Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0009745

Physical Location & Seq

Genomic Coordinates Forward (+)

41662227 .. 41663165

Gene Structure 939 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00420390.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 939 bp

ATGGCTGCCAGATTGGTATCTCGCTCCTCTCTTCACAACCAATCCAATCCCTTCTCCCTTTTCTTCACCAAGCTTCACACAACCATAGCTCCAATCAACCACACCCACAAACTCATCTCTTTCTCTTCTTCTTCTCCTTCATCCACAACATCCCATAACAGCAGGTCTCTTCTTCCTCCGCCATCATTCTCTTCTTTTCGCCTCTTCTGCTCCTCCGAACCCAACACCAAGCGTTCCACCCTCGTCAATTTCTCTCTCCCCTCCGACGACGAAGACGACGACGCCGAACAGAAACCAAACGACAAGTCGTCGTCGTCGTCGTCGTTGTCCCTCCCTCCTCCCTACGACCCATTCAACAAGAAGCCGGCGATCGAAGACCCAGAAGACCCAAAAGACTTGCAGGAAGTGTTCCACAAGATGCGCACAGATGGGCTCCAAAACAATGCAGTCAAGATGTTCGACGCTTTGTCCAAGGACGGCCTCACCCACGAGGCCTTGGAGCTCTTCGCCCAGATCAAAGACAAGGGCCACATGCCCGACGTGGTGGCCCACACCGCCGTCATCGAGGCCTACGCCGCCGCCGGAAAGCCCAAGGACGCTCTCAAGGTGTACATGCGGATGTTGGCGTGTGGGGTTGCACCAAATGCCTACACTTATAGCGTGCTCATCAAGGCACTCGCTGCCGACGCCACTTTCGTTGGGGATGCGAAGAAGTATCTGATGGAGATGATGGGGAAGGGAATGCGGCCCAATGCCGGGACGTACGTGGCGGTGTTTGAGGCGTTTGCGGCCGAGGAGAGGGTGGAGGAGGGGAGGGAGTTGCTGGAGGAGATGAAAGGGAAGGGGTTTGTGGCGGACGAGAAGGCGGTGAGGGAGGTGCTCAAGGGTAGAAGAGGAGCTGTGGTTAGAAGTGTCATCAACCTTCTCTTTGGAAAGTAG

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 Ribosomal_L15e

Protein Analysis

312

Amino Acids

34.25

Weight (kDa)

7.13

Isoelectric Point (pI)

54.55

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_long	PF17177	157 - 295	2.6e-08	Pentacotripeptide-repeat region of PRORP
TPR_24	PF23276	158 - 244	3.1e-07	Fungal tetratrico peptide repeats
PPR_3	PF13812	168 - 226	8e-11	Pentatricopeptide repeat domain
PPR_2	PF13041	179 - 227	5.6e-14	PPR repeat family

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)

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: OG0009745)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G03560 AT5G03560 AT5G03560
fragaria_vesca	FvH4_6g08960
malus_domestica	MD04G1183300.v1.1 MD12G1196700.v1.1
prunus_persica	Prupe.6G301800_v2.0.a1
rosa_chinensis	RchiOBHm_Chr3g0459231
rosa_laevigata	RLG00000025101
rosa_multiflora	Rmu_co8389667.1_g000001 Rmu_sc0002435.1_g000010 Rmu_sc0002435.1_g000012 Rmu_sc0015160.1_g000001
rosa_roxburghii	Rroxscaffold_6G00420390
rosa_rugosa	Rorug03G0034400.1
rosa_samantha	Rh3BG095200 Rh3BG301800 Rh3CG096400 Rh3DG096100 Rh4AG222500
rosa_wichuraiana	Rw3G007940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	422
Acc36I	ACCTGC	1 cut(s)	153
AcoI	YGGCCR	1 cut(s)	789
AcyI	GRCGYC	2 cut(s)	282, 687
AfaI	GTAC	2 cut(s)	611, 764
AfiI	CCNNNNNNNGG	3 cut(s)	755, 756, 798
AgsI	TTSAA	1 cut(s)	355
AhdI	GACNNNNNGTC	2 cut(s)	307, 466
AjiI	CACGTC	1 cut(s)	541
AluBI	AGCT	4 cut(s)	73, 89, 502, 899
AluI	AGCT	4 cut(s)	73, 89, 502, 899
Alw21I	GWGCWC	3 cut(s)	504, 666, 882
Alw26I	GTCTC	1 cut(s)	171
AoxI	GGCC	7 cut(s)	478, 492, 526, 546, 567, 746, 789
ApeKI	GCWGC	2 cut(s)	5, 680
ArsI	GACNNNNNNTTYG	4 cut(s)	290, 322, 677, 709
AspLEI	GCGC	1 cut(s)	423
AspS9I	GGNCC	3 cut(s)	526, 547, 747
AsuC2I	CCSGG	1 cut(s)	757
AsuHPI	GGTGA	3 cut(s)	58, 475, 880
BanII	GRGCYC	2 cut(s)	435, 504
BauI	CACGAG	1 cut(s)	488
BbsI	GAAGAC	3 cut(s)	279, 381, 390
Bbv12I	GWGCWC	3 cut(s)	504, 666, 882
BbvI	GCAGC	1 cut(s)	667
BccI	CCATC	4 cut(s)	190, 422, 715, 724
BceAI	ACGGC	2 cut(s)	493, 542
BcnI	CCSGG	1 cut(s)	757
BcoDI	GTCTC	1 cut(s)	171
BfuAI	ACCTGC	1 cut(s)	153
BisI	GCNGC	6 cut(s)	6, 576, 579, 681, 746, 789
BlsI	GCNGC	6 cut(s)	7, 577, 580, 682, 747, 790
Bme1390I	CCNGG	1 cut(s)	757
BmeRI	GACNNNNNGTC	2 cut(s)	307, 466
BmgBI	CACGTC	1 cut(s)	541
BmgT120I	GGNCC	3 cut(s)	526, 547, 747
BmiI	GGNNCC	1 cut(s)	434
BmrFI	CCNGG	1 cut(s)	757
BmsI	GCATC	2 cut(s)	408, 694
BpiI	GAAGAC	3 cut(s)	279, 381, 390
BpmI	CTGGAG	1 cut(s)	845
BpuEI	CTTGAG	2 cut(s)	587, 866
BpuMI	CCSGG	1 cut(s)	757
BsaAI	YACGTR	1 cut(s)	766
BsaBI	GATNNNNATC	1 cut(s)	16
BsaHI	GRCGYC	2 cut(s)	282, 687
BsaI	GGTCTC	1 cut(s)	171
BsaJI	CCNNGG	4 cut(s)	471, 495, 591, 792
BsaXI	ACNNNNNCTCC	4 cut(s)	73, 103, 888, 918
Bsc4I	CCNNNNNNNGG	3 cut(s)	755, 756, 798
Bse118I	RCCGGY	1 cut(s)	364
Bse8I	GATNNNNATC	1 cut(s)	16
BseDI	CCNNGG	4 cut(s)	471, 495, 591, 792
BseGI	GGATG	4 cut(s)	140, 149, 624, 709
BseJI	GATNNNNATC	1 cut(s)	16
BseLI	CCNNNNNNNGG	3 cut(s)	755, 756, 798
BseRI	GAGGAG	7 cut(s)	16, 202, 327, 809, 821, 842, 909
BseX3I	CGGCCG	1 cut(s)	789
BseXI	GCAGC	1 cut(s)	667
Bsh1285I	CGRYCG	2 cut(s)	372, 792
BshFI	GGCC	7 cut(s)	480, 494, 528, 548, 569, 748, 791
BsiEI	CGRYCG	2 cut(s)	372, 792
BsiHKAI	GWGCWC	3 cut(s)	504, 666, 882
BsiSI	CCGG	3 cut(s)	365, 582, 756
BsiWI	CGTACG	1 cut(s)	762
BslFI	GGGAC	2 cut(s)	313, 772
BslI	CCNNNNNNNGG	3 cut(s)	755, 756, 798
BsmAI	GTCTC	1 cut(s)	171
BsmFI	GGGAC	2 cut(s)	313, 772
BsmI	GAATGC	1 cut(s)	747
BsnI	GGCC	7 cut(s)	480, 494, 528, 548, 569, 748, 791
Bso31I	GGTCTC	1 cut(s)	171
Bsp1286I	GDGCHC	4 cut(s)	435, 504, 666, 882
Bsp1407I	TGTACA	1 cut(s)	609
Bsp143I	GATC	2 cut(s)	369, 513
BspANI	GGCC	7 cut(s)	480, 494, 528, 548, 569, 748, 791
BspLI	GGNNCC	1 cut(s)	434
BspMI	ACCTGC	1 cut(s)	153
BspQI	GCTCTTC	1 cut(s)	509
BspTNI	GGTCTC	1 cut(s)	171
BsrFI	RCCGGY	1 cut(s)	364
BsrGI	TGTACA	1 cut(s)	609
BssAI	RCCGGY	1 cut(s)	364
BssECI	CCNNGG	4 cut(s)	471, 495, 591, 792
BssMI	GATC	2 cut(s)	369, 513
BssNI	GRCGYC	2 cut(s)	282, 687
BssSI	CACGAG	1 cut(s)	488
BssT1I	CCWWGG	3 cut(s)	471, 495, 591
Bst2BI	CACGAG	1 cut(s)	488
Bst6I	CTCTTC	7 cut(s)	36, 130, 174, 196, 209, 509, 886
BstACI	GRCGYC	2 cut(s)	282, 687
BstAPI	GCANNNNNTGC	2 cut(s)	644, 680
BstAUI	TGTACA	1 cut(s)	609
BstBAI	YACGTR	1 cut(s)	766
BstC8I	GCNNGC	2 cut(s)	366, 662
BstF5I	GGATG	4 cut(s)	140, 149, 624, 709
BstHHI	GCGC	1 cut(s)	423
BstKTI	GATC	2 cut(s)	372, 516
BstMAI	GTCTC	1 cut(s)	171
BstMBI	GATC	2 cut(s)	369, 513
BstMCI	CGRYCG	2 cut(s)	372, 792
BstMWI	GCNNNNNNNGC	7 cut(s)	207, 554, 575, 644, 680, 686, 788
BstNSI	RCATGY	2 cut(s)	535, 616
BstSCI	CCNGG	1 cut(s)	755
BstV1I	GCAGC	1 cut(s)	667
BstV2I	GAAGAC	3 cut(s)	279, 381, 390
BstZI	CGGCCG	1 cut(s)	789
BsuRI	GGCC	7 cut(s)	480, 494, 528, 548, 569, 748, 791
BtrI	CACGTC	1 cut(s)	541
BtsCI	GGATG	4 cut(s)	140, 149, 624, 709
BveI	ACCTGC	1 cut(s)	153
Cac8I	GCNNGC	2 cut(s)	366, 662
CfoI	GCGC	1 cut(s)	423
Cfr10I	RCCGGY	1 cut(s)	364
Cfr13I	GGNCC	3 cut(s)	526, 547, 747
CseI	GACGC	4 cut(s)	290, 470, 605, 695
Csp6I	GTAC	2 cut(s)	610, 763
CspCI	CAANNNNNGTGG	2 cut(s)	679, 714
CviAII	CATG	2 cut(s)	532, 613
CviQI	GTAC	2 cut(s)	610, 763
DpnI	GATC	2 cut(s)	371, 515
DpnII	GATC	2 cut(s)	369, 513
DriI	GACNNNNNGTC	2 cut(s)	307, 466
EaeI	YGGCCR	1 cut(s)	789
EagI	CGGCCG	1 cut(s)	789
Eam1104I	CTCTTC	7 cut(s)	36, 130, 174, 196, 209, 509, 886
Eam1105I	GACNNNNNGTC	2 cut(s)	307, 466
EarI	CTCTTC	7 cut(s)	36, 130, 174, 196, 209, 509, 886
EciI	GGCGGA	2 cut(s)	168, 869
Ecl136II	GAGCTC	1 cut(s)	502
EclXI	CGGCCG	1 cut(s)	789
Eco130I	CCWWGG	3 cut(s)	471, 495, 591
Eco147I	AGGCCT	2 cut(s)	494, 569
Eco24I	GRGCYC	2 cut(s)	435, 504
Eco31I	GGTCTC	1 cut(s)	171
Eco52I	CGGCCG	1 cut(s)	789
Eco53kI	GAGCTC	1 cut(s)	502
EcoICRI	GAGCTC	1 cut(s)	502
EcoT14I	CCWWGG	3 cut(s)	471, 495, 591
EcoT38I	GRGCYC	2 cut(s)	435, 504
ErhI	CCWWGG	3 cut(s)	471, 495, 591
FaeI	CATG	2 cut(s)	535, 616
FaiI	YATR	5 cut(s)	86, 156, 533, 614, 657
FaqI	GGGAC	2 cut(s)	313, 772
FatI	CATG	2 cut(s)	531, 612
Fnu4HI	GCNGC	6 cut(s)	6, 576, 579, 681, 746, 789
FokI	GGATG	4 cut(s)	127, 136, 631, 716
FriOI	GRGCYC	2 cut(s)	435, 504
Fsp4HI	GCNGC	6 cut(s)	6, 576, 579, 681, 746, 789
FspAI	RTGCGCAY	1 cut(s)	422
FspI	TGCGCA	1 cut(s)	422
GlaI	GCGC	1 cut(s)	422
GluI	GCNGC	6 cut(s)	6, 576, 579, 681, 746, 789
GsuI	CTGGAG	1 cut(s)	845
HaeIII	GGCC	7 cut(s)	480, 494, 528, 548, 569, 748, 791
HapII	CCGG	3 cut(s)	365, 582, 756
HgaI	GACGC	4 cut(s)	290, 470, 605, 695
HhaI	GCGC	1 cut(s)	423
Hin1I	GRCGYC	2 cut(s)	282, 687
Hin1II	CATG	2 cut(s)	535, 616
Hin6I	GCGC	1 cut(s)	421
HinP1I	GCGC	1 cut(s)	421
HindIII	AAGCTT	1 cut(s)	71
HpaII	CCGG	3 cut(s)	365, 582, 756
HphI	GGTGA	3 cut(s)	58, 475, 880
Hpy166II	GTNNAC	1 cut(s)	610
Hpy188I	TCNGA	3 cut(s)	217, 265, 720
Hpy188III	TCNNGA	1 cut(s)	451
Hpy8I	GTNNAC	1 cut(s)	610
HpyAV	CCTTC	6 cut(s)	61, 147, 730, 835, 856, 932
HpyCH4IV	ACGT	3 cut(s)	540, 761, 765
HpyCH4V	TGCA	3 cut(s)	400, 446, 638
HpyF10VI	GCNNNNNNNGC	7 cut(s)	207, 554, 575, 644, 680, 686, 788
HpySE526I	ACGT	3 cut(s)	540, 761, 765
Hsp92I	GRCGYC	2 cut(s)	282, 687
Hsp92II	CATG	2 cut(s)	535, 616
HspAI	GCGC	1 cut(s)	421
KroI	GCCGGC	1 cut(s)	364
KroNI	GCCGGC	1 cut(s)	366
Kzo9I	GATC	2 cut(s)	369, 513
LguI	GCTCTTC	1 cut(s)	509
LmnI	GCTCC	6 cut(s)	29, 94, 215, 438, 499, 896
LpnPI	CCDG	9 cut(s)	22, 148, 378, 386, 393, 524, 595, 769, 809
Lsp1109I	GCAGC	1 cut(s)	667
LweI	GCATC	2 cut(s)	408, 694
MaeII	ACGT	3 cut(s)	540, 761, 765
MalI	GATC	2 cut(s)	371, 515
MboI	GATC	2 cut(s)	369, 513
MhlI	GDGCHC	4 cut(s)	435, 504, 666, 882
MluCI	AATT	1 cut(s)	247
MmeI	TCCRAC	1 cut(s)	288
MroNI	GCCGGC	1 cut(s)	364
MslI	CAYNNNNRTG	1 cut(s)	617
MspI	CCGG	3 cut(s)	365, 582, 756
MspR9I	CCNGG	1 cut(s)	757
Mva1269I	GAATGC	1 cut(s)	747
MwoI	GCNNNNNNNGC	7 cut(s)	207, 554, 575, 644, 680, 686, 788
NaeI	GCCGGC	1 cut(s)	366
NciI	CCSGG	1 cut(s)	757
NdeII	GATC	2 cut(s)	369, 513
NgoMIV	GCCGGC	1 cut(s)	364
NlaIII	CATG	2 cut(s)	535, 616
NlaIV	GGNNCC	1 cut(s)	434
NmeAIII	GCCGAG	1 cut(s)	817
NsbI	TGCGCA	1 cut(s)	422
NspI	RCATGY	2 cut(s)	535, 616
PceI	AGGCCT	2 cut(s)	494, 569
PciSI	GCTCTTC	1 cut(s)	509
PcsI	WCGNNNNNNNCGW	7 cut(s)	273, 276, 282, 314, 317, 320, 693
PctI	GAATGC	1 cut(s)	747
PdiI	GCCGGC	1 cut(s)	366
Pfl23II	CGTACG	1 cut(s)	762
PkrI	GCNGC	6 cut(s)	7, 577, 580, 682, 747, 790
Ple19I	CGATCG	1 cut(s)	372
Ppu21I	YACGTR	1 cut(s)	766
Psp124BI	GAGCTC	1 cut(s)	504
PspLI	CGTACG	1 cut(s)	762
PspN4I	GGNNCC	1 cut(s)	434
PspPI	GGNCC	3 cut(s)	526, 547, 747
PvuI	CGATCG	1 cut(s)	372
RsaI	GTAC	2 cut(s)	611, 764
RsaNI	GTAC	2 cut(s)	610, 763
RseI	CAYNNNNRTG	1 cut(s)	617
SacI	GAGCTC	1 cut(s)	504
SapI	GCTCTTC	1 cut(s)	509
SatI	GCNGC	6 cut(s)	6, 576, 579, 681, 746, 789
Sau3AI	GATC	2 cut(s)	369, 513
Sau96I	GGNCC	3 cut(s)	526, 547, 747
ScrFI	CCNGG	1 cut(s)	757
SduI	GDGCHC	4 cut(s)	435, 504, 666, 882
SfaNI	GCATC	2 cut(s)	408, 694
SmiMI	CAYNNNNRTG	1 cut(s)	617
SmlI	CTYRAG	2 cut(s)	602, 881
SmoI	CTYRAG	2 cut(s)	602, 881
Sse9I	AATT	1 cut(s)	247
SseBI	AGGCCT	2 cut(s)	494, 569
SstI	GAGCTC	1 cut(s)	504
StuI	AGGCCT	2 cut(s)	494, 569
StyD4I	CCNGG	1 cut(s)	755
StyI	CCWWGG	3 cut(s)	471, 495, 591
TaiI	ACGT	3 cut(s)	543, 764, 768
TaqI	TCGA	3 cut(s)	372, 459, 564
TasI	AATT	1 cut(s)	247
TatI	WGTACW	1 cut(s)	609
TauI	GCSGC	4 cut(s)	578, 581, 748, 791
TseI	GCWGC	2 cut(s)	5, 680
TspDTI	ATGAA	2 cut(s)	129, 848
XceI	RCATGY	2 cut(s)	535, 616

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