MD15G1357300.v1.1

DNA-directed RNA polymerase III subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr15
OG0000459
Physical Location & Seq
Reverse (-)
43099903 .. 43104316
4414 bp
Loading structure...
UTR
Exon/CDS
Intron
MD15G1357300.v1.1.491

Sequence Viewer

Length: 639 bp
ATGGCATACAGAGGGCGTGGTCGCGGTGGATTTTCGGGTGGTGGCGGTTTTGGCTTTGCTAAGCAAGAGCCCTTTGTGCTTTTTCCTGACATTGATTTGCCTATTCCCAAAGGTATATCTGATCTACAGCAAAAAACAGACGCTGTTATTGAGGAAGAAAACTTAATCAATCAAACTCGCAAGTTCCAAAAAATTTGGAAAGAGTCTCCTTATTATCTTGAGCAAAGCACTTCGAATGAGAGGCAAAACGAAGATGTAGAAAGATATTCTGACAGAACAAAGCCAAAAACCACGATAAGACGCGGTTCTCTTTTTAGTATATTGGAGCTCAAGGGATTTCCTCAAGAACTGACCGGAGGTTCAAGGGTGCAGCAGCCAGGTCGAAAGAGAGTTCGATGGAATCCTAACTCAGGGCTGGAGAAGTTGGATTTATTTGAAAAGCTCGAGCAGCGTCAGGGCCAAAATGATACAAAAGAAAAGAAAGAAGGTGAAGGTGAGGATGAAGATGAAAATGAAGAGGAGGAGGAACAAGAGGAGGAGGACTTTAGTGATGATGATTATTATAAGGGTTTTGATGTTGATGATGATGAAGATGATTATAATATGGAAGATGACGGTGACGACGAACCCCTTTTATAG
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

213

Amino Acids

24.58

Weight (kDa)

4.36

Isoelectric Point (pI)

57.88

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_3_Rpc31 PF11705 21 - 208 1.2e-15 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
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Publication-ready
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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 2 cut(s) 564, 600
AccII CGCG 2 cut(s) 24, 303
AciI CCGC 3 cut(s) 24, 45, 303
AcsI RAATTY 1 cut(s) 192
AfiI CCNNNNNNNGG 1 cut(s) 410
AgsI TTSAA 2 cut(s) 363, 437
AjnI CCWGG 1 cut(s) 376
AluBI AGCT 2 cut(s) 328, 442
AluI AGCT 2 cut(s) 328, 442
Alw21I GWGCWC 1 cut(s) 330
Alw26I GTCTC 1 cut(s) 210
AlwNI CAGNNNCTG 1 cut(s) 143
Ama87I CYCGRG 1 cut(s) 443
AoxI GGCC 1 cut(s) 457
ApeKI GCWGC 3 cut(s) 370, 373, 448
ApoI RAATTY 1 cut(s) 192
AspS9I GGNCC 1 cut(s) 457
AsuHPI GGTGA 3 cut(s) 500, 506, 629
AsuII TTCGAA 1 cut(s) 233
AvaI CYCGRG 1 cut(s) 443
BanII GRGCYC 2 cut(s) 72, 330
Bbv12I GWGCWC 1 cut(s) 330
BbvI GCAGC 3 cut(s) 382, 385, 460
BccI CCATC 1 cut(s) 390
BcgI CGANNNNNNTGC 2 cut(s) 362, 396
BciT130I CCWGG 1 cut(s) 378
BcoDI GTCTC 1 cut(s) 210
BfmI CTRYAG 1 cut(s) 125
BisI GCNGC 3 cut(s) 371, 374, 449
BlpI GCTNAGC 1 cut(s) 60
BlsI GCNGC 3 cut(s) 372, 375, 450
Bme1390I CCNGG 1 cut(s) 378
BmeT110I CYCGRG 1 cut(s) 443
BmgT120I GGNCC 1 cut(s) 457
BmrFI CCNGG 1 cut(s) 378
BpmI CTGGAG 1 cut(s) 437
Bpu1102I GCTNAGC 1 cut(s) 60
Bpu14I TTCGAA 1 cut(s) 233
BpuEI CTTGAG 3 cut(s) 239, 314, 327
BsaWI WCCGGW 1 cut(s) 353
Bsc4I CCNNNNNNNGG 1 cut(s) 410
BseBI CCWGG 1 cut(s) 378
BseGI GGATG 1 cut(s) 505
BseLI CCNNNNNNNGG 1 cut(s) 410
BseMII CTCAG 1 cut(s) 423
BseRI GAGGAG 4 cut(s) 533, 536, 548, 551
BseXI GCAGC 3 cut(s) 382, 385, 460
BsgI GTGCAG 1 cut(s) 389
Bsh1236I CGCG 2 cut(s) 24, 303
BshFI GGCC 1 cut(s) 459
BsiHKAI GWGCWC 1 cut(s) 330
BsiHKCI CYCGRG 1 cut(s) 443
BsiSI CCGG 1 cut(s) 354
BslI CCNNNNNNNGG 1 cut(s) 410
BsmAI GTCTC 1 cut(s) 210
BsnI GGCC 1 cut(s) 459
BsoBI CYCGRG 1 cut(s) 443
Bsp119I TTCGAA 1 cut(s) 233
Bsp1286I GDGCHC 2 cut(s) 72, 330
Bsp143I GATC 1 cut(s) 121
Bsp1720I GCTNAGC 1 cut(s) 60
BspACI CCGC 3 cut(s) 24, 45, 303
BspANI GGCC 1 cut(s) 459
BspCNI CTCAG 1 cut(s) 422
BspFNI CGCG 2 cut(s) 24, 303
BspT104I TTCGAA 1 cut(s) 233
BssMI GATC 1 cut(s) 121
Bst2UI CCWGG 1 cut(s) 378
Bst4CI ACNGT 1 cut(s) 617
Bst6I CTCTTC 1 cut(s) 510
BstBI TTCGAA 1 cut(s) 233
BstDEI CTNAG 2 cut(s) 60, 409
BstENI CCTNNNNNAGG 1 cut(s) 408
BstF5I GGATG 1 cut(s) 505
BstFNI CGCG 2 cut(s) 24, 303
BstKTI GATC 1 cut(s) 124
BstMAI GTCTC 1 cut(s) 210
BstMBI GATC 1 cut(s) 121
BstMWI GCNNNNNNNGC 3 cut(s) 51, 76, 448
BstNI CCWGG 1 cut(s) 378
BstSCI CCNGG 1 cut(s) 376
BstSFI CTRYAG 1 cut(s) 125
BstUI CGCG 2 cut(s) 24, 303
BstV1I GCAGC 3 cut(s) 382, 385, 460
BsuRI GGCC 1 cut(s) 459
BtsCI GGATG 1 cut(s) 505
CaiI CAGNNNCTG 1 cut(s) 143
Cfr13I GGNCC 1 cut(s) 457
CseI GACGC 3 cut(s) 149, 309, 440
CviJI RGCY 8 cut(s) 54, 70, 283, 328, 376, 415, 442, 459
CviKI_1 RGCY 8 cut(s) 54, 70, 283, 328, 376, 415, 442, 459
DdeI CTNAG 2 cut(s) 60, 409
DpnI GATC 1 cut(s) 123
DpnII GATC 1 cut(s) 121
Eam1104I CTCTTC 1 cut(s) 510
EarI CTCTTC 1 cut(s) 510
Ecl136II GAGCTC 1 cut(s) 328
Eco24I GRGCYC 2 cut(s) 72, 330
Eco53kI GAGCTC 1 cut(s) 328
Eco88I CYCGRG 1 cut(s) 443
EcoICRI GAGCTC 1 cut(s) 328
EcoNI CCTNNNNNAGG 1 cut(s) 408
EcoRII CCWGG 1 cut(s) 376
EcoT38I GRGCYC 2 cut(s) 72, 330
FaiI YATR 7 cut(s) 7, 116, 320, 564, 600, 605, 637
Fnu4HI GCNGC 3 cut(s) 371, 374, 449
FokI GGATG 1 cut(s) 512
FriOI GRGCYC 2 cut(s) 72, 330
Fsp4HI GCNGC 3 cut(s) 371, 374, 449
GluI GCNGC 3 cut(s) 371, 374, 449
GsuI CTGGAG 1 cut(s) 437
HaeIII GGCC 1 cut(s) 459
HapII CCGG 1 cut(s) 354
HgaI GACGC 3 cut(s) 149, 309, 440
HinfI GANTC 2 cut(s) 203, 400
HpaII CCGG 1 cut(s) 354
HphI GGTGA 3 cut(s) 500, 506, 629
Hpy188I TCNGA 2 cut(s) 121, 271
Hpy188III TCNNGA 3 cut(s) 86, 218, 344
Hpy99I CGWCG 1 cut(s) 626
HpyAV CCTTC 2 cut(s) 479, 485
HpyCH4III ACNGT 1 cut(s) 617
HpyCH4V TGCA 1 cut(s) 370
HpyF10VI GCNNNNNNNGC 3 cut(s) 51, 76, 448
HpyF3I CTNAG 2 cut(s) 60, 409
Kzo9I GATC 1 cut(s) 121
LmnI GCTCC 1 cut(s) 325
LpnPI CCDG 7 cut(s) 99, 363, 367, 390, 396, 401, 440
Lsp1109I GCAGC 3 cut(s) 382, 385, 460
MaeIII GTNAC 1 cut(s) 617
MalI GATC 1 cut(s) 123
MboI GATC 1 cut(s) 121
MboII GAAGA 6 cut(s) 167, 263, 515, 527, 602, 620
MhlI GDGCHC 2 cut(s) 72, 330
MluCI AATT 1 cut(s) 192
MlyI GAGTC 1 cut(s) 212
MmeI TCCRAC 1 cut(s) 405
MseI TTAA 1 cut(s) 164
MspI CCGG 1 cut(s) 354
MspR9I CCNGG 1 cut(s) 378
MvaI CCWGG 1 cut(s) 378
MvnI CGCG 2 cut(s) 24, 303
MwoI GCNNNNNNNGC 3 cut(s) 51, 76, 448
NdeII GATC 1 cut(s) 121
NmuCI GTSAC 1 cut(s) 617
NspV TTCGAA 1 cut(s) 233
PaeR7I CTCGAG 1 cut(s) 443
PcsI WCGNNNNNNNCGW 1 cut(s) 621
PfeI GAWTC 1 cut(s) 400
PkrI GCNGC 3 cut(s) 372, 375, 450
PleI GAGTC 1 cut(s) 211
PpsI GAGTC 1 cut(s) 211
PsiI TTATAA 2 cut(s) 564, 600
Psp124BI GAGCTC 1 cut(s) 330
Psp6I CCWGG 1 cut(s) 376
PspGI CCWGG 1 cut(s) 376
PspPI GGNCC 1 cut(s) 457
PspXI VCTCGAGB 1 cut(s) 443
PstNI CAGNNNCTG 1 cut(s) 143
SacI GAGCTC 1 cut(s) 330
SaqAI TTAA 1 cut(s) 164
SatI GCNGC 3 cut(s) 371, 374, 449
Sau3AI GATC 1 cut(s) 121
Sau96I GGNCC 1 cut(s) 457
SchI GAGTC 1 cut(s) 212
ScrFI CCNGG 1 cut(s) 378
SduI GDGCHC 2 cut(s) 72, 330
SetI ASST 7 cut(s) 115, 330, 361, 382, 444, 490, 496
SfcI CTRYAG 1 cut(s) 125
Sfr274I CTCGAG 1 cut(s) 443
SfuI TTCGAA 1 cut(s) 233
SlaI CTCGAG 1 cut(s) 443
SmlI CTYRAG 4 cut(s) 218, 329, 342, 443
SmoI CTYRAG 4 cut(s) 218, 329, 342, 443
Sse9I AATT 1 cut(s) 192
SsiI CCGC 3 cut(s) 24, 45, 303
SstI GAGCTC 1 cut(s) 330
StyD4I CCNGG 1 cut(s) 376
TaaI ACNGT 1 cut(s) 617
TaqI TCGA 4 cut(s) 233, 382, 394, 444
TasI AATT 1 cut(s) 192
TfiI GAWTC 1 cut(s) 400
Tru1I TTAA 1 cut(s) 164
Tru9I TTAA 1 cut(s) 164
TseFI GTSAC 1 cut(s) 617
TseI GCWGC 3 cut(s) 370, 373, 448
Tsp45I GTSAC 1 cut(s) 617
TspDTI ATGAA 4 cut(s) 516, 522, 528, 603
XagI CCTNNNNNAGG 1 cut(s) 408
XapI RAATTY 1 cut(s) 192
XhoI CTCGAG 1 cut(s) 443
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.