MD08G1165000.v1.1

DNA-directed RNA polymerase III subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr08
OG0000459
Physical Location & Seq
Forward (+)
19361398 .. 19365625
4228 bp
Loading structure...
UTR
Exon/CDS
Intron
MD08G1165000.v1.1.491

Sequence Viewer

Length: 861 bp
ATGACATGGGACCGCCCCAGCCCGCCCCATTTATTTTCTAAAACATTTGACACTGGCCCGTACCTGTTCCAATCCGCGGTTCCTCTACCTACCTGTTTGCCCACCCCTAATGTCACGTGCTTCGCTCTTTCTACAAAGTCCGCAGAGTTAAGAAGAAAAAAGAAGTGTTGGATCAAAATCATCCGATTAGATTTGCTGAGTGCAAGTAATCAACCGCGTAAATCAATGGCATATAGAGGGCGTGGATGCGGTGGATTTTCAGGTGGGGGCGGTTTTGGCTTTGCCAAGCAAGAGTCTTTTGTGCTTTTTCCTGACATTGATTTGTGTATTCCCAAAGGTATATCTGATCTAGAGAAAAAACACACTCGTACCGAGGAAGAAAACTTAATCAATCAAACTCGCAAGTTTCAAAATATTTGGAAAGGCTTTCCTTATTATCTTGAGCAGAGCCCTTCGAATGAGAAGCAAAACATGGATGTGGAAAGATATTCTGACAGGACAAAGCCAAAAACCACGATAAGACGCGGTTCTCTTTTTAGTATATTGGAGCTCAAGGGATTTCCTCAAGAACTGACTGGAGGTTCAAGGGTACAGCAGCCTGGCCGAAAGAGAGTTAGATGGAATCCTGACTCAGAGCTGGTGAAGTTGGATTTATTTGAAAAGCTTGAGCAGTGTCAGGGCCAAAATGATGCAAAAGAAAAGAAAGAATGTGAAGGTGAGGATGTAAATGAAAATGAGGAGGAGGCAGAACCAGAGGACGAGGACTTTAGTGATGATGATTACTATAAGAACTCTGATTTTGATGATGATGAAGATGATTATAATATGGAAGATGACGGTGACGGCGAACCTCTTTTATAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00230 ko00240 ko01100 ko03020 ko04623 ko05169 map00230 map00240 map01100 map03020 map04623 map05169
Pfam Domains
Protein Families
RNA_pol_3_Rpc31

Protein Analysis

287

Amino Acids

32.84

Weight (kDa)

4.87

Isoelectric Point (pI)

50.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_3_Rpc31 PF11705 120 - 281 7.6e-12 DNA-directed RNA polymerase III subunit Rpc31
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
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: OG0000459)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G01590 AT4G01590 AT4G01590 AT4G35685
fragaria_vesca FvH4_2g26230 FvH4_3g43010 FvH4_3g43011 FvH4_4g18161 FvH4_4g18202 FvH4_5g23500 FvH4_6g36040 FvH4_6g36040 FvH4_6g36040
malus_domestica MD08G1165000.v1.1 MD08G1171800.v1.1 MD15G1357300.v1.1 MD15G1382800.v1.1
prunus_persica Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G582300_v2.0.a1 Prupe.6G034400_v2.0.a1 Prupe.6G034600_v2.0.a1
pyrus_communis pycom02g25390 pycom08g14650
rosa_chinensis RchiOBHm_Chr2g0143271 RchiOBHm_Chr4g0422341 RchiOBHm_Chr6g0253151 RchiOBHm_Chr6g0294801
rosa_laevigata RLG00000007621 RLG00000011839 RLG00000020015 RLG00000020019 RLG00000020023 RLG00000036652 RLG00000036658
rosa_multiflora Rmu_co8140216.1_g000001 Rmu_co8510555.1_g000002 Rmu_sc0003323.1_g000013 Rmu_sc0003323.1_g000024 Rmu_sc0003323.1_g000031 Rmu_sc0013245.1_g000016 Rmu_sc0030690.1_g000001
rosa_roxburghii Rroxscaffold_1G00005030 Rroxscaffold_2G00101900 Rroxscaffold_2G00102030 Rroxscaffold_4G00318680 Rroxscaffold_5G00364400 Rroxscaffold_5G00364410 Rroxscaffold_7G00173000 Rroxscaffold_7G00212110
rosa_rugosa Rorug04G0179200 Rorug05G0451000 Rorug05G0451400.1 Rorug05G0451500 Rorug06G0246900
rosa_samantha Rh1AG104900 Rh1CG244000 Rh1DG126500 Rh2AG432700 Rh2CG418500 Rh4AG238500 Rh4BG241700 Rh4BG242000 Rh4CG253500 Rh4CG253600 Rh4DG237400 Rh5AG505300 Rh5AG505500 Rh5BG527000 Rh5BG527200 Rh5BG527500 Rh5CG551000 Rh5CG551300 Rh5CG551800 Rh5DG539300 Rh5DG539900 Rh6AG057300 Rh6AG360500 Rh6BG051900 Rh6BG367200 Rh6CG049800 Rh6CG374200 Rh6DG046000
rosa_wichuraiana Rw1G009810 Rw5G047080 Rw5G047100 Rw6G031450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 822
AccII CGCG 3 cut(s) 77, 217, 525
AciI CCGC 9 cut(s) 13, 23, 75, 77, 141, 215, 249, 270, 525
AclWI GGATC 1 cut(s) 179
AcoI YGGCCR 1 cut(s) 601
AcvI CACGTG 1 cut(s) 117
AfaI GTAC 3 cut(s) 62, 370, 591
AfiI CCNNNNNNNGG 1 cut(s) 76
AgsI TTSAA 3 cut(s) 410, 585, 659
AjnI CCWGG 1 cut(s) 598
AjuI GAANNNNNNNTTGG 2 cut(s) 63, 95
AluBI AGCT 3 cut(s) 550, 637, 664
AluI AGCT 3 cut(s) 550, 637, 664
Alw21I GWGCWC 1 cut(s) 552
AlwI GGATC 1 cut(s) 179
AoxI GGCC 3 cut(s) 55, 601, 679
ApeKI GCWGC 1 cut(s) 595
AspS9I GGNCC 3 cut(s) 10, 56, 679
AsuHPI GGTGA 3 cut(s) 652, 728, 851
AsuII TTCGAA 1 cut(s) 455
AvaII GGWCC 1 cut(s) 10
BaeI ACNNNNGTAYC 2 cut(s) 352, 385
BanII GRGCYC 2 cut(s) 452, 552
BbrPI CACGTG 1 cut(s) 117
Bbv12I GWGCWC 1 cut(s) 552
BbvI GCAGC 1 cut(s) 607
BccI CCATC 1 cut(s) 612
BceAI ACGGC 1 cut(s) 859
BciT130I CCWGG 1 cut(s) 600
BfaI CTAG 1 cut(s) 350
BisI GCNGC 1 cut(s) 596
BlsI GCNGC 1 cut(s) 597
Bme1390I CCNGG 1 cut(s) 600
Bme18I GGWCC 1 cut(s) 10
BmgT120I GGNCC 3 cut(s) 10, 56, 679
BmiI GGNNCC 2 cut(s) 11, 81
BmrFI CCNGG 1 cut(s) 600
BmsI GCATC 2 cut(s) 236, 679
BpmI CTGGAG 1 cut(s) 597
Bpu14I TTCGAA 1 cut(s) 455
BpuEI CTTGAG 4 cut(s) 461, 536, 549, 686
BsaAI YACGTR 1 cut(s) 117
BsaBI GATNNNNATC 1 cut(s) 176
BsaJI CCNNGG 2 cut(s) 75, 372
Bsc4I CCNNNNNNNGG 1 cut(s) 76
Bse1I ACTGG 2 cut(s) 58, 580
Bse8I GATNNNNATC 1 cut(s) 176
BseBI CCWGG 1 cut(s) 600
BseDI CCNNGG 2 cut(s) 75, 372
BseGI GGATG 4 cut(s) 180, 251, 481, 727
BseJI GATNNNNATC 1 cut(s) 176
BseLI CCNNNNNNNGG 1 cut(s) 76
BseMII CTCAG 2 cut(s) 188, 645
BseNI ACTGG 2 cut(s) 58, 580
BseRI GAGGAG 2 cut(s) 752, 755
BseXI GCAGC 1 cut(s) 607
BseYI CCCAGC 1 cut(s) 17
Bsh1236I CGCG 3 cut(s) 77, 217, 525
BshFI GGCC 3 cut(s) 57, 603, 681
BsiHKAI GWGCWC 1 cut(s) 552
BslFI GGGAC 1 cut(s) 23
BslI CCNNNNNNNGG 1 cut(s) 76
BsmFI GGGAC 1 cut(s) 23
BsnI GGCC 3 cut(s) 57, 603, 681
Bsp119I TTCGAA 1 cut(s) 455
Bsp1286I GDGCHC 2 cut(s) 452, 552
Bsp143I GATC 2 cut(s) 171, 346
BspACI CCGC 9 cut(s) 13, 23, 75, 77, 141, 215, 249, 270, 525
BspANI GGCC 3 cut(s) 57, 603, 681
BspCNI CTCAG 2 cut(s) 189, 644
BspFNI CGCG 3 cut(s) 77, 217, 525
BspLI GGNNCC 2 cut(s) 11, 81
BspPI GGATC 1 cut(s) 179
BspT104I TTCGAA 1 cut(s) 455
BsrI ACTGG 2 cut(s) 58, 580
BssECI CCNNGG 2 cut(s) 75, 372
BssMI GATC 2 cut(s) 171, 346
Bst2UI CCWGG 1 cut(s) 600
Bst4CI ACNGT 1 cut(s) 839
BstBAI YACGTR 1 cut(s) 117
BstBI TTCGAA 1 cut(s) 455
BstC8I GCNNGC 1 cut(s) 23
BstDEI CTNAG 2 cut(s) 197, 631
BstDSI CCRYGG 1 cut(s) 75
BstF5I GGATG 4 cut(s) 180, 251, 481, 727
BstFNI CGCG 3 cut(s) 77, 217, 525
BstKTI GATC 2 cut(s) 174, 349
BstMBI GATC 2 cut(s) 171, 346
BstMWI GCNNNNNNNGC 1 cut(s) 276
BstNI CCWGG 1 cut(s) 600
BstSCI CCNGG 1 cut(s) 598
BstUI CGCG 3 cut(s) 77, 217, 525
BstV1I GCAGC 1 cut(s) 607
BsuRI GGCC 3 cut(s) 57, 603, 681
BtgI CCRYGG 1 cut(s) 75
BtsCI GGATG 4 cut(s) 180, 251, 481, 727
BtsI GCAGTG 1 cut(s) 677
BtsIMutI CAGTG 2 cut(s) 51, 677
Cac8I GCNNGC 1 cut(s) 23
Cfr13I GGNCC 3 cut(s) 10, 56, 679
Cfr42I CCGCGG 1 cut(s) 78
CseI GACGC 1 cut(s) 531
Csp6I GTAC 3 cut(s) 61, 369, 590
CviAII CATG 2 cut(s) 6, 472
CviQI GTAC 3 cut(s) 61, 369, 590
DdeI CTNAG 2 cut(s) 197, 631
DpnI GATC 2 cut(s) 173, 348
DpnII GATC 2 cut(s) 171, 346
EaeI YGGCCR 1 cut(s) 601
Ecl136II GAGCTC 1 cut(s) 550
Eco24I GRGCYC 2 cut(s) 452, 552
Eco47I GGWCC 1 cut(s) 10
Eco53kI GAGCTC 1 cut(s) 550
Eco72I CACGTG 1 cut(s) 117
EcoICRI GAGCTC 1 cut(s) 550
EcoRII CCWGG 1 cut(s) 598
EcoT38I GRGCYC 2 cut(s) 452, 552
FaeI CATG 2 cut(s) 9, 475
FaqI GGGAC 1 cut(s) 23
FatI CATG 2 cut(s) 5, 471
FauI CCCGC 1 cut(s) 30
Fnu4HI GCNGC 1 cut(s) 596
FokI GGATG 4 cut(s) 167, 258, 488, 734
FriOI GRGCYC 2 cut(s) 452, 552
Fsp4HI GCNGC 1 cut(s) 596
FspBI CTAG 1 cut(s) 350
GluI GCNGC 1 cut(s) 596
GsaI CCCAGC 1 cut(s) 21
GsuI CTGGAG 1 cut(s) 597
HaeIII GGCC 3 cut(s) 57, 603, 681
HgaI GACGC 1 cut(s) 531
Hin1II CATG 2 cut(s) 9, 475
HindIII AAGCTT 1 cut(s) 662
HinfI GANTC 3 cut(s) 293, 622, 629
HphI GGTGA 3 cut(s) 652, 728, 851
Hpy188I TCNGA 5 cut(s) 185, 346, 493, 634, 796
Hpy188III TCNNGA 5 cut(s) 311, 350, 440, 566, 626
HpyAV CCTTC 2 cut(s) 462, 707
HpyCH4III ACNGT 1 cut(s) 839
HpyCH4IV ACGT 1 cut(s) 116
HpyCH4V TGCA 2 cut(s) 203, 692
HpyF10VI GCNNNNNNNGC 1 cut(s) 276
HpyF3I CTNAG 2 cut(s) 197, 631
HpySE526I ACGT 1 cut(s) 116
Hsp92II CATG 2 cut(s) 9, 475
KspI CCGCGG 1 cut(s) 78
Kzo9I GATC 2 cut(s) 171, 346
LmnI GCTCC 1 cut(s) 547
Lsp1109I GCAGC 1 cut(s) 607
LweI GCATC 2 cut(s) 236, 679
MaeI CTAG 1 cut(s) 350
MaeII ACGT 1 cut(s) 116
MaeIII GTNAC 2 cut(s) 112, 839
MalI GATC 2 cut(s) 173, 348
MboI GATC 2 cut(s) 171, 346
MboII GAAGA 4 cut(s) 165, 389, 824, 842
MhlI GDGCHC 2 cut(s) 452, 552
MlyI GAGTC 2 cut(s) 302, 623
MmeI TCCRAC 2 cut(s) 149, 627
MseI TTAA 2 cut(s) 149, 386
MslI CAYNNNNRTG 1 cut(s) 476
MspA1I CMGCKG 1 cut(s) 77
MspR9I CCNGG 1 cut(s) 600
MvaI CCWGG 1 cut(s) 600
MvnI CGCG 3 cut(s) 77, 217, 525
MwoI GCNNNNNNNGC 1 cut(s) 276
NdeII GATC 2 cut(s) 171, 346
NlaIII CATG 2 cut(s) 9, 475
NlaIV GGNNCC 2 cut(s) 11, 81
NmuCI GTSAC 2 cut(s) 112, 839
NspV TTCGAA 1 cut(s) 455
PcsI WCGNNNNNNNCGW 1 cut(s) 843
PfeI GAWTC 1 cut(s) 622
PkrI GCNGC 1 cut(s) 597
PleI GAGTC 2 cut(s) 301, 623
PmaCI CACGTG 1 cut(s) 117
PmlI CACGTG 1 cut(s) 117
PpsI GAGTC 2 cut(s) 301, 623
Ppu21I YACGTR 1 cut(s) 117
PsiI TTATAA 1 cut(s) 822
Psp124BI GAGCTC 1 cut(s) 552
Psp6I CCWGG 1 cut(s) 598
PspCI CACGTG 1 cut(s) 117
PspFI CCCAGC 1 cut(s) 17
PspGI CCWGG 1 cut(s) 598
PspN4I GGNNCC 2 cut(s) 11, 81
PspPI GGNCC 3 cut(s) 10, 56, 679
RsaI GTAC 3 cut(s) 62, 370, 591
RsaNI GTAC 3 cut(s) 61, 369, 590
RseI CAYNNNNRTG 1 cut(s) 476
SacI GAGCTC 1 cut(s) 552
SacII CCGCGG 1 cut(s) 78
SaqAI TTAA 2 cut(s) 149, 386
SatI GCNGC 1 cut(s) 596
Sau3AI GATC 2 cut(s) 171, 346
Sau96I GGNCC 3 cut(s) 10, 56, 679
SchI GAGTC 2 cut(s) 302, 623
ScrFI CCNGG 1 cut(s) 600
SduI GDGCHC 2 cut(s) 452, 552
SfaNI GCATC 2 cut(s) 236, 679
Sfr303I CCGCGG 1 cut(s) 78
SfuI TTCGAA 1 cut(s) 455
SgrBI CCGCGG 1 cut(s) 78
SinI GGWCC 1 cut(s) 10
SmiMI CAYNNNNRTG 1 cut(s) 476
SmlI CTYRAG 4 cut(s) 440, 551, 564, 665
SmoI CTYRAG 4 cut(s) 440, 551, 564, 665
SsiI CCGC 9 cut(s) 13, 23, 75, 77, 141, 215, 249, 270, 525
SspI AATATT 1 cut(s) 415
SspMI CTAG 1 cut(s) 350
SstI GAGCTC 1 cut(s) 552
StyD4I CCNGG 1 cut(s) 598
TaaI ACNGT 1 cut(s) 839
TaiI ACGT 1 cut(s) 119
TaqI TCGA 1 cut(s) 455
TfiI GAWTC 1 cut(s) 622
Tru1I TTAA 2 cut(s) 149, 386
Tru9I TTAA 2 cut(s) 149, 386
TscAI CASTG 2 cut(s) 58, 677
TseFI GTSAC 2 cut(s) 112, 839
TseI GCWGC 1 cut(s) 595
Tsp45I GTSAC 2 cut(s) 112, 839
TspDTI ATGAA 2 cut(s) 744, 825
TspRI CASTG 2 cut(s) 58, 677
VpaK11BI GGWCC 1 cut(s) 10
XbaI TCTAGA 1 cut(s) 349
XspI CTAG 1 cut(s) 350
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.