Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr4

Orthogroup ID

OG0006600

Physical Location & Seq

Genomic Coordinates Reverse (-)

4601269 .. 4602611

Gene Structure 1343 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

pycom04g04960.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 948 bp

ATGCCACCATCTTATTCTCGTTTCATCCCAAGAGGCCTTTCTATATCTCAAATCCAAAGATTCATACCTAAAAGCTGGAAGGAAGGAACGAAACAATTTGGGAAATCATCTGCTTTATGTATTTCGGAAACAGGTTCGGCTGTTGATGATTCTATGATAGATTCTCTTCTTACATCCATCAAGCATTATGCAAACCAAGGAAATTTATCAAAAGCATTCAAAACTATCTCCCTTGTCCAGCTCCATGCCGCTTCTCCTACTCGTGACCTTATCTTACATTCCATCTCTTCTGTTATCTTATCTTGTGCCAACCATAAAGCATTACCACAGGGTGAACAACTTCATGCACATATTGTCAGATTGGGGTTTGAACAACACCCCATTTTGGTTCCCAAGCTGGTTACATTTTACTCAAGCTTTAATCTCCATGCTGAGGCTCGTATCATTCTTGAGAATTCAAATATATTGCATCCTCTACCTTGGAATGTGCTCATCTCTTCATATGTTAAAAATGAACTTTTGGATGAGGCTCTCTCTACGTATAAACAAATGGTCAACAAGGGGATTAGGCCAGATTGTTTCACTTACCCATCTGTTCTCAAGGCTTGTGGTGAAAAATTGGATATAAGTTTTGGCAGGGAGGTGCATAAGTCCATTGATGCTCGTTGTCAGGAGTGGAATTTATTTGTGCATAATTCATTGGTCTCCATGTATGGGAAATTTGGGCTTCTCGACGTTGCTCGTCACTTATTCGACAAAATGCCCACAAGGGATGCAATTTCTTGGAATGTAATGATCTCTGGTTATTCCTCCAAGGGCATGTGGACGGATGCATTCGAGCTGTTTGGAAACATGCAGATGGAGGGTATTGGGGTTAATATCTTACTTTGGAATACCATTGCTGGTGGGTGCTTGAGGACAGCATCCTCCCTCTCTGTGCTCGGGTAG

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_2

Protein Analysis

316

Amino Acids

35.09

Weight (kDa)

8.82

Isoelectric Point (pI)

42.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	161 - 203	2.2e-11	PPR repeat family
PPR	PF01535	161 - 189	2.6e-07	PPR repeat
PPR_2	PF13041	258 - 304	7.1e-08	PPR repeat family
PPR	PF01535	260 - 290	2.2e-08	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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: OG0006600)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G22830 AT1G22830 AT1G71490
fragaria_vesca	FvH4_5g32370
malus_domestica	MD04G1056500.v1.1 MD15G1404200.v1.1
prunus_persica	Prupe.1G551000_v2.0.a1 Prupe.1G551000_v2.0.a1 Prupe.1G551000_v2.0.a1
pyrus_communis	pycom04g04960 pycom15g36160
rosa_chinensis	RchiOBHm_Chr7g0228861
rosa_laevigata	RLG00000001540 RLG00000002151 RLG00000002152
rosa_multiflora	Rmu_co8395259.1_g000001 Rmu_sc0004517.1_g000002 Rmu_sc0011218.1_g000005 Rmu_sc0013945.1_g000009
rosa_rugosa	Rorug07G0252400 Rorug07G0252500
rosa_samantha	Rh7AG405700 Rh7BG385000 Rh7CG423300 Rh7DG399700
rosa_wichuraiana	Rw7G033610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	249
AcsI	RAATTY	4 cut(s)	202, 454, 679, 719
AdeI	CACNNNGTG	1 cut(s)	332
AfiI	CCNNNNNNNGG	3 cut(s)	385, 433, 714
AgsI	TTSAA	3 cut(s)	220, 371, 459
AjuI	GAANNNNNNNTTGG	2 cut(s)	22, 54
AluBI	AGCT	5 cut(s)	75, 241, 397, 417, 841
AluI	AGCT	5 cut(s)	75, 241, 397, 417, 841
Alw21I	GWGCWC	2 cut(s)	492, 942
Alw26I	GTCTC	1 cut(s)	709
Ama87I	CYCGRG	1 cut(s)	941
AoxI	GGCC	2 cut(s)	34, 569
ApoI	RAATTY	4 cut(s)	202, 454, 679, 719
Asp700I	GAANNNNTTC	1 cut(s)	339
AsuHPI	GGTGA	2 cut(s)	344, 623
AvaI	CYCGRG	1 cut(s)	941
BauI	CACGAG	1 cut(s)	261
Bbv12I	GWGCWC	2 cut(s)	492, 942
BbvCI	CCTCAGC	1 cut(s)	432
BccI	CCATC	5 cut(s)	16, 185, 290, 598, 853
BcoDI	GTCTC	1 cut(s)	709
BisI	GCNGC	1 cut(s)	249
BlsI	GCNGC	1 cut(s)	250
BmeT110I	CYCGRG	1 cut(s)	941
BmiI	GGNNCC	1 cut(s)	390
BmsI	GCATC	5 cut(s)	478, 649, 763, 820, 932
BplI	GAGNNNNNCTC	2 cut(s)	518, 550
Bpu10I	CCTNAGC	1 cut(s)	432
BpuEI	CTTGAG	4 cut(s)	397, 470, 584, 934
BsaAI	YACGTR	1 cut(s)	540
BsaI	GGTCTC	1 cut(s)	709
BsaJI	CCNNGG	3 cut(s)	196, 479, 813
Bsc4I	CCNNNNNNNGG	3 cut(s)	385, 433, 714
Bse3DI	GCAATG	1 cut(s)	897
BseDI	CCNNGG	3 cut(s)	196, 479, 813
BseGI	GGATG	7 cut(s)	24, 173, 469, 529, 778, 835, 923
BseLI	CCNNNNNNNGG	3 cut(s)	385, 433, 714
BseMI	GCAATG	1 cut(s)	897
BseMII	CTCAG	1 cut(s)	423
BshFI	GGCC	2 cut(s)	36, 571
BsiHKAI	GWGCWC	2 cut(s)	492, 942
BsiHKCI	CYCGRG	1 cut(s)	941
BslI	CCNNNNNNNGG	3 cut(s)	385, 433, 714
BsmAI	GTCTC	1 cut(s)	709
BsmI	GAATGC	2 cut(s)	215, 833
BsnI	GGCC	2 cut(s)	36, 571
Bso31I	GGTCTC	1 cut(s)	709
BsoBI	CYCGRG	1 cut(s)	941
Bsp1286I	GDGCHC	2 cut(s)	492, 942
Bsp143I	GATC	1 cut(s)	795
BspACI	CCGC	1 cut(s)	249
BspANI	GGCC	2 cut(s)	36, 571
BspCNI	CTCAG	1 cut(s)	424
BspLI	GGNNCC	1 cut(s)	390
BspTNI	GGTCTC	1 cut(s)	709
BsrDI	GCAATG	1 cut(s)	897
BssECI	CCNNGG	3 cut(s)	196, 479, 813
BssMI	GATC	1 cut(s)	795
BssSI	CACGAG	1 cut(s)	261
BssT1I	CCWWGG	3 cut(s)	196, 479, 813
Bst2BI	CACGAG	1 cut(s)	261
Bst6I	CTCTTC	3 cut(s)	171, 292, 502
BstBAI	YACGTR	1 cut(s)	540
BstDEI	CTNAG	1 cut(s)	432
BstF5I	GGATG	7 cut(s)	24, 173, 469, 529, 778, 835, 923
BstKTI	GATC	1 cut(s)	798
BstMAI	GTCTC	1 cut(s)	709
BstMBI	GATC	1 cut(s)	795
BstNSI	RCATGY	2 cut(s)	823, 856
BstSNI	TACGTA	1 cut(s)	540
BsuRI	GGCC	2 cut(s)	36, 571
BtsCI	GGATG	7 cut(s)	24, 173, 469, 529, 778, 835, 923
CspCI	CAANNNNNGTGG	2 cut(s)	589, 624
CviAII	CATG	6 cut(s)	245, 344, 428, 709, 820, 853
DdeI	CTNAG	1 cut(s)	432
DpnI	GATC	1 cut(s)	797
DpnII	GATC	1 cut(s)	795
DraIII	CACNNNGTG	1 cut(s)	332
Eam1104I	CTCTTC	3 cut(s)	171, 292, 502
EarI	CTCTTC	3 cut(s)	171, 292, 502
Eco105I	TACGTA	1 cut(s)	540
Eco130I	CCWWGG	3 cut(s)	196, 479, 813
Eco147I	AGGCCT	1 cut(s)	36
Eco31I	GGTCTC	1 cut(s)	709
Eco88I	CYCGRG	1 cut(s)	941
EcoRI	GAATTC	1 cut(s)	454
EcoT14I	CCWWGG	3 cut(s)	196, 479, 813
EcoT22I	ATGCAT	1 cut(s)	835
ErhI	CCWWGG	3 cut(s)	196, 479, 813
FaeI	CATG	6 cut(s)	248, 347, 431, 712, 823, 856
FatI	CATG	6 cut(s)	244, 343, 427, 708, 819, 852
FauNDI	CATATG	1 cut(s)	502
Fnu4HI	GCNGC	1 cut(s)	249
FokI	GGATG	7 cut(s)	11, 160, 456, 536, 785, 842, 910
Fsp4HI	GCNGC	1 cut(s)	249
GluI	GCNGC	1 cut(s)	249
HaeIII	GGCC	2 cut(s)	36, 571
Hin1II	CATG	6 cut(s)	248, 347, 431, 712, 823, 856
HincII	GTYRAC	1 cut(s)	556
HindII	GTYRAC	1 cut(s)	556
HindIII	AAGCTT	1 cut(s)	415
HinfI	GANTC	3 cut(s)	60, 149, 161
HphI	GGTGA	2 cut(s)	344, 623
Hpy166II	GTNNAC	3 cut(s)	335, 556, 825
Hpy188I	TCNGA	2 cut(s)	127, 359
Hpy188III	TCNNGA	4 cut(s)	263, 449, 671, 731
Hpy8I	GTNNAC	3 cut(s)	335, 556, 825
Hpy99I	CGWCG	1 cut(s)	737
HpyAV	CCTTC	2 cut(s)	73, 77
HpyCH4IV	ACGT	2 cut(s)	539, 735
HpyCH4V	TGCA	8 cut(s)	191, 347, 469, 646, 691, 776, 833, 856
HpyF3I	CTNAG	1 cut(s)	432
HpySE526I	ACGT	2 cut(s)	539, 735
Hsp92II	CATG	6 cut(s)	248, 347, 431, 712, 823, 856
Kzo9I	GATC	1 cut(s)	795
LmnI	GCTCC	1 cut(s)	246
LweI	GCATC	5 cut(s)	478, 649, 763, 820, 932
MaeII	ACGT	2 cut(s)	539, 735
MaeIII	GTNAC	3 cut(s)	263, 400, 743
MalI	GATC	1 cut(s)	797
MboI	GATC	1 cut(s)	795
MboII	GAAGA	3 cut(s)	158, 279, 489
MhlI	GDGCHC	2 cut(s)	492, 942
MluCI	AATT	8 cut(s)	95, 202, 454, 617, 679, 694, 719, 777
Mph1103I	ATGCAT	1 cut(s)	835
MroXI	GAANNNNTTC	1 cut(s)	339
MseI	TTAA	3 cut(s)	420, 507, 876
MslI	CAYNNNNRTG	1 cut(s)	857
Mva1269I	GAATGC	2 cut(s)	215, 833
NdeI	CATATG	1 cut(s)	502
NdeII	GATC	1 cut(s)	795
NlaIII	CATG	6 cut(s)	248, 347, 431, 712, 823, 856
NlaIV	GGNNCC	1 cut(s)	390
NmuCI	GTSAC	2 cut(s)	263, 743
NsiI	ATGCAT	1 cut(s)	835
NspI	RCATGY	2 cut(s)	823, 856
PceI	AGGCCT	1 cut(s)	36
PctI	GAATGC	2 cut(s)	215, 833
PdmI	GAANNNNTTC	1 cut(s)	339
PfeI	GAWTC	3 cut(s)	60, 149, 161
PkrI	GCNGC	1 cut(s)	250
Ppu21I	YACGTR	1 cut(s)	540
PspN4I	GGNNCC	1 cut(s)	390
RseI	CAYNNNNRTG	1 cut(s)	857
SaqAI	TTAA	3 cut(s)	420, 507, 876
SatI	GCNGC	1 cut(s)	249
Sau3AI	GATC	1 cut(s)	795
SduI	GDGCHC	2 cut(s)	492, 942
SfaNI	GCATC	5 cut(s)	478, 649, 763, 820, 932
SmiMI	CAYNNNNRTG	1 cut(s)	857
SmlI	CTYRAG	4 cut(s)	412, 449, 599, 913
SmoI	CTYRAG	4 cut(s)	412, 449, 599, 913
SnaBI	TACGTA	1 cut(s)	540
Sse9I	AATT	8 cut(s)	95, 202, 454, 617, 679, 694, 719, 777
SseBI	AGGCCT	1 cut(s)	36
SsiI	CCGC	1 cut(s)	249
StuI	AGGCCT	1 cut(s)	36
StyI	CCWWGG	3 cut(s)	196, 479, 813
TaiI	ACGT	2 cut(s)	542, 738
TaqI	TCGA	3 cut(s)	732, 753, 837
TasI	AATT	8 cut(s)	95, 202, 454, 617, 679, 694, 719, 777
TauI	GCSGC	1 cut(s)	251
TfiI	GAWTC	3 cut(s)	60, 149, 161
Tru1I	TTAA	3 cut(s)	420, 507, 876
Tru9I	TTAA	3 cut(s)	420, 507, 876
TseFI	GTSAC	2 cut(s)	263, 743
Tsp45I	GTSAC	2 cut(s)	263, 743
TspDTI	ATGAA	6 cut(s)	13, 52, 332, 489, 528, 687
TspGWI	ACGGA	1 cut(s)	842
XapI	RAATTY	4 cut(s)	202, 454, 679, 719
XceI	RCATGY	2 cut(s)	823, 856
XmnI	GAANNNNTTC	1 cut(s)	339
Zsp2I	ATGCAT	1 cut(s)	835

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