Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0005202

Physical Location & Seq

Genomic Coordinates Reverse (-)

17678912 .. 17679907

Gene Structure 996 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG102500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 996 bp

ATGCCTGAGAGAAATGATGTGTCTTACAGTGCAATGGTTTCGGGTTATGTTCAGAATGCTTGTTTCAACAAAGCTATTGATTTGTTTCGTGATTTCGAGCGTCGTCGTGCGAATGTGAGGTTGAAAGAGTCTCTTTTGGTTAGTGTTCTTAATGCCTGTGCTTCTGTGGGTGCATTCGAGGAAGGGAAGTGGATTCAGATGTATTTGGATGACCATGGTTTTGAGTATGGACTTGAGCTCGGTACGGCAGGAATAGATTTTTATGCAAAATGTGGATTCATTAAAGATGCTATAGAGATATTTGATAAGATGCCGCGTAAAGATGTAACTACATGGAGTGCTATGATCATGGGATATGCTATTAATGGTGAAAATGATACAGGGCTTGAACTTTTTGCTGAAATGGAAAAGAAGGGCCCTAAACCAAATGCTGTGACATTTGTTGGAGTTCTCACTGCATGTAATCACAAAACTCTGGTAAATGAAGCATGGCGAGTATTGGGACGTATGAGTAAAGTTTATAGCATTGCTCCAGAGATTGAGCACTATGGGTGCATGGTTGATCAATTGGCCCGTGCTGGGCGAGTGAATGAGGCAGAGAAATTGATAAGAAGTATGGCAATGGAACCGGACGGAGCTATATGGGGGTCTTTACTTAATGGGTGTCTGATACATGGCCATTTTGAGTTAGCCGGTAAGGTTGGGAAGCTTCTCATTCAATTAGAGCCTCAACATAGTGGAAGGTATGTTCTTTTAGCAAACATGTTTGGCCAAATGGGAAACTGGGAGGATGTGTCGAGGCTAAGGAAAATGATGAAGGATAGAGAGGTTGTTGCAATTTCTGCTTGGAGTTTCATTGAGATTGATGGTGTTGTGCATAAATTCTTAGCCAATGATAAGTCTCATTCTCATTCAAGAAATATATGCCAAACGTCAAGTCAACTCAAAAAGGAACTTGAAAGTTTTTCCAATGCCAATGATTCTTTGCTATTGTAA

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

PPR PPR_2

Protein Analysis

331

Amino Acids

37.14

Weight (kDa)

6.17

Isoelectric Point (pI)

38.15

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	107 - 154	3.2e-10	PPR repeat family
PPR	PF01535	111 - 139	3e-06	PPR repeat
E_motif	PF20431	226 - 277	4.4e-11	E motif

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005202)

Species	Orthologous Gene IDs
malus_domestica	MD04G1188600.v1.1 MD13G1252400.v1.1
prunus_persica	Prupe.1G084600_v2.0.a1
pyrus_communis	pycom13g22560
rosa_chinensis	RchiOBHm_Chr1g0380711 RchiOBHm_Chr3g0484681 RchiOBHm_Chr4g0401751
rosa_laevigata	RLG00000009137 RLG00000023208 RLG00000026276
rosa_multiflora	Rmu_sc0001637.1_g000010 Rmu_sc0014815.1_g000014 Rmu_sc0039959.1_g000001
rosa_roxburghii	Rroxscaffold_2G00113990 Rroxscaffold_4G00279090 Rroxscaffold_5G00345080 Rroxscaffold_5G00353300 Rroxscaffold_6G00397530
rosa_rugosa	Rorug04G0031400
rosa_samantha	Rh1BG403400 Rh1CG417600 Rh1DG433700 Rh3AG263400 Rh3DG292100 Rh4AG108800 Rh4BG102500 Rh4CG117100
rosa_wichuraiana	Rw0G005870 Rw1G038990 Rw4G024940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	316
AciI	CCGC	1 cut(s)	314
AcoI	YGGCCR	2 cut(s)	676, 769
AcsI	RAATTY	1 cut(s)	881
AfaI	GTAC	1 cut(s)	244
AfiI	CCNNNNNNNGG	1 cut(s)	579
AflIII	ACRYGT	1 cut(s)	762
AgsI	TTSAA	6 cut(s)	67, 124, 389, 719, 915, 959
AloI	GAACNNNNNNTCC	2 cut(s)	732, 764
AluBI	AGCT	4 cut(s)	74, 238, 638, 709
AluI	AGCT	4 cut(s)	74, 238, 638, 709
Alw21I	GWGCWC	2 cut(s)	240, 546
Alw26I	GTCTC	2 cut(s)	135, 906
AoxI	GGCC	4 cut(s)	415, 570, 676, 769
ApaI	GGGCCC	1 cut(s)	419
ApoI	RAATTY	1 cut(s)	881
ArsI	GACNNNNNNTTYG	4 cut(s)	203, 235, 922, 954
AseI	ATTAAT	1 cut(s)	363
AspS9I	GGNCC	3 cut(s)	415, 416, 571
AsuHPI	GGTGA	1 cut(s)	380
BaeGI	GKGCMC	1 cut(s)	419
BalI	TGGCCA	2 cut(s)	678, 771
BanII	GRGCYC	2 cut(s)	240, 419
Bbv12I	GWGCWC	2 cut(s)	240, 546
BccI	CCATC	1 cut(s)	860
BceAI	ACGGC	1 cut(s)	261
BcgI	CGANNNNNNTGC	2 cut(s)	21, 55
BclI	TGATCA	2 cut(s)	345, 562
BcoDI	GTCTC	2 cut(s)	135, 906
BfmI	CTRYAG	1 cut(s)	291
BisI	GCNGC	1 cut(s)	314
BlsI	GCNGC	1 cut(s)	315
BmgT120I	GGNCC	3 cut(s)	415, 416, 571
BmiI	GGNNCC	2 cut(s)	417, 627
BmrI	ACTGGG	1 cut(s)	793
BmsI	GCATC	2 cut(s)	277, 300
BmuI	ACTGGG	1 cut(s)	793
BpmI	CTGGAG	1 cut(s)	516
Bpu10I	CCTNAGC	1 cut(s)	803
BpuEI	CTTGAG	1 cut(s)	254
BsaJI	CCNNGG	1 cut(s)	214
BsaWI	WCCGGW	1 cut(s)	628
BsaXI	ACNNNNNCTCC	2 cut(s)	779, 809
Bsc4I	CCNNNNNNNGG	1 cut(s)	579
Bse118I	RCCGGY	1 cut(s)	692
Bse1I	ACTGG	1 cut(s)	788
Bse3DI	GCAATG	3 cut(s)	39, 525, 627
BseDI	CCNNGG	1 cut(s)	214
BseGI	GGATG	2 cut(s)	214, 796
BseLI	CCNNNNNNNGG	1 cut(s)	579
BseMI	GCAATG	3 cut(s)	39, 525, 627
BseNI	ACTGG	1 cut(s)	788
BseSI	GKGCMC	1 cut(s)	419
BseYI	CCCAGC	1 cut(s)	578
Bsh1236I	CGCG	1 cut(s)	316
BshFI	GGCC	4 cut(s)	417, 572, 678, 771
BsiHKAI	GWGCWC	2 cut(s)	240, 546
BsiSI	CCGG	2 cut(s)	629, 693
BslFI	GGGAC	1 cut(s)	516
BslI	CCNNNNNNNGG	1 cut(s)	579
BsmAI	GTCTC	2 cut(s)	135, 906
BsmFI	GGGAC	1 cut(s)	516
BsmI	GAATGC	2 cut(s)	61, 173
BsnI	GGCC	4 cut(s)	417, 572, 678, 771
Bsp120I	GGGCCC	1 cut(s)	415
Bsp1286I	GDGCHC	3 cut(s)	240, 419, 546
Bsp143I	GATC	2 cut(s)	345, 562
Bsp19I	CCATGG	1 cut(s)	214
BspACI	CCGC	1 cut(s)	314
BspANI	GGCC	4 cut(s)	417, 572, 678, 771
BspFNI	CGCG	1 cut(s)	316
BspLI	GGNNCC	2 cut(s)	417, 627
BsrDI	GCAATG	3 cut(s)	39, 525, 627
BsrFI	RCCGGY	1 cut(s)	692
BsrI	ACTGG	1 cut(s)	788
BssAI	RCCGGY	1 cut(s)	692
BssECI	CCNNGG	1 cut(s)	214
BssMI	GATC	2 cut(s)	345, 562
BssT1I	CCWWGG	1 cut(s)	214
Bst4CI	ACNGT	1 cut(s)	29
BstAPI	GCANNNNNTGC	1 cut(s)	842
BstDEI	CTNAG	3 cut(s)	6, 803, 886
BstDSI	CCRYGG	1 cut(s)	214
BstF5I	GGATG	2 cut(s)	214, 796
BstFNI	CGCG	1 cut(s)	316
BstKTI	GATC	2 cut(s)	348, 565
BstMAI	GTCTC	2 cut(s)	135, 906
BstMBI	GATC	2 cut(s)	345, 562
BstMWI	GCNNNNNNNGC	1 cut(s)	842
BstNSI	RCATGY	2 cut(s)	462, 766
BstSFI	CTRYAG	1 cut(s)	291
BstSLI	GKGCMC	1 cut(s)	419
BstUI	CGCG	1 cut(s)	316
BsuRI	GGCC	4 cut(s)	417, 572, 678, 771
BtgI	CCRYGG	1 cut(s)	214
BtsCI	GGATG	2 cut(s)	214, 796
BtsI	GCAGTG	1 cut(s)	453
BtsIMutI	CAGTG	2 cut(s)	34, 453
Cfr10I	RCCGGY	1 cut(s)	692
Cfr13I	GGNCC	3 cut(s)	415, 416, 571
CseI	GACGC	1 cut(s)	89
Csp6I	GTAC	1 cut(s)	243
CviAII	CATG	8 cut(s)	215, 333, 349, 459, 489, 556, 674, 763
CviQI	GTAC	1 cut(s)	243
DdeI	CTNAG	3 cut(s)	6, 803, 886
DpnI	GATC	2 cut(s)	347, 564
DpnII	GATC	2 cut(s)	345, 562
EaeI	YGGCCR	2 cut(s)	676, 769
Ecl136II	GAGCTC	1 cut(s)	238
Eco130I	CCWWGG	1 cut(s)	214
Eco24I	GRGCYC	2 cut(s)	240, 419
Eco53kI	GAGCTC	1 cut(s)	238
EcoICRI	GAGCTC	1 cut(s)	238
EcoO109I	RGGNCCY	2 cut(s)	415, 416
EcoT14I	CCWWGG	1 cut(s)	214
EcoT38I	GRGCYC	2 cut(s)	240, 419
ErhI	CCWWGG	1 cut(s)	214
FaeI	CATG	8 cut(s)	218, 336, 352, 462, 492, 559, 677, 766
FalI	AAGNNNNNCTT	2 cut(s)	117, 149
FaqI	GGGAC	1 cut(s)	516
FatI	CATG	8 cut(s)	214, 332, 348, 458, 488, 555, 673, 762
FbaI	TGATCA	2 cut(s)	345, 562
Fnu4HI	GCNGC	1 cut(s)	314
FokI	GGATG	2 cut(s)	221, 803
FriOI	GRGCYC	2 cut(s)	240, 419
Fsp4HI	GCNGC	1 cut(s)	314
GluI	GCNGC	1 cut(s)	314
GsaI	CCCAGC	1 cut(s)	582
GsuI	CTGGAG	1 cut(s)	516
HaeIII	GGCC	4 cut(s)	417, 572, 678, 771
HapII	CCGG	2 cut(s)	629, 693
HgaI	GACGC	1 cut(s)	89
Hin1II	CATG	8 cut(s)	218, 336, 352, 462, 492, 559, 677, 766
HincII	GTYRAC	1 cut(s)	941
HindII	GTYRAC	1 cut(s)	941
HindIII	AAGCTT	1 cut(s)	707
HinfI	GANTC	4 cut(s)	128, 193, 276, 980
HpaII	CCGG	2 cut(s)	629, 693
HphI	GGTGA	1 cut(s)	380
Hpy166II	GTNNAC	1 cut(s)	941
Hpy188I	TCNGA	3 cut(s)	54, 198, 669
Hpy188III	TCNNGA	3 cut(s)	89, 533, 915
Hpy8I	GTNNAC	1 cut(s)	941
Hpy99I	CGWCG	2 cut(s)	105, 108
HpyAV	CCTTC	4 cut(s)	176, 406, 735, 811
HpyCH4III	ACNGT	1 cut(s)	29
HpyCH4IV	ACGT	2 cut(s)	505, 932
HpyCH4V	TGCA	7 cut(s)	32, 173, 266, 458, 555, 836, 877
HpyF10VI	GCNNNNNNNGC	1 cut(s)	842
HpyF3I	CTNAG	3 cut(s)	6, 803, 886
HpySE526I	ACGT	2 cut(s)	505, 932
Hsp92II	CATG	8 cut(s)	218, 336, 352, 462, 492, 559, 677, 766
Ksp22I	TGATCA	2 cut(s)	345, 562
Kzo9I	GATC	2 cut(s)	345, 562
LmnI	GCTCC	2 cut(s)	535, 635
LweI	GCATC	2 cut(s)	277, 300
MaeII	ACGT	2 cut(s)	505, 932
MaeIII	GTNAC	2 cut(s)	325, 433
MalI	GATC	2 cut(s)	347, 564
MboI	GATC	2 cut(s)	345, 562
MfeI	CAATTG	1 cut(s)	566
MhlI	GDGCHC	3 cut(s)	240, 419, 546
MlsI	TGGCCA	2 cut(s)	678, 771
MluCI	AATT	5 cut(s)	566, 602, 719, 837, 881
MluNI	TGGCCA	2 cut(s)	678, 771
MlyI	GAGTC	1 cut(s)	137
MmeI	TCCRAC	1 cut(s)	424
MnlI	CCTC	7 cut(s)	111, 172, 586, 738, 781, 792, 820
Mox20I	TGGCCA	2 cut(s)	678, 771
MscI	TGGCCA	2 cut(s)	678, 771
MseI	TTAA	4 cut(s)	150, 282, 363, 657
Msp20I	TGGCCA	2 cut(s)	678, 771
MspI	CCGG	2 cut(s)	629, 693
MunI	CAATTG	1 cut(s)	566
Mva1269I	GAATGC	2 cut(s)	61, 173
MvnI	CGCG	1 cut(s)	316
MwoI	GCNNNNNNNGC	1 cut(s)	842
NcoI	CCATGG	1 cut(s)	214
NdeII	GATC	2 cut(s)	345, 562
NlaIII	CATG	8 cut(s)	218, 336, 352, 462, 492, 559, 677, 766
NlaIV	GGNNCC	2 cut(s)	417, 627
NmuCI	GTSAC	1 cut(s)	433
NspI	RCATGY	2 cut(s)	462, 766
PciI	ACATGT	1 cut(s)	762
PctI	GAATGC	2 cut(s)	61, 173
PfeI	GAWTC	3 cut(s)	193, 276, 980
PkrI	GCNGC	1 cut(s)	315
PleI	GAGTC	1 cut(s)	136
PpsI	GAGTC	1 cut(s)	136
PscI	ACATGT	1 cut(s)	762
PshBI	ATTAAT	1 cut(s)	363
Psp124BI	GAGCTC	1 cut(s)	240
PspFI	CCCAGC	1 cut(s)	578
PspN4I	GGNNCC	2 cut(s)	417, 627
PspOMI	GGGCCC	1 cut(s)	415
PspPI	GGNCC	3 cut(s)	415, 416, 571
RsaI	GTAC	1 cut(s)	244
RsaNI	GTAC	1 cut(s)	243
SacI	GAGCTC	1 cut(s)	240
SaqAI	TTAA	4 cut(s)	150, 282, 363, 657
SatI	GCNGC	1 cut(s)	314
Sau3AI	GATC	2 cut(s)	345, 562
Sau96I	GGNCC	3 cut(s)	415, 416, 571
SchI	GAGTC	1 cut(s)	137
SduI	GDGCHC	3 cut(s)	240, 419, 546
SfaNI	GCATC	2 cut(s)	277, 300
SfcI	CTRYAG	1 cut(s)	291
SmlI	CTYRAG	1 cut(s)	233
SmoI	CTYRAG	1 cut(s)	233
Sse9I	AATT	5 cut(s)	566, 602, 719, 837, 881
SsiI	CCGC	1 cut(s)	314
SstI	GAGCTC	1 cut(s)	240
StyI	CCWWGG	1 cut(s)	214
TaaI	ACNGT	1 cut(s)	29
TaiI	ACGT	2 cut(s)	508, 935
TaqI	TCGA	3 cut(s)	96, 177, 797
TasI	AATT	5 cut(s)	566, 602, 719, 837, 881
TauI	GCSGC	1 cut(s)	316
TfiI	GAWTC	3 cut(s)	193, 276, 980
Tru1I	TTAA	4 cut(s)	150, 282, 363, 657
Tru9I	TTAA	4 cut(s)	150, 282, 363, 657
TscAI	CASTG	2 cut(s)	34, 460
TseFI	GTSAC	1 cut(s)	433
Tsp45I	GTSAC	1 cut(s)	433
TspDTI	ATGAA	4 cut(s)	268, 498, 830, 844
TspGWI	ACGGA	1 cut(s)	648
TspRI	CASTG	2 cut(s)	34, 460
VspI	ATTAAT	1 cut(s)	363
XapI	RAATTY	1 cut(s)	881
XceI	RCATGY	2 cut(s)	462, 766

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