Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr4

Orthogroup ID

OG0000874

Physical Location & Seq

Genomic Coordinates Forward (+)

2107208 .. 2108019

Gene Structure 812 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

pycom04g02360.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 696 bp

ATGATACAAAATGGTTGTGCTCCAAACGTGGTGACATATACTGCTCTTATACATGTGTACCTTAAAGCAAAGAAGGTGTCTGATGCAGATCAACTGTTTGAGATGATGTTGATTGAAGGTTGCAATCCTAATGTTGTTACTTATACTGCTTTAATTGATGGTCATTGTAAAGCTGGTAGAATTGAAAAGGCTTGCCAGATATATGAGAGAATGAGAGGTAATGTGGACATCCCTGATGTTGATAAGTATTTTGGGAGTGATGATCAGAGATTTTGCAAGTATGGGAAGCTAGATGAAGCACAAGAGGTGTTTGCTAAGATGTCAGAGCAAGGGTACAGTCCAAATGTGTATACGTACAGTTCTTTGATTGATAGACTGTTTAAGGATAAAAGACTGGATCTCGCTTTAAAAGTCTTGTCCAAAATGTTAGAAAACTCGTGTGCACCAGATGTTATCTACACAGAGATGATTGATGCCCTGTGTAAAGTTGGGAAAACAGATGAAGCCTATAAGCTTATGCTGACGATGGAAAAAAAAGGGTGTTATCCAAATGTTGTGACTTACACTGCAATGATAGATGGCATTGGGAAAGCAGGTAATATCGAAAAGTGTCTTGAGCTTTTTAAACAAATGAGCTCTAAGGGTTGTGCTCCAAATTTTGTCACCTATGGGGTTTTGATAAATCATTGCTGTTGA

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

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

232

Amino Acids

25.93

Weight (kDa)

6.32

Isoelectric Point (pI)

22.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_long	PF17177	1 - 73	2.4e-06	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	3 - 52	2.5e-12	Pentatricopeptide repeat domain
PPR_1	PF12854	4 - 36	2.9e-07	PPR repeat
PPR_2	PF13041	8 - 57	1.2e-18	PPR repeat family
PPR	PF01535	11 - 41	1.6e-06	PPR repeat
PPR_1	PF12854	40 - 72	1.7e-14	PPR repeat
PPR_2	PF13041	43 - 74	1e-09	PPR repeat family
PPR	PF01535	46 - 73	1e-08	PPR repeat
PPR_2	PF13041	91 - 128	9.2e-11	PPR repeat family
PPR_3	PF13812	103 - 153	9.5e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	111 - 142	1.2e-08	PPR repeat
PPR_2	PF13041	151 - 195	1e-15	PPR repeat family
PPR	PF01535	151 - 181	1.3e-06	PPR repeat
PPR_3	PF13812	152 - 197	8.5e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	179 - 212	7.9e-10	PPR repeat
PPR_2	PF13041	183 - 231	1.1e-17	PPR repeat family
PPR_3	PF13812	183 - 230	6.9e-10	Pentatricopeptide repeat domain
PPR	PF01535	186 - 216	2.1e-09	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000874)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G61520 AT5G28370 AT5G28460
fragaria_vesca	FvH4_5g03011 FvH4_5g03011 FvH4_5g32150 FvH4_5g32150 FvH4_5g32150 FvH4_5g32150 FvH4_5g32150 FvH4_7g15360
malus_domestica	MD01G1071400.v1.1 MD07G1131300.v1.1
prunus_persica	Prupe.2G177500_v2.0.a1
pyrus_communis	pycom01g10040 pycom04g02360 pycom07g12830
rosa_chinensis	RchiOBHm_Chr1g0357681 RchiOBHm_Chr3g0468501 RchiOBHm_Chr5g0017031 RchiOBHm_Chr7g0228211 RchiOBHm_Chr7g0228281 RchiOBHm_Chr7g0228291
rosa_laevigata	RLG00000001577 RLG00000005833 RLG00000009015 RLG00000009124 RLG00000012161 RLG00000028007 RLG00000028484
rosa_multiflora	Rmu_sc0001062.1_g000004 Rmu_sc0001626.1_g000014 Rmu_sc0001626.1_g000015 Rmu_sc0002582.1_g000009 Rmu_sc0003490.1_g000025 Rmu_sc0003490.1_g000026 Rmu_sc0004842.1_g000011 Rmu_sc0004842.1_g000012 Rmu_sc0004842.1_g000020 Rmu_ssc0000425.1_g000002
rosa_roxburghii	Rroxscaffold_3G00231300 Rroxscaffold_4G00298600 Rroxscaffold_6G00429570
rosa_rugosa	Rorug01G0257700 Rorug02G0051500 Rorug02G0572600 Rorug07G0246900.1 Rorug07G0247000 Rorug07G0247000
rosa_samantha	Rh1AG271700 Rh1BG238800 Rh1CG255600 Rh1DG267200 Rh3AG143700 Rh3BG166200 Rh3BG166300 Rh5AG043600 Rh7AG400900 Rh7AG401200 Rh7BG382400 Rh7CG420000 Rh7DG396900 Rh7DG397300
rosa_wichuraiana	Rw1G024230 Rw7G033300 Rw7G033330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	584
AccI	GTMKAC	1 cut(s)	350
AclWI	GGATC	1 cut(s)	405
AcsI	RAATTY	1 cut(s)	655
AfaI	GTAC	3 cut(s)	59, 335, 356
AflIII	ACRYGT	1 cut(s)	52
AgsI	TTSAA	2 cut(s)	116, 185
AluBI	AGCT	5 cut(s)	173, 289, 514, 619, 636
AluI	AGCT	5 cut(s)	173, 289, 514, 619, 636
Alw21I	GWGCWC	4 cut(s)	22, 445, 638, 652
Alw44I	GTGCAC	1 cut(s)	441
AlwI	GGATC	1 cut(s)	405
ApaLI	GTGCAC	1 cut(s)	441
ApoI	RAATTY	1 cut(s)	655
ArsI	GACNNNNNNTTYG	2 cut(s)	62, 94
AsuHPI	GGTGA	2 cut(s)	43, 655
BaeGI	GKGCMC	1 cut(s)	445
BaeI	ACNNNNGTAYC	2 cut(s)	41, 74
BanII	GRGCYC	1 cut(s)	638
BauI	CACGAG	1 cut(s)	436
Bbv12I	GWGCWC	4 cut(s)	22, 445, 638, 652
BccI	CCATC	3 cut(s)	152, 520, 572
BclI	TGATCA	1 cut(s)	262
BfaI	CTAG	1 cut(s)	290
BfuAI	ACCTGC	1 cut(s)	584
BmsI	GCATC	2 cut(s)	73, 463
BpuEI	CTTGAG	1 cut(s)	635
BsaAI	YACGTR	1 cut(s)	354
BsaBI	GATNNNNATC	1 cut(s)	87
Bse1I	ACTGG	1 cut(s)	399
Bse3DI	GCAATG	2 cut(s)	576, 685
Bse8I	GATNNNNATC	1 cut(s)	87
BseGI	GGATG	1 cut(s)	228
BseJI	GATNNNNATC	1 cut(s)	87
BseMI	GCAATG	2 cut(s)	576, 685
BseNI	ACTGG	1 cut(s)	399
BseSI	GKGCMC	1 cut(s)	445
BsiHKAI	GWGCWC	4 cut(s)	22, 445, 638, 652
Bsp1286I	GDGCHC	4 cut(s)	22, 445, 638, 652
Bsp143I	GATC	3 cut(s)	88, 262, 397
BspMI	ACCTGC	1 cut(s)	584
BspPI	GGATC	1 cut(s)	405
BsrDI	GCAATG	2 cut(s)	576, 685
BsrI	ACTGG	1 cut(s)	399
BssMI	GATC	3 cut(s)	88, 262, 397
BssNAI	GTATAC	1 cut(s)	351
BssSI	CACGAG	1 cut(s)	436
Bst1107I	GTATAC	1 cut(s)	351
Bst2BI	CACGAG	1 cut(s)	436
Bst4CI	ACNGT	4 cut(s)	96, 338, 359, 378
BstBAI	YACGTR	1 cut(s)	354
BstC8I	GCNNGC	1 cut(s)	193
BstDEI	CTNAG	2 cut(s)	315, 639
BstF5I	GGATG	1 cut(s)	228
BstKTI	GATC	3 cut(s)	91, 265, 400
BstMBI	GATC	3 cut(s)	88, 262, 397
BstNSI	RCATGY	1 cut(s)	56
BstSLI	GKGCMC	1 cut(s)	445
BstSNI	TACGTA	1 cut(s)	354
BstX2I	RGATCY	1 cut(s)	397
BstYI	RGATCY	1 cut(s)	397
BstZ17I	GTATAC	1 cut(s)	351
BtsCI	GGATG	1 cut(s)	228
BtsI	GCAGTG	1 cut(s)	564
BtsIMutI	CAGTG	1 cut(s)	564
BveI	ACCTGC	1 cut(s)	584
Cac8I	GCNNGC	1 cut(s)	193
Csp6I	GTAC	3 cut(s)	58, 334, 355
CviAII	CATG	1 cut(s)	53
CviJI	RGCY	7 cut(s)	173, 191, 289, 506, 514, 619, 636
CviKI_1	RGCY	7 cut(s)	173, 191, 289, 506, 514, 619, 636
CviQI	GTAC	3 cut(s)	58, 334, 355
DdeI	CTNAG	2 cut(s)	315, 639
DpnI	GATC	3 cut(s)	90, 264, 399
DpnII	GATC	3 cut(s)	88, 262, 397
DraI	TTTAAA	2 cut(s)	408, 625
Ecl136II	GAGCTC	1 cut(s)	636
Eco105I	TACGTA	1 cut(s)	354
Eco24I	GRGCYC	1 cut(s)	638
Eco53kI	GAGCTC	1 cut(s)	636
EcoICRI	GAGCTC	1 cut(s)	636
EcoT38I	GRGCYC	1 cut(s)	638
FaeI	CATG	1 cut(s)	56
FatI	CATG	1 cut(s)	52
FbaI	TGATCA	1 cut(s)	262
FblI	GTMKAC	1 cut(s)	350
FokI	GGATG	1 cut(s)	215
FriOI	GRGCYC	1 cut(s)	638
FspBI	CTAG	1 cut(s)	290
Hin1II	CATG	1 cut(s)	56
HindIII	AAGCTT	1 cut(s)	512
HphI	GGTGA	2 cut(s)	43, 655
Hpy166II	GTNNAC	4 cut(s)	58, 226, 351, 443
Hpy188I	TCNGA	3 cut(s)	82, 267, 325
Hpy188III	TCNNGA	1 cut(s)	614
Hpy8I	GTNNAC	4 cut(s)	58, 226, 351, 443
HpyAV	CCTTC	2 cut(s)	67, 110
HpyCH4III	ACNGT	4 cut(s)	96, 338, 359, 378
HpyCH4IV	ACGT	2 cut(s)	27, 353
HpyCH4V	TGCA	5 cut(s)	86, 123, 276, 443, 569
HpyF3I	CTNAG	2 cut(s)	315, 639
HpySE526I	ACGT	2 cut(s)	27, 353
Hsp92II	CATG	1 cut(s)	56
Ksp22I	TGATCA	1 cut(s)	262
Kzo9I	GATC	3 cut(s)	88, 262, 397
LmnI	GCTCC	2 cut(s)	25, 655
LpnPI	CCDG	7 cut(s)	159, 209, 246, 380, 459, 491, 579
LweI	GCATC	2 cut(s)	73, 463
MaeI	CTAG	1 cut(s)	290
MaeII	ACGT	2 cut(s)	27, 353
MaeIII	GTNAC	4 cut(s)	31, 136, 556, 661
MalI	GATC	3 cut(s)	90, 264, 399
MboI	GATC	3 cut(s)	88, 262, 397
MflI	RGATCY	1 cut(s)	397
MhlI	GDGCHC	4 cut(s)	22, 445, 638, 652
MluCI	AATT	3 cut(s)	153, 180, 655
MnlI	CCTC	2 cut(s)	209, 298
MseI	TTAA	5 cut(s)	63, 152, 381, 407, 624
MslI	CAYNNNNRTG	2 cut(s)	464, 569
NdeII	GATC	3 cut(s)	88, 262, 397
NlaIII	CATG	1 cut(s)	56
NmuCI	GTSAC	3 cut(s)	31, 556, 661
NspI	RCATGY	1 cut(s)	56
PciI	ACATGT	1 cut(s)	52
Ppu21I	YACGTR	1 cut(s)	354
PscI	ACATGT	1 cut(s)	52
Psp124BI	GAGCTC	1 cut(s)	638
PsuI	RGATCY	1 cut(s)	397
RsaI	GTAC	3 cut(s)	59, 335, 356
RsaNI	GTAC	3 cut(s)	58, 334, 355
RseI	CAYNNNNRTG	2 cut(s)	464, 569
SacI	GAGCTC	1 cut(s)	638
SaqAI	TTAA	5 cut(s)	63, 152, 381, 407, 624
Sau3AI	GATC	3 cut(s)	88, 262, 397
SduI	GDGCHC	4 cut(s)	22, 445, 638, 652
SfaNI	GCATC	2 cut(s)	73, 463
SmiMI	CAYNNNNRTG	2 cut(s)	464, 569
SmlI	CTYRAG	1 cut(s)	614
SmoI	CTYRAG	1 cut(s)	614
SnaBI	TACGTA	1 cut(s)	354
Sse9I	AATT	3 cut(s)	153, 180, 655
SspMI	CTAG	1 cut(s)	290
SstI	GAGCTC	1 cut(s)	638
TaaI	ACNGT	4 cut(s)	96, 338, 359, 378
TaiI	ACGT	2 cut(s)	30, 356
TaqI	TCGA	1 cut(s)	603
TasI	AATT	3 cut(s)	153, 180, 655
Tru1I	TTAA	5 cut(s)	63, 152, 381, 407, 624
Tru9I	TTAA	5 cut(s)	63, 152, 381, 407, 624
TscAI	CASTG	1 cut(s)	571
TseFI	GTSAC	3 cut(s)	31, 556, 661
Tsp45I	GTSAC	3 cut(s)	31, 556, 661
TspDTI	ATGAA	2 cut(s)	309, 516
TspRI	CASTG	1 cut(s)	571
VneI	GTGCAC	1 cut(s)	441
XapI	RAATTY	1 cut(s)	655
XceI	RCATGY	1 cut(s)	56
XmiI	GTMKAC	1 cut(s)	350
XspI	CTAG	1 cut(s)	290

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