Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr5

Orthogroup ID

OG0012592

Physical Location & Seq

Genomic Coordinates Forward (+)

29335594 .. 29336493

Gene Structure 900 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

pycom05g28730.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 900 bp

ATGCCCAAAATGGGTTTGGAAAAGAGTCCCTTTCGGCGTTTTTTGAGATGCACTCGTTGGGAATTTAAGTGCAATGAGTATACATTTCCGAACGTCCTTAAGGCGTGCTCTATTACTATAGATTTGGGACTCGGAAAGCAGGTTCACGCGGTTGCAAATACTTTGGTTGTAATGTATGCAAAGTGCGGGGAGTTTGGAGATTCTAGGAGGCTGTCTGATGCCATTCCAGAACGGAACGTTGTTTCGTGGAATGCATTGTTTTCGTGTTATGTGCAGAGTGATTTTCATGGAGAAGCAATGGATTTGTTTCAGGAAATGGTTCTAAGCGGAGTAAGACCTAACGAGTACAGTCTATCTAGTATAATAAACGCATGCACTGGGCTCGGGGATGGCAGCCGCGGAAGGAAAATTCATGGATATATGGTAAAGCTTGGGTACCAATCCGACCCATTCTCAGCAAATGCGCTTGTTGACATGTATGCAAAAGTCAAAAGTCTTGAAGATGCAGTAAGAGTTTTTGAGAAAATCGCACAGCCCGATATTGTTTCCTGGAATGCTGTTATTGCTGGCTGTGTTCTTCACAGGTACCATGATCGGGCTCTAAAATTTTTTAGGCAAATGAAAGGGTCAGGAATCCGTCCAAATATGTTCACATTGTCGAGTGCACTGAAAGCCTGTGCCGGCCTGGGGTCCAAGAAATTGGGTAAGCAGTTGCACTCTTTCTTGATAAAGATGGATACAGAATCAGATTCATTTGTCAATGTTGGACTGATAGATATGTATTGCAAGTGTGAGATGATGAGCAATGCAAGGGTTCTTTTTGATATGGTGCCGAAGAAGGACATGATTGCATGGAATGCTGTGATCTCAGGACATTCACAGAATGGGGAAGATATATAA

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

300

Amino Acids

33.46

Weight (kDa)

8.84

Isoelectric Point (pI)

46.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	78 - 125	5e-12	PPR repeat family
PPR	PF01535	81 - 111	6.3e-07	PPR repeat
PPR_3	PF13812	178 - 227	7e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	179 - 227	4.5e-12	PPR repeat family
PPR	PF01535	182 - 212	2.4e-06	PPR repeat

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: OG0012592)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g08720 FvH4_7g02630
malus_domestica	MD10G1290200.v1.1
prunus_persica	Prupe.4G051600_v2.0.a1
pyrus_communis	pycom05g28730 pycom10g24240
rosa_chinensis	RchiOBHm_Chr5g0009041
rosa_laevigata	RLG00000031625
rosa_multiflora	Rmu_co8303565.1_g000001 Rmu_sc0002034.1_g000012 Rmu_sc0039526.1_g000001
rosa_roxburghii	Rroxscaffold_1G00066980
rosa_rugosa	Rorug04G0440900
rosa_samantha	Rh5AG069900 Rh5BG066600 Rh5BG066800 Rh5CG078000 Rh5DG066100
rosa_wichuraiana	Rw5G006530

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	130
Acc65I	GGTACC	2 cut(s)	435, 585
AccB1I	GGYRCC	3 cut(s)	435, 585, 829
AccI	GTMKAC	1 cut(s)	80
AccII	CGCG	2 cut(s)	149, 399
AciI	CCGC	5 cut(s)	149, 186, 327, 397, 399
AclI	AACGTT	1 cut(s)	237
AcsI	RAATTY	3 cut(s)	62, 408, 605
AfaI	GTAC	3 cut(s)	347, 437, 587
AfiI	CCNNNNNNNGG	3 cut(s)	11, 595, 687
AflII	CTTAAG	1 cut(s)	98
AflIII	ACRYGT	1 cut(s)	474
AgsI	TTSAA	1 cut(s)	500
AjnI	CCWGG	2 cut(s)	548, 684
AloI	GAACNNNNNNTCC	2 cut(s)	126, 158
AluBI	AGCT	1 cut(s)	430
AluI	AGCT	1 cut(s)	430
Alw21I	GWGCWC	2 cut(s)	110, 667
Alw44I	GTGCAC	1 cut(s)	663
Ama87I	CYCGRG	1 cut(s)	383
AoxI	GGCC	1 cut(s)	682
ApaLI	GTGCAC	1 cut(s)	663
ApeKI	GCWGC	1 cut(s)	393
ApoI	RAATTY	3 cut(s)	62, 408, 605
Asp700I	GAANNNNTTC	1 cut(s)	318
Asp718I	GGTACC	2 cut(s)	435, 585
AspLEI	GCGC	1 cut(s)	466
AspS9I	GGNCC	1 cut(s)	690
AvaI	CYCGRG	1 cut(s)	383
AvaII	GGWCC	1 cut(s)	690
BaeGI	GKGCMC	1 cut(s)	667
BanI	GGYRCC	3 cut(s)	435, 585, 829
BanII	GRGCYC	2 cut(s)	384, 601
Bbv12I	GWGCWC	2 cut(s)	110, 667
BbvI	GCAGC	1 cut(s)	405
BccI	CCATC	2 cut(s)	383, 727
BcgI	CGANNNNNNTGC	4 cut(s)	243, 277, 364, 398
BciT130I	CCWGG	2 cut(s)	550, 686
BciVI	GTATCC	1 cut(s)	730
BfaI	CTAG	2 cut(s)	204, 357
BfmI	CTRYAG	1 cut(s)	117
BfrI	CTTAAG	1 cut(s)	98
BfuAI	ACCTGC	1 cut(s)	130
BfuI	GTATCC	1 cut(s)	730
BisI	GCNGC	2 cut(s)	394, 397
BlsI	GCNGC	2 cut(s)	395, 398
Bme1390I	CCNGG	2 cut(s)	550, 686
Bme18I	GGWCC	1 cut(s)	690
BmeT110I	CYCGRG	1 cut(s)	383
BmgT120I	GGNCC	1 cut(s)	690
BmiI	GGNNCC	4 cut(s)	437, 587, 691, 831
BmrFI	CCNGG	2 cut(s)	550, 686
BmrI	ACTGGG	1 cut(s)	387
BmsI	GCATC	3 cut(s)	38, 208, 493
BmuI	ACTGGG	1 cut(s)	387
BplI	GAGNNNNNCTC	2 cut(s)	37, 69
BsaJI	CCNNGG	2 cut(s)	397, 685
Bsc4I	CCNNNNNNNGG	3 cut(s)	11, 595, 687
Bse118I	RCCGGY	1 cut(s)	680
Bse1I	ACTGG	1 cut(s)	382
Bse3DI	GCAATG	3 cut(s)	79, 303, 811
BseBI	CCWGG	2 cut(s)	550, 686
BseDI	CCNNGG	2 cut(s)	397, 685
BseGI	GGATG	1 cut(s)	394
BseLI	CCNNNNNNNGG	3 cut(s)	11, 595, 687
BseMI	GCAATG	3 cut(s)	79, 303, 811
BseMII	CTCAG	2 cut(s)	468, 882
BseNI	ACTGG	1 cut(s)	382
BseSI	GKGCMC	1 cut(s)	667
BseXI	GCAGC	1 cut(s)	405
BsgI	GTGCAG	1 cut(s)	293
Bsh1236I	CGCG	2 cut(s)	149, 399
BshFI	GGCC	1 cut(s)	684
BshNI	GGYRCC	3 cut(s)	435, 585, 829
BsiHKAI	GWGCWC	2 cut(s)	110, 667
BsiHKCI	CYCGRG	1 cut(s)	383
BsiSI	CCGG	1 cut(s)	681
BslFI	GGGAC	2 cut(s)	12, 141
BslI	CCNNNNNNNGG	3 cut(s)	11, 595, 687
BsmFI	GGGAC	2 cut(s)	12, 141
BsmI	GAATGC	3 cut(s)	256, 559, 862
BsnI	GGCC	1 cut(s)	684
BsoBI	CYCGRG	1 cut(s)	383
Bsp1286I	GDGCHC	4 cut(s)	110, 384, 601, 667
Bsp143I	GATC	2 cut(s)	592, 864
BspACI	CCGC	5 cut(s)	149, 186, 327, 397, 399
BspANI	GGCC	1 cut(s)	684
BspCNI	CTCAG	2 cut(s)	467, 881
BspFNI	CGCG	2 cut(s)	149, 399
BspLI	GGNNCC	4 cut(s)	437, 587, 691, 831
BspMI	ACCTGC	1 cut(s)	130
BspT107I	GGYRCC	3 cut(s)	435, 585, 829
BspTI	CTTAAG	1 cut(s)	98
BsrDI	GCAATG	3 cut(s)	79, 303, 811
BsrFI	RCCGGY	1 cut(s)	680
BsrI	ACTGG	1 cut(s)	382
BssAI	RCCGGY	1 cut(s)	680
BssECI	CCNNGG	2 cut(s)	397, 685
BssMI	GATC	2 cut(s)	592, 864
BssNAI	GTATAC	1 cut(s)	81
Bst1107I	GTATAC	1 cut(s)	81
Bst2UI	CCWGG	2 cut(s)	550, 686
Bst4CI	ACNGT	1 cut(s)	350
BstAFI	CTTAAG	1 cut(s)	98
BstAPI	GCANNNNNTGC	1 cut(s)	857
BstC8I	GCNNGC	4 cut(s)	106, 373, 568, 682
BstDEI	CTNAG	3 cut(s)	323, 454, 868
BstDSI	CCRYGG	1 cut(s)	397
BstF5I	GGATG	1 cut(s)	394
BstFNI	CGCG	2 cut(s)	149, 399
BstHHI	GCGC	1 cut(s)	466
BstKTI	GATC	2 cut(s)	595, 867
BstMBI	GATC	2 cut(s)	592, 864
BstMWI	GCNNNNNNNGC	3 cut(s)	563, 671, 857
BstNI	CCWGG	2 cut(s)	550, 686
BstNSI	RCATGY	2 cut(s)	375, 478
BstSCI	CCNGG	2 cut(s)	548, 684
BstSFI	CTRYAG	1 cut(s)	117
BstSLI	GKGCMC	1 cut(s)	667
BstUI	CGCG	2 cut(s)	149, 399
BstV1I	GCAGC	1 cut(s)	405
BstXI	CCANNNNNNTGG	1 cut(s)	700
BstZ17I	GTATAC	1 cut(s)	81
BsuI	GTATCC	1 cut(s)	730
BsuRI	GGCC	1 cut(s)	684
BtgI	CCRYGG	1 cut(s)	397
BtsCI	GGATG	1 cut(s)	394
BtsIMutI	CAGTG	2 cut(s)	375, 665
BveI	ACCTGC	1 cut(s)	130
Cac8I	GCNNGC	4 cut(s)	106, 373, 568, 682
CfoI	GCGC	1 cut(s)	466
Cfr10I	RCCGGY	1 cut(s)	680
Cfr13I	GGNCC	1 cut(s)	690
Cfr42I	CCGCGG	1 cut(s)	400
Csp6I	GTAC	3 cut(s)	346, 436, 586
CviAII	CATG	7 cut(s)	287, 372, 413, 475, 590, 844, 852
CviJI	RGCY	9 cut(s)	211, 382, 396, 430, 535, 570, 599, 674, 684
CviKI_1	RGCY	9 cut(s)	211, 382, 396, 430, 535, 570, 599, 674, 684
CviQI	GTAC	3 cut(s)	346, 436, 586
DdeI	CTNAG	3 cut(s)	323, 454, 868
DpnI	GATC	2 cut(s)	594, 866
DpnII	GATC	2 cut(s)	592, 864
Eco24I	GRGCYC	2 cut(s)	384, 601
Eco47I	GGWCC	1 cut(s)	690
Eco88I	CYCGRG	1 cut(s)	383
EcoRII	CCWGG	2 cut(s)	548, 684
EcoT22I	ATGCAT	1 cut(s)	256
EcoT38I	GRGCYC	2 cut(s)	384, 601
FaeI	CATG	7 cut(s)	290, 375, 416, 478, 593, 847, 855
FalI	AAGNNNNNCTT	2 cut(s)	14, 46
FaqI	GGGAC	2 cut(s)	12, 141
FatI	CATG	7 cut(s)	286, 371, 412, 474, 589, 843, 851
FauI	CCCGC	1 cut(s)	179
FblI	GTMKAC	1 cut(s)	80
Fnu4HI	GCNGC	2 cut(s)	394, 397
FokI	GGATG	1 cut(s)	401
FriOI	GRGCYC	2 cut(s)	384, 601
Fsp4HI	GCNGC	2 cut(s)	394, 397
FspBI	CTAG	2 cut(s)	204, 357
GlaI	GCGC	1 cut(s)	465
GluI	GCNGC	2 cut(s)	394, 397
HaeIII	GGCC	1 cut(s)	684
HapII	CCGG	1 cut(s)	681
HhaI	GCGC	1 cut(s)	466
Hin1II	CATG	7 cut(s)	290, 375, 416, 478, 593, 847, 855
Hin6I	GCGC	1 cut(s)	464
HinP1I	GCGC	1 cut(s)	464
HincII	GTYRAC	1 cut(s)	472
HindII	GTYRAC	1 cut(s)	472
HindIII	AAGCTT	1 cut(s)	428
HinfI	GANTC	6 cut(s)	25, 129, 200, 633, 743, 749
HpaII	CCGG	1 cut(s)	681
Hpy166II	GTNNAC	5 cut(s)	81, 145, 472, 651, 665
Hpy188I	TCNGA	5 cut(s)	90, 134, 217, 445, 748
Hpy188III	TCNNGA	6 cut(s)	227, 311, 497, 630, 724, 870
Hpy8I	GTNNAC	5 cut(s)	81, 145, 472, 651, 665
HpyAV	CCTTC	2 cut(s)	396, 832
HpyCH4III	ACNGT	1 cut(s)	350
HpyCH4IV	ACGT	2 cut(s)	93, 237
HpyF10VI	GCNNNNNNNGC	3 cut(s)	563, 671, 857
HpyF3I	CTNAG	3 cut(s)	323, 454, 868
HpySE526I	ACGT	2 cut(s)	93, 237
Hsp92II	CATG	7 cut(s)	290, 375, 416, 478, 593, 847, 855
HspAI	GCGC	1 cut(s)	464
KpnI	GGTACC	2 cut(s)	439, 589
KroI	GCCGGC	1 cut(s)	680
KroNI	GCCGGC	1 cut(s)	682
KspI	CCGCGG	1 cut(s)	400
Kzo9I	GATC	2 cut(s)	592, 864
Lsp1109I	GCAGC	1 cut(s)	405
LweI	GCATC	3 cut(s)	38, 208, 493
MaeI	CTAG	2 cut(s)	204, 357
MaeII	ACGT	2 cut(s)	93, 237
MalI	GATC	2 cut(s)	594, 866
MboI	GATC	2 cut(s)	592, 864
MboII	GAAGA	3 cut(s)	512, 569, 847
MhlI	GDGCHC	4 cut(s)	110, 384, 601, 667
MluCI	AATT	4 cut(s)	62, 408, 605, 698
MlyI	GAGTC	2 cut(s)	34, 123
MmeI	TCCRAC	2 cut(s)	468, 745
MnlI	CCTC	1 cut(s)	201
Mph1103I	ATGCAT	1 cut(s)	256
MroNI	GCCGGC	1 cut(s)	680
MroXI	GAANNNNTTC	1 cut(s)	318
MseI	TTAA	2 cut(s)	66, 99
MspA1I	CMGCKG	1 cut(s)	399
MspCI	CTTAAG	1 cut(s)	98
MspI	CCGG	1 cut(s)	681
MspR9I	CCNGG	2 cut(s)	550, 686
Mva1269I	GAATGC	3 cut(s)	256, 559, 862
MvaI	CCWGG	2 cut(s)	550, 686
MvnI	CGCG	2 cut(s)	149, 399
MwoI	GCNNNNNNNGC	3 cut(s)	563, 671, 857
NaeI	GCCGGC	1 cut(s)	682
NdeII	GATC	2 cut(s)	592, 864
NgoMIV	GCCGGC	1 cut(s)	680
NlaIII	CATG	7 cut(s)	290, 375, 416, 478, 593, 847, 855
NlaIV	GGNNCC	4 cut(s)	437, 587, 691, 831
NsiI	ATGCAT	1 cut(s)	256
NspI	RCATGY	2 cut(s)	375, 478
PaeI	GCATGC	1 cut(s)	375
PciI	ACATGT	1 cut(s)	474
PcsI	WCGNNNNNNNCGW	1 cut(s)	534
PctI	GAATGC	3 cut(s)	256, 559, 862
PdiI	GCCGGC	1 cut(s)	682
PdmI	GAANNNNTTC	1 cut(s)	318
PfeI	GAWTC	4 cut(s)	200, 633, 743, 749
PfoI	TCCNGGA	1 cut(s)	548
PkrI	GCNGC	2 cut(s)	395, 398
PleI	GAGTC	2 cut(s)	33, 123
PpsI	GAGTC	2 cut(s)	33, 123
PscI	ACATGT	1 cut(s)	474
Psp1406I	AACGTT	1 cut(s)	237
Psp6I	CCWGG	2 cut(s)	548, 684
PspGI	CCWGG	2 cut(s)	548, 684
PspN4I	GGNNCC	4 cut(s)	437, 587, 691, 831
PspPI	GGNCC	1 cut(s)	690
RsaI	GTAC	3 cut(s)	347, 437, 587
RsaNI	GTAC	3 cut(s)	346, 436, 586
SacII	CCGCGG	1 cut(s)	400
SaqAI	TTAA	2 cut(s)	66, 99
SatI	GCNGC	2 cut(s)	394, 397
Sau3AI	GATC	2 cut(s)	592, 864
Sau96I	GGNCC	1 cut(s)	690
SchI	GAGTC	2 cut(s)	34, 123
ScrFI	CCNGG	2 cut(s)	550, 686
SduI	GDGCHC	4 cut(s)	110, 384, 601, 667
SetI	ASST	6 cut(s)	96, 144, 240, 340, 432, 587
SfaNI	GCATC	3 cut(s)	38, 208, 493
SfcI	CTRYAG	1 cut(s)	117
Sfr303I	CCGCGG	1 cut(s)	400
SgrBI	CCGCGG	1 cut(s)	400
SinI	GGWCC	1 cut(s)	690
SmlI	CTYRAG	1 cut(s)	98
SmoI	CTYRAG	1 cut(s)	98
SphI	GCATGC	1 cut(s)	375
Sse9I	AATT	4 cut(s)	62, 408, 605, 698
SsiI	CCGC	5 cut(s)	149, 186, 327, 397, 399
SspMI	CTAG	2 cut(s)	204, 357
StyD4I	CCNGG	2 cut(s)	548, 684
TaaI	ACNGT	1 cut(s)	350
TaiI	ACGT	2 cut(s)	96, 240
TaqI	TCGA	1 cut(s)	659
TasI	AATT	4 cut(s)	62, 408, 605, 698
TatI	WGTACW	1 cut(s)	345
TauI	GCSGC	1 cut(s)	399
TfiI	GAWTC	4 cut(s)	200, 633, 743, 749
Tru1I	TTAA	2 cut(s)	66, 99
Tru9I	TTAA	2 cut(s)	66, 99
TscAI	CASTG	2 cut(s)	382, 672
TseI	GCWGC	1 cut(s)	393
TspDTI	ATGAA	4 cut(s)	275, 401, 635, 741
TspGWI	ACGGA	2 cut(s)	247, 626
TspRI	CASTG	2 cut(s)	382, 672
Vha464I	CTTAAG	1 cut(s)	98
VneI	GTGCAC	1 cut(s)	663
VpaK11BI	GGWCC	1 cut(s)	690
XapI	RAATTY	3 cut(s)	62, 408, 605
XceI	RCATGY	2 cut(s)	375, 478
XcmI	CCANNNNNNNNNTGG	1 cut(s)	13
XmiI	GTMKAC	1 cut(s)	80
XmnI	GAANNNNTTC	1 cut(s)	318
XspI	CTAG	2 cut(s)	204, 357
Zsp2I	ATGCAT	1 cut(s)	256

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