Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0008792

Physical Location & Seq

Genomic Coordinates Reverse (-)

68654226 .. 68655409

Gene Structure 1184 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG453800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1020 bp

ATGGGACATGAACAGTATGAGAAAGCAAAGAAGATATCAGAATTCAGACCAAACAAATCAACATTGGAGCATGTGACAAGGTATTTGATACGATCAAAGAAGTGGGGTTCAATTCTTTCAGTTTCTAATGATTTCAAGACATATGATTTGCTGCCTGATAGCTATACATGTTCTAGACTGGTCATTAGTTGCATTAGAGCTAGGAAGTTCAAGATTGTTAGCACTTTGCTTGAAGTGTTTAAGTCCAACGACGATGTTGCTCTGCTGGCCTTTGATTCTGCTACGAGAGGCTACAATGAGCTTCACATGATAATGGAAGCTTATTTCAAAGAGGGTGACTATAGAAAAGTTGTTGAATTGTTTCAGGAACTGAAAATATGTCAAAGGAAGGCATTTCCTTGGACTCTTCAAAGATATATTTCTGTTTTGATAAGTTCATTTGCGAGCATTCGAGAAGTGAAGGTAGCTGAAGAGCTGTTTGAAGAAGCAGAAACCAAAAGAATGTTGAGGAATCCGACTGTATTTTTGAGACTGATCACAATGTATGTTGAAGAAGGGTTGGTGGATAAGACTCTTGAAATAGTCAAGGCAATGAAGGGTGCAAATATCAGAGTTTCCGATAACATATGCTGCGCAGTTGTGAGTGGCTTCTCCAGGAAAAGCAGGTTTCTCACAGCAGTTAAAGTGTTTGAAGATTTGATCTCAATGGGATGTGAACTGGGACAGGTGACATACGCTTGGATTATCAATGTGTATTGTCGTCTTGGGCTTCATCCTAAGGCTGAGATGGTGTTTAGAGAGATGGAAGAAAAAGGGTTTGATAAATGTGTTGTGGCGTATTCAAGCATGGTTGTAATGTATAGGAAGACAGGAAGGTCAAGAGAGGCAATGAGGCTTGTGGCCAAGATGAAAGAAAGAGGGTGGAAGCCGAATGTGTGGATTTACAGTTCTTTGATGGATATGCATGGAAGGGATAATAATATGAGGCAAGTTGCAAAGCTATGGAGGGAAATGAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009451 GO:0009657 GO:0009658 GO:0009987 GO:0016043 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

339

Amino Acids

39.6

Weight (kDa)

9.42

Isoelectric Point (pI)

28.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	248 - 273	5.5e-06	PPR repeat
PPR_3	PF13812	264 - 323	1.4e-09	Pentatricopeptide repeat domain
PPR_2	PF13041	276 - 320	3.4e-08	PPR repeat family

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: OG0008792)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G13770
fragaria_vesca	FvH4_4g36140
malus_domestica	MD13G1010900.v1.1 MD16G1008400.v1.1
prunus_persica	Prupe.1G342100_v2.0.a1
pyrus_communis	pycom16g00820
rosa_chinensis	RchiOBHm_Chr4g0445881
rosa_laevigata	RLG00000005705
rosa_multiflora	Rmu_co8340621.1_g000001 Rmu_sc0000961.1_g000004 Rmu_sc0000961.1_g000009
rosa_roxburghii	Rroxscaffold_5G00386320
rosa_rugosa	Rorug04G0365400
rosa_samantha	Rh4AG427200 Rh4BG437000 Rh4BG437400 Rh4BG437500 Rh4CG453700 Rh4CG453800 Rh4CG454200 Rh4DG435500
rosa_wichuraiana	Rw4G036550 Rw4G036580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	874
Acc16I	TGCGCA	1 cut(s)	634
Acc36I	ACCTGC	1 cut(s)	654
AcoI	YGGCCR	1 cut(s)	900
AcsI	RAATTY	1 cut(s)	41
AcuI	CTGAAG	1 cut(s)	489
AflIII	ACRYGT	1 cut(s)	167
AjnI	CCWGG	1 cut(s)	653
AloI	GAACNNNNNNTCC	2 cut(s)	931, 963
AluBI	AGCT	7 cut(s)	162, 200, 301, 320, 467, 475, 1000
AluI	AGCT	7 cut(s)	162, 200, 301, 320, 467, 475, 1000
Alw26I	GTCTC	1 cut(s)	523
AlwNI	CAGNNNCTG	1 cut(s)	370
AoxI	GGCC	2 cut(s)	267, 900
ApeKI	GCWGC	2 cut(s)	151, 630
ApoI	RAATTY	1 cut(s)	41
ArsI	GACNNNNNNTTYG	6 cut(s)	67, 99, 130, 162, 508, 540
Asp700I	GAANNNNTTC	1 cut(s)	360
AspLEI	GCGC	1 cut(s)	635
AsuHPI	GGTGA	2 cut(s)	347, 739
AxyI	CCTNAGG	1 cut(s)	777
BalI	TGGCCA	1 cut(s)	902
BbsI	GAAGAC	1 cut(s)	872
BbvI	GCAGC	2 cut(s)	138, 617
BccI	CCATC	3 cut(s)	781, 796, 949
BcgI	CGANNNNNNTGC	2 cut(s)	239, 273
BciT130I	CCWGG	1 cut(s)	655
BclI	TGATCA	1 cut(s)	534
BcoDI	GTCTC	1 cut(s)	523
BfaI	CTAG	2 cut(s)	174, 201
BfmI	CTRYAG	1 cut(s)	340
BfuAI	ACCTGC	1 cut(s)	654
BisI	GCNGC	2 cut(s)	152, 631
BlsI	GCNGC	2 cut(s)	153, 632
Bme1390I	CCNGG	1 cut(s)	655
BmrFI	CCNGG	1 cut(s)	655
BmrI	ACTGGG	1 cut(s)	728
BmuI	ACTGGG	1 cut(s)	728
BpiI	GAAGAC	1 cut(s)	872
BpmI	CTGGAG	1 cut(s)	637
BsaJI	CCNNGG	1 cut(s)	398
Bse1I	ACTGG	2 cut(s)	183, 723
Bse21I	CCTNAGG	1 cut(s)	777
Bse3DI	GCAATG	2 cut(s)	597, 894
BseBI	CCWGG	1 cut(s)	655
BseDI	CCNNGG	1 cut(s)	398
BseGI	GGATG	2 cut(s)	716, 772
BseMI	GCAATG	2 cut(s)	597, 894
BseMII	CTCAG	1 cut(s)	774
BseNI	ACTGG	2 cut(s)	183, 723
BseXI	GCAGC	2 cut(s)	138, 617
BshFI	GGCC	2 cut(s)	269, 902
BslFI	GGGAC	2 cut(s)	18, 735
BsmAI	GTCTC	1 cut(s)	523
BsmFI	GGGAC	2 cut(s)	18, 735
BsmI	GAATGC	1 cut(s)	447
BsnI	GGCC	2 cut(s)	269, 902
Bsp143I	GATC	3 cut(s)	92, 534, 699
BspANI	GGCC	2 cut(s)	269, 902
BspCNI	CTCAG	1 cut(s)	775
BspMI	ACCTGC	1 cut(s)	654
BspQI	GCTCTTC	1 cut(s)	465
BsrDI	GCAATG	2 cut(s)	597, 894
BsrI	ACTGG	2 cut(s)	183, 723
BssECI	CCNNGG	1 cut(s)	398
BssMI	GATC	3 cut(s)	92, 534, 699
BssT1I	CCWWGG	1 cut(s)	398
Bst2UI	CCWGG	1 cut(s)	655
Bst4CI	ACNGT	3 cut(s)	15, 520, 947
Bst6I	CTCTTC	2 cut(s)	411, 465
BstC8I	GCNNGC	2 cut(s)	267, 445
BstDEI	CTNAG	2 cut(s)	777, 783
BstF5I	GGATG	2 cut(s)	716, 772
BstHHI	GCGC	1 cut(s)	635
BstKTI	GATC	3 cut(s)	95, 537, 702
BstMAI	GTCTC	1 cut(s)	523
BstMBI	GATC	3 cut(s)	92, 534, 699
BstMWI	GCNNNNNNNGC	1 cut(s)	266
BstNI	CCWGG	1 cut(s)	655
BstNSI	RCATGY	2 cut(s)	74, 171
BstSCI	CCNGG	1 cut(s)	653
BstSFI	CTRYAG	1 cut(s)	340
BstV1I	GCAGC	2 cut(s)	138, 617
BstV2I	GAAGAC	1 cut(s)	872
Bsu36I	CCTNAGG	1 cut(s)	777
BsuRI	GGCC	2 cut(s)	269, 902
BtsCI	GGATG	2 cut(s)	716, 772
BveI	ACCTGC	1 cut(s)	654
Cac8I	GCNNGC	2 cut(s)	267, 445
CaiI	CAGNNNCTG	1 cut(s)	370
CfoI	GCGC	1 cut(s)	635
CviAII	CATG	6 cut(s)	8, 71, 168, 307, 847, 965
DdeI	CTNAG	2 cut(s)	777, 783
DpnI	GATC	3 cut(s)	94, 536, 701
DpnII	GATC	3 cut(s)	92, 534, 699
DrdI	GACNNNNNNGTC	1 cut(s)	874
DseDI	GACNNNNNNGTC	1 cut(s)	874
EaeI	YGGCCR	1 cut(s)	900
Eam1104I	CTCTTC	2 cut(s)	411, 465
EarI	CTCTTC	2 cut(s)	411, 465
Eco130I	CCWWGG	1 cut(s)	398
Eco32I	GATATC	1 cut(s)	36
Eco57I	CTGAAG	1 cut(s)	489
Eco81I	CCTNAGG	1 cut(s)	777
EcoRI	GAATTC	1 cut(s)	41
EcoRII	CCWGG	1 cut(s)	653
EcoRV	GATATC	1 cut(s)	36
EcoT14I	CCWWGG	1 cut(s)	398
EcoT22I	ATGCAT	1 cut(s)	966
ErhI	CCWWGG	1 cut(s)	398
FaeI	CATG	6 cut(s)	11, 74, 171, 310, 850, 968
FaqI	GGGAC	2 cut(s)	18, 735
FatI	CATG	6 cut(s)	7, 70, 167, 306, 846, 964
FauNDI	CATATG	2 cut(s)	142, 626
FbaI	TGATCA	1 cut(s)	534
Fnu4HI	GCNGC	2 cut(s)	152, 631
FokI	GGATG	2 cut(s)	723, 759
Fsp4HI	GCNGC	2 cut(s)	152, 631
FspBI	CTAG	2 cut(s)	174, 201
FspI	TGCGCA	1 cut(s)	634
GlaI	GCGC	1 cut(s)	634
GluI	GCNGC	2 cut(s)	152, 631
GsuI	CTGGAG	1 cut(s)	637
HaeIII	GGCC	2 cut(s)	269, 902
HhaI	GCGC	1 cut(s)	635
Hin1II	CATG	6 cut(s)	11, 74, 171, 310, 850, 968
Hin6I	GCGC	1 cut(s)	633
HinP1I	GCGC	1 cut(s)	633
HindIII	AAGCTT	1 cut(s)	318
HinfI	GANTC	4 cut(s)	275, 403, 511, 571
HphI	GGTGA	2 cut(s)	347, 739
Hpy166II	GTNNAC	1 cut(s)	716
Hpy188I	TCNGA	5 cut(s)	40, 47, 516, 611, 619
Hpy188III	TCNNGA	7 cut(s)	136, 174, 211, 365, 452, 575, 879
Hpy8I	GTNNAC	1 cut(s)	716
Hpy99I	CGWCG	1 cut(s)	254
HpyAV	CCTTC	6 cut(s)	382, 454, 548, 589, 867, 963
HpyCH4III	ACNGT	3 cut(s)	15, 520, 947
HpyCH4V	TGCA	4 cut(s)	192, 602, 964, 995
HpyF10VI	GCNNNNNNNGC	1 cut(s)	266
HpyF3I	CTNAG	2 cut(s)	777, 783
Hsp92II	CATG	6 cut(s)	11, 74, 171, 310, 850, 968
HspAI	GCGC	1 cut(s)	633
Ksp22I	TGATCA	1 cut(s)	534
Kzo9I	GATC	3 cut(s)	92, 534, 699
LguI	GCTCTTC	1 cut(s)	465
LmnI	GCTCC	1 cut(s)	67
Lsp1109I	GCAGC	2 cut(s)	138, 617
MaeI	CTAG	2 cut(s)	174, 201
MaeIII	GTNAC	3 cut(s)	73, 335, 727
MalI	GATC	3 cut(s)	94, 536, 701
MboI	GATC	3 cut(s)	92, 534, 699
MboII	GAAGA	8 cut(s)	43, 398, 482, 494, 563, 704, 818, 877
MlsI	TGGCCA	1 cut(s)	902
MluCI	AATT	3 cut(s)	41, 111, 356
MluNI	TGGCCA	1 cut(s)	902
MlyI	GAGTC	2 cut(s)	397, 565
MmeI	TCCRAC	2 cut(s)	270, 539
MnlI	CCTC	8 cut(s)	281, 325, 501, 877, 885, 911, 978, 999
Mox20I	TGGCCA	1 cut(s)	902
Mph1103I	ATGCAT	1 cut(s)	966
MroXI	GAANNNNTTC	1 cut(s)	360
MscI	TGGCCA	1 cut(s)	902
MseI	TTAA	2 cut(s)	240, 681
MslI	CAYNNNNRTG	1 cut(s)	311
Msp20I	TGGCCA	1 cut(s)	902
MspR9I	CCNGG	1 cut(s)	655
Mva1269I	GAATGC	1 cut(s)	447
MvaI	CCWGG	1 cut(s)	655
MwoI	GCNNNNNNNGC	1 cut(s)	266
NdeI	CATATG	2 cut(s)	142, 626
NdeII	GATC	3 cut(s)	92, 534, 699
NlaIII	CATG	6 cut(s)	11, 74, 171, 310, 850, 968
NmuCI	GTSAC	3 cut(s)	73, 335, 727
NsbI	TGCGCA	1 cut(s)	634
NsiI	ATGCAT	1 cut(s)	966
NspI	RCATGY	2 cut(s)	74, 171
PciI	ACATGT	1 cut(s)	167
PciSI	GCTCTTC	1 cut(s)	465
PctI	GAATGC	1 cut(s)	447
PdmI	GAANNNNTTC	1 cut(s)	360
PfeI	GAWTC	2 cut(s)	275, 511
PfoI	TCCNGGA	1 cut(s)	653
PkrI	GCNGC	2 cut(s)	153, 632
PleI	GAGTC	2 cut(s)	397, 565
PpsI	GAGTC	2 cut(s)	397, 565
PscI	ACATGT	1 cut(s)	167
Psp6I	CCWGG	1 cut(s)	653
PspGI	CCWGG	1 cut(s)	653
PstNI	CAGNNNCTG	1 cut(s)	370
RseI	CAYNNNNRTG	1 cut(s)	311
SapI	GCTCTTC	1 cut(s)	465
SaqAI	TTAA	2 cut(s)	240, 681
SatI	GCNGC	2 cut(s)	152, 631
Sau3AI	GATC	3 cut(s)	92, 534, 699
SchI	GAGTC	2 cut(s)	397, 565
ScrFI	CCNGG	1 cut(s)	655
SfcI	CTRYAG	1 cut(s)	340
SmiMI	CAYNNNNRTG	1 cut(s)	311
Sse9I	AATT	3 cut(s)	41, 111, 356
SspMI	CTAG	2 cut(s)	174, 201
StyD4I	CCNGG	1 cut(s)	653
StyI	CCWWGG	1 cut(s)	398
TaaI	ACNGT	3 cut(s)	15, 520, 947
TaqI	TCGA	1 cut(s)	451
TasI	AATT	3 cut(s)	41, 111, 356
TfiI	GAWTC	2 cut(s)	275, 511
Tru1I	TTAA	2 cut(s)	240, 681
Tru9I	TTAA	2 cut(s)	240, 681
TseFI	GTSAC	3 cut(s)	73, 335, 727
TseI	GCWGC	2 cut(s)	151, 630
Tsp45I	GTSAC	3 cut(s)	73, 335, 727
TspDTI	ATGAA	5 cut(s)	24, 426, 608, 761, 923
XapI	RAATTY	1 cut(s)	41
XbaI	TCTAGA	1 cut(s)	173
XceI	RCATGY	2 cut(s)	74, 171
XmnI	GAANNNNTTC	1 cut(s)	360
XspI	CTAG	2 cut(s)	174, 201
Zsp2I	ATGCAT	1 cut(s)	966

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