Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr02

Orthogroup ID

OG0003037

Physical Location & Seq

Genomic Coordinates Reverse (-)

6960627 .. 6963332

Gene Structure 2706 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD02G1088300.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 804 bp

ATGTTACACTTATGCGAAGCGGACCATGTGACGGAGGAGTCTGATGCTGAAAAGGCTAGGGAACTGCTGAAACGATTCAGTGAAAGATCAATACACGCAAGGCCGAAAGATGAAAAGAAATTGGCGCCTACACAAATTGCATTTGGTGGTGCTGCATCCACATCCGTGAAAGTGTATGGTGCTCAGAAAGGTGGGAGTACTTCAGCCACTGATGCTGCTGCCTCGGGCATGAAAGTGGAGAAAGAATACGGTTCGCCATGGAATCAGTACAGTTATTACCCTGTAACTCTTCCTCTCAGACCGCCATATTCCGGTGATCCTGAAATTCGTAATCAGGAAGAATTTGGAGACGGTTCGGAGGAGTCAACTTATGATGAAAACTCAACAAAACCGGCAAATGATCTTGATCTATTGGAGGAAAATAAAGCAACAAGTATGTTCTTTCTTCAGTTACCGCAGTATCTGCCTATGATGAAACGATCAGCTACAGCAGATGGCCCTGAGGCAACAAAAAGCTCACGGCCACCAGGAAGCGCACACAACATGCAGAAGTTTTGTGCTTTGTCTGATTTACCACCTGGCCACATGGGTAAGATGCTGGTGTACAGAAGCGGTGCTATCAAGCTGAAGCTAGGAGATACCCTTTTCGATGTCTCCTCAGGAATGAAGTGTGGTTTTGCCCAGGATCTTGTGGTTACTAATGAGAACGAGAAGGGATTTGGTACTATCGGCGAGCTGAACAAGCGAGCCATTGCAACCCCAGATATTGACTCCATTTTGGAAAGTGTAGATGGTTTATTCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001817 GO:0001819 GO:0002682 GO:0002684 GO:0003674 GO:0003682 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0005737 GO:0005829 GO:0008150 GO:0016604 GO:0016607 GO:0030880 GO:0031347 GO:0031349 GO:0031974 GO:0031981 GO:0032479 GO:0032481 GO:0032648 GO:0032728 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045088 GO:0045089 GO:0048518 GO:0048583 GO:0048584 GO:0050776 GO:0050778 GO:0050789 GO:0051239 GO:0051240 GO:0055029 GO:0061695 GO:0065007 GO:0070013 GO:0080134 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

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

Pfam Domains

Protein Families

RNA_pol_Rpc4

Protein Analysis

268

Amino Acids

29.1

Weight (kDa)

5.18

Isoelectric Point (pI)

43.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpc4	PF05132	145 - 256	3.6e-24	RNA polymerase III RPC4

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003037)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G09380 AT5G09380 AT5G09380
fragaria_vesca	FvH4_1g08400 FvH4_1g08400 FvH4_7g27240 FvH4_7g27240
malus_domestica	MD01G1181300.v1.1 MD02G1088300.v1.1 MD07G1251400.v1.1
prunus_persica	Prupe.2G275200_v2.0.a1 Prupe.7G201300_v2.0.a1
pyrus_communis	pycom02g07090 pycom07g22410
rosa_chinensis	RchiOBHm_Chr1g0374021 RchiOBHm_Chr2g0094511 RchiOBHm_Chr3g0487921
rosa_laevigata	RLG00000016497 RLG00000026785
rosa_multiflora	Rmu_sc0004359.1_g000044 Rmu_sc0006924.1_g000006 Rmu_sc0009793.1_g000002
rosa_roxburghii	Rroxscaffold_2G00147110 Rroxscaffold_4G00283820
rosa_rugosa	Rorug01G0380300 Rorug02G0044300.1
rosa_samantha	Rh1AG390800 Rh1BG354900 Rh1CG368000 Rh1DG385600 Rh2AG092600 Rh2BG092800 Rh2CG095300 Rh2DG091700 Rh3AG285100 Rh6AG149200
rosa_wichuraiana	Rw1G034440 Rw6G012910

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	37
AccB1I	GGYRCC	1 cut(s)	124
AciI	CCGC	4 cut(s)	20, 302, 455, 612
AclWI	GGATC	2 cut(s)	311, 693
AcoI	YGGCCR	2 cut(s)	521, 580
AcsI	RAATTY	2 cut(s)	324, 341
AcuI	CTGAAG	3 cut(s)	186, 431, 647
AcyI	GRCGYC	1 cut(s)	125
AfaI	GTAC	4 cut(s)	199, 269, 605, 724
AfiI	CCNNNNNNNGG	2 cut(s)	31, 311
AjnI	CCWGG	3 cut(s)	526, 577, 681
AleI	CACNNNNGTG	1 cut(s)	164
AluBI	AGCT	5 cut(s)	485, 516, 625, 631, 736
AluI	AGCT	5 cut(s)	485, 516, 625, 631, 736
Alw21I	GWGCWC	1 cut(s)	184
Alw26I	GTCTC	2 cut(s)	342, 658
AlwI	GGATC	2 cut(s)	311, 693
AlwNI	CAGNNNCTG	2 cut(s)	209, 463
Ama87I	CYCGRG	1 cut(s)	223
AoxI	GGCC	4 cut(s)	101, 496, 521, 580
ApeKI	GCWGC	3 cut(s)	152, 215, 218
ApoI	RAATTY	2 cut(s)	324, 341
Asp700I	GAANNNNTTC	1 cut(s)	74
AspLEI	GCGC	2 cut(s)	127, 536
AspS9I	GGNCC	2 cut(s)	22, 497
AsuHPI	GGTGA	1 cut(s)	326
AvaI	CYCGRG	1 cut(s)	223
AvaII	GGWCC	1 cut(s)	22
AxyI	CCTNAGG	2 cut(s)	501, 658
BaeI	ACNNNNGTAYC	2 cut(s)	443, 476
BalI	TGGCCA	1 cut(s)	582
BanI	GGYRCC	1 cut(s)	124
Bbv12I	GWGCWC	1 cut(s)	184
BbvI	GCAGC	3 cut(s)	139, 202, 205
BccI	CCATC	2 cut(s)	488, 785
BceAI	ACGGC	1 cut(s)	536
BciT130I	CCWGG	3 cut(s)	528, 579, 683
BcoDI	GTCTC	2 cut(s)	342, 658
BfaI	CTAG	3 cut(s)	57, 632, 802
BfmI	CTRYAG	1 cut(s)	486
BfoI	RGCGCY	1 cut(s)	128
BisI	GCNGC	3 cut(s)	153, 216, 219
BlsI	GCNGC	3 cut(s)	154, 217, 220
BmcAI	AGTACT	1 cut(s)	199
Bme1390I	CCNGG	3 cut(s)	528, 579, 683
Bme18I	GGWCC	1 cut(s)	22
BmeT110I	CYCGRG	1 cut(s)	223
BmgT120I	GGNCC	2 cut(s)	22, 497
BmiI	GGNNCC	1 cut(s)	126
BmrFI	CCNGG	3 cut(s)	528, 579, 683
BmsI	GCATC	4 cut(s)	34, 164, 202, 585
BsaBI	GATNNNNATC	1 cut(s)	405
BsaHI	GRCGYC	1 cut(s)	125
BsaJI	CCNNGG	3 cut(s)	222, 257, 681
BsaWI	WCCGGW	1 cut(s)	311
Bsc4I	CCNNNNNNNGG	2 cut(s)	31, 311
Bse118I	RCCGGY	1 cut(s)	391
Bse21I	CCTNAGG	2 cut(s)	501, 658
Bse3DI	GCAATG	1 cut(s)	750
Bse8I	GATNNNNATC	1 cut(s)	405
BseBI	CCWGG	3 cut(s)	528, 579, 683
BseDI	CCNNGG	3 cut(s)	222, 257, 681
BseGI	GGATG	2 cut(s)	155, 161
BseJI	GATNNNNATC	1 cut(s)	405
BseLI	CCNNNNNNNGG	2 cut(s)	31, 311
BseMI	GCAATG	1 cut(s)	750
BseMII	CTCAG	4 cut(s)	197, 310, 492, 672
BseRI	GAGGAG	3 cut(s)	50, 374, 646
BseXI	GCAGC	3 cut(s)	139, 202, 205
BshFI	GGCC	4 cut(s)	103, 498, 523, 582
BshNI	GGYRCC	1 cut(s)	124
BsiHKAI	GWGCWC	1 cut(s)	184
BsiHKCI	CYCGRG	1 cut(s)	223
BsiSI	CCGG	2 cut(s)	312, 392
BslI	CCNNNNNNNGG	2 cut(s)	31, 311
BsmAI	GTCTC	2 cut(s)	342, 658
BsmBI	CGTCTC	1 cut(s)	342
BsnI	GGCC	4 cut(s)	103, 498, 523, 582
BsoBI	CYCGRG	1 cut(s)	223
Bsp1286I	GDGCHC	1 cut(s)	184
Bsp1407I	TGTACA	1 cut(s)	603
Bsp143I	GATC	6 cut(s)	86, 316, 400, 406, 479, 685
Bsp19I	CCATGG	1 cut(s)	257
BspACI	CCGC	4 cut(s)	20, 302, 455, 612
BspANI	GGCC	4 cut(s)	103, 498, 523, 582
BspCNI	CTCAG	4 cut(s)	196, 309, 493, 671
BspLI	GGNNCC	1 cut(s)	126
BspPI	GGATC	2 cut(s)	311, 693
BspT107I	GGYRCC	1 cut(s)	124
BsrDI	GCAATG	1 cut(s)	750
BsrFI	RCCGGY	1 cut(s)	391
BsrGI	TGTACA	1 cut(s)	603
BssAI	RCCGGY	1 cut(s)	391
BssECI	CCNNGG	3 cut(s)	222, 257, 681
BssMI	GATC	6 cut(s)	86, 316, 400, 406, 479, 685
BssNI	GRCGYC	1 cut(s)	125
BssT1I	CCWWGG	1 cut(s)	257
Bst2UI	CCWGG	3 cut(s)	528, 579, 683
Bst4CI	ACNGT	3 cut(s)	251, 272, 353
Bst6I	CTCTTC	1 cut(s)	294
BstACI	GRCGYC	1 cut(s)	125
BstAPI	GCANNNNNTGC	1 cut(s)	463
BstAUI	TGTACA	1 cut(s)	603
BstC8I	GCNNGC	2 cut(s)	734, 747
BstDEI	CTNAG	4 cut(s)	183, 296, 501, 658
BstDSI	CCRYGG	1 cut(s)	257
BstF5I	GGATG	2 cut(s)	155, 161
BstH2I	RGCGCY	1 cut(s)	128
BstHHI	GCGC	2 cut(s)	127, 536
BstKTI	GATC	6 cut(s)	89, 319, 403, 409, 482, 688
BstMAI	GTCTC	2 cut(s)	342, 658
BstMBI	GATC	6 cut(s)	86, 316, 400, 406, 479, 685
BstMWI	GCNNNNNNNGC	4 cut(s)	53, 212, 463, 742
BstNI	CCWGG	3 cut(s)	528, 579, 683
BstNSI	RCATGY	1 cut(s)	547
BstSCI	CCNGG	3 cut(s)	526, 577, 681
BstSFI	CTRYAG	1 cut(s)	486
BstV1I	GCAGC	3 cut(s)	139, 202, 205
BstX2I	RGATCY	1 cut(s)	685
BstYI	RGATCY	1 cut(s)	685
Bsu36I	CCTNAGG	2 cut(s)	501, 658
BsuRI	GGCC	4 cut(s)	103, 498, 523, 582
BtgI	CCRYGG	1 cut(s)	257
BtsCI	GGATG	2 cut(s)	155, 161
BtsIMutI	CAGTG	2 cut(s)	85, 207
Cac8I	GCNNGC	2 cut(s)	734, 747
CaiI	CAGNNNCTG	2 cut(s)	209, 463
CfoI	GCGC	2 cut(s)	127, 536
Cfr10I	RCCGGY	1 cut(s)	391
Cfr13I	GGNCC	2 cut(s)	22, 497
Csp6I	GTAC	4 cut(s)	198, 268, 604, 723
CviAII	CATG	5 cut(s)	26, 229, 258, 544, 586
CviQI	GTAC	4 cut(s)	198, 268, 604, 723
DdeI	CTNAG	4 cut(s)	183, 296, 501, 658
DinI	GGCGCC	1 cut(s)	126
DpnI	GATC	6 cut(s)	88, 318, 402, 408, 481, 687
DpnII	GATC	6 cut(s)	86, 316, 400, 406, 479, 685
DrdI	GACNNNNNNGTC	1 cut(s)	37
DseDI	GACNNNNNNGTC	1 cut(s)	37
EaeI	YGGCCR	2 cut(s)	521, 580
Eam1104I	CTCTTC	1 cut(s)	294
EarI	CTCTTC	1 cut(s)	294
Eco130I	CCWWGG	1 cut(s)	257
Eco47I	GGWCC	1 cut(s)	22
Eco57I	CTGAAG	3 cut(s)	186, 431, 647
Eco81I	CCTNAGG	2 cut(s)	501, 658
Eco88I	CYCGRG	1 cut(s)	223
EcoRII	CCWGG	3 cut(s)	526, 577, 681
EcoT14I	CCWWGG	1 cut(s)	257
EgeI	GGCGCC	1 cut(s)	126
EheI	GGCGCC	1 cut(s)	126
ErhI	CCWWGG	1 cut(s)	257
Esp3I	CGTCTC	1 cut(s)	342
FaeI	CATG	5 cut(s)	29, 232, 261, 547, 589
FatI	CATG	5 cut(s)	25, 228, 257, 543, 585
Fnu4HI	GCNGC	3 cut(s)	153, 216, 219
FokI	GGATG	2 cut(s)	142, 148
Fsp4HI	GCNGC	3 cut(s)	153, 216, 219
FspBI	CTAG	3 cut(s)	57, 632, 802
GlaI	GCGC	2 cut(s)	126, 535
GluI	GCNGC	3 cut(s)	153, 216, 219
HaeII	RGCGCY	1 cut(s)	128
HaeIII	GGCC	4 cut(s)	103, 498, 523, 582
HapII	CCGG	2 cut(s)	312, 392
HhaI	GCGC	2 cut(s)	127, 536
Hin1I	GRCGYC	1 cut(s)	125
Hin1II	CATG	5 cut(s)	29, 232, 261, 547, 589
Hin6I	GCGC	2 cut(s)	125, 534
HinP1I	GCGC	2 cut(s)	125, 534
HincII	GTYRAC	1 cut(s)	366
HindII	GTYRAC	1 cut(s)	366
HinfI	GANTC	5 cut(s)	38, 75, 262, 362, 770
HpaII	CCGG	2 cut(s)	312, 392
HphI	GGTGA	1 cut(s)	326
Hpy166II	GTNNAC	2 cut(s)	366, 604
Hpy188I	TCNGA	5 cut(s)	43, 186, 299, 358, 568
Hpy188III	TCNNGA	4 cut(s)	320, 335, 404, 660
Hpy8I	GTNNAC	2 cut(s)	366, 604
HpyAV	CCTTC	1 cut(s)	706
HpyCH4III	ACNGT	3 cut(s)	251, 272, 353
HpyCH4V	TGCA	4 cut(s)	140, 155, 547, 755
HpyF10VI	GCNNNNNNNGC	4 cut(s)	53, 212, 463, 742
HpyF3I	CTNAG	4 cut(s)	183, 296, 501, 658
Hsp92I	GRCGYC	1 cut(s)	125
Hsp92II	CATG	5 cut(s)	29, 232, 261, 547, 589
HspAI	GCGC	2 cut(s)	125, 534
KasI	GGCGCC	1 cut(s)	124
Kzo9I	GATC	6 cut(s)	86, 316, 400, 406, 479, 685
Lsp1109I	GCAGC	3 cut(s)	139, 202, 205
LweI	GCATC	4 cut(s)	34, 164, 202, 585
MaeI	CTAG	3 cut(s)	57, 632, 802
MaeIII	GTNAC	5 cut(s)	3, 28, 283, 450, 694
MalI	GATC	6 cut(s)	88, 318, 402, 408, 481, 687
MboI	GATC	6 cut(s)	86, 316, 400, 406, 479, 685
MboII	GAAGA	3 cut(s)	281, 350, 437
MflI	RGATCY	1 cut(s)	685
MhlI	GDGCHC	1 cut(s)	184
MlsI	TGGCCA	1 cut(s)	582
MluCI	AATT	4 cut(s)	119, 135, 324, 341
MluNI	TGGCCA	1 cut(s)	582
Mly113I	GGCGCC	1 cut(s)	125
MlyI	GAGTC	3 cut(s)	47, 371, 764
MnlI	CCTC	7 cut(s)	28, 232, 303, 352, 409, 496, 667
Mox20I	TGGCCA	1 cut(s)	582
MroXI	GAANNNNTTC	1 cut(s)	74
MscI	TGGCCA	1 cut(s)	582
MslI	CAYNNNNRTG	2 cut(s)	164, 233
Msp20I	TGGCCA	1 cut(s)	582
MspI	CCGG	2 cut(s)	312, 392
MspR9I	CCNGG	3 cut(s)	528, 579, 683
MvaI	CCWGG	3 cut(s)	528, 579, 683
MwoI	GCNNNNNNNGC	4 cut(s)	53, 212, 463, 742
NarI	GGCGCC	1 cut(s)	125
NcoI	CCATGG	1 cut(s)	257
NdeII	GATC	6 cut(s)	86, 316, 400, 406, 479, 685
NlaIII	CATG	5 cut(s)	29, 232, 261, 547, 589
NlaIV	GGNNCC	1 cut(s)	126
NmuCI	GTSAC	1 cut(s)	28
NspI	RCATGY	1 cut(s)	547
OliI	CACNNNNGTG	1 cut(s)	164
PdmI	GAANNNNTTC	1 cut(s)	74
PfeI	GAWTC	2 cut(s)	75, 262
PkrI	GCNGC	3 cut(s)	154, 217, 220
PleI	GAGTC	3 cut(s)	46, 370, 764
PluTI	GGCGCC	1 cut(s)	128
PpsI	GAGTC	3 cut(s)	46, 370, 764
Psp6I	CCWGG	3 cut(s)	526, 577, 681
PspGI	CCWGG	3 cut(s)	526, 577, 681
PspN4I	GGNNCC	1 cut(s)	126
PspPI	GGNCC	2 cut(s)	22, 497
PstNI	CAGNNNCTG	2 cut(s)	209, 463
PsuI	RGATCY	1 cut(s)	685
RsaI	GTAC	4 cut(s)	199, 269, 605, 724
RsaNI	GTAC	4 cut(s)	198, 268, 604, 723
RseI	CAYNNNNRTG	2 cut(s)	164, 233
SatI	GCNGC	3 cut(s)	153, 216, 219
Sau3AI	GATC	6 cut(s)	86, 316, 400, 406, 479, 685
Sau96I	GGNCC	2 cut(s)	22, 497
ScaI	AGTACT	1 cut(s)	199
SchI	GAGTC	3 cut(s)	47, 371, 764
ScrFI	CCNGG	3 cut(s)	528, 579, 683
SduI	GDGCHC	1 cut(s)	184
SetI	ASST	7 cut(s)	193, 487, 518, 580, 627, 633, 738
SfaNI	GCATC	4 cut(s)	34, 164, 202, 585
SfcI	CTRYAG	1 cut(s)	486
SfoI	GGCGCC	1 cut(s)	126
SinI	GGWCC	1 cut(s)	22
SmiMI	CAYNNNNRTG	2 cut(s)	164, 233
Sse9I	AATT	4 cut(s)	119, 135, 324, 341
SsiI	CCGC	4 cut(s)	20, 302, 455, 612
SspDI	GGCGCC	1 cut(s)	124
SspMI	CTAG	3 cut(s)	57, 632, 802
StyD4I	CCNGG	3 cut(s)	526, 577, 681
StyI	CCWWGG	1 cut(s)	257
TaaI	ACNGT	3 cut(s)	251, 272, 353
TaqI	TCGA	1 cut(s)	648
TasI	AATT	4 cut(s)	119, 135, 324, 341
TatI	WGTACW	3 cut(s)	197, 267, 603
TfiI	GAWTC	2 cut(s)	75, 262
TscAI	CASTG	2 cut(s)	85, 214
TseFI	GTSAC	1 cut(s)	28
TseI	GCWGC	3 cut(s)	152, 215, 218
Tsp45I	GTSAC	1 cut(s)	28
TspDTI	ATGAA	5 cut(s)	126, 245, 390, 488, 680
TspGWI	ACGGA	2 cut(s)	47, 154
TspRI	CASTG	2 cut(s)	85, 214
VpaK11BI	GGWCC	1 cut(s)	22
XapI	RAATTY	2 cut(s)	324, 341
XceI	RCATGY	1 cut(s)	547
XmnI	GAANNNNTTC	1 cut(s)	74
XspI	CTAG	3 cut(s)	57, 632, 802
ZrmI	AGTACT	1 cut(s)	199

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