Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0000589

Physical Location & Seq

Genomic Coordinates Forward (+)

28509224 .. 28510226

Gene Structure 1003 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ44728

Sequence Viewer

CDS Protein Promoter (2k)

Length: 960 bp

ATGTTTGGTAAATGTGGTGATCCTCAAAATGCAATGAAAGTATTCAGTACAATGGCAAGGAGAGATGTTTCTGTTTGGACTGCAGCCATCGGAGCAATGGCCATGGAGGGAAATGGGAGACGAGCTCTAGAACTTTTCAATGACATGCTTAAGCAAGGGGTGAAACCAGATGAAGTAGTCTTTGTGGCAGTACTAACAGCGTGCAGCCATTCGGTCCATGCCATTTCCCCTCATATCGTTCATTATGGTTGCATAGTCGATCTACTAGGCCGAGCTGGGCTCTTGGAAGAAGTTGTTGATCTCATAAAGTGCATGCCAATGGAACCCAATGATGTCATTGGGGGCACTCTCTTGGCTGCTTGTCGAACCCACAAAAACATCGAAATGGCAGCATATGCAGCTGAACAGATATCAAAGTTGATCATTCAGAGGACTGGTATGCATGTGCTTCTCTCAAACATATATGCATCAGCTGGGAAATGGGGAGTCGACGTTGCAAAAGTGAGGCTACAATTGAAAGAGAAAGGGATTCAGAAGGTACCCAGATCCAGTTCCATTGAAGTTAATGGAGTGATTCATGTGTTTACCTCCTGTGGTACTGGTGATACTGATACACGCACAGAGCAGAGCCACATTGCGTTGATGTTGCAAGAAATAAACAGCAGACTCAGAGATGCTGGTCACATTCCTGATCTGGACAATGTCCTGCTTGATGTTGATGAGAAGGAGAAAGAGTACTTGCTCAGTCGACACAGTGAGAAACTGGCCATAGCTTTTGGGCTTATAGGTATAGGAAAAGGAGTGCGAATTCGTGTGGTAAAGAATTTGAGAATGTGTTCTGATTGTCACTCTTTTGCCACATTAGTGTCAAGAATATACGAAATGGAAATTATTGTTCGAGATAACAACAGGTTCCATTTCTTTAGTCAGGGCCTTTGCTCTTGCAGTGATTACTGGTAA

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

319

Amino Acids

35.3

Weight (kDa)

7.17

Isoelectric Point (pI)

44.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	22 - 69	2.6e-09	PPR repeat family
E_motif	PF20431	124 - 187	4e-13	E motif
DYW_deaminase	PF14432	227 - 319	8.3e-38	DYW family of nucleic acid deaminases

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: 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)	538
AccB1I	GGYRCC	1 cut(s)	538
AccI	GTMKAC	2 cut(s)	489, 748
AclWI	GGATC	2 cut(s)	14, 540
AcoI	YGGCCR	2 cut(s)	99, 765
AcsI	RAATTY	2 cut(s)	807, 823
AfaI	GTAC	5 cut(s)	49, 192, 540, 598, 737
AflII	CTTAAG	1 cut(s)	149
AgsI	TTSAA	3 cut(s)	139, 517, 560
AleI	CACNNNNGTG	1 cut(s)	863
AluBI	AGCT	5 cut(s)	125, 275, 401, 473, 773
AluI	AGCT	5 cut(s)	125, 275, 401, 473, 773
Alw21I	GWGCWC	1 cut(s)	127
Alw26I	GTCTC	1 cut(s)	112
AlwI	GGATC	2 cut(s)	14, 540
AoxI	GGCC	4 cut(s)	99, 268, 765, 931
ApeKI	GCWGC	5 cut(s)	83, 204, 356, 389, 398
ApoI	RAATTY	2 cut(s)	807, 823
Asp700I	GAANNNNTTC	2 cut(s)	41, 835
Asp718I	GGTACC	1 cut(s)	538
AspS9I	GGNCC	2 cut(s)	214, 931
AsuHPI	GGTGA	3 cut(s)	29, 172, 614
AvaII	GGWCC	1 cut(s)	214
BaeGI	GKGCMC	1 cut(s)	347
BalI	TGGCCA	2 cut(s)	101, 767
BanI	GGYRCC	1 cut(s)	538
BanII	GRGCYC	2 cut(s)	127, 282
Bbv12I	GWGCWC	1 cut(s)	127
BbvI	GCAGC	5 cut(s)	95, 216, 343, 401, 410
BccI	CCATC	1 cut(s)	95
BclI	TGATCA	1 cut(s)	420
BcoDI	GTCTC	1 cut(s)	112
BfaI	CTAG	2 cut(s)	128, 266
BfmI	CTRYAG	1 cut(s)	81
BfrI	CTTAAG	1 cut(s)	149
BisI	GCNGC	5 cut(s)	84, 205, 357, 390, 399
BlsI	GCNGC	5 cut(s)	85, 206, 358, 391, 400
BmcAI	AGTACT	2 cut(s)	192, 737
Bme18I	GGWCC	1 cut(s)	214
BmgT120I	GGNCC	2 cut(s)	214, 931
BmiI	GGNNCC	3 cut(s)	324, 540, 914
BmsI	GCATC	2 cut(s)	476, 664
BplI	GAGNNNNNCTC	4 cut(s)	109, 141, 264, 296
BsaJI	CCNNGG	1 cut(s)	102
BsaXI	ACNNNNNCTCC	4 cut(s)	477, 507, 719, 749
Bse1I	ACTGG	5 cut(s)	439, 549, 604, 768, 959
Bse3DI	GCAATG	3 cut(s)	39, 102, 633
BseDI	CCNNGG	1 cut(s)	102
BseMI	GCAATG	3 cut(s)	39, 102, 633
BseMII	CTCAG	2 cut(s)	682, 757
BseNI	ACTGG	5 cut(s)	439, 549, 604, 768, 959
BseSI	GKGCMC	1 cut(s)	347
BseXI	GCAGC	5 cut(s)	95, 216, 343, 401, 410
BseYI	CCCAGC	2 cut(s)	275, 473
BsgI	GTGCAG	1 cut(s)	223
BshFI	GGCC	4 cut(s)	101, 270, 767, 933
BshNI	GGYRCC	1 cut(s)	538
BsiHKAI	GWGCWC	1 cut(s)	127
BsmAI	GTCTC	1 cut(s)	112
BsmBI	CGTCTC	1 cut(s)	112
BsnI	GGCC	4 cut(s)	101, 270, 767, 933
Bsp1286I	GDGCHC	3 cut(s)	127, 282, 347
Bsp143I	GATC	6 cut(s)	19, 259, 298, 420, 545, 691
Bsp19I	CCATGG	1 cut(s)	102
BspANI	GGCC	4 cut(s)	101, 270, 767, 933
BspCNI	CTCAG	2 cut(s)	681, 756
BspLI	GGNNCC	3 cut(s)	324, 540, 914
BspMAI	CTGCAG	1 cut(s)	85
BspPI	GGATC	2 cut(s)	14, 540
BspT107I	GGYRCC	1 cut(s)	538
BspTI	CTTAAG	1 cut(s)	149
BsrDI	GCAATG	3 cut(s)	39, 102, 633
BsrI	ACTGG	5 cut(s)	439, 549, 604, 768, 959
BssECI	CCNNGG	1 cut(s)	102
BssMI	GATC	6 cut(s)	19, 259, 298, 420, 545, 691
BssT1I	CCWWGG	1 cut(s)	102
Bst4CI	ACNGT	1 cut(s)	755
BstAFI	CTTAAG	1 cut(s)	149
BstAPI	GCANNNNNTGC	1 cut(s)	395
BstC8I	GCNNGC	2 cut(s)	202, 314
BstDEI	CTNAG	2 cut(s)	668, 743
BstDSI	CCRYGG	1 cut(s)	102
BstKTI	GATC	6 cut(s)	22, 262, 301, 423, 548, 694
BstMAI	GTCTC	1 cut(s)	112
BstMBI	GATC	6 cut(s)	19, 259, 298, 420, 545, 691
BstMWI	GCNNNNNNNGC	3 cut(s)	92, 395, 398
BstNSI	RCATGY	3 cut(s)	148, 316, 446
BstSFI	CTRYAG	1 cut(s)	81
BstSLI	GKGCMC	1 cut(s)	347
BstV1I	GCAGC	5 cut(s)	95, 216, 343, 401, 410
BstX2I	RGATCY	1 cut(s)	545
BstYI	RGATCY	1 cut(s)	545
BsuRI	GGCC	4 cut(s)	101, 270, 767, 933
BtgI	CCRYGG	1 cut(s)	102
BtsI	GCAGTG	1 cut(s)	952
BtsIMutI	CAGTG	2 cut(s)	760, 952
Cac8I	GCNNGC	2 cut(s)	202, 314
Cfr13I	GGNCC	2 cut(s)	214, 931
Csp6I	GTAC	5 cut(s)	48, 191, 539, 597, 736
CviAII	CATG	6 cut(s)	103, 145, 218, 313, 443, 578
CviQI	GTAC	5 cut(s)	48, 191, 539, 597, 736
DdeI	CTNAG	2 cut(s)	668, 743
DpnI	GATC	6 cut(s)	21, 261, 300, 422, 547, 693
DpnII	GATC	6 cut(s)	19, 259, 298, 420, 545, 691
EaeI	YGGCCR	2 cut(s)	99, 765
Ecl136II	GAGCTC	1 cut(s)	125
Eco130I	CCWWGG	1 cut(s)	102
Eco24I	GRGCYC	2 cut(s)	127, 282
Eco32I	GATATC	1 cut(s)	411
Eco47I	GGWCC	1 cut(s)	214
Eco53kI	GAGCTC	1 cut(s)	125
EcoICRI	GAGCTC	1 cut(s)	125
EcoO109I	RGGNCCY	1 cut(s)	931
EcoRI	GAATTC	1 cut(s)	807
EcoRV	GATATC	1 cut(s)	411
EcoT14I	CCWWGG	1 cut(s)	102
EcoT22I	ATGCAT	2 cut(s)	444, 469
EcoT38I	GRGCYC	2 cut(s)	127, 282
ErhI	CCWWGG	1 cut(s)	102
Esp3I	CGTCTC	1 cut(s)	112
FaeI	CATG	6 cut(s)	106, 148, 221, 316, 446, 581
FatI	CATG	6 cut(s)	102, 144, 217, 312, 442, 577
FauNDI	CATATG	1 cut(s)	394
FbaI	TGATCA	1 cut(s)	420
FblI	GTMKAC	2 cut(s)	489, 748
Fnu4HI	GCNGC	5 cut(s)	84, 205, 357, 390, 399
FriOI	GRGCYC	2 cut(s)	127, 282
Fsp4HI	GCNGC	5 cut(s)	84, 205, 357, 390, 399
FspBI	CTAG	2 cut(s)	128, 266
GluI	GCNGC	5 cut(s)	84, 205, 357, 390, 399
GsaI	CCCAGC	2 cut(s)	279, 477
HaeIII	GGCC	4 cut(s)	101, 270, 767, 933
Hin1II	CATG	6 cut(s)	106, 148, 221, 316, 446, 581
HincII	GTYRAC	2 cut(s)	490, 749
HindII	GTYRAC	2 cut(s)	490, 749
HinfI	GANTC	4 cut(s)	486, 529, 574, 666
HphI	GGTGA	3 cut(s)	29, 172, 614
Hpy166II	GTNNAC	3 cut(s)	490, 585, 749
Hpy188I	TCNGA	5 cut(s)	92, 429, 534, 671, 841
Hpy188III	TCNNGA	5 cut(s)	128, 689, 695, 870, 899
Hpy8I	GTNNAC	3 cut(s)	490, 585, 749
Hpy99I	CGWCG	1 cut(s)	494
HpyAV	CCTTC	2 cut(s)	529, 718
HpyCH4III	ACNGT	1 cut(s)	755
HpyCH4IV	ACGT	1 cut(s)	492
HpyF10VI	GCNNNNNNNGC	3 cut(s)	92, 395, 398
HpyF3I	CTNAG	2 cut(s)	668, 743
HpySE526I	ACGT	1 cut(s)	492
Hsp92II	CATG	6 cut(s)	106, 148, 221, 316, 446, 581
KpnI	GGTACC	1 cut(s)	542
Ksp22I	TGATCA	1 cut(s)	420
Kzo9I	GATC	6 cut(s)	19, 259, 298, 420, 545, 691
LmnI	GCTCC	1 cut(s)	92
Lsp1109I	GCAGC	5 cut(s)	95, 216, 343, 401, 410
LweI	GCATC	2 cut(s)	476, 664
MaeI	CTAG	2 cut(s)	128, 266
MaeII	ACGT	1 cut(s)	492
MaeIII	GTNAC	2 cut(s)	680, 845
MalI	GATC	6 cut(s)	21, 261, 300, 422, 547, 693
MboI	GATC	6 cut(s)	19, 259, 298, 420, 545, 691
MboII	GAAGA	1 cut(s)	299
MfeI	CAATTG	1 cut(s)	512
MflI	RGATCY	1 cut(s)	545
MhlI	GDGCHC	3 cut(s)	127, 282, 347
MlsI	TGGCCA	2 cut(s)	101, 767
MluCI	AATT	4 cut(s)	512, 807, 823, 888
MluNI	TGGCCA	2 cut(s)	101, 767
MlyI	GAGTC	2 cut(s)	495, 660
MnlI	CCTC	6 cut(s)	33, 100, 240, 423, 498, 598
Mox20I	TGGCCA	2 cut(s)	101, 767
Mph1103I	ATGCAT	2 cut(s)	444, 469
MroXI	GAANNNNTTC	2 cut(s)	41, 835
MscI	TGGCCA	2 cut(s)	101, 767
MseI	TTAA	2 cut(s)	150, 564
MslI	CAYNNNNRTG	3 cut(s)	317, 383, 863
Msp20I	TGGCCA	2 cut(s)	101, 767
MspA1I	CMGCKG	2 cut(s)	401, 473
MspCI	CTTAAG	1 cut(s)	149
MunI	CAATTG	1 cut(s)	512
MwoI	GCNNNNNNNGC	3 cut(s)	92, 395, 398
NcoI	CCATGG	1 cut(s)	102
NdeI	CATATG	1 cut(s)	394
NdeII	GATC	6 cut(s)	19, 259, 298, 420, 545, 691
NlaIII	CATG	6 cut(s)	106, 148, 221, 316, 446, 581
NlaIV	GGNNCC	3 cut(s)	324, 540, 914
NmeAIII	GCCGAG	1 cut(s)	296
NmuCI	GTSAC	2 cut(s)	680, 845
NsiI	ATGCAT	2 cut(s)	444, 469
NspI	RCATGY	3 cut(s)	148, 316, 446
OliI	CACNNNNGTG	1 cut(s)	863
PaeI	GCATGC	1 cut(s)	316
PdmI	GAANNNNTTC	2 cut(s)	41, 835
PfeI	GAWTC	2 cut(s)	529, 574
PflFI	GACNNNGTC	1 cut(s)	701
PkrI	GCNGC	5 cut(s)	85, 206, 358, 391, 400
PleI	GAGTC	2 cut(s)	494, 660
PpsI	GAGTC	2 cut(s)	494, 660
Psp124BI	GAGCTC	1 cut(s)	127
PspFI	CCCAGC	2 cut(s)	275, 473
PspN4I	GGNNCC	3 cut(s)	324, 540, 914
PspPI	GGNCC	2 cut(s)	214, 931
PstI	CTGCAG	1 cut(s)	85
PsuI	RGATCY	1 cut(s)	545
PsyI	GACNNNGTC	1 cut(s)	701
PvuII	CAGCTG	2 cut(s)	401, 473
RsaI	GTAC	5 cut(s)	49, 192, 540, 598, 737
RsaNI	GTAC	5 cut(s)	48, 191, 539, 597, 736
RseI	CAYNNNNRTG	3 cut(s)	317, 383, 863
SacI	GAGCTC	1 cut(s)	127
SalI	GTCGAC	2 cut(s)	488, 747
SaqAI	TTAA	2 cut(s)	150, 564
SatI	GCNGC	5 cut(s)	84, 205, 357, 390, 399
Sau3AI	GATC	6 cut(s)	19, 259, 298, 420, 545, 691
Sau96I	GGNCC	2 cut(s)	214, 931
ScaI	AGTACT	2 cut(s)	192, 737
SchI	GAGTC	2 cut(s)	495, 660
SduI	GDGCHC	3 cut(s)	127, 282, 347
SfaNI	GCATC	2 cut(s)	476, 664
SfcI	CTRYAG	1 cut(s)	81
SinI	GGWCC	1 cut(s)	214
SmiMI	CAYNNNNRTG	3 cut(s)	317, 383, 863
SmlI	CTYRAG	1 cut(s)	149
SmoI	CTYRAG	1 cut(s)	149
SphI	GCATGC	1 cut(s)	316
Sse9I	AATT	4 cut(s)	512, 807, 823, 888
SspMI	CTAG	2 cut(s)	128, 266
SstI	GAGCTC	1 cut(s)	127
StyI	CCWWGG	1 cut(s)	102
TaaI	ACNGT	1 cut(s)	755
TaiI	ACGT	1 cut(s)	495
TaqI	TCGA	6 cut(s)	258, 364, 381, 489, 748, 898
TaqII	GACCGA	1 cut(s)	202
TasI	AATT	4 cut(s)	512, 807, 823, 888
TatI	WGTACW	3 cut(s)	47, 190, 735
TfiI	GAWTC	2 cut(s)	529, 574
Tru1I	TTAA	2 cut(s)	150, 564
Tru9I	TTAA	2 cut(s)	150, 564
TscAI	CASTG	2 cut(s)	760, 952
TseFI	GTSAC	2 cut(s)	680, 845
TseI	GCWGC	5 cut(s)	83, 204, 356, 389, 398
Tsp45I	GTSAC	2 cut(s)	680, 845
TspDTI	ATGAA	4 cut(s)	50, 186, 230, 566
TspRI	CASTG	2 cut(s)	760, 952
Tth111I	GACNNNGTC	1 cut(s)	701
Vha464I	CTTAAG	1 cut(s)	149
VpaK11BI	GGWCC	1 cut(s)	214
XapI	RAATTY	2 cut(s)	807, 823
XbaI	TCTAGA	1 cut(s)	127
XceI	RCATGY	3 cut(s)	148, 316, 446
XcmI	CCANNNNNNNNNTGG	1 cut(s)	94
XmiI	GTMKAC	2 cut(s)	489, 748
XmnI	GAANNNNTTC	2 cut(s)	41, 835
XspI	CTAG	2 cut(s)	128, 266
ZrmI	AGTACT	2 cut(s)	192, 737
Zsp2I	ATGCAT	2 cut(s)	444, 469

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