Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr1

Orthogroup ID

OG0002788

Physical Location & Seq

Genomic Coordinates Forward (+)

19335236 .. 19336651

Gene Structure 1416 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 684 bp

ATGCTGGCCACCCACTTCGGCGTCAAGCACGCCGTACAAATCATCACCTCCCACTTCGGCAATCTCGTCGCTAAAGTGTGTGAAAGTCTTCTCAAAAGAGGACCCCTAACCCTAAAAATCCTAATTGGGTTCACGGAGCTCACCCCTCAGCAAGTCAAGAACTCCCTCCTCATCCTAATCCAGCACAACTGCGTTCAGCCCTTCTCCGTAGACCAAGCAGAGGGTCTGAAATTCACTCAGTATGTAGCGCTGTTCGATAACATACTTCATCGAGGGAGGTTTTCCAAATTCATGACGGTTGTTTCACAGGAGTTCAATAAAGAGTGTGAACTGATTATTAAAGATTTGCTTGAGAATGGTAGACTTACACTAAAACAAATAACTGAAGGGGAATATGCAGTTAAGGATACTGTTGAGAAAAGCTTTCTTAAACTTGTGGACGCTCGTTTTGTGGAACGCTGCCCGGCTCCTGAAGCAGTTCTTGAAGAAGCAAGTAAAGACGCTCCAAAGAAGCGAGGTCCTAAGTTTTCTAAGATTGTTGAAGTACCAGAGACATTAGAACAACGTGTTGTAGCAGCAGCAGCACCTTCAGGAGCTATGAGATTTTCAATCCTGACAGATTCTGAAACCGATGCTCATGGGGGTAGCTACTGTATCCGAATGTGCTATTTTCTGAACTTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0030880 GO:0031974 GO:0031981 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0055029 GO:0061695 GO:0070013 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05169 map00230 map00240 map01100 map03020 map04623 map05169

Pfam Domains

Protein Families

HTH_9 RNA_pol_Rpc82

Protein Analysis

228

Amino Acids

25.4

Weight (kDa)

8.17

Isoelectric Point (pI)

31.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HTH_9	PF08221	12 - 66	1e-19	RNA polymerase III subunit RPC82 helix-turn-helix domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0002788)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G49000
fragaria_vesca	FvH4_7g29570 FvH4_7g29570 FvH4_7g29570 FvH4_7g29570 FvH4_7g29570 FvH4_7g29570 FvH4_7g29570
malus_domestica	MD01G1202100.v1.1 MD07G1271200.v1.1 MD07G1271300.v1.1
prunus_persica	Prupe.2G295500_v2.0.a1
pyrus_communis	pycom01g21170 pycom07g24820 pycom16g25350
rosa_chinensis	RchiOBHm_Chr1g0377571 RchiOBHm_Chr6g0258831
rosa_laevigata	RLG00000014582 RLG00000026516
rosa_multiflora	Rmu_co8176084.1_g000001 Rmu_sc0002832.1_g000008 Rmu_sc0005290.1_g000010 Rmu_sc0012587.1_g000006 Rmu_sc0041364.1_g000001
rosa_roxburghii	Rroxscaffold_4G00281230 Rroxscaffold_7G00206100
rosa_rugosa	Rorug01G0403500 Rorug01G0403500 Rorug05G0583700
rosa_samantha	Rh1AG429300 Rh1BG380000 Rh1CG394200 Rh1DG411200 Rh6AG100200 Rh6BG091700 Rh6CG089200 Rh6DG083500
rosa_wichuraiana	Rw1G036950 Rw6G008680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	210, 361
AcoI	YGGCCR	1 cut(s)	6
AcsI	RAATTY	2 cut(s)	230, 287
AcuI	CTGAAG	3 cut(s)	405, 492, 573
AcyI	GRCGYC	1 cut(s)	21
AfaI	GTAC	2 cut(s)	36, 546
AfeI	AGCGCT	1 cut(s)	249
AfiI	CCNNNNNNNGG	1 cut(s)	220
AflIII	ACRYGT	1 cut(s)	565
AgsI	TTSAA	4 cut(s)	316, 485, 542, 609
AluBI	AGCT	4 cut(s)	139, 423, 596, 648
AluI	AGCT	4 cut(s)	139, 423, 596, 648
Alw21I	GWGCWC	1 cut(s)	141
Alw26I	GTCTC	1 cut(s)	545
AlwNI	CAGNNNCTG	1 cut(s)	623
Aor51HI	AGCGCT	1 cut(s)	249
AoxI	GGCC	1 cut(s)	6
ApeKI	GCWGC	4 cut(s)	459, 575, 578, 581
ApoI	RAATTY	2 cut(s)	230, 287
ArsI	GACNNNNNNTTYG	2 cut(s)	431, 463
Asp700I	GAANNNNTTC	2 cut(s)	87, 477
AspLEI	GCGC	1 cut(s)	250
AspS9I	GGNCC	2 cut(s)	101, 518
AsuC2I	CCSGG	1 cut(s)	464
AsuHPI	GGTGA	2 cut(s)	37, 133
AvaII	GGWCC	2 cut(s)	101, 518
BalI	TGGCCA	1 cut(s)	8
BanII	GRGCYC	1 cut(s)	141
BbsI	GAAGAC	1 cut(s)	80
Bbv12I	GWGCWC	1 cut(s)	141
BbvCI	CCTCAGC	1 cut(s)	147
BbvI	GCAGC	4 cut(s)	446, 587, 590, 593
BceAI	ACGGC	1 cut(s)	17
BcgI	CGANNNNNNTGC	2 cut(s)	49, 83
BciVI	GTATCC	2 cut(s)	400, 665
BcnI	CCSGG	1 cut(s)	464
BcoDI	GTCTC	1 cut(s)	545
BfoI	RGCGCY	1 cut(s)	251
BfuI	GTATCC	2 cut(s)	400, 665
BisI	GCNGC	4 cut(s)	460, 576, 579, 582
BlsI	GCNGC	4 cut(s)	461, 577, 580, 583
Bme1390I	CCNGG	1 cut(s)	464
Bme18I	GGWCC	2 cut(s)	101, 518
BmgT120I	GGNCC	2 cut(s)	101, 518
BmiI	GGNNCC	2 cut(s)	103, 468
BmrFI	CCNGG	1 cut(s)	464
BmsI	GCATC	1 cut(s)	622
BpiI	GAAGAC	1 cut(s)	80
Bpu10I	CCTNAGC	1 cut(s)	147
BpuEI	CTTGAG	1 cut(s)	371
BpuMI	CCSGG	1 cut(s)	464
BsaHI	GRCGYC	1 cut(s)	21
Bsc4I	CCNNNNNNNGG	1 cut(s)	220
BseGI	GGATG	1 cut(s)	171
BseLI	CCNNNNNNNGG	1 cut(s)	220
BseMII	CTCAG	2 cut(s)	161, 251
BseRI	GAGGAG	1 cut(s)	158
BseXI	GCAGC	4 cut(s)	446, 587, 590, 593
BshFI	GGCC	1 cut(s)	8
BsiHKAI	GWGCWC	1 cut(s)	141
BsiSI	CCGG	1 cut(s)	464
BslI	CCNNNNNNNGG	1 cut(s)	220
BsmAI	GTCTC	1 cut(s)	545
BsnI	GGCC	1 cut(s)	8
Bsp1286I	GDGCHC	1 cut(s)	141
BspANI	GGCC	1 cut(s)	8
BspCNI	CTCAG	2 cut(s)	160, 250
BspHI	TCATGA	1 cut(s)	291
BspLI	GGNNCC	2 cut(s)	103, 468
BssNI	GRCGYC	1 cut(s)	21
Bst4CI	ACNGT	3 cut(s)	298, 412, 653
BstACI	GRCGYC	1 cut(s)	21
BstC8I	GCNNGC	2 cut(s)	6, 30
BstDEI	CTNAG	4 cut(s)	147, 237, 522, 531
BstF5I	GGATG	1 cut(s)	171
BstH2I	RGCGCY	1 cut(s)	251
BstHHI	GCGC	1 cut(s)	250
BstMAI	GTCTC	1 cut(s)	545
BstMWI	GCNNNNNNNGC	2 cut(s)	473, 581
BstSCI	CCNGG	1 cut(s)	462
BstV1I	GCAGC	4 cut(s)	446, 587, 590, 593
BstV2I	GAAGAC	1 cut(s)	80
BsuI	GTATCC	2 cut(s)	400, 665
BsuRI	GGCC	1 cut(s)	8
BtsCI	GGATG	1 cut(s)	171
Cac8I	GCNNGC	2 cut(s)	6, 30
CaiI	CAGNNNCTG	1 cut(s)	623
CciI	TCATGA	1 cut(s)	291
CfoI	GCGC	1 cut(s)	250
Cfr13I	GGNCC	2 cut(s)	101, 518
CseI	GACGC	3 cut(s)	10, 449, 509
Csp6I	GTAC	2 cut(s)	35, 545
CviAII	CATG	2 cut(s)	292, 638
CviJI	RGCY	7 cut(s)	8, 139, 199, 423, 467, 596, 648
CviKI_1	RGCY	7 cut(s)	8, 139, 199, 423, 467, 596, 648
CviQI	GTAC	2 cut(s)	35, 545
DdeI	CTNAG	4 cut(s)	147, 237, 522, 531
EaeI	YGGCCR	1 cut(s)	6
Ecl136II	GAGCTC	1 cut(s)	139
Eco24I	GRGCYC	1 cut(s)	141
Eco47I	GGWCC	2 cut(s)	101, 518
Eco47III	AGCGCT	1 cut(s)	249
Eco53kI	GAGCTC	1 cut(s)	139
Eco57I	CTGAAG	3 cut(s)	405, 492, 573
EcoICRI	GAGCTC	1 cut(s)	139
EcoO109I	RGGNCCY	2 cut(s)	101, 518
EcoT38I	GRGCYC	1 cut(s)	141
FaeI	CATG	2 cut(s)	295, 641
FaiI	YATR	7 cut(s)	243, 263, 293, 396, 599, 639, 682
FalI	AAGNNNNNCTT	4 cut(s)	333, 365, 465, 497
FatI	CATG	2 cut(s)	291, 637
FblI	GTMKAC	2 cut(s)	210, 361
Fnu4HI	GCNGC	4 cut(s)	460, 576, 579, 582
FokI	GGATG	1 cut(s)	158
FriOI	GRGCYC	1 cut(s)	141
Fsp4HI	GCNGC	4 cut(s)	460, 576, 579, 582
GlaI	GCGC	1 cut(s)	249
GluI	GCNGC	4 cut(s)	460, 576, 579, 582
HaeII	RGCGCY	1 cut(s)	251
HaeIII	GGCC	1 cut(s)	8
HapII	CCGG	1 cut(s)	464
HgaI	GACGC	3 cut(s)	10, 449, 509
HhaI	GCGC	1 cut(s)	250
Hin1I	GRCGYC	1 cut(s)	21
Hin1II	CATG	2 cut(s)	295, 641
Hin6I	GCGC	1 cut(s)	248
HinP1I	GCGC	1 cut(s)	248
HindIII	AAGCTT	1 cut(s)	421
HinfI	GANTC	1 cut(s)	620
HpaII	CCGG	1 cut(s)	464
HphI	GGTGA	2 cut(s)	37, 133
Hpy166II	GTNNAC	5 cut(s)	132, 211, 329, 362, 439
Hpy188I	TCNGA	4 cut(s)	228, 625, 659, 675
Hpy188III	TCNNGA	6 cut(s)	157, 292, 470, 482, 591, 613
Hpy8I	GTNNAC	5 cut(s)	132, 211, 329, 362, 439
Hpy99I	CGWCG	1 cut(s)	71
HpyAV	CCTTC	3 cut(s)	211, 380, 597
HpyCH4III	ACNGT	3 cut(s)	298, 412, 653
HpyCH4IV	ACGT	1 cut(s)	565
HpyCH4V	TGCA	1 cut(s)	398
HpyF10VI	GCNNNNNNNGC	2 cut(s)	473, 581
HpyF3I	CTNAG	4 cut(s)	147, 237, 522, 531
HpySE526I	ACGT	1 cut(s)	565
Hsp92I	GRCGYC	1 cut(s)	21
Hsp92II	CATG	2 cut(s)	295, 641
HspAI	GCGC	1 cut(s)	248
LmnI	GCTCC	4 cut(s)	136, 472, 508, 593
LpnPI	CCDG	7 cut(s)	194, 293, 477, 483, 561, 576, 626
Lsp1109I	GCAGC	4 cut(s)	446, 587, 590, 593
LweI	GCATC	1 cut(s)	622
MaeII	ACGT	1 cut(s)	565
MboII	GAAGA	2 cut(s)	80, 497
MhlI	GDGCHC	1 cut(s)	141
MlsI	TGGCCA	1 cut(s)	8
MluCI	AATT	3 cut(s)	123, 230, 287
MluNI	TGGCCA	1 cut(s)	8
MnlI	CCTC	9 cut(s)	58, 92, 156, 176, 179, 214, 266, 270, 509
Mox20I	TGGCCA	1 cut(s)	8
MroXI	GAANNNNTTC	2 cut(s)	87, 477
MscI	TGGCCA	1 cut(s)	8
MseI	TTAA	3 cut(s)	339, 402, 429
Msp20I	TGGCCA	1 cut(s)	8
MspI	CCGG	1 cut(s)	464
MspR9I	CCNGG	1 cut(s)	464
MwoI	GCNNNNNNNGC	2 cut(s)	473, 581
NciI	CCSGG	1 cut(s)	464
NlaIII	CATG	2 cut(s)	295, 641
NlaIV	GGNNCC	2 cut(s)	103, 468
PagI	TCATGA	1 cut(s)	291
PcsI	WCGNNNNNNNCGW	1 cut(s)	63
PdmI	GAANNNNTTC	2 cut(s)	87, 477
PfeI	GAWTC	1 cut(s)	620
PkrI	GCNGC	4 cut(s)	461, 577, 580, 583
PpuMI	RGGWCCY	2 cut(s)	101, 518
Psp124BI	GAGCTC	1 cut(s)	141
Psp5II	RGGWCCY	2 cut(s)	101, 518
PspN4I	GGNNCC	2 cut(s)	103, 468
PspPI	GGNCC	2 cut(s)	101, 518
PspPPI	RGGWCCY	2 cut(s)	101, 518
PstNI	CAGNNNCTG	1 cut(s)	623
RsaI	GTAC	2 cut(s)	36, 546
RsaNI	GTAC	2 cut(s)	35, 545
SacI	GAGCTC	1 cut(s)	141
SaqAI	TTAA	3 cut(s)	339, 402, 429
SatI	GCNGC	4 cut(s)	460, 576, 579, 582
Sau96I	GGNCC	2 cut(s)	101, 518
ScrFI	CCNGG	1 cut(s)	464
SduI	GDGCHC	1 cut(s)	141
SetI	ASST	9 cut(s)	50, 141, 281, 425, 520, 568, 589, 598, 650
SfaNI	GCATC	1 cut(s)	622
SinI	GGWCC	2 cut(s)	101, 518
SmlI	CTYRAG	1 cut(s)	350
SmoI	CTYRAG	1 cut(s)	350
Sse9I	AATT	3 cut(s)	123, 230, 287
SstI	GAGCTC	1 cut(s)	141
StyD4I	CCNGG	1 cut(s)	462
TaaI	ACNGT	3 cut(s)	298, 412, 653
TaiI	ACGT	1 cut(s)	568
TaqI	TCGA	2 cut(s)	255, 271
TasI	AATT	3 cut(s)	123, 230, 287
TfiI	GAWTC	1 cut(s)	620
Tru1I	TTAA	3 cut(s)	339, 402, 429
Tru9I	TTAA	3 cut(s)	339, 402, 429
TseI	GCWGC	4 cut(s)	459, 575, 578, 581
TspDTI	ATGAA	2 cut(s)	257, 280
TspGWI	ACGGA	2 cut(s)	149, 196
VpaK11BI	GGWCC	2 cut(s)	101, 518
XapI	RAATTY	2 cut(s)	230, 287
XmiI	GTMKAC	2 cut(s)	210, 361
XmnI	GAANNNNTTC	2 cut(s)	87, 477

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