Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr13

Orthogroup ID

OG0006285

Physical Location & Seq

Genomic Coordinates Forward (+)

12740902 .. 12742611

Gene Structure 1710 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

pycom13g17020.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1710 bp

ATGCTTCGGAGCTTCCAAAACCCCAATCTCTACTCCATTTCCAAAACCCACTTCAAACTCCTGCATTACTTCTTATCCAATCACTTATGCACCACAACCGAGCCGACCCAAGTCCCCGAGTCACCTGACCTTCCGAACTGGGTTAAATTCTTGGACACCAAGCACCCAGAAGCCGCAAGTTCAGACGAAGATTTTGTCATCCCTTCACTTGCCAAGTGGGTTGAAGCCCAGATGCTCAAAGACCCCAGAAAAGCCGTCAAGCTCCCGATTGTCGAGATTGCGGATACCGACATAGACATAATTAGTAAAGTTTTGAAAAACCAGCACCCGTCACCAGAAAATGTAGCTCAAGTTCTAAGTGGGATTGTTTTGGATTTGTCGAACGGTTTGGTGGAACGGATTTTGAGGAGGTTTAGCAATGAATGGGTTCCGGCTTTCGGGTTTTTCACTTGGGCAAAAACACAAACAAGTTATAGGCATGCGCCGGAGGTGTACAATTTTATGGTTGACATCTTGGGGAAGGCCGAGAAGTTTGACATTATGTGGGATTTGGTCGTAGAAATGGACCAAATTGGAGAAAGGTATGTTAGTTTGGATACGATGAGTAAGGTGATGAGGAGGCTTGCTAGGGCTGGTAGGTACAAGGAGGCAATCGATGCATTTCGAGGAATCGAGCGATTTGGAGTGAGCAAAGATGTGTTGTCTTTGAACGCTCTGATGGGTGCATTGGTGAAGGAGCGAAGCGTTGAGCTTGCCCACGAAGTTTTCTTGGAGTTTAAGGAATCTATACCTTTGAATGTTAGTACTTTTAATGTTTTGATACATGGGTGGTGCAAATACAGGAACTTGGACATTGCTAGGAAGACAATGGAGGAGATGGAGAAGCACAAGTTTAAACCCGATGTTTTCTCGTATACCTCTTTGATTGAAGCTTATTGTAACGACAAGGATTTTCGCAAAGTTGCCGAAGTTCTTGGCGAGATGAAGGACAAGGGTTGTGAGCCAAATGCCGTGACTTATACCATCATAATGCATGCTTTAGGGAAGGCAAGGGAGATAACTAAAGCTTTGGAGATTTACGAGAAGATGAAAATGAGTGGTTGTAGTCCAGATACTTCATTTTATAGCTCGTTGATTTTCCTCCTTGGTAAAGCCGGTAGGCTCAAGGATGTTCAGGAAATAGTTGAGGACATGGAAAAGCAAGGTATAAAGCTGGACGTTTTGGCATATAATACCTTGATTAATATAGCGTCTACGCATTCACAGGAAGAGGTTGCTCTCAAATGGCTCAAGAAAATGGAGGAGGATTCGTGCAAGCCGGATCTCAAGACCTATGCTCCTCTGTTGAAGTTATTCTGCAGAAAGAAAAGGATGAGGGTACTTTGCTTTTTGTTAGATCACATGTTTAAGAACGACATTGGCATTGAAGGTGGAACTTATGCACTCTTGGTACGCGGGCTGTGTATGAACGGTAAACTTGCAACTGCTTGCTCCTTCTTTGAGGAGATGGTATTGAAGGGTTTTGCTCCGAAGGACAGCACATACAGTATGTTGATAAAGGAATTGGAGGGGAAGAGTATGCAGAAAGAGAAGAAACATGTTGAGAGGTTGATGTTGCAGACAAGAGGGCAAGAGATAATAGGCAACGATTCCGCAATGTCTAATGTTGAAGAGAGTAATGCACAAGGGCCATGTGTTTGTGTGATGTAA

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

570

Amino Acids

64.95

Weight (kDa)

6.9

Isoelectric Point (pI)

32.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_long	PF17177	261 - 388	1e-10	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	263 - 305	4.2e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	263 - 294	6.5e-06	PPR repeat
PPR_2	PF13041	266 - 314	2.5e-14	PPR repeat family
TPR_24	PF23276	284 - 350	6.6e-06	Fungal tetratrico peptide repeats
PPR_3	PF13812	298 - 349	9.6e-14	Pentatricopeptide repeat domain
PPR_2	PF13041	300 - 349	1.2e-16	PPR repeat family
PPR	PF01535	303 - 333	1.3e-06	PPR repeat
PPR_1	PF12854	331 - 364	2.4e-07	PPR repeat
PPR	PF01535	338 - 368	2.5e-06	PPR repeat
TPR_24	PF23276	340 - 431	1.7e-06	Fungal tetratrico peptide repeats
PPR_2	PF13041	340 - 379	3e-07	PPR repeat family
PPR_long	PF17177	349 - 493	5.6e-15	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	370 - 415	2.9e-07	PPR repeat family
PPR_3	PF13812	394 - 452	2.4e-12	Pentatricopeptide repeat domain
PPR_2	PF13041	406 - 454	1.9e-08	PPR repeat family
PPR_2	PF13041	479 - 522	4.9e-08	PPR repeat family

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)

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Orthologous Genes (Group: OG0006285)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22670
fragaria_vesca	FvH4_4g00721
malus_domestica	MD13G1197300.v1.1
prunus_persica	Prupe.1G018400_v2.0.a1
pyrus_communis	pycom13g17020
rosa_chinensis	RchiOBHm_Chr1g0322101 RchiOBHm_Chr4g0386451
rosa_laevigata	RLG00000010131 RLG00000010157 RLG00000010161
rosa_multiflora	Rmu_co8274927.1_g000001 Rmu_sc0001942.1_g000008 Rmu_sc0001942.1_g000027 Rmu_sc0001942.1_g000051 Rmu_sc0002785.1_g000008 Rmu_sc0003786.1_g000023 Rmu_sc0006648.1_g000016 Rmu_sc0036937.1_g000001 Rmu_ssc0000272.1_g000008 Rmu_ssc0000272.1_g000009
rosa_roxburghii	Rroxscaffold_5G00333960 Rroxscaffold_6G00392780
rosa_samantha	Rh1AG049600 Rh4BG009300 Rh4CG014300 Rh4DG010100
rosa_wichuraiana	Rw4G000030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	914, 1253
AccII	CGCG	1 cut(s)	1455
AciI	CCGC	4 cut(s)	174, 281, 1455, 1653
AclWI	GGATC	1 cut(s)	1329
AcsI	RAATTY	1 cut(s)	146
AfaI	GTAC	5 cut(s)	494, 641, 805, 1380, 1452
AfiI	CCNNNNNNNGG	1 cut(s)	437
AflIII	ACRYGT	2 cut(s)	1401, 1597
AjuI	GAANNNNNNNTTGG	2 cut(s)	35, 67
AluBI	AGCT	8 cut(s)	12, 262, 347, 751, 932, 1067, 1128, 1213
AluI	AGCT	8 cut(s)	12, 262, 347, 751, 932, 1067, 1128, 1213
AlwI	GGATC	1 cut(s)	1329
Ama87I	CYCGRG	1 cut(s)	116
AoxI	GGCC	2 cut(s)	522, 1688
ApoI	RAATTY	1 cut(s)	146
ArsI	GACNNNNNNTTYG	4 cut(s)	176, 180, 208, 212
AseI	ATTAAT	1 cut(s)	1242
Asp700I	GAANNNNTTC	2 cut(s)	426, 1352
AspLEI	GCGC	1 cut(s)	484
AspS9I	GGNCC	2 cut(s)	565, 1688
AsuHPI	GGTGA	4 cut(s)	114, 324, 622, 742
AvaI	CYCGRG	1 cut(s)	116
AvaII	GGWCC	1 cut(s)	565
BaeI	ACNNNNGTAYC	2 cut(s)	812, 845
BbsI	GAAGAC	1 cut(s)	869
BccI	CCATC	4 cut(s)	712, 871, 1031, 1501
BceAI	ACGGC	2 cut(s)	239, 995
BciVI	GTATCC	2 cut(s)	277, 589
BfaI	CTAG	2 cut(s)	627, 858
BfmI	CTRYAG	1 cut(s)	1357
BfuI	GTATCC	2 cut(s)	277, 589
BisI	GCNGC	1 cut(s)	174
BlsI	GCNGC	1 cut(s)	175
BmcAI	AGTACT	1 cut(s)	805
Bme18I	GGWCC	1 cut(s)	565
BmeT110I	CYCGRG	1 cut(s)	116
BmgT120I	GGNCC	2 cut(s)	565, 1688
BmiI	GGNNCC	1 cut(s)	429
BmrI	ACTGGG	1 cut(s)	148
BmsI	GCATC	2 cut(s)	222, 646
BmuI	ACTGGG	1 cut(s)	148
BoxI	GACNNNNGTC	1 cut(s)	110
BpiI	GAAGAC	1 cut(s)	869
BpuEI	CTTGAG	4 cut(s)	333, 1148, 1274, 1310
Bsa29I	ATCGAT	1 cut(s)	654
BsaJI	CCNNGG	1 cut(s)	1144
BsaXI	ACNNNNNCTCC	4 cut(s)	1295, 1321, 1325, 1351
Bsc4I	CCNNNNNNNGG	1 cut(s)	437
Bse118I	RCCGGY	1 cut(s)	1154
Bse1I	ACTGG	1 cut(s)	143
Bse3DI	GCAATG	3 cut(s)	424, 852, 1662
BseCI	ATCGAT	1 cut(s)	654
BseDI	CCNNGG	1 cut(s)	1144
BseGI	GGATG	3 cut(s)	198, 1174, 1377
BseLI	CCNNNNNNNGG	1 cut(s)	437
BseMI	GCAATG	3 cut(s)	424, 852, 1662
BseNI	ACTGG	1 cut(s)	143
BseRI	GAGGAG	6 cut(s)	421, 631, 887, 1316, 1329, 1517
Bsh1236I	CGCG	1 cut(s)	1455
BshFI	GGCC	2 cut(s)	524, 1690
BshVI	ATCGAT	1 cut(s)	654
BsiHKCI	CYCGRG	1 cut(s)	116
BsiSI	CCGG	4 cut(s)	431, 485, 1155, 1319
BslFI	GGGAC	1 cut(s)	98
BslI	CCNNNNNNNGG	1 cut(s)	437
BsmFI	GGGAC	1 cut(s)	98
BsmI	GAATGC	1 cut(s)	1258
BsnI	GGCC	2 cut(s)	524, 1690
BsoBI	CYCGRG	1 cut(s)	116
Bsp1407I	TGTACA	1 cut(s)	492
Bsp143I	GATC	2 cut(s)	1321, 1396
BspACI	CCGC	4 cut(s)	174, 281, 1455, 1653
BspANI	GGCC	2 cut(s)	524, 1690
BspDI	ATCGAT	1 cut(s)	654
BspFNI	CGCG	1 cut(s)	1455
BspLI	GGNNCC	1 cut(s)	429
BspMAI	CTGCAG	1 cut(s)	1361
BspPI	GGATC	1 cut(s)	1329
BsrDI	GCAATG	3 cut(s)	424, 852, 1662
BsrFI	RCCGGY	1 cut(s)	1154
BsrGI	TGTACA	1 cut(s)	492
BsrI	ACTGG	1 cut(s)	143
BssAI	RCCGGY	1 cut(s)	1154
BssECI	CCNNGG	1 cut(s)	1144
BssMI	GATC	2 cut(s)	1321, 1396
BssNAI	GTATAC	1 cut(s)	915
BssT1I	CCWWGG	1 cut(s)	1144
Bst1107I	GTATAC	1 cut(s)	915
Bst4CI	ACNGT	3 cut(s)	386, 1472, 1547
Bst6I	CTCTTC	3 cut(s)	1263, 1568, 1665
BstAPI	GCANNNNNTGC	1 cut(s)	656
BstAUI	TGTACA	1 cut(s)	492
BstC8I	GCNNGC	7 cut(s)	480, 624, 753, 1035, 1316, 1457, 1489
BstDEI	CTNAG	1 cut(s)	356
BstF5I	GGATG	3 cut(s)	198, 1174, 1377
BstFNI	CGCG	1 cut(s)	1455
BstHHI	GCGC	1 cut(s)	484
BstKTI	GATC	2 cut(s)	1324, 1399
BstMBI	GATC	2 cut(s)	1321, 1396
BstMWI	GCNNNNNNNGC	1 cut(s)	656
BstNSI	RCATGY	4 cut(s)	482, 1037, 1405, 1601
BstPAI	GACNNNNGTC	1 cut(s)	110
BstSFI	CTRYAG	1 cut(s)	1357
BstUI	CGCG	1 cut(s)	1455
BstV2I	GAAGAC	1 cut(s)	869
BstX2I	RGATCY	1 cut(s)	1321
BstYI	RGATCY	1 cut(s)	1321
BstZ17I	GTATAC	1 cut(s)	915
Bsu15I	ATCGAT	1 cut(s)	654
BsuI	GTATCC	2 cut(s)	277, 589
BsuRI	GGCC	2 cut(s)	524, 1690
BsuTUI	ATCGAT	1 cut(s)	654
BtsCI	GGATG	3 cut(s)	198, 1174, 1377
Cac8I	GCNNGC	7 cut(s)	480, 624, 753, 1035, 1316, 1457, 1489
CfoI	GCGC	1 cut(s)	484
Cfr10I	RCCGGY	1 cut(s)	1154
Cfr13I	GGNCC	2 cut(s)	565, 1688
ClaI	ATCGAT	1 cut(s)	654
CseI	GACGC	1 cut(s)	1239
Csp6I	GTAC	5 cut(s)	493, 640, 804, 1379, 1451
CviAII	CATG	7 cut(s)	479, 824, 1034, 1192, 1402, 1598, 1692
CviQI	GTAC	5 cut(s)	493, 640, 804, 1379, 1451
DdeI	CTNAG	1 cut(s)	356
DpnI	GATC	2 cut(s)	1323, 1398
DpnII	GATC	2 cut(s)	1321, 1396
DraI	TTTAAA	1 cut(s)	895
Eam1104I	CTCTTC	3 cut(s)	1263, 1568, 1665
EarI	CTCTTC	3 cut(s)	1263, 1568, 1665
Eco130I	CCWWGG	1 cut(s)	1144
Eco47I	GGWCC	1 cut(s)	565
Eco88I	CYCGRG	1 cut(s)	116
EcoT14I	CCWWGG	1 cut(s)	1144
EcoT22I	ATGCAT	2 cut(s)	661, 1035
ErhI	CCWWGG	1 cut(s)	1144
FaeI	CATG	7 cut(s)	482, 827, 1037, 1195, 1405, 1601, 1695
FaqI	GGGAC	1 cut(s)	98
FatI	CATG	7 cut(s)	478, 823, 1033, 1191, 1401, 1597, 1691
FauI	CCCGC	1 cut(s)	1448
FblI	GTMKAC	2 cut(s)	914, 1253
Fnu4HI	GCNGC	1 cut(s)	174
FokI	GGATG	3 cut(s)	185, 1181, 1384
Fsp4HI	GCNGC	1 cut(s)	174
FspBI	CTAG	2 cut(s)	627, 858
GlaI	GCGC	1 cut(s)	483
GluI	GCNGC	1 cut(s)	174
HaeIII	GGCC	2 cut(s)	524, 1690
HapII	CCGG	4 cut(s)	431, 485, 1155, 1319
HgaI	GACGC	1 cut(s)	1239
HhaI	GCGC	1 cut(s)	484
Hin1II	CATG	7 cut(s)	482, 827, 1037, 1195, 1405, 1601, 1695
Hin6I	GCGC	1 cut(s)	482
HinP1I	GCGC	1 cut(s)	482
HincII	GTYRAC	1 cut(s)	508
HindII	GTYRAC	1 cut(s)	508
HindIII	AAGCTT	2 cut(s)	930, 1065
HinfI	GANTC	5 cut(s)	119, 669, 782, 1307, 1649
HpaII	CCGG	4 cut(s)	431, 485, 1155, 1319
HphI	GGTGA	4 cut(s)	114, 324, 622, 742
Hpy166II	GTNNAC	5 cut(s)	493, 508, 915, 1254, 1475
Hpy188I	TCNGA	5 cut(s)	9, 135, 184, 717, 1530
Hpy188III	TCNNGA	6 cut(s)	265, 274, 1109, 1175, 1291, 1327
Hpy8I	GTNNAC	5 cut(s)	493, 508, 915, 1254, 1475
HpyCH4III	ACNGT	3 cut(s)	386, 1472, 1547
HpyCH4IV	ACGT	1 cut(s)	1218
HpyF10VI	GCNNNNNNNGC	1 cut(s)	656
HpyF3I	CTNAG	1 cut(s)	356
HpySE526I	ACGT	1 cut(s)	1218
Hsp92II	CATG	7 cut(s)	482, 827, 1037, 1195, 1405, 1601, 1695
HspAI	GCGC	1 cut(s)	482
Kzo9I	GATC	2 cut(s)	1321, 1396
LmnI	GCTCC	6 cut(s)	9, 267, 736, 1342, 1496, 1531
LweI	GCATC	2 cut(s)	222, 646
MaeI	CTAG	2 cut(s)	627, 858
MaeII	ACGT	1 cut(s)	1218
MaeIII	GTNAC	4 cut(s)	120, 330, 938, 1012
MalI	GATC	2 cut(s)	1323, 1398
MboI	GATC	2 cut(s)	1321, 1396
MboII	GAAGA	7 cut(s)	200, 874, 1096, 1280, 1585, 1603, 1682
MflI	RGATCY	1 cut(s)	1321
MluCI	AATT	5 cut(s)	146, 300, 496, 570, 1562
MlyI	GAGTC	1 cut(s)	128
Mph1103I	ATGCAT	2 cut(s)	661, 1035
MroXI	GAANNNNTTC	2 cut(s)	426, 1352
MseI	TTAA	6 cut(s)	144, 777, 810, 894, 1242, 1407
MslI	CAYNNNNRTG	1 cut(s)	1028
MspI	CCGG	4 cut(s)	431, 485, 1155, 1319
MssI	GTTTAAAC	1 cut(s)	895
Mva1269I	GAATGC	1 cut(s)	1258
MvnI	CGCG	1 cut(s)	1455
MwoI	GCNNNNNNNGC	1 cut(s)	656
NdeII	GATC	2 cut(s)	1321, 1396
NlaIII	CATG	7 cut(s)	482, 827, 1037, 1195, 1405, 1601, 1695
NlaIV	GGNNCC	1 cut(s)	429
NmeAIII	GCCGAG	1 cut(s)	550
NmuCI	GTSAC	3 cut(s)	120, 330, 1012
NsiI	ATGCAT	2 cut(s)	661, 1035
NspI	RCATGY	4 cut(s)	482, 1037, 1405, 1601
PaeI	GCATGC	2 cut(s)	482, 1037
PciI	ACATGT	2 cut(s)	1401, 1597
PctI	GAATGC	1 cut(s)	1258
PdmI	GAANNNNTTC	2 cut(s)	426, 1352
PfeI	GAWTC	4 cut(s)	669, 782, 1307, 1649
PkrI	GCNGC	1 cut(s)	175
PleI	GAGTC	1 cut(s)	127
PmeI	GTTTAAAC	1 cut(s)	895
PpsI	GAGTC	1 cut(s)	127
PscI	ACATGT	2 cut(s)	1401, 1597
PshAI	GACNNNNGTC	1 cut(s)	110
PshBI	ATTAAT	1 cut(s)	1242
PspN4I	GGNNCC	1 cut(s)	429
PspPI	GGNCC	2 cut(s)	565, 1688
PsrI	GAACNNNNNNTAC	2 cut(s)	336, 368
PstI	CTGCAG	1 cut(s)	1361
PsuI	RGATCY	1 cut(s)	1321
RsaI	GTAC	5 cut(s)	494, 641, 805, 1380, 1452
RsaNI	GTAC	5 cut(s)	493, 640, 804, 1379, 1451
RseI	CAYNNNNRTG	1 cut(s)	1028
SaqAI	TTAA	6 cut(s)	144, 777, 810, 894, 1242, 1407
SatI	GCNGC	1 cut(s)	174
Sau3AI	GATC	2 cut(s)	1321, 1396
Sau96I	GGNCC	2 cut(s)	565, 1688
ScaI	AGTACT	1 cut(s)	805
SchI	GAGTC	1 cut(s)	128
SfaNI	GCATC	2 cut(s)	222, 646
SfcI	CTRYAG	1 cut(s)	1357
SinI	GGWCC	1 cut(s)	565
SmiMI	CAYNNNNRTG	1 cut(s)	1028
SmlI	CTYRAG	4 cut(s)	348, 1163, 1289, 1325
SmoI	CTYRAG	4 cut(s)	348, 1163, 1289, 1325
SphI	GCATGC	2 cut(s)	482, 1037
Sse9I	AATT	5 cut(s)	146, 300, 496, 570, 1562
SsiI	CCGC	4 cut(s)	174, 281, 1455, 1653
SspMI	CTAG	2 cut(s)	627, 858
StyI	CCWWGG	1 cut(s)	1144
TaaI	ACNGT	3 cut(s)	386, 1472, 1547
TaiI	ACGT	1 cut(s)	1221
TaqI	TCGA	5 cut(s)	273, 380, 654, 664, 672
TasI	AATT	5 cut(s)	146, 300, 496, 570, 1562
TatI	WGTACW	2 cut(s)	492, 803
TauI	GCSGC	1 cut(s)	176
TfiI	GAWTC	4 cut(s)	669, 782, 1307, 1649
Tru1I	TTAA	6 cut(s)	144, 777, 810, 894, 1242, 1407
Tru9I	TTAA	6 cut(s)	144, 777, 810, 894, 1242, 1407
TseFI	GTSAC	3 cut(s)	120, 330, 1012
Tsp45I	GTSAC	3 cut(s)	120, 330, 1012
TspDTI	ATGAA	5 cut(s)	435, 998, 1103, 1107, 1481
TspGWI	ACGGA	1 cut(s)	412
VpaK11BI	GGWCC	1 cut(s)	565
VspI	ATTAAT	1 cut(s)	1242
XapI	RAATTY	1 cut(s)	146
XceI	RCATGY	4 cut(s)	482, 1037, 1405, 1601
XmiI	GTMKAC	2 cut(s)	914, 1253
XmnI	GAANNNNTTC	2 cut(s)	426, 1352
XspI	CTAG	2 cut(s)	627, 858
ZrmI	AGTACT	1 cut(s)	805
Zsp2I	ATGCAT	2 cut(s)	661, 1035

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