Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0000589

Physical Location & Seq

Genomic Coordinates Reverse (-)

2123831 .. 2124987

Gene Structure 1157 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ36000

Sequence Viewer

CDS Protein Promoter (2k)

Length: 945 bp

ATGCAGACTGAGGGAATAAAAGGAGATATGGTGACCATGGTGGAGGTTGCATCTGCCTGCGAATATCTAGGAGCTATTGATCTTGCAAAGTGGACTCATGCTTATATCGGAAAAGATAAAATTAACTGTGACATGCGGCTCGGGACAGCTTTAGTTGACATGTTTGCTAGATGTGGCGACCCTCAAAGTGCAATAAAGGTGTTCGATAACATGGCAAGAAGAGATGTTTCTGCTTGGACAGCAGCCATTGGAGCAATGGCCATGCAAGGAAATGGGGAGCGAGCTCTAGAGCTTTTCGATAACATGCATAAGCAAGGGGTGAAACCAGATGAAGTAGTCTTTGTGGCAGTACTAACAGCATGCAGCCATGTTGGTCTTTCGGAACAAGGACGGAACATTTTCACGTCAATGCAATCAGTCCGTGGCATTTCCCCTCATATTGTTCATTACAGTTGCATGGTTGATCTACTTGGCCGAGCAGGGGACTTGGAAGAAGCTGTTGATCTGGTAAAGAGCATGCCAATGGAACCTAATGATGTCATTTGGAGCACTCTCTTGGCTGCTTGTCGAACCCACAAAAACGTTGAAATTGCAGCATATGCAGCTGAACAGGTATCTAAATTGACTACTCAGAGGACTGGTATTCATGTGCTTCTCTCAAACATATATGCATCAGCTTGGAAATGGGCAGATGTTGCAAAAGTGAGGCTACAGCTGAAAGAGGAAGGGATTCAGAAGGTACCTGGATGCAGTTCCGTTGAAGTTAATAGAGTGATTCATGAGTTTACCTTCGGTGGTGATACTGATACACACACAGAGAAGAGCCACATTGCGTTGATGGTGCAAGAAATAAACAGCAGACACAGAGATGCTGGCCACATTCCTGATTTGGACAATGTCCTGCTTGATGTTGATGAGGAGGAGAAAGAATACTTGCTCAGTTGA

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

DYW_deaminase PPR PPR_2

Protein Analysis

314

Amino Acids

34.63

Weight (kDa)

5.28

Isoelectric Point (pI)

40.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	74 - 122	4.3e-09	PPR repeat family
PPR_long	PF17177	89 - 204	1.6e-07	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	98 - 158	3.6e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	141 - 173	1.9e-06	PPR repeat
E_motif	PF20431	192 - 254	1.4e-18	E motif

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

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Orthologous Genes (Group: OG0000589)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22690 AT3G22690 AT3G22690
fragaria_vesca	FvH4_4g12100 FvH4_4g12100 FvH4_4g12100
malus_domestica	MD07G1198500.v1.1 MD12G1181700.v1.1
prunus_persica	Prupe.1G018800_v2.0.a1
pyrus_communis	pycom07g16490
rosa_chinensis	RchiOBHm_Chr1g0328851 RchiOBHm_Chr1g0329061 RchiOBHm_Chr1g0329101 RchiOBHm_Chr1g0329141 RchiOBHm_Chr2g0124781 RchiOBHm_Chr3g0482411 RchiOBHm_Chr3g0482461 RchiOBHm_Chr4g0386511 RchiOBHm_Chr4g0386531 RchiOBHm_Chr4g0386651 RchiOBHm_Chr4g0386671 RchiOBHm_Chr4g0386751 RchiOBHm_Chr4g0386781 RchiOBHm_Chr4g0386861 RchiOBHm_Chr4g0386891 RchiOBHm_Chr4g0386911 RchiOBHm_Chr4g0386991 RchiOBHm_Chr4g0387041 RchiOBHm_Chr4g0387171 RchiOBHm_Chr4g0387241 RchiOBHm_Chr4g0387301 RchiOBHm_Chr4g0387341 RchiOBHm_Chr4g0387441 RchiOBHm_Chr4g0388061 RchiOBHm_Chr4g0389241 RchiOBHm_Chr4g0389361
rosa_laevigata	RLG00000010137 RLG00000010138 RLG00000010145 RLG00000010146 RLG00000018820 RLG00000023352 RLG00000029915
rosa_multiflora	Rmu_co8009444.1_g000001 Rmu_co8455349.1_g000001 Rmu_sc0001375.1_g000001 Rmu_sc0001942.1_g000049 Rmu_sc0001942.1_g000077 Rmu_sc0002939.1_g000001 Rmu_sc0003413.1_g000068 Rmu_sc0003413.1_g000075 Rmu_sc0006571.1_g000008 Rmu_sc0006571.1_g000013 Rmu_sc0006571.1_g000016 Rmu_sc0006648.1_g000004 Rmu_sc0008380.1_g000005 Rmu_sc0009161.1_g000006 Rmu_sc0009161.1_g000007 Rmu_sc0010272.1_g000019 Rmu_sc0011657.1_g000016 Rmu_sc0028698.1_g000001
rosa_roxburghii	Rroxscaffold_2G00119680 Rroxscaffold_2G00119690 Rroxscaffold_5G00334120
rosa_rugosa	Rorug02G0252500 Rorug02G0252500 Rorug03G0196200 Rorug03G0307500 Rorug03G0307800 Rorug03G0308200 Rorug03G0308400 Rorug03G0365200.1 Rorug07G0142900
rosa_samantha	Rh2AG312000 Rh2BG320300 Rh2CG300300 Rh4DG011500 Rh4DG020300
rosa_wichuraiana	Rw2G025200 Rw3G022270 Rw4G001010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	739
AccB1I	GGYRCC	1 cut(s)	739
AciI	CCGC	1 cut(s)	136
AclI	AACGTT	1 cut(s)	582
AcoI	YGGCCR	3 cut(s)	258, 472, 874
AfaI	GTAC	2 cut(s)	351, 741
AfiI	CCNNNNNNNGG	1 cut(s)	481
AflIII	ACRYGT	1 cut(s)	159
AgsI	TTSAA	2 cut(s)	587, 761
AjiI	CACGTC	1 cut(s)	405
AjnI	CCWGG	1 cut(s)	742
AluBI	AGCT	8 cut(s)	74, 149, 284, 292, 497, 605, 677, 715
AluI	AGCT	8 cut(s)	74, 149, 284, 292, 497, 605, 677, 715
Alw21I	GWGCWC	2 cut(s)	286, 551
Ama87I	CYCGRG	1 cut(s)	140
AoxI	GGCC	3 cut(s)	258, 472, 874
ApeKI	GCWGC	5 cut(s)	242, 363, 560, 593, 602
Asp700I	GAANNNNTTC	2 cut(s)	398, 729
Asp718I	GGTACC	1 cut(s)	739
AsuHPI	GGTGA	3 cut(s)	43, 331, 809
AvaI	CYCGRG	1 cut(s)	140
BalI	TGGCCA	2 cut(s)	260, 876
BanI	GGYRCC	1 cut(s)	739
BanII	GRGCYC	1 cut(s)	286
Bbv12I	GWGCWC	2 cut(s)	286, 551
BbvI	GCAGC	5 cut(s)	254, 375, 547, 605, 614
BccI	CCATC	1 cut(s)	832
BciT130I	CCWGG	1 cut(s)	744
BfaI	CTAG	3 cut(s)	68, 168, 287
BfmI	CTRYAG	1 cut(s)	710
BisI	GCNGC	6 cut(s)	137, 243, 364, 561, 594, 603
BlsI	GCNGC	6 cut(s)	138, 244, 365, 562, 595, 604
BmcAI	AGTACT	1 cut(s)	351
Bme1390I	CCNGG	1 cut(s)	744
BmeT110I	CYCGRG	1 cut(s)	140
BmgBI	CACGTC	1 cut(s)	405
BmiI	GGNNCC	2 cut(s)	528, 741
BmrFI	CCNGG	1 cut(s)	744
BmsI	GCATC	4 cut(s)	59, 680, 737, 859
BsaJI	CCNNGG	2 cut(s)	36, 421
BsaXI	ACNNNNNCTCC	2 cut(s)	15, 45
Bsc4I	CCNNNNNNNGG	1 cut(s)	481
Bse1I	ACTGG	1 cut(s)	643
Bse3DI	GCAATG	2 cut(s)	261, 828
BseBI	CCWGG	1 cut(s)	744
BseDI	CCNNGG	2 cut(s)	36, 421
BseGI	GGATG	1 cut(s)	752
BseLI	CCNNNNNNNGG	1 cut(s)	481
BseMI	GCAATG	2 cut(s)	261, 828
BseMII	CTCAG	1 cut(s)	644
BseNI	ACTGG	1 cut(s)	643
BseRI	GAGGAG	2 cut(s)	932, 935
BseXI	GCAGC	5 cut(s)	254, 375, 547, 605, 614
BshFI	GGCC	3 cut(s)	260, 474, 876
BshNI	GGYRCC	1 cut(s)	739
BsiHKAI	GWGCWC	2 cut(s)	286, 551
BsiHKCI	CYCGRG	1 cut(s)	140
BslFI	GGGAC	2 cut(s)	157, 497
BslI	CCNNNNNNNGG	1 cut(s)	481
BsmFI	GGGAC	2 cut(s)	157, 497
BsnI	GGCC	3 cut(s)	260, 474, 876
BsoBI	CYCGRG	1 cut(s)	140
Bsp1286I	GDGCHC	2 cut(s)	286, 551
Bsp143I	GATC	3 cut(s)	79, 463, 502
Bsp19I	CCATGG	1 cut(s)	36
BspACI	CCGC	1 cut(s)	136
BspANI	GGCC	3 cut(s)	260, 474, 876
BspCNI	CTCAG	1 cut(s)	643
BspHI	TCATGA	1 cut(s)	778
BspLI	GGNNCC	2 cut(s)	528, 741
BspQI	GCTCTTC	1 cut(s)	815
BspT107I	GGYRCC	1 cut(s)	739
BsrDI	GCAATG	2 cut(s)	261, 828
BsrI	ACTGG	1 cut(s)	643
BssECI	CCNNGG	2 cut(s)	36, 421
BssMI	GATC	3 cut(s)	79, 463, 502
BssT1I	CCWWGG	1 cut(s)	36
Bst2UI	CCWGG	1 cut(s)	744
Bst4CI	ACNGT	2 cut(s)	128, 452
Bst6I	CTCTTC	2 cut(s)	214, 815
BstAPI	GCANNNNNTGC	2 cut(s)	599, 695
BstC8I	GCNNGC	5 cut(s)	58, 282, 361, 518, 874
BstDEI	CTNAG	3 cut(s)	9, 630, 938
BstDSI	CCRYGG	2 cut(s)	36, 421
BstEII	GGTNACC	1 cut(s)	31
BstF5I	GGATG	1 cut(s)	752
BstKTI	GATC	3 cut(s)	82, 466, 505
BstMBI	GATC	3 cut(s)	79, 463, 502
BstMWI	GCNNNNNNNGC	5 cut(s)	239, 251, 599, 602, 695
BstNI	CCWGG	1 cut(s)	744
BstNSI	RCATGY	5 cut(s)	136, 163, 307, 363, 520
BstPI	GGTNACC	1 cut(s)	31
BstSCI	CCNGG	1 cut(s)	742
BstSFI	CTRYAG	1 cut(s)	710
BstV1I	GCAGC	5 cut(s)	254, 375, 547, 605, 614
BsuRI	GGCC	3 cut(s)	260, 474, 876
BtgI	CCRYGG	2 cut(s)	36, 421
BtrI	CACGTC	1 cut(s)	405
BtsCI	GGATG	1 cut(s)	752
Cac8I	GCNNGC	5 cut(s)	58, 282, 361, 518, 874
CciI	TCATGA	1 cut(s)	778
Csp6I	GTAC	2 cut(s)	350, 740
CviQI	GTAC	2 cut(s)	350, 740
DdeI	CTNAG	3 cut(s)	9, 630, 938
DpnI	GATC	3 cut(s)	81, 465, 504
DpnII	GATC	3 cut(s)	79, 463, 502
EaeI	YGGCCR	3 cut(s)	258, 472, 874
Eam1104I	CTCTTC	2 cut(s)	214, 815
EarI	CTCTTC	2 cut(s)	214, 815
Ecl136II	GAGCTC	1 cut(s)	284
Eco130I	CCWWGG	1 cut(s)	36
Eco24I	GRGCYC	1 cut(s)	286
Eco53kI	GAGCTC	1 cut(s)	284
Eco88I	CYCGRG	1 cut(s)	140
Eco91I	GGTNACC	1 cut(s)	31
EcoICRI	GAGCTC	1 cut(s)	284
EcoO65I	GGTNACC	1 cut(s)	31
EcoRII	CCWGG	1 cut(s)	742
EcoT14I	CCWWGG	1 cut(s)	36
EcoT22I	ATGCAT	2 cut(s)	309, 673
EcoT38I	GRGCYC	1 cut(s)	286
ErhI	CCWWGG	1 cut(s)	36
FaqI	GGGAC	2 cut(s)	157, 497
FauNDI	CATATG	1 cut(s)	598
Fnu4HI	GCNGC	6 cut(s)	137, 243, 364, 561, 594, 603
FokI	GGATG	1 cut(s)	759
FriOI	GRGCYC	1 cut(s)	286
Fsp4HI	GCNGC	6 cut(s)	137, 243, 364, 561, 594, 603
FspBI	CTAG	3 cut(s)	68, 168, 287
GluI	GCNGC	6 cut(s)	137, 243, 364, 561, 594, 603
HaeIII	GGCC	3 cut(s)	260, 474, 876
HincII	GTYRAC	1 cut(s)	157
HindII	GTYRAC	1 cut(s)	157
HinfI	GANTC	3 cut(s)	94, 730, 775
HphI	GGTGA	3 cut(s)	43, 331, 809
Hpy166II	GTNNAC	3 cut(s)	93, 157, 786
Hpy188I	TCNGA	4 cut(s)	110, 382, 633, 735
Hpy188III	TCNNGA	4 cut(s)	142, 287, 779, 884
Hpy8I	GTNNAC	3 cut(s)	93, 157, 786
HpyAV	CCTTC	3 cut(s)	719, 730, 799
HpyCH4III	ACNGT	2 cut(s)	128, 452
HpyCH4IV	ACGT	2 cut(s)	404, 582
HpyF10VI	GCNNNNNNNGC	5 cut(s)	239, 251, 599, 602, 695
HpyF3I	CTNAG	3 cut(s)	9, 630, 938
HpySE526I	ACGT	2 cut(s)	404, 582
KpnI	GGTACC	1 cut(s)	743
Kzo9I	GATC	3 cut(s)	79, 463, 502
LguI	GCTCTTC	1 cut(s)	815
LmnI	GCTCC	4 cut(s)	71, 251, 277, 546
Lsp1109I	GCAGC	5 cut(s)	254, 375, 547, 605, 614
LweI	GCATC	4 cut(s)	59, 680, 737, 859
MaeI	CTAG	3 cut(s)	68, 168, 287
MaeII	ACGT	2 cut(s)	404, 582
MaeIII	GTNAC	2 cut(s)	31, 128
MalI	GATC	3 cut(s)	81, 465, 504
MboI	GATC	3 cut(s)	79, 463, 502
MboII	GAAGA	3 cut(s)	231, 503, 832
MhlI	GDGCHC	2 cut(s)	286, 551
MlsI	TGGCCA	2 cut(s)	260, 876
MluCI	AATT	3 cut(s)	120, 588, 620
MluNI	TGGCCA	2 cut(s)	260, 876
MlyI	GAGTC	1 cut(s)	88
MnlI	CCTC	9 cut(s)	4, 37, 192, 444, 627, 699, 715, 910, 913
Mox20I	TGGCCA	2 cut(s)	260, 876
Mph1103I	ATGCAT	2 cut(s)	309, 673
MroXI	GAANNNNTTC	2 cut(s)	398, 729
MscI	TGGCCA	2 cut(s)	260, 876
MseI	TTAA	2 cut(s)	123, 765
MslI	CAYNNNNRTG	3 cut(s)	407, 521, 867
Msp20I	TGGCCA	2 cut(s)	260, 876
MspA1I	CMGCKG	2 cut(s)	605, 715
MspR9I	CCNGG	1 cut(s)	744
MvaI	CCWGG	1 cut(s)	744
MwoI	GCNNNNNNNGC	5 cut(s)	239, 251, 599, 602, 695
NcoI	CCATGG	1 cut(s)	36
NdeI	CATATG	1 cut(s)	598
NdeII	GATC	3 cut(s)	79, 463, 502
NlaIV	GGNNCC	2 cut(s)	528, 741
NmeAIII	GCCGAG	1 cut(s)	500
NmuCI	GTSAC	2 cut(s)	31, 128
NsiI	ATGCAT	2 cut(s)	309, 673
NspI	RCATGY	5 cut(s)	136, 163, 307, 363, 520
PaeI	GCATGC	2 cut(s)	363, 520
PagI	TCATGA	1 cut(s)	778
PciI	ACATGT	1 cut(s)	159
PciSI	GCTCTTC	1 cut(s)	815
PdmI	GAANNNNTTC	2 cut(s)	398, 729
PfeI	GAWTC	2 cut(s)	730, 775
PflFI	GACNNNGTC	1 cut(s)	896
PkrI	GCNGC	6 cut(s)	138, 244, 365, 562, 595, 604
PleI	GAGTC	1 cut(s)	88
PpsI	GAGTC	1 cut(s)	88
PscI	ACATGT	1 cut(s)	159
Psp124BI	GAGCTC	1 cut(s)	286
Psp1406I	AACGTT	1 cut(s)	582
Psp6I	CCWGG	1 cut(s)	742
PspEI	GGTNACC	1 cut(s)	31
PspGI	CCWGG	1 cut(s)	742
PspN4I	GGNNCC	2 cut(s)	528, 741
PsyI	GACNNNGTC	1 cut(s)	896
PvuII	CAGCTG	2 cut(s)	605, 715
RsaI	GTAC	2 cut(s)	351, 741
RsaNI	GTAC	2 cut(s)	350, 740
RseI	CAYNNNNRTG	3 cut(s)	407, 521, 867
SacI	GAGCTC	1 cut(s)	286
SapI	GCTCTTC	1 cut(s)	815
SaqAI	TTAA	2 cut(s)	123, 765
SatI	GCNGC	6 cut(s)	137, 243, 364, 561, 594, 603
Sau3AI	GATC	3 cut(s)	79, 463, 502
ScaI	AGTACT	1 cut(s)	351
SchI	GAGTC	1 cut(s)	88
ScrFI	CCNGG	1 cut(s)	744
SduI	GDGCHC	2 cut(s)	286, 551
SfaNI	GCATC	4 cut(s)	59, 680, 737, 859
SfcI	CTRYAG	1 cut(s)	710
SmiMI	CAYNNNNRTG	3 cut(s)	407, 521, 867
SphI	GCATGC	2 cut(s)	363, 520
Sse9I	AATT	3 cut(s)	120, 588, 620
SsiI	CCGC	1 cut(s)	136
SspMI	CTAG	3 cut(s)	68, 168, 287
SstI	GAGCTC	1 cut(s)	286
StyD4I	CCNGG	1 cut(s)	742
StyI	CCWWGG	1 cut(s)	36
TaaI	ACNGT	2 cut(s)	128, 452
TaiI	ACGT	2 cut(s)	407, 585
TaqI	TCGA	3 cut(s)	204, 297, 568
TasI	AATT	3 cut(s)	120, 588, 620
TatI	WGTACW	1 cut(s)	349
TauI	GCSGC	1 cut(s)	139
TfiI	GAWTC	2 cut(s)	730, 775
Tru1I	TTAA	2 cut(s)	123, 765
Tru9I	TTAA	2 cut(s)	123, 765
TseFI	GTSAC	2 cut(s)	31, 128
TseI	GCWGC	5 cut(s)	242, 363, 560, 593, 602
Tsp45I	GTSAC	2 cut(s)	31, 128
TspDTI	ATGAA	4 cut(s)	345, 434, 635, 767
TspGWI	ACGGA	3 cut(s)	406, 410, 745
Tth111I	GACNNNGTC	1 cut(s)	896
XbaI	TCTAGA	1 cut(s)	286
XceI	RCATGY	5 cut(s)	136, 163, 307, 363, 520
XcmI	CCANNNNNNNNNTGG	1 cut(s)	253
XmnI	GAANNNNTTC	2 cut(s)	398, 729
XspI	CTAG	3 cut(s)	68, 168, 287
ZrmI	AGTACT	1 cut(s)	351
Zsp2I	ATGCAT	2 cut(s)	309, 673

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