Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0008008

Physical Location & Seq

Genomic Coordinates Reverse (-)

11566643 .. 11568472

Gene Structure 1830 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG135300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 900 bp

ATGCTAAAGCTCCTCTCCTCCTCCTCATCATGCCTCCACGCTCGAGCCCACATTCAGCAGCACCCCCAAATCAACATAATCAAACTCTGTTCCACAATATCCATCTCCGAAAATCCAAGCTCACAGTCCTTCAATCTTCCATTAGTTTCAGACCTCATAGCAAAGCAACACTGGTCAGAGCTCAAAACCCATCTCAAAGACTCAACCTTTATCACAGTTCTTCACCAACTGATCGATTCTGGAGCTGACCCAGAGCTCACACTCAGGTACTTCAATTGGGCCCAGAAGGGTCAAAATGTTCCACACAATATTGAAATCACTTGTAGACTATTGCAGTCACTTTCAAATGCAAAGAAGTACCCAAAGATGAGAGCTTTCTTAGATGAGTTTGTTAGAAGGAATGAGAAGCATTCAGTTTCTTCAATTTTTCACATGCTTTCAATGTCTAGCAATCACTTTGGTGCTAATTCCATTATAGTTGATATGCTGGTGTTGGCTTATGTTAAGAATTCGAAGACCAATTCGGGTTTTGAGGCGTTTCAGAGAGCTGGTGATTATGGGTTTAGGCTGTCAAAACTGTCTTGTAATGCTTTGTTGAGTGCTTTGGTGAAGGAAAATGAAATTGGATATGTTGAGGAAGGAAACATGAAGGCAGCTTTGAACTTGCGGACTCGGATGGAGAAAGAAGGGAAACGAGCAAATATAGCAACATACAATGTGCTGATCAAGGGATATTGTATGCAGGACAAGCTTGTAGATGCGAATGTACTTCTAAATGAAATGTTGGAGAAAGGTTTGATCCCAAATCGAACTACTTATGAAATAGTTAAAGTGGAAATGATGGACAAAGGTTTTGTTCCTGATATAGATGGACACCTGCATAATATCTCTAGCTTTTAA

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:0008150 GO:0008152 GO:0009451 GO:0009987 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:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR_1 PPR_2 PPR_3 PPR_long

Protein Analysis

299

Amino Acids

33.79

Weight (kDa)

8.85

Isoelectric Point (pI)

41.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	209 - 246	7.1e-08	PPR repeat family
PPR_3	PF13812	226 - 274	1.7e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	233 - 261	2e-06	PPR repeat
PPR_2	PF13041	234 - 275	6.1e-12	PPR repeat family
PPR	PF01535	237 - 266	1.5e-06	PPR repeat

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: OG0008008)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G09820
fragaria_vesca	FvH4_1g12100 FvH4_6g07430
malus_domestica	MD02G1110600.v1.1
prunus_persica	Prupe.7G165800_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0099761 RchiOBHm_Chr3g0457031
rosa_laevigata	RLG00000016911 RLG00000025250
rosa_multiflora	Rmu_co8452377.1_g000001 Rmu_sc0000488.1_g000002 Rmu_sc0006209.1_g000003 Rmu_sc0008864.1_g000012
rosa_roxburghii	Rroxscaffold_2G00142790 Rroxscaffold_6G00422250
rosa_rugosa	Rorug02G0082800 Rorug03G0018700
rosa_samantha	Rh2AG132500 Rh2BG135300 Rh2CG136600 Rh2DG137100 Rh3AG078400
rosa_wichuraiana	Rw2G010250 Rw3G006730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	885
Acc36I	ACCTGC	1 cut(s)	885
AccI	GTMKAC	1 cut(s)	325
AciI	CCGC	1 cut(s)	667
AclWI	GGATC	1 cut(s)	793
AcsI	RAATTY	1 cut(s)	508
AfaI	GTAC	3 cut(s)	269, 359, 768
AgsI	TTSAA	7 cut(s)	133, 274, 314, 345, 423, 441, 661
AjuI	GAANNNNNNNTTGG	2 cut(s)	606, 638
AleI	CACNNNNGTG	1 cut(s)	459
Alw21I	GWGCWC	2 cut(s)	183, 258
AlwI	GGATC	1 cut(s)	793
Ama87I	CYCGRG	1 cut(s)	42
AoxI	GGCC	1 cut(s)	279
ApaI	GGGCCC	1 cut(s)	283
ApeKI	GCWGC	2 cut(s)	58, 653
ApoI	RAATTY	1 cut(s)	508
ArsI	GACNNNNNNTTYG	2 cut(s)	836, 868
AspS9I	GGNCC	2 cut(s)	279, 280
AsuHPI	GGTGA	3 cut(s)	215, 563, 619
AsuII	TTCGAA	1 cut(s)	512
AvaI	CYCGRG	1 cut(s)	42
BaeGI	GKGCMC	1 cut(s)	283
BanII	GRGCYC	4 cut(s)	49, 183, 258, 283
BbsI	GAAGAC	1 cut(s)	521
Bbv12I	GWGCWC	2 cut(s)	183, 258
BbvI	GCAGC	2 cut(s)	70, 665
BccI	CCATC	5 cut(s)	110, 198, 670, 835, 863
BclI	TGATCA	1 cut(s)	723
BfaI	CTAG	2 cut(s)	447, 891
BfuAI	ACCTGC	1 cut(s)	885
BisI	GCNGC	2 cut(s)	59, 654
BlsI	GCNGC	2 cut(s)	60, 655
BmeT110I	CYCGRG	1 cut(s)	42
BmgT120I	GGNCC	2 cut(s)	279, 280
BmiI	GGNNCC	1 cut(s)	281
BmsI	GCATC	1 cut(s)	748
BpiI	GAAGAC	1 cut(s)	521
BpmI	CTGGAG	1 cut(s)	261
Bpu14I	TTCGAA	1 cut(s)	512
Bsa29I	ATCGAT	1 cut(s)	234
Bse1I	ACTGG	1 cut(s)	176
BseCI	ATCGAT	1 cut(s)	234
BseGI	GGATG	1 cut(s)	681
BseMII	CTCAG	1 cut(s)	277
BseNI	ACTGG	1 cut(s)	176
BseRI	GAGGAG	3 cut(s)	7, 10, 13
BseSI	GKGCMC	1 cut(s)	283
BseXI	GCAGC	2 cut(s)	70, 665
BshFI	GGCC	1 cut(s)	281
BshVI	ATCGAT	1 cut(s)	234
BsiHKAI	GWGCWC	2 cut(s)	183, 258
BsiHKCI	CYCGRG	1 cut(s)	42
BsmI	GAATGC	1 cut(s)	409
BsnI	GGCC	1 cut(s)	281
BsoBI	CYCGRG	1 cut(s)	42
Bsp119I	TTCGAA	1 cut(s)	512
Bsp120I	GGGCCC	1 cut(s)	279
Bsp1286I	GDGCHC	4 cut(s)	49, 183, 258, 283
Bsp143I	GATC	3 cut(s)	231, 723, 798
BspACI	CCGC	1 cut(s)	667
BspANI	GGCC	1 cut(s)	281
BspCNI	CTCAG	1 cut(s)	276
BspDI	ATCGAT	1 cut(s)	234
BspLI	GGNNCC	1 cut(s)	281
BspMI	ACCTGC	1 cut(s)	885
BspPI	GGATC	1 cut(s)	793
BspT104I	TTCGAA	1 cut(s)	512
BsrI	ACTGG	1 cut(s)	176
BssMI	GATC	3 cut(s)	231, 723, 798
Bst4CI	ACNGT	3 cut(s)	126, 217, 579
BstBI	TTCGAA	1 cut(s)	512
BstDEI	CTNAG	2 cut(s)	263, 379
BstF5I	GGATG	1 cut(s)	681
BstKTI	GATC	3 cut(s)	234, 726, 801
BstMBI	GATC	3 cut(s)	231, 723, 798
BstMWI	GCNNNNNNNGC	2 cut(s)	704, 748
BstNSI	RCATGY	1 cut(s)	436
BstSLI	GKGCMC	1 cut(s)	283
BstV1I	GCAGC	2 cut(s)	70, 665
BstV2I	GAAGAC	1 cut(s)	521
Bsu15I	ATCGAT	1 cut(s)	234
BsuRI	GGCC	1 cut(s)	281
BsuTUI	ATCGAT	1 cut(s)	234
BtsCI	GGATG	1 cut(s)	681
BtsIMutI	CAGTG	1 cut(s)	169
BveI	ACCTGC	1 cut(s)	885
Cfr13I	GGNCC	2 cut(s)	279, 280
ClaI	ATCGAT	1 cut(s)	234
Csp6I	GTAC	3 cut(s)	268, 358, 767
CviAII	CATG	3 cut(s)	30, 433, 646
CviQI	GTAC	3 cut(s)	268, 358, 767
DdeI	CTNAG	2 cut(s)	263, 379
DpnI	GATC	3 cut(s)	233, 725, 800
DpnII	GATC	3 cut(s)	231, 723, 798
Ecl136II	GAGCTC	2 cut(s)	181, 256
Eco24I	GRGCYC	4 cut(s)	49, 183, 258, 283
Eco53kI	GAGCTC	2 cut(s)	181, 256
Eco88I	CYCGRG	1 cut(s)	42
EcoICRI	GAGCTC	2 cut(s)	181, 256
EcoRI	GAATTC	1 cut(s)	508
EcoT38I	GRGCYC	4 cut(s)	49, 183, 258, 283
FaeI	CATG	3 cut(s)	33, 436, 649
FatI	CATG	3 cut(s)	29, 432, 645
FbaI	TGATCA	1 cut(s)	723
FblI	GTMKAC	1 cut(s)	325
Fnu4HI	GCNGC	2 cut(s)	59, 654
FokI	GGATG	1 cut(s)	688
FriOI	GRGCYC	4 cut(s)	49, 183, 258, 283
Fsp4HI	GCNGC	2 cut(s)	59, 654
FspBI	CTAG	2 cut(s)	447, 891
GluI	GCNGC	2 cut(s)	59, 654
GsuI	CTGGAG	1 cut(s)	261
HaeIII	GGCC	1 cut(s)	281
Hin1II	CATG	3 cut(s)	33, 436, 649
HindIII	AAGCTT	1 cut(s)	749
HinfI	GANTC	3 cut(s)	200, 236, 670
HphI	GGTGA	3 cut(s)	215, 563, 619
Hpy166II	GTNNAC	1 cut(s)	326
Hpy188I	TCNGA	5 cut(s)	109, 151, 178, 543, 675
Hpy188III	TCNNGA	2 cut(s)	240, 860
Hpy8I	GTNNAC	1 cut(s)	326
HpyAV	CCTTC	7 cut(s)	139, 280, 390, 604, 632, 643, 680
HpyCH4III	ACNGT	3 cut(s)	126, 217, 579
HpyCH4V	TGCA	4 cut(s)	334, 350, 742, 880
HpyF10VI	GCNNNNNNNGC	2 cut(s)	704, 748
HpyF3I	CTNAG	2 cut(s)	263, 379
Hsp92II	CATG	3 cut(s)	33, 436, 649
Ksp22I	TGATCA	1 cut(s)	723
Kzo9I	GATC	3 cut(s)	231, 723, 798
LmnI	GCTCC	2 cut(s)	15, 242
Lsp1109I	GCAGC	2 cut(s)	70, 665
LweI	GCATC	1 cut(s)	748
MaeI	CTAG	2 cut(s)	447, 891
MaeIII	GTNAC	1 cut(s)	336
MalI	GATC	3 cut(s)	233, 725, 800
MboI	GATC	3 cut(s)	231, 723, 798
MboII	GAAGA	4 cut(s)	128, 212, 411, 526
MfeI	CAATTG	1 cut(s)	274
MhlI	GDGCHC	4 cut(s)	49, 183, 258, 283
MluCI	AATT	6 cut(s)	274, 423, 466, 508, 520, 621
MlyI	GAGTC	2 cut(s)	194, 664
MmeI	TCCRAC	1 cut(s)	765
MnlI	CCTC	8 cut(s)	23, 28, 31, 34, 44, 164, 526, 628
MseI	TTAA	3 cut(s)	504, 828, 898
MslI	CAYNNNNRTG	1 cut(s)	459
MunI	CAATTG	1 cut(s)	274
Mva1269I	GAATGC	1 cut(s)	409
MwoI	GCNNNNNNNGC	2 cut(s)	704, 748
NdeII	GATC	3 cut(s)	231, 723, 798
NlaIII	CATG	3 cut(s)	33, 436, 649
NlaIV	GGNNCC	1 cut(s)	281
NmuCI	GTSAC	1 cut(s)	336
NspI	RCATGY	1 cut(s)	436
NspV	TTCGAA	1 cut(s)	512
OliI	CACNNNNGTG	1 cut(s)	459
PaeR7I	CTCGAG	1 cut(s)	42
PaqCI	CACCTGC	1 cut(s)	885
PctI	GAATGC	1 cut(s)	409
PfeI	GAWTC	1 cut(s)	236
PkrI	GCNGC	2 cut(s)	60, 655
PleI	GAGTC	2 cut(s)	194, 664
PpsI	GAGTC	2 cut(s)	194, 664
Psp124BI	GAGCTC	2 cut(s)	183, 258
PspN4I	GGNNCC	1 cut(s)	281
PspOMI	GGGCCC	1 cut(s)	279
PspPI	GGNCC	2 cut(s)	279, 280
PspXI	VCTCGAGB	1 cut(s)	42
RsaI	GTAC	3 cut(s)	269, 359, 768
RsaNI	GTAC	3 cut(s)	268, 358, 767
RseI	CAYNNNNRTG	1 cut(s)	459
SacI	GAGCTC	2 cut(s)	183, 258
SaqAI	TTAA	3 cut(s)	504, 828, 898
SatI	GCNGC	2 cut(s)	59, 654
Sau3AI	GATC	3 cut(s)	231, 723, 798
Sau96I	GGNCC	2 cut(s)	279, 280
SchI	GAGTC	2 cut(s)	194, 664
SduI	GDGCHC	4 cut(s)	49, 183, 258, 283
SfaNI	GCATC	1 cut(s)	748
Sfr274I	CTCGAG	1 cut(s)	42
SfuI	TTCGAA	1 cut(s)	512
SlaI	CTCGAG	1 cut(s)	42
SmiMI	CAYNNNNRTG	1 cut(s)	459
SmlI	CTYRAG	1 cut(s)	42
SmoI	CTYRAG	1 cut(s)	42
Sse9I	AATT	6 cut(s)	274, 423, 466, 508, 520, 621
SsiI	CCGC	1 cut(s)	667
SspI	AATATT	1 cut(s)	310
SspMI	CTAG	2 cut(s)	447, 891
SstI	GAGCTC	2 cut(s)	183, 258
TaaI	ACNGT	3 cut(s)	126, 217, 579
TaqI	TCGA	4 cut(s)	43, 234, 512, 808
TasI	AATT	6 cut(s)	274, 423, 466, 508, 520, 621
TatI	WGTACW	1 cut(s)	766
TfiI	GAWTC	1 cut(s)	236
Tru1I	TTAA	3 cut(s)	504, 828, 898
Tru9I	TTAA	3 cut(s)	504, 828, 898
TscAI	CASTG	1 cut(s)	176
TseFI	GTSAC	1 cut(s)	336
TseI	GCWGC	2 cut(s)	58, 653
Tsp45I	GTSAC	1 cut(s)	336
TspDTI	ATGAA	4 cut(s)	633, 662, 792, 834
TspRI	CASTG	1 cut(s)	176
XapI	RAATTY	1 cut(s)	508
XceI	RCATGY	1 cut(s)	436
XhoI	CTCGAG	1 cut(s)	42
XmiI	GTMKAC	1 cut(s)	325
XspI	CTAG	2 cut(s)	447, 891

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