Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0001542

Physical Location & Seq

Genomic Coordinates Reverse (-)

18936242 .. 18937992

Gene Structure 1751 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG207800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 819 bp

ATGGCGAGGCTAACCGGTAAAGCTTCCCAGAAAATTTCATTTGCAACCCCTTTCTTTATGAGTTTTCAACCCTTGCGCCTTTTTGGCGGCCAAATTCTGAAAGCGGAGTCCGCCACTTTGGCGCAAGTCATCCAAACCTACGCAAAAACCAAGCAGCTAAACAAAGGCAAAGAGCTCCACGCTCACCTCCTCCGCACTCATTACCCACTATGCATTTTCCTCACCAACCACCTCCTCAATATGTACTCCAAATGCGGGCACGTCGATTATGCCCTCAAGCTTTTCGACCAAATGCCTCACCGAAACTTGGTTTCCTGGACTGCAATGGTAACTGGGTTTTCTCAGAACATGAGGTTCTCGGAGAGTTTCAAGAATGCTGGGGAGAGCCCGACCCAGTTTGCATTTGCAAGTGTCATCAGAGCTTGTGTGGTTATTGGGTCGGTTGAGATTGGGAGGCAGCTGCATTCTCTTGCTTTGAAATTGGGCTTGGCTTGTGAGCTGTTTGTGGGCAGTAGCTTGGCGGATATGTATTCGAAATGTGGGTTCATGGTTGAGGCTTGTAAGGTTTTCGAGGAAATGCCGAGTAAGGATGCTGTATCGTGGACTTCGATGATTGATGGGTATGCAAAAAGTGGGGATTTTGAGGCAGCTTTACTGAGTTATCAGAGGATGATCAATGATGGGATTGGTGTAGATAAATATGTTGTTTCCAGTGCATTGAGTGCTTGTTCTGCACTGAAGGCTTGTCAGTTGTGTTCATTCGACGGTTGTGAAGTTAGGATTGGAAGTAGAGGTTGCTGTGGGAAATGCTCTGGTTGA

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

272

Amino Acids

29.78

Weight (kDa)

8.84

Isoelectric Point (pI)

35.77

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	72 - 113	4.5e-06	PPR repeat family
PPR_2	PF13041	196 - 243	6.7e-07	PPR repeat family
PPR	PF01535	199 - 229	1.6e-07	PPR repeat

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)
AciI	CCGC	6 cut(s)	87, 104, 111, 193, 255, 521
AcoI	YGGCCR	1 cut(s)	88
AcsI	RAATTY	2 cut(s)	33, 93
AcuI	CTGAAG	1 cut(s)	758
AfaI	GTAC	1 cut(s)	245
AfiI	CCNNNNNNNGG	2 cut(s)	255, 307
AgeI	ACCGGT	1 cut(s)	14
AgsI	TTSAA	3 cut(s)	68, 370, 478
AjiI	CACGTC	1 cut(s)	262
AjnI	CCWGG	1 cut(s)	314
AjuI	GAANNNNNNNTTGG	4 cut(s)	470, 502, 765, 797
AluBI	AGCT	9 cut(s)	23, 157, 175, 280, 422, 460, 499, 516, 650
AluI	AGCT	9 cut(s)	23, 157, 175, 280, 422, 460, 499, 516, 650
Alw21I	GWGCWC	1 cut(s)	177
AoxI	GGCC	1 cut(s)	88
ApeKI	GCWGC	4 cut(s)	154, 457, 460, 647
ApoI	RAATTY	2 cut(s)	33, 93
AsiGI	ACCGGT	1 cut(s)	14
AspLEI	GCGC	2 cut(s)	78, 124
AsuHPI	GGTGA	3 cut(s)	176, 214, 290
AsuII	TTCGAA	1 cut(s)	533
BaeGI	GKGCMC	1 cut(s)	261
BanII	GRGCYC	2 cut(s)	177, 389
Bbv12I	GWGCWC	1 cut(s)	177
BbvI	GCAGC	4 cut(s)	166, 447, 469, 659
BccI	CCATC	2 cut(s)	611, 674
BciT130I	CCWGG	1 cut(s)	316
BclI	TGATCA	1 cut(s)	672
BglI	GCCNNNNNGGC	2 cut(s)	84, 119
BisI	GCNGC	5 cut(s)	88, 155, 458, 461, 648
BlsI	GCNGC	5 cut(s)	89, 156, 459, 462, 649
Bme1390I	CCNGG	1 cut(s)	316
BmgBI	CACGTC	1 cut(s)	262
BmrFI	CCNGG	1 cut(s)	316
BmrI	ACTGGG	2 cut(s)	342, 388
BmsI	GCATC	1 cut(s)	580
BmuI	ACTGGG	2 cut(s)	342, 388
Bpu14I	TTCGAA	1 cut(s)	533
BpuEI	CTTGAG	1 cut(s)	260
BsaWI	WCCGGW	1 cut(s)	14
Bsc4I	CCNNNNNNNGG	2 cut(s)	255, 307
Bse118I	RCCGGY	1 cut(s)	14
Bse1I	ACTGG	3 cut(s)	337, 394, 711
Bse3DI	GCAATG	1 cut(s)	330
BseBI	CCWGG	1 cut(s)	316
BseGI	GGATG	3 cut(s)	129, 595, 675
BseLI	CCNNNNNNNGG	2 cut(s)	255, 307
BseMI	GCAATG	1 cut(s)	330
BseMII	CTCAG	2 cut(s)	356, 647
BseNI	ACTGG	3 cut(s)	337, 394, 711
BseRI	GAGGAG	2 cut(s)	179, 224
BseSI	GKGCMC	1 cut(s)	261
BseXI	GCAGC	4 cut(s)	166, 447, 469, 659
BseYI	CCCAGC	1 cut(s)	377
BsgI	GTGCAG	1 cut(s)	717
BshFI	GGCC	1 cut(s)	90
BshTI	ACCGGT	1 cut(s)	14
BsiHKAI	GWGCWC	1 cut(s)	177
BsiSI	CCGG	1 cut(s)	15
BslI	CCNNNNNNNGG	2 cut(s)	255, 307
BsmI	GAATGC	2 cut(s)	379, 463
BsnI	GGCC	1 cut(s)	90
Bsp119I	TTCGAA	1 cut(s)	533
Bsp1286I	GDGCHC	3 cut(s)	177, 261, 389
Bsp143I	GATC	1 cut(s)	672
BspACI	CCGC	6 cut(s)	87, 104, 111, 193, 255, 521
BspANI	GGCC	1 cut(s)	90
BspCNI	CTCAG	2 cut(s)	355, 648
BspT104I	TTCGAA	1 cut(s)	533
BsrDI	GCAATG	1 cut(s)	330
BsrFI	RCCGGY	1 cut(s)	14
BsrI	ACTGG	3 cut(s)	337, 394, 711
BssAI	RCCGGY	1 cut(s)	14
BssMI	GATC	1 cut(s)	672
Bst2UI	CCWGG	1 cut(s)	316
Bst4CI	ACNGT	1 cut(s)	767
BstAPI	GCANNNNNTGC	1 cut(s)	722
BstBI	TTCGAA	1 cut(s)	533
BstC8I	GCNNGC	1 cut(s)	257
BstDEI	CTNAG	2 cut(s)	342, 656
BstF5I	GGATG	3 cut(s)	129, 595, 675
BstHHI	GCGC	2 cut(s)	78, 124
BstKTI	GATC	1 cut(s)	675
BstMBI	GATC	1 cut(s)	672
BstMWI	GCNNNNNNNGC	6 cut(s)	84, 110, 119, 722, 731, 740
BstNI	CCWGG	1 cut(s)	316
BstSCI	CCNGG	1 cut(s)	314
BstSLI	GKGCMC	1 cut(s)	261
BstV1I	GCAGC	4 cut(s)	166, 447, 469, 659
BsuRI	GGCC	1 cut(s)	90
BtrI	CACGTC	1 cut(s)	262
BtsCI	GGATG	3 cut(s)	129, 595, 675
BtsIMutI	CAGTG	2 cut(s)	718, 734
Cac8I	GCNNGC	1 cut(s)	257
CfoI	GCGC	2 cut(s)	78, 124
Cfr10I	RCCGGY	1 cut(s)	14
Csp6I	GTAC	1 cut(s)	244
CspAI	ACCGGT	1 cut(s)	14
CviAII	CATG	2 cut(s)	349, 547
CviQI	GTAC	1 cut(s)	244
DdeI	CTNAG	2 cut(s)	342, 656
DpnI	GATC	1 cut(s)	674
DpnII	GATC	1 cut(s)	672
EaeI	YGGCCR	1 cut(s)	88
EciI	GGCGGA	2 cut(s)	100, 536
Ecl136II	GAGCTC	1 cut(s)	175
Eco24I	GRGCYC	2 cut(s)	177, 389
Eco53kI	GAGCTC	1 cut(s)	175
Eco57I	CTGAAG	1 cut(s)	758
EcoICRI	GAGCTC	1 cut(s)	175
EcoRII	CCWGG	1 cut(s)	314
EcoT22I	ATGCAT	1 cut(s)	215
EcoT38I	GRGCYC	2 cut(s)	177, 389
FaeI	CATG	2 cut(s)	352, 550
FaiI	YATR	9 cut(s)	59, 211, 242, 270, 350, 527, 548, 624, 702
FatI	CATG	2 cut(s)	348, 546
FauI	CCCGC	1 cut(s)	248
FbaI	TGATCA	1 cut(s)	672
Fnu4HI	GCNGC	5 cut(s)	88, 155, 458, 461, 648
FokI	GGATG	3 cut(s)	116, 602, 682
FriOI	GRGCYC	2 cut(s)	177, 389
Fsp4HI	GCNGC	5 cut(s)	88, 155, 458, 461, 648
GlaI	GCGC	2 cut(s)	77, 123
GluI	GCNGC	5 cut(s)	88, 155, 458, 461, 648
GsaI	CCCAGC	1 cut(s)	381
HaeIII	GGCC	1 cut(s)	90
HapII	CCGG	1 cut(s)	15
HhaI	GCGC	2 cut(s)	78, 124
Hin1II	CATG	2 cut(s)	352, 550
Hin6I	GCGC	2 cut(s)	76, 122
HinP1I	GCGC	2 cut(s)	76, 122
HindIII	AAGCTT	2 cut(s)	21, 278
HinfI	GANTC	1 cut(s)	107
HpaII	CCGG	1 cut(s)	15
HphI	GGTGA	3 cut(s)	176, 214, 290
Hpy166II	GTNNAC	1 cut(s)	603
Hpy188I	TCNGA	5 cut(s)	99, 345, 361, 419, 666
Hpy188III	TCNNGA	1 cut(s)	370
Hpy8I	GTNNAC	1 cut(s)	603
Hpy99I	CGWCG	2 cut(s)	266, 767
HpyAV	CCTTC	1 cut(s)	733
HpyCH4III	ACNGT	1 cut(s)	767
HpyCH4IV	ACGT	1 cut(s)	261
HpyCH4V	TGCA	9 cut(s)	44, 213, 323, 401, 407, 463, 626, 716, 734
HpyF10VI	GCNNNNNNNGC	6 cut(s)	84, 110, 119, 722, 731, 740
HpyF3I	CTNAG	2 cut(s)	342, 656
HpySE526I	ACGT	1 cut(s)	261
Hsp92II	CATG	2 cut(s)	352, 550
HspAI	GCGC	2 cut(s)	76, 122
Ksp22I	TGATCA	1 cut(s)	672
Kzo9I	GATC	1 cut(s)	672
LmnI	GCTCC	1 cut(s)	180
LpnPI	CCDG	9 cut(s)	28, 41, 301, 318, 328, 363, 407, 724, 798
Lsp1109I	GCAGC	4 cut(s)	166, 447, 469, 659
LweI	GCATC	1 cut(s)	580
MaeII	ACGT	1 cut(s)	261
MaeIII	GTNAC	1 cut(s)	328
MalI	GATC	1 cut(s)	674
MboI	GATC	1 cut(s)	672
MhlI	GDGCHC	3 cut(s)	177, 261, 389
MluCI	AATT	3 cut(s)	33, 93, 479
MlyI	GAGTC	1 cut(s)	116
Mph1103I	ATGCAT	1 cut(s)	215
MspA1I	CMGCKG	1 cut(s)	460
MspI	CCGG	1 cut(s)	15
MspR9I	CCNGG	1 cut(s)	316
Mva1269I	GAATGC	2 cut(s)	379, 463
MvaI	CCWGG	1 cut(s)	316
MwoI	GCNNNNNNNGC	6 cut(s)	84, 110, 119, 722, 731, 740
NdeII	GATC	1 cut(s)	672
NlaIII	CATG	2 cut(s)	352, 550
NmeAIII	GCCGAG	1 cut(s)	606
NsiI	ATGCAT	1 cut(s)	215
NspV	TTCGAA	1 cut(s)	533
PcsI	WCGNNNNNNNCGW	1 cut(s)	605
PctI	GAATGC	2 cut(s)	379, 463
PfoI	TCCNGGA	1 cut(s)	314
PinAI	ACCGGT	1 cut(s)	14
PkrI	GCNGC	5 cut(s)	89, 156, 459, 462, 649
PleI	GAGTC	1 cut(s)	115
PpsI	GAGTC	1 cut(s)	115
Psp124BI	GAGCTC	1 cut(s)	177
Psp6I	CCWGG	1 cut(s)	314
PspFI	CCCAGC	1 cut(s)	377
PspGI	CCWGG	1 cut(s)	314
PvuII	CAGCTG	1 cut(s)	460
RsaI	GTAC	1 cut(s)	245
RsaNI	GTAC	1 cut(s)	244
SacI	GAGCTC	1 cut(s)	177
SatI	GCNGC	5 cut(s)	88, 155, 458, 461, 648
Sau3AI	GATC	1 cut(s)	672
SchI	GAGTC	1 cut(s)	116
ScrFI	CCNGG	1 cut(s)	316
SduI	GDGCHC	3 cut(s)	177, 261, 389
SfaNI	GCATC	1 cut(s)	580
SfuI	TTCGAA	1 cut(s)	533
SmlI	CTYRAG	1 cut(s)	275
SmoI	CTYRAG	1 cut(s)	275
Sse9I	AATT	3 cut(s)	33, 93, 479
SsiI	CCGC	6 cut(s)	87, 104, 111, 193, 255, 521
SstI	GAGCTC	1 cut(s)	177
StyD4I	CCNGG	1 cut(s)	314
TaaI	ACNGT	1 cut(s)	767
TaiI	ACGT	1 cut(s)	264
TaqI	TCGA	6 cut(s)	264, 285, 533, 570, 608, 762
TasI	AATT	3 cut(s)	33, 93, 479
TatI	WGTACW	1 cut(s)	243
TauI	GCSGC	1 cut(s)	90
TscAI	CASTG	2 cut(s)	718, 741
TseI	GCWGC	4 cut(s)	154, 457, 460, 647
TspDTI	ATGAA	3 cut(s)	27, 535, 747
TspRI	CASTG	2 cut(s)	718, 741
XapI	RAATTY	2 cut(s)	33, 93
Zsp2I	ATGCAT	1 cut(s)	215

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