	307, 379
MlyI	GAGTC	2 cut(s)	509, 512
MnlI	CCTC	7 cut(s)	66, 96, 108, 174, 261, 337, 530
Mph1103I	ATGCAT	1 cut(s)	15
MseI	TTAA	2 cut(s)	332, 468
MspI	CCGG	1 cut(s)	453
MspR9I	CCNGG	1 cut(s)	454
MwoI	GCNNNNNNNGC	1 cut(s)	593
NciI	CCSGG	1 cut(s)	454
NdeI	CATATG	1 cut(s)	49
NdeII	GATC	1 cut(s)	293
NheI	GCTAGC	1 cut(s)	592
NlaIII	CATG	2 cut(s)	269, 603
NlaIV	GGNNCC	1 cut(s)	435
NmuCI	GTSAC	1 cut(s)	371
NsiI	ATGCAT	1 cut(s)	15
PaeR7I	CTCGAG	1 cut(s)	517
PkrI	GCNGC	1 cut(s)	351
PleI	GAGTC	2 cut(s)	509, 511
PpsI	GAGTC	2 cut(s)	509, 511
PsiI	TTATAA	1 cut(s)	195
PspN4I	GGNNCC	1 cut(s)	435
PspXI	VCTCGAGB	1 cut(s)	517
PsuI	RGATCY	1 cut(s)	293
RsaI	GTAC	2 cut(s)	362, 441
RsaNI	GTAC	2 cut(s)	361, 440
SaqAI	TTAA	2 cut(s)	332, 468
SatI	GCNGC	1 cut(s)	350
Sau3AI	GATC	1 cut(s)	293
ScaI	AGTACT	1 cut(s)	362
SchI	GAGTC	2 cut(s)	509, 512
ScrFI	CCNGG	1 cut(s)	454
SduI	GDGCHC	1 cut(s)	153
SfaNI	GCATC	2 cut(s)	22, 307
SfcI	CTRYAG	1 cut(s)	201
Sfr274I	CTCGAG	1 cut(s)	517
SlaI	CTCGAG	1 cut(s)	517
SmlI	CTYRAG	2 cut(s)	500, 517
SmoI	CTYRAG	2 cut(s)	500, 517
Sse9I	AATT	2 cut(s)	307, 379
SsiI	CCGC	1 cut(s)	170
SspMI	CTAG	1 cut(s)	593
StyD4I	CCNGG	1 cut(s)	452
TaaI	ACNGT	1 cut(s)	38
TaiI	ACGT	1 cut(s)	559
TaqI	TCGA	1 cut(s)	518
TasI	AATT	2 cut(s)	307, 379
TatI	WGTACW	1 cut(s)	360
Tru1I	TTAA	2 cut(s)	332, 468
Tru9I	TTAA	2 cut(s)	332, 468
TseFI	GTSAC	1 cut(s)	371
TseI	GCWGC	1 cut(s)	349
Tsp45I	GTSAC	1 cut(s)	371
TspDTI	ATGAA	3 cut(s)	449, 484, 570
VneI	GTGCAC	1 cut(s)	149
XagI	CCTNNNNNAGG	1 cut(s)	331
XapI	RAATTY	2 cut(s)	307, 379
XhoI	CTCGAG	1 cut(s)	517
XspI	CTAG	1 cut(s)	593
ZrmI	AGTACT	1 cut(s)	362
Zsp2I	ATGCAT	1 cut(s)	15

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