Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0001542

Physical Location & Seq

Genomic Coordinates Reverse (-)

19021228 .. 19022079

Gene Structure 852 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG211300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 852 bp

ATGGATGAAATCGAGAAGGCTTTTAGTGTGTCTGTTGACTTACAAAAGAGGGGAGTTGAGCCTAATCAGTTCACTTTCTCTAGCTTGGTCAAGGCCTGTGCCAACCAAGCTGCACTTGAACAAGGGATTCAACTTCATGCTCAGGTTGTCAAGTTTAATTTTGATAAAGACAGTTTTGTGTCTTCTGTTCTTGTTGATATGCATGGGAAATGTGGGTTACTTGATCATTCAATACAAGTTTTTGACGAGGTACCCACCCCAACTGAAGTTGCATGGAATTCATTGCTAAGTGTATTTGCAGTTCACGGCTTAGGAAATGACGCCTTGAAAACTTTTAGTAGAATGGTCCAGGCAGGAGTGAAACCAAATGCAATAACATTTATCAGTCTTTTAACAGGCTGTAGCCATTCTGGATTGGTAGAGGAAGGTTTAAAGTACTTTTACTCTCTGGAGAAAACATATGGCATGGTACCTAGAGCTGGACATTACTCTTGCGTTATTGATTTACTTGGCAGGGCTGGAAGGCTTGGAGAGGCCGAAGATTTTATTAACAGCATGCCAATGCAGCCAAATGCTTTTGGATGGTGCTCTTTTCTTGGTGCTTGCACAATTCATGGTGATAAAGAGAGGGGCATACTGGCAGCGGAGAAATTGATACAGCTTGAACGTGAGAATAGTGGAGCAGATGTTTTGCTTTCAACTCTACATGCAAAGGAGCAAAAATGGGAAGATTTCAGAAGTGTGAGGAAGATGATGAGAGACAGCAGCATGAAGAAATTTCCCGGTTATAGTTGGGTTGATGTTGGAAACAAAACACACACGTCTGGAGACGAAGATTTGTCTCATCCTTAG

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

283

Amino Acids

31.26

Weight (kDa)

5.8

Isoelectric Point (pI)

32.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	3 - 35	1.7e-06	PPR repeat family
PPR_2	PF13041	87 - 135	1.5e-11	PPR repeat family
PPR_3	PF13812	91 - 134	9.3e-06	Pentatricopeptide repeat domain
E_motif	PF20431	205 - 267	2.6e-15	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

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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)
Acc65I	GGTACC	2 cut(s)	250, 469
AccB1I	GGYRCC	2 cut(s)	250, 469
AciI	CCGC	1 cut(s)	644
AcsI	RAATTY	2 cut(s)	277, 776
AcuI	CTGAAG	1 cut(s)	285
AcyI	GRCGYC	1 cut(s)	321
AfaI	GTAC	3 cut(s)	252, 437, 471
AfiI	CCNNNNNNNGG	1 cut(s)	479
AflIII	ACRYGT	1 cut(s)	819
AgsI	TTSAA	6 cut(s)	119, 131, 231, 328, 665, 699
AjiI	CACGTC	1 cut(s)	822
AjnI	CCWGG	1 cut(s)	348
AluBI	AGCT	4 cut(s)	84, 110, 479, 661
AluI	AGCT	4 cut(s)	84, 110, 479, 661
Alw21I	GWGCWC	1 cut(s)	590
Alw26I	GTCTC	3 cut(s)	753, 822, 846
AoxI	GGCC	2 cut(s)	93, 534
ApeKI	GCWGC	4 cut(s)	110, 565, 641, 765
ApoI	RAATTY	2 cut(s)	277, 776
Asp718I	GGTACC	2 cut(s)	250, 469
AspS9I	GGNCC	1 cut(s)	346
AsuC2I	CCSGG	1 cut(s)	783
AsuHPI	GGTGA	1 cut(s)	629
AvaII	GGWCC	1 cut(s)	346
BanI	GGYRCC	2 cut(s)	250, 469
BbsI	GAAGAC	1 cut(s)	174
Bbv12I	GWGCWC	1 cut(s)	590
BbvI	GCAGC	4 cut(s)	97, 577, 653, 777
BccI	CCATC	1 cut(s)	576
BceAI	ACGGC	1 cut(s)	322
BciT130I	CCWGG	1 cut(s)	350
BclI	TGATCA	1 cut(s)	223
BcnI	CCSGG	1 cut(s)	783
BcoDI	GTCTC	3 cut(s)	753, 822, 846
BfaI	CTAG	2 cut(s)	81, 474
BfmI	CTRYAG	1 cut(s)	400
BisI	GCNGC	4 cut(s)	111, 566, 642, 766
BlsI	GCNGC	4 cut(s)	112, 567, 643, 767
BmcAI	AGTACT	1 cut(s)	437
Bme1390I	CCNGG	2 cut(s)	350, 783
Bme18I	GGWCC	1 cut(s)	346
BmgBI	CACGTC	1 cut(s)	822
BmgT120I	GGNCC	1 cut(s)	346
BmiI	GGNNCC	2 cut(s)	252, 471
BmrFI	CCNGG	2 cut(s)	350, 783
BpiI	GAAGAC	1 cut(s)	174
BpmI	CTGGAG	2 cut(s)	470, 846
Bpu10I	CCTNAGC	2 cut(s)	141, 310
BpuMI	CCSGG	1 cut(s)	783
BsaHI	GRCGYC	1 cut(s)	321
BsaXI	ACNNNNNCTCC	2 cut(s)	672, 702
Bsc4I	CCNNNNNNNGG	1 cut(s)	479
Bse1I	ACTGG	1 cut(s)	642
Bse3DI	GCAATG	1 cut(s)	281
BseBI	CCWGG	1 cut(s)	350
BseGI	GGATG	3 cut(s)	10, 587, 844
BseLI	CCNNNNNNNGG	1 cut(s)	479
BseMI	GCAATG	1 cut(s)	281
BseMII	CTCAG	1 cut(s)	155
BseNI	ACTGG	1 cut(s)	642
BseXI	GCAGC	4 cut(s)	97, 577, 653, 777
BsgI	GTGCAG	1 cut(s)	96
BshFI	GGCC	2 cut(s)	95, 536
BshNI	GGYRCC	2 cut(s)	250, 469
BsiHKAI	GWGCWC	1 cut(s)	590
BsiSI	CCGG	1 cut(s)	783
BslI	CCNNNNNNNGG	1 cut(s)	479
BsmAI	GTCTC	3 cut(s)	753, 822, 846
BsmBI	CGTCTC	1 cut(s)	822
BsnI	GGCC	2 cut(s)	95, 536
Bsp1286I	GDGCHC	1 cut(s)	590
Bsp143I	GATC	1 cut(s)	223
BspACI	CCGC	1 cut(s)	644
BspANI	GGCC	2 cut(s)	95, 536
BspCNI	CTCAG	1 cut(s)	154
BspLI	GGNNCC	2 cut(s)	252, 471
BspT107I	GGYRCC	2 cut(s)	250, 469
BsrDI	GCAATG	1 cut(s)	281
BsrI	ACTGG	1 cut(s)	642
BssMI	GATC	1 cut(s)	223
BssNI	GRCGYC	1 cut(s)	321
Bst2UI	CCWGG	1 cut(s)	350
Bst4CI	ACNGT	1 cut(s)	173
BstACI	GRCGYC	1 cut(s)	321
BstC8I	GCNNGC	2 cut(s)	557, 604
BstDEI	CTNAG	4 cut(s)	141, 287, 310, 849
BstF5I	GGATG	3 cut(s)	10, 587, 844
BstKTI	GATC	1 cut(s)	226
BstMAI	GTCTC	3 cut(s)	753, 822, 846
BstMBI	GATC	1 cut(s)	223
BstMWI	GCNNNNNNNGC	2 cut(s)	107, 565
BstNI	CCWGG	1 cut(s)	350
BstNSI	RCATGY	2 cut(s)	559, 710
BstSCI	CCNGG	2 cut(s)	348, 781
BstSFI	CTRYAG	1 cut(s)	400
BstV1I	GCAGC	4 cut(s)	97, 577, 653, 777
BstV2I	GAAGAC	1 cut(s)	174
BsuRI	GGCC	2 cut(s)	95, 536
BtrI	CACGTC	1 cut(s)	822
BtsCI	GGATG	3 cut(s)	10, 587, 844
Cac8I	GCNNGC	2 cut(s)	557, 604
Cfr13I	GGNCC	1 cut(s)	346
CseI	GACGC	1 cut(s)	329
Csp6I	GTAC	3 cut(s)	251, 436, 470
CviAII	CATG	8 cut(s)	137, 203, 273, 466, 556, 614, 707, 769
CviQI	GTAC	3 cut(s)	251, 436, 470
DdeI	CTNAG	4 cut(s)	141, 287, 310, 849
DpnI	GATC	1 cut(s)	225
DpnII	GATC	1 cut(s)	223
DraI	TTTAAA	1 cut(s)	432
Eco147I	AGGCCT	1 cut(s)	95
Eco47I	GGWCC	1 cut(s)	346
Eco57I	CTGAAG	1 cut(s)	285
EcoRI	GAATTC	1 cut(s)	277
EcoRII	CCWGG	1 cut(s)	348
EcoT22I	ATGCAT	1 cut(s)	204
Esp3I	CGTCTC	1 cut(s)	822
FaeI	CATG	8 cut(s)	140, 206, 276, 469, 559, 617, 710, 772
FalI	AAGNNNNNCTT	2 cut(s)	99, 131
FatI	CATG	8 cut(s)	136, 202, 272, 465, 555, 613, 706, 768
FauNDI	CATATG	1 cut(s)	460
FbaI	TGATCA	1 cut(s)	223
Fnu4HI	GCNGC	4 cut(s)	111, 566, 642, 766
FokI	GGATG	3 cut(s)	17, 594, 831
Fsp4HI	GCNGC	4 cut(s)	111, 566, 642, 766
FspBI	CTAG	2 cut(s)	81, 474
GluI	GCNGC	4 cut(s)	111, 566, 642, 766
GsuI	CTGGAG	2 cut(s)	470, 846
HaeIII	GGCC	2 cut(s)	95, 536
HapII	CCGG	1 cut(s)	783
HgaI	GACGC	1 cut(s)	329
Hin1I	GRCGYC	1 cut(s)	321
Hin1II	CATG	8 cut(s)	140, 206, 276, 469, 559, 617, 710, 772
HincII	GTYRAC	1 cut(s)	37
HindII	GTYRAC	1 cut(s)	37
HinfI	GANTC	1 cut(s)	127
HpaII	CCGG	1 cut(s)	783
HphI	GGTGA	1 cut(s)	629
Hpy166II	GTNNAC	3 cut(s)	37, 72, 304
Hpy188I	TCNGA	1 cut(s)	737
Hpy188III	TCNNGA	4 cut(s)	13, 411, 449, 825
Hpy8I	GTNNAC	3 cut(s)	37, 72, 304
HpyAV	CCTTC	3 cut(s)	10, 419, 516
HpyCH4III	ACNGT	1 cut(s)	173
HpyCH4IV	ACGT	2 cut(s)	667, 821
HpyCH4V	TGCA	8 cut(s)	113, 202, 272, 299, 371, 565, 606, 710
HpyF10VI	GCNNNNNNNGC	2 cut(s)	107, 565
HpyF3I	CTNAG	4 cut(s)	141, 287, 310, 849
HpySE526I	ACGT	2 cut(s)	667, 821
Hsp92I	GRCGYC	1 cut(s)	321
Hsp92II	CATG	8 cut(s)	140, 206, 276, 469, 559, 617, 710, 772
KpnI	GGTACC	2 cut(s)	254, 473
Ksp22I	TGATCA	1 cut(s)	223
Kzo9I	GATC	1 cut(s)	223
LmnI	GCTCC	2 cut(s)	680, 715
Lsp1109I	GCAGC	4 cut(s)	97, 577, 653, 777
MaeI	CTAG	2 cut(s)	81, 474
MaeII	ACGT	2 cut(s)	667, 821
MaeIII	GTNAC	1 cut(s)	216
MalI	GATC	1 cut(s)	225
MboI	GATC	1 cut(s)	223
MboII	GAAGA	6 cut(s)	174, 551, 740, 760, 784, 845
MhlI	GDGCHC	1 cut(s)	590
MluCI	AATT	5 cut(s)	157, 277, 609, 650, 776
MmeI	TCCRAC	1 cut(s)	784
MnlI	CCTC	6 cut(s)	42, 241, 415, 526, 621, 738
Mph1103I	ATGCAT	1 cut(s)	204
MseI	TTAA	4 cut(s)	156, 392, 431, 549
MslI	CAYNNNNRTG	1 cut(s)	560
MspA1I	CMGCKG	1 cut(s)	644
MspI	CCGG	1 cut(s)	783
MspR9I	CCNGG	2 cut(s)	350, 783
MvaI	CCWGG	1 cut(s)	350
MwoI	GCNNNNNNNGC	2 cut(s)	107, 565
NciI	CCSGG	1 cut(s)	783
NdeI	CATATG	1 cut(s)	460
NdeII	GATC	1 cut(s)	223
NlaIII	CATG	8 cut(s)	140, 206, 276, 469, 559, 617, 710, 772
NlaIV	GGNNCC	2 cut(s)	252, 471
NsiI	ATGCAT	1 cut(s)	204
NspI	RCATGY	2 cut(s)	559, 710
PaeI	GCATGC	1 cut(s)	559
PceI	AGGCCT	1 cut(s)	95
PfeI	GAWTC	1 cut(s)	127
PkrI	GCNGC	4 cut(s)	112, 567, 643, 767
Psp6I	CCWGG	1 cut(s)	348
PspGI	CCWGG	1 cut(s)	348
PspN4I	GGNNCC	2 cut(s)	252, 471
PspPI	GGNCC	1 cut(s)	346
PsrI	GAACNNNNNNTAC	2 cut(s)	285, 317
RsaI	GTAC	3 cut(s)	252, 437, 471
RsaNI	GTAC	3 cut(s)	251, 436, 470
RseI	CAYNNNNRTG	1 cut(s)	560
SaqAI	TTAA	4 cut(s)	156, 392, 431, 549
SatI	GCNGC	4 cut(s)	111, 566, 642, 766
Sau3AI	GATC	1 cut(s)	223
Sau96I	GGNCC	1 cut(s)	346
ScaI	AGTACT	1 cut(s)	437
ScrFI	CCNGG	2 cut(s)	350, 783
SduI	GDGCHC	1 cut(s)	590
SfcI	CTRYAG	1 cut(s)	400
SinI	GGWCC	1 cut(s)	346
SmiMI	CAYNNNNRTG	1 cut(s)	560
SphI	GCATGC	1 cut(s)	559
Sse9I	AATT	5 cut(s)	157, 277, 609, 650, 776
SseBI	AGGCCT	1 cut(s)	95
SsiI	CCGC	1 cut(s)	644
SspMI	CTAG	2 cut(s)	81, 474
StuI	AGGCCT	1 cut(s)	95
StyD4I	CCNGG	2 cut(s)	348, 781
TaaI	ACNGT	1 cut(s)	173
TaiI	ACGT	2 cut(s)	670, 824
TaqI	TCGA	1 cut(s)	12
TasI	AATT	5 cut(s)	157, 277, 609, 650, 776
TatI	WGTACW	1 cut(s)	435
TfiI	GAWTC	1 cut(s)	127
Tru1I	TTAA	4 cut(s)	156, 392, 431, 549
Tru9I	TTAA	4 cut(s)	156, 392, 431, 549
TseI	GCWGC	4 cut(s)	110, 565, 641, 765
TspDTI	ATGAA	5 cut(s)	21, 125, 270, 602, 785
VpaK11BI	GGWCC	1 cut(s)	346
XapI	RAATTY	2 cut(s)	277, 776
XceI	RCATGY	2 cut(s)	559, 710
XspI	CTAG	2 cut(s)	81, 474
ZrmI	AGTACT	1 cut(s)	437
Zsp2I	ATGCAT	1 cut(s)	204

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