Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr17

Orthogroup ID

OG0012428

Physical Location & Seq

Genomic Coordinates Forward (+)

28370531 .. 28372627

Gene Structure 2097 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD17G1234800.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 435 bp

ATGGCGGACGAAGATTACAATGATATGGACATCGGGTACGAGGATGAGCCGGTAGAGCCAGAGATTGAGGAAGGCGCAGAGGAGGTAGAGGATGCGGAGAATGCTAACGATGATCTTCCAGGCGATGCCATTGAAGTTGATGACAAAGAAGAAGAAGCACCGGTGGAACGACCGCGAAGAACATCCAAATTTATGACCAAATATGAACGTGCTAGAATATTGGGTACTCGTGCTGTGCAGATCAGCATGAATGCCCCTGTGATGGTTGAGTTGCAGGGTGAGACTGACCCGCTTGAGATTGCTATGAAGGAGCTTCGTGAGCGGAAGGTGCCCTTCACCATTCGCCGCTACCTGCCTGATGGAAGTTACGAAGATTGGGGAGTAGATGAGTTGATTGTGGAAGACTCGTGGAAGAGGCAGGTGGGAGGTGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005666 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006360 GO:0006366 GO:0006383 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016591 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05016 ko05169 map00230 map00240 map01100 map03020 map04623 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb6

Protein Analysis

145

Amino Acids

16.55

Weight (kDa)

4.16

Isoelectric Point (pI)

58.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb6	PF01192	61 - 112	1.7e-11	RNA polymerase Rpb6

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: OG0012428)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G04630 AT5G51940
fragaria_vesca	FvH4_2g14180
malus_domestica	MD09G1242800.v1.1 MD12G1011200.v1.1 MD17G1234800.v1.1
prunus_persica	Prupe.3G134400_v2.0.a1 Prupe.7G013200_v2.0.a1
pyrus_communis	pycom09g16110 pycom12g00870 pycom17g23820
rosa_chinensis	RchiOBHm_Chr6g0276321
rosa_laevigata	RLG00000013404
rosa_multiflora	Rmu_sc0003665.1_g000006
rosa_roxburghii	Rroxscaffold_7G00192390
rosa_rugosa	Rorug06G0099900 Rorug06G0100000
rosa_samantha	Rh6DG207900
rosa_wichuraiana	Rw6G018430

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	409
Acc36I	ACCTGC	2 cut(s)	360, 409
AccB1I	GGYRCC	1 cut(s)	328
AccBSI	CCGCTC	1 cut(s)	322
AccII	CGCG	1 cut(s)	175
AciI	CCGC	6 cut(s)	5, 95, 173, 290, 322, 346
AcsI	RAATTY	1 cut(s)	188
AfaI	GTAC	2 cut(s)	38, 226
AfiI	CCNNNNNNNGG	1 cut(s)	262
AgeI	ACCGGT	1 cut(s)	160
AgsI	TTSAA	1 cut(s)	134
AjnI	CCWGG	1 cut(s)	118
AluBI	AGCT	1 cut(s)	313
AluI	AGCT	1 cut(s)	313
Alw26I	GTCTC	1 cut(s)	275
ApoI	RAATTY	1 cut(s)	188
AsiGI	ACCGGT	1 cut(s)	160
AspLEI	GCGC	1 cut(s)	77
AsuHPI	GGTGA	2 cut(s)	290, 328
BaeGI	GKGCMC	1 cut(s)	333
BanI	GGYRCC	1 cut(s)	328
BauI	CACGAG	2 cut(s)	228, 406
BbsI	GAAGAC	1 cut(s)	408
BccI	CCATC	2 cut(s)	256, 353
BciT130I	CCWGG	1 cut(s)	120
BcoDI	GTCTC	1 cut(s)	275
BfaI	CTAG	1 cut(s)	213
BfuAI	ACCTGC	2 cut(s)	360, 409
BisI	GCNGC	1 cut(s)	346
BlsI	GCNGC	1 cut(s)	347
Bme1390I	CCNGG	1 cut(s)	120
BmiI	GGNNCC	1 cut(s)	330
BmrFI	CCNGG	1 cut(s)	120
BmsI	GCATC	2 cut(s)	82, 115
BpiI	GAAGAC	1 cut(s)	408
BpuEI	CTTGAG	1 cut(s)	314
BsaWI	WCCGGW	1 cut(s)	160
Bsc4I	CCNNNNNNNGG	1 cut(s)	262
Bse118I	RCCGGY	2 cut(s)	49, 160
BseBI	CCWGG	1 cut(s)	120
BseGI	GGATG	3 cut(s)	49, 97, 182
BseLI	CCNNNNNNNGG	1 cut(s)	262
BseRI	GAGGAG	1 cut(s)	95
BseSI	GKGCMC	1 cut(s)	333
BsgI	GTGCAG	1 cut(s)	257
Bsh1236I	CGCG	1 cut(s)	175
Bsh1285I	CGRYCG	1 cut(s)	173
BshNI	GGYRCC	1 cut(s)	328
BshTI	ACCGGT	1 cut(s)	160
BsiEI	CGRYCG	1 cut(s)	173
BsiSI	CCGG	2 cut(s)	50, 161
BslI	CCNNNNNNNGG	1 cut(s)	262
BsmAI	GTCTC	1 cut(s)	275
BsmI	GAATGC	2 cut(s)	106, 256
Bsp1286I	GDGCHC	1 cut(s)	333
Bsp143I	GATC	2 cut(s)	112, 240
BspACI	CCGC	6 cut(s)	5, 95, 173, 290, 322, 346
BspFNI	CGCG	1 cut(s)	175
BspLI	GGNNCC	1 cut(s)	330
BspMI	ACCTGC	2 cut(s)	360, 409
BspT107I	GGYRCC	1 cut(s)	328
BsrBI	CCGCTC	1 cut(s)	322
BsrFI	RCCGGY	2 cut(s)	49, 160
BssAI	RCCGGY	2 cut(s)	49, 160
BssMI	GATC	2 cut(s)	112, 240
BssSI	CACGAG	2 cut(s)	228, 406
Bst2BI	CACGAG	2 cut(s)	228, 406
Bst2UI	CCWGG	1 cut(s)	120
Bst6I	CTCTTC	1 cut(s)	407
BstF5I	GGATG	3 cut(s)	49, 97, 182
BstFNI	CGCG	1 cut(s)	175
BstHHI	GCGC	1 cut(s)	77
BstKTI	GATC	2 cut(s)	115, 243
BstMAI	GTCTC	1 cut(s)	275
BstMBI	GATC	2 cut(s)	112, 240
BstMCI	CGRYCG	1 cut(s)	173
BstMWI	GCNNNNNNNGC	4 cut(s)	55, 101, 319, 328
BstNI	CCWGG	1 cut(s)	120
BstSCI	CCNGG	1 cut(s)	118
BstSLI	GKGCMC	1 cut(s)	333
BstUI	CGCG	1 cut(s)	175
BstV2I	GAAGAC	1 cut(s)	408
BtgZI	GCGATG	1 cut(s)	138
BtsCI	GGATG	3 cut(s)	49, 97, 182
BveI	ACCTGC	2 cut(s)	360, 409
CfoI	GCGC	1 cut(s)	77
Cfr10I	RCCGGY	2 cut(s)	49, 160
Csp6I	GTAC	2 cut(s)	37, 225
CspAI	ACCGGT	1 cut(s)	160
CviAII	CATG	1 cut(s)	247
CviJI	RGCY	3 cut(s)	49, 58, 313
CviKI_1	RGCY	3 cut(s)	49, 58, 313
CviQI	GTAC	2 cut(s)	37, 225
DpnI	GATC	2 cut(s)	114, 242
DpnII	GATC	2 cut(s)	112, 240
Eam1104I	CTCTTC	1 cut(s)	407
EarI	CTCTTC	1 cut(s)	407
EciI	GGCGGA	1 cut(s)	20
EcoRII	CCWGG	1 cut(s)	118
FaeI	CATG	1 cut(s)	250
FaiI	YATR	5 cut(s)	26, 194, 204, 248, 305
FalI	AAGNNNNNCTT	2 cut(s)	317, 349
FatI	CATG	1 cut(s)	246
FauI	CCCGC	1 cut(s)	297
Fnu4HI	GCNGC	1 cut(s)	346
FokI	GGATG	3 cut(s)	56, 104, 169
Fsp4HI	GCNGC	1 cut(s)	346
FspBI	CTAG	1 cut(s)	213
GlaI	GCGC	1 cut(s)	76
GluI	GCNGC	1 cut(s)	346
HapII	CCGG	2 cut(s)	50, 161
HhaI	GCGC	1 cut(s)	77
Hin1II	CATG	1 cut(s)	250
Hin6I	GCGC	1 cut(s)	75
HinP1I	GCGC	1 cut(s)	75
HinfI	GANTC	1 cut(s)	404
HpaII	CCGG	2 cut(s)	50, 161
HphI	GGTGA	2 cut(s)	290, 328
Hpy188III	TCNNGA	1 cut(s)	317
HpyAV	CCTTC	4 cut(s)	65, 301, 319, 343
HpyCH4IV	ACGT	1 cut(s)	208
HpyCH4V	TGCA	2 cut(s)	238, 274
HpyF10VI	GCNNNNNNNGC	4 cut(s)	55, 101, 319, 328
HpySE526I	ACGT	1 cut(s)	208
Hsp92II	CATG	1 cut(s)	250
HspAI	GCGC	1 cut(s)	75
Kzo9I	GATC	2 cut(s)	112, 240
LmnI	GCTCC	1 cut(s)	310
LweI	GCATC	2 cut(s)	82, 115
MaeI	CTAG	1 cut(s)	213
MaeII	ACGT	1 cut(s)	208
MaeIII	GTNAC	1 cut(s)	365
MalI	GATC	2 cut(s)	114, 242
MbiI	CCGCTC	1 cut(s)	322
MboI	GATC	2 cut(s)	112, 240
MboII	GAAGA	8 cut(s)	23, 107, 161, 164, 189, 383, 413, 424
MhlI	GDGCHC	1 cut(s)	333
MluCI	AATT	1 cut(s)	188
MlyI	GAGTC	1 cut(s)	398
MnlI	CCTC	7 cut(s)	34, 61, 73, 76, 82, 408, 419
MspI	CCGG	2 cut(s)	50, 161
MspR9I	CCNGG	1 cut(s)	120
Mva1269I	GAATGC	2 cut(s)	106, 256
MvaI	CCWGG	1 cut(s)	120
MvnI	CGCG	1 cut(s)	175
MwoI	GCNNNNNNNGC	4 cut(s)	55, 101, 319, 328
NdeII	GATC	2 cut(s)	112, 240
NlaIII	CATG	1 cut(s)	250
NlaIV	GGNNCC	1 cut(s)	330
PaqCI	CACCTGC	1 cut(s)	409
PctI	GAATGC	2 cut(s)	106, 256
PinAI	ACCGGT	1 cut(s)	160
PkrI	GCNGC	1 cut(s)	347
PleI	GAGTC	1 cut(s)	398
PpsI	GAGTC	1 cut(s)	398
Psp6I	CCWGG	1 cut(s)	118
PspGI	CCWGG	1 cut(s)	118
PspN4I	GGNNCC	1 cut(s)	330
RsaI	GTAC	2 cut(s)	38, 226
RsaNI	GTAC	2 cut(s)	37, 225
SatI	GCNGC	1 cut(s)	346
Sau3AI	GATC	2 cut(s)	112, 240
SchI	GAGTC	1 cut(s)	398
ScrFI	CCNGG	1 cut(s)	120
SduI	GDGCHC	1 cut(s)	333
SetI	ASST	7 cut(s)	87, 211, 315, 330, 354, 423, 430
SfaNI	GCATC	2 cut(s)	82, 115
SgrAI	CRCCGGYG	1 cut(s)	160
SmlI	CTYRAG	1 cut(s)	293
SmoI	CTYRAG	1 cut(s)	293
Sse9I	AATT	1 cut(s)	188
SsiI	CCGC	6 cut(s)	5, 95, 173, 290, 322, 346
SspI	AATATT	1 cut(s)	219
SspMI	CTAG	1 cut(s)	213
StyD4I	CCNGG	1 cut(s)	118
TaiI	ACGT	1 cut(s)	211
TasI	AATT	1 cut(s)	188
TauI	GCSGC	1 cut(s)	348
TspDTI	ATGAA	3 cut(s)	219, 263, 320
XapI	RAATTY	1 cut(s)	188
XspI	CTAG	1 cut(s)	213

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