Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0001542

Physical Location & Seq

Genomic Coordinates Reverse (-)

18992622 .. 18993359

Gene Structure 738 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG211000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 738 bp

ATGGAGAGTGCTTTAAATGTGTTTCGGGTTGACCCTGAGAGTAGAAATATTGTGTCGTATTCCTCTCTGATCAATGGTTATGTCGAGATGGATGAAATCGAGAAGGCTTTTGTGTGTTTGTTGACCTGCAGAGGGGGGGGAGTTGAGCCCAATCAGTTCACTTTCTCTAGCTTGGTCAAGGCCTGTGCCAACCAAGCTGCACTTGAACAAGGGATTCAACTTCAGGCTCAGGTGATCAAGTTTAATTTTGATAGAGACAATTTTGTGTCTTCTGTTCTTGTTGATATGTATGGAAAATGTGGGTTACTTGATCACTCAATACAAGTGTTTGACGAGATAGTAAACCCGACTGAAGTTGCATGGAATTCGTTGCTAAGTGTATTTGCAGTTCATGGCTTAGGAAATGACGCCTTGAAAACTTTTAGTAGAATGGTCGGGGCAGGAGTGAAACCAAATGCAATAACATTTATCAGCCTTTTAACAGGTTGTAGCCATTCTGGATCGGTAGAGGAAGGTTTAACGTACTTTTACTTTATGGAGAAAACATATGGCATAGTACCTAGAGCTGGACATTACTCTTGCGTTATTGATTTACTTGGCCGGGCTGGAAGGCTTGAAGAGGCCGAAGAATTCATTAACAGCATGCCAGTGCAGCCAAATGCTTTTGGATGGTGCTCTTTTCTTGGCGCTTGCACAATTCGTGGTGATAAAGAAAGGGGCAAACTGGCAGCAGAGTAA

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

DYW_deaminase PPR PPR_2

Protein Analysis

245

Amino Acids

26.83

Weight (kDa)

4.99

Isoelectric Point (pI)

35.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	15 - 64	7.8e-10	PPR repeat family
PPR_2	PF13041	116 - 164	6.8e-11	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

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

Orthologous Genes (Group: OG0001542)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g18620
malus_domestica	MD12G1035700.v1.1
prunus_persica	Prupe.7G110800_v2.0.a1
pyrus_communis	pycom12g02350
rosa_chinensis	RchiOBHm_Chr3g0473201 RchiOBHm_Chr3g0473271 RchiOBHm_Chr3g0473331 RchiOBHm_Chr3g0473361 RchiOBHm_Chr3g0473371 RchiOBHm_Chr3g0473431 RchiOBHm_Chr3g0473471 RchiOBHm_Chr3g0473501 RchiOBHm_Chr3g0473511 RchiOBHm_Chr3g0473551 RchiOBHm_Chr7g0233141
rosa_laevigata	RLG00000001293 RLG00000024007 RLG00000024017
rosa_multiflora	Rmu_sc0000908.1_g000014 Rmu_sc0000908.1_g000027 Rmu_sc0003069.1_g000052 Rmu_sc0003069.1_g000057 Rmu_sc0004463.1_g000001 Rmu_sc0010262.1_g000001 Rmu_sc0016164.1_g000017
rosa_roxburghii	Rroxscaffold_6G00408080 Rroxscaffold_6G00408190 Rroxscaffold_6G00408210
rosa_rugosa	Rorug03G0132200 Rorug03G0132500 Rorug07G0278700
rosa_samantha	Rh3BG210400 Rh3BG210700 Rh3BG211000 Rh3BG211100 Rh3BG211300 Rh3BG211900 Rh3BG212100 Rh3BG212300 Rh3CG207600 Rh3CG207800 Rh3CG208300 Rh3CG208400 Rh3CG208600 Rh3CG208800 Rh3DG207500 Rh3DG207900 Rh7BG406800 Rh7BG406900
rosa_wichuraiana	Rw0G008140 Rw0G014770

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	134
AclWI	GGATC	1 cut(s)	508
AcoI	YGGCCR	1 cut(s)	598
AcsI	RAATTY	2 cut(s)	364, 629
AcuI	CTGAAG	2 cut(s)	206, 372
AcyI	GRCGYC	1 cut(s)	408
AfaI	GTAC	2 cut(s)	524, 558
AfiI	CCNNNNNNNGG	2 cut(s)	132, 566
AgsI	TTSAA	4 cut(s)	206, 218, 415, 617
AluBI	AGCT	3 cut(s)	171, 197, 566
AluI	AGCT	3 cut(s)	171, 197, 566
Alw21I	GWGCWC	1 cut(s)	677
Alw26I	GTCTC	1 cut(s)	249
AlwI	GGATC	1 cut(s)	508
AoxI	GGCC	3 cut(s)	180, 598, 621
ApeKI	GCWGC	3 cut(s)	197, 652, 728
ApoI	RAATTY	2 cut(s)	364, 629
AspLEI	GCGC	1 cut(s)	689
AsuC2I	CCSGG	1 cut(s)	602
AsuHPI	GGTGA	2 cut(s)	244, 716
BanII	GRGCYC	1 cut(s)	150
BbsI	GAAGAC	1 cut(s)	261
Bbv12I	GWGCWC	1 cut(s)	677
BbvI	GCAGC	2 cut(s)	184, 664
BccI	CCATC	2 cut(s)	82, 663
BcgI	CGANNNNNNTGC	2 cut(s)	348, 382
BclI	TGATCA	3 cut(s)	69, 234, 310
BcnI	CCSGG	1 cut(s)	602
BcoDI	GTCTC	1 cut(s)	249
BfaI	CTAG	2 cut(s)	168, 561
BfmI	CTRYAG	1 cut(s)	127
BfoI	RGCGCY	1 cut(s)	690
BfuAI	ACCTGC	1 cut(s)	134
BisI	GCNGC	3 cut(s)	198, 653, 729
BlsI	GCNGC	3 cut(s)	199, 654, 730
Bme1390I	CCNGG	1 cut(s)	602
BmrFI	CCNGG	1 cut(s)	602
BpiI	GAAGAC	1 cut(s)	261
Bpu10I	CCTNAGC	2 cut(s)	228, 397
BpuMI	CCSGG	1 cut(s)	602
BsaHI	GRCGYC	1 cut(s)	408
Bsc4I	CCNNNNNNNGG	2 cut(s)	132, 566
Bse1I	ACTGG	2 cut(s)	647, 729
BseGI	GGATG	2 cut(s)	97, 674
BseLI	CCNNNNNNNGG	2 cut(s)	132, 566
BseMII	CTCAG	2 cut(s)	27, 242
BseNI	ACTGG	2 cut(s)	647, 729
BseXI	GCAGC	2 cut(s)	184, 664
BsgI	GTGCAG	2 cut(s)	183, 671
BshFI	GGCC	3 cut(s)	182, 600, 623
BsiHKAI	GWGCWC	1 cut(s)	677
BsiSI	CCGG	1 cut(s)	601
BslI	CCNNNNNNNGG	2 cut(s)	132, 566
BsmAI	GTCTC	1 cut(s)	249
BsnI	GGCC	3 cut(s)	182, 600, 623
Bsp1286I	GDGCHC	2 cut(s)	150, 677
Bsp143I	GATC	4 cut(s)	69, 234, 310, 500
BspANI	GGCC	3 cut(s)	182, 600, 623
BspCNI	CTCAG	2 cut(s)	28, 241
BspMAI	CTGCAG	1 cut(s)	131
BspMI	ACCTGC	1 cut(s)	134
BspPI	GGATC	1 cut(s)	508
BsrI	ACTGG	2 cut(s)	647, 729
BssMI	GATC	4 cut(s)	69, 234, 310, 500
BssNI	GRCGYC	1 cut(s)	408
Bst6I	CTCTTC	1 cut(s)	612
BstACI	GRCGYC	1 cut(s)	408
BstC8I	GCNNGC	2 cut(s)	644, 691
BstDEI	CTNAG	4 cut(s)	36, 228, 374, 397
BstF5I	GGATG	2 cut(s)	97, 674
BstH2I	RGCGCY	1 cut(s)	690
BstHHI	GCGC	1 cut(s)	689
BstKTI	GATC	4 cut(s)	72, 237, 313, 503
BstMAI	GTCTC	1 cut(s)	249
BstMBI	GATC	4 cut(s)	69, 234, 310, 500
BstMWI	GCNNNNNNNGC	2 cut(s)	194, 652
BstNSI	RCATGY	1 cut(s)	646
BstSCI	CCNGG	1 cut(s)	600
BstSFI	CTRYAG	1 cut(s)	127
BstV1I	GCAGC	2 cut(s)	184, 664
BstV2I	GAAGAC	1 cut(s)	261
BsuRI	GGCC	3 cut(s)	182, 600, 623
BtsCI	GGATG	2 cut(s)	97, 674
BtsIMutI	CAGTG	1 cut(s)	654
BveI	ACCTGC	1 cut(s)	134
Cac8I	GCNNGC	2 cut(s)	644, 691
CfoI	GCGC	1 cut(s)	689
CseI	GACGC	1 cut(s)	416
Csp6I	GTAC	2 cut(s)	523, 557
CviAII	CATG	3 cut(s)	360, 392, 643
CviQI	GTAC	2 cut(s)	523, 557
DdeI	CTNAG	4 cut(s)	36, 228, 374, 397
DpnI	GATC	4 cut(s)	71, 236, 312, 502
DpnII	GATC	4 cut(s)	69, 234, 310, 500
DraI	TTTAAA	1 cut(s)	15
EaeI	YGGCCR	1 cut(s)	598
Eam1104I	CTCTTC	1 cut(s)	612
EarI	CTCTTC	1 cut(s)	612
Eco147I	AGGCCT	1 cut(s)	182
Eco24I	GRGCYC	1 cut(s)	150
Eco57I	CTGAAG	2 cut(s)	206, 372
EcoRI	GAATTC	2 cut(s)	364, 629
EcoT38I	GRGCYC	1 cut(s)	150
FaeI	CATG	3 cut(s)	363, 395, 646
FalI	AAGNNNNNCTT	2 cut(s)	186, 218
FatI	CATG	3 cut(s)	359, 391, 642
FauNDI	CATATG	1 cut(s)	547
FbaI	TGATCA	3 cut(s)	69, 234, 310
Fnu4HI	GCNGC	3 cut(s)	198, 653, 729
FokI	GGATG	2 cut(s)	104, 681
FriOI	GRGCYC	1 cut(s)	150
Fsp4HI	GCNGC	3 cut(s)	198, 653, 729
FspBI	CTAG	2 cut(s)	168, 561
GlaI	GCGC	1 cut(s)	688
GluI	GCNGC	3 cut(s)	198, 653, 729
HaeII	RGCGCY	1 cut(s)	690
HaeIII	GGCC	3 cut(s)	182, 600, 623
HapII	CCGG	1 cut(s)	601
HgaI	GACGC	1 cut(s)	416
HhaI	GCGC	1 cut(s)	689
Hin1I	GRCGYC	1 cut(s)	408
Hin1II	CATG	3 cut(s)	363, 395, 646
Hin6I	GCGC	1 cut(s)	687
HinP1I	GCGC	1 cut(s)	687
HincII	GTYRAC	2 cut(s)	31, 123
HindII	GTYRAC	2 cut(s)	31, 123
HinfI	GANTC	1 cut(s)	214
HpaII	CCGG	1 cut(s)	601
HphI	GGTGA	2 cut(s)	244, 716
Hpy166II	GTNNAC	4 cut(s)	31, 123, 159, 343
Hpy188I	TCNGA	1 cut(s)	69
Hpy188III	TCNNGA	3 cut(s)	85, 100, 498
Hpy8I	GTNNAC	4 cut(s)	31, 123, 159, 343
HpyAV	CCTTC	3 cut(s)	97, 506, 603
HpyCH4IV	ACGT	1 cut(s)	521
HpyCH4V	TGCA	7 cut(s)	129, 200, 359, 386, 458, 652, 693
HpyF10VI	GCNNNNNNNGC	2 cut(s)	194, 652
HpyF3I	CTNAG	4 cut(s)	36, 228, 374, 397
HpySE526I	ACGT	1 cut(s)	521
Hsp92I	GRCGYC	1 cut(s)	408
Hsp92II	CATG	3 cut(s)	363, 395, 646
HspAI	GCGC	1 cut(s)	687
Ksp22I	TGATCA	3 cut(s)	69, 234, 310
Kzo9I	GATC	4 cut(s)	69, 234, 310, 500
Lsp1109I	GCAGC	2 cut(s)	184, 664
MaeI	CTAG	2 cut(s)	168, 561
MaeII	ACGT	1 cut(s)	521
MaeIII	GTNAC	1 cut(s)	303
MalI	GATC	4 cut(s)	71, 236, 312, 502
MboI	GATC	4 cut(s)	69, 234, 310, 500
MboII	GAAGA	3 cut(s)	261, 629, 638
MhlI	GDGCHC	2 cut(s)	150, 677
MluCI	AATT	5 cut(s)	244, 259, 364, 629, 696
MnlI	CCTC	4 cut(s)	73, 125, 502, 613
MseI	TTAA	5 cut(s)	14, 243, 479, 518, 636
MslI	CAYNNNNRTG	1 cut(s)	647
MspI	CCGG	1 cut(s)	601
MspR9I	CCNGG	1 cut(s)	602
MwoI	GCNNNNNNNGC	2 cut(s)	194, 652
NciI	CCSGG	1 cut(s)	602
NdeI	CATATG	1 cut(s)	547
NdeII	GATC	4 cut(s)	69, 234, 310, 500
NlaIII	CATG	3 cut(s)	363, 395, 646
NspI	RCATGY	1 cut(s)	646
PaeI	GCATGC	1 cut(s)	646
PceI	AGGCCT	1 cut(s)	182
PfeI	GAWTC	1 cut(s)	214
PkrI	GCNGC	3 cut(s)	199, 654, 730
PsrI	GAACNNNNNNTAC	2 cut(s)	372, 404
PstI	CTGCAG	1 cut(s)	131
RsaI	GTAC	2 cut(s)	524, 558
RsaNI	GTAC	2 cut(s)	523, 557
RseI	CAYNNNNRTG	1 cut(s)	647
SaqAI	TTAA	5 cut(s)	14, 243, 479, 518, 636
SatI	GCNGC	3 cut(s)	198, 653, 729
Sau3AI	GATC	4 cut(s)	69, 234, 310, 500
ScrFI	CCNGG	1 cut(s)	602
SduI	GDGCHC	2 cut(s)	150, 677
SetI	ASST	9 cut(s)	128, 173, 199, 234, 487, 517, 524, 562, 568
SfcI	CTRYAG	1 cut(s)	127
SmiMI	CAYNNNNRTG	1 cut(s)	647
SphI	GCATGC	1 cut(s)	646
Sse9I	AATT	5 cut(s)	244, 259, 364, 629, 696
SseBI	AGGCCT	1 cut(s)	182
SspI	AATATT	1 cut(s)	49
SspMI	CTAG	2 cut(s)	168, 561
StuI	AGGCCT	1 cut(s)	182
StyD4I	CCNGG	1 cut(s)	600
TaiI	ACGT	1 cut(s)	524
TaqI	TCGA	2 cut(s)	84, 99
TasI	AATT	5 cut(s)	244, 259, 364, 629, 696
TfiI	GAWTC	1 cut(s)	214
Tru1I	TTAA	5 cut(s)	14, 243, 479, 518, 636
Tru9I	TTAA	5 cut(s)	14, 243, 479, 518, 636
TscAI	CASTG	1 cut(s)	654
TseI	GCWGC	3 cut(s)	197, 652, 728
TspDTI	ATGAA	3 cut(s)	108, 380, 622
TspRI	CASTG	1 cut(s)	654
XapI	RAATTY	2 cut(s)	364, 629
XceI	RCATGY	1 cut(s)	646
XspI	CTAG	2 cut(s)	168, 561

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