Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr03

Orthogroup ID

OG0003142

Physical Location & Seq

Genomic Coordinates Reverse (-)

23906038 .. 23909996

Gene Structure 3959 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD03G1174900.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 435 bp

ATGGTTGATCGTCTGTTCGAGGACATATTTCAGATTCTGCGATTGAACCCAGATGGCAAAAAGTTCGATAAAGTTACTCGAGTGGAAGCAAAGAGTGAGACTTGCGAGATGTTCATGCATCTGGATGTGAATTCAGAGGTGTATCCGATGAGGGAAGGTGAGAAATTCTCAATGGCTTTAACTTCCACAATCAATTTGGATGGAACTCCTGATACTGGTTATTTCACCCAGGGCAATCGCAGGACATTGGCTGATGAATATGAGTATGTCATGCAAGGGAAGCTTTTTAAGATTTCAGAAGGTTCTAAACGTGATCCAAAAGCGGAGGTAAATGCTTCATTTGGCGGGCTTTTGATGATGTTGAAGCGGGAAGCCTCACAATTCAAGAACTTTGAACTCGACCAGAGGATGTTTCTCCTCATAAGGAAGCTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003676 GO:0003677 GO:0003697 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005666 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006366 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016591 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0032993 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:0097159 GO:0097659 GO:1901360 GO:1901362 GO:1901363 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_Rpb8

Protein Analysis

145

Amino Acids

16.76

Weight (kDa)

5.93

Isoelectric Point (pI)

15.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb8	PF03870	7 - 143	3e-48	RNA polymerase Rpb8

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: OG0003142)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G54250 AT3G59600
fragaria_vesca	FvH4_7g05580 FvH4_7g05580 FvH4_7g05580 FvH4_7g05580 FvH4_7g05580 FvH4_7g05580 FvH4_7g05580
malus_domestica	MD03G1174900.v1.1 MD04G1053300.v1.1 MD05G1057600.v1.1 MD11G1193000.v1.1
prunus_persica	Prupe.4G249600_v2.0.a1 Prupe.4G249600_v2.0.a1
pyrus_communis	pycom03g13240 pycom11g16850
rosa_chinensis	RchiOBHm_Chr1g0332731 RchiOBHm_Chr5g0052071 RchiOBHm_Chr6g0273601
rosa_laevigata	RLG00000034845
rosa_multiflora	Rmu_sc0001587.1_g000001 Rmu_sc0032204.1_g000001 Rmu_ssc0000098.1_g000004
rosa_roxburghii	Rroxscaffold_1G00027860 Rroxscaffold_4G00318050
rosa_rugosa	Rorug01G0104600 Rorug05G0275000 Rorug05G0275100
rosa_samantha	Rh1AG127600 Rh1BG097000 Rh1CG121400 Rh5BG358000 Rh5CG383500 Rh5DG373400 Rh6CG194200
rosa_wichuraiana	Rw5G032800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	3 cut(s)	323, 345, 367
AclWI	GGATC	1 cut(s)	308
AcsI	RAATTY	2 cut(s)	130, 164
AfiI	CCNNNNNNNGG	1 cut(s)	215
AgsI	TTSAA	4 cut(s)	46, 364, 385, 395
AjnI	CCWGG	1 cut(s)	228
AluBI	AGCT	2 cut(s)	283, 430
AluI	AGCT	2 cut(s)	283, 430
Alw26I	GTCTC	1 cut(s)	92
AlwI	GGATC	1 cut(s)	308
AlwNI	CAGNNNCTG	1 cut(s)	37
Ama87I	CYCGRG	1 cut(s)	78
ApoI	RAATTY	2 cut(s)	130, 164
AsuHPI	GGTGA	2 cut(s)	170, 217
AvaI	CYCGRG	1 cut(s)	78
BccI	CCATC	2 cut(s)	47, 194
BcgI	CGANNNNNNTGC	2 cut(s)	46, 80
BciT130I	CCWGG	1 cut(s)	230
BciVI	GTATCC	1 cut(s)	153
BcoDI	GTCTC	1 cut(s)	92
BfuI	GTATCC	1 cut(s)	153
Bme1390I	CCNGG	1 cut(s)	230
BmeT110I	CYCGRG	1 cut(s)	78
BmrFI	CCNGG	1 cut(s)	230
BmsI	GCATC	1 cut(s)	127
BplI	GAGNNNNNCTC	2 cut(s)	152, 184
BsaJI	CCNNGG	2 cut(s)	228, 229
Bsc4I	CCNNNNNNNGG	1 cut(s)	215
Bse1I	ACTGG	1 cut(s)	220
BseBI	CCWGG	1 cut(s)	230
BseDI	CCNNGG	2 cut(s)	228, 229
BseGI	GGATG	3 cut(s)	130, 205, 414
BseLI	CCNNNNNNNGG	1 cut(s)	215
BseNI	ACTGG	1 cut(s)	220
BseRI	GAGGAG	1 cut(s)	407
BsiHKCI	CYCGRG	1 cut(s)	78
BslI	CCNNNNNNNGG	1 cut(s)	215
BsmAI	GTCTC	1 cut(s)	92
BsoBI	CYCGRG	1 cut(s)	78
Bsp143I	GATC	2 cut(s)	7, 313
BspACI	CCGC	3 cut(s)	323, 345, 367
BspPI	GGATC	1 cut(s)	308
BsrI	ACTGG	1 cut(s)	220
BssECI	CCNNGG	2 cut(s)	228, 229
BssMI	GATC	2 cut(s)	7, 313
Bst2UI	CCWGG	1 cut(s)	230
BstC8I	GCNNGC	1 cut(s)	347
BstF5I	GGATG	3 cut(s)	130, 205, 414
BstKTI	GATC	2 cut(s)	10, 316
BstMAI	GTCTC	1 cut(s)	92
BstMBI	GATC	2 cut(s)	7, 313
BstMWI	GCNNNNNNNGC	1 cut(s)	280
BstNI	CCWGG	1 cut(s)	230
BstSCI	CCNGG	1 cut(s)	228
BsuI	GTATCC	1 cut(s)	153
BtsCI	GGATG	3 cut(s)	130, 205, 414
Cac8I	GCNNGC	1 cut(s)	347
CaiI	CAGNNNCTG	1 cut(s)	37
CviAII	CATG	2 cut(s)	115, 271
CviJI	RGCY	6 cut(s)	176, 251, 283, 349, 374, 430
CviKI_1	RGCY	6 cut(s)	176, 251, 283, 349, 374, 430
DpnI	GATC	2 cut(s)	9, 315
DpnII	GATC	2 cut(s)	7, 313
Eco88I	CYCGRG	1 cut(s)	78
EcoRI	GAATTC	1 cut(s)	130
EcoRII	CCWGG	1 cut(s)	228
EcoT22I	ATGCAT	1 cut(s)	120
FaeI	CATG	2 cut(s)	118, 274
FaiI	YATR	7 cut(s)	26, 116, 261, 267, 272, 422, 433
FalI	AAGNNNNNCTT	2 cut(s)	267, 299
FatI	CATG	2 cut(s)	114, 270
FauI	CCCGC	2 cut(s)	338, 360
FokI	GGATG	3 cut(s)	137, 212, 421
Hin1II	CATG	2 cut(s)	118, 274
HindIII	AAGCTT	1 cut(s)	281
HinfI	GANTC	1 cut(s)	34
HphI	GGTGA	2 cut(s)	170, 217
Hpy188I	TCNGA	4 cut(s)	33, 136, 147, 298
Hpy188III	TCNNGA	3 cut(s)	122, 209, 385
HpyAV	CCTTC	2 cut(s)	149, 293
HpyCH4IV	ACGT	1 cut(s)	310
HpyCH4V	TGCA	2 cut(s)	118, 274
HpyF10VI	GCNNNNNNNGC	1 cut(s)	280
HpySE526I	ACGT	1 cut(s)	310
Hsp92II	CATG	2 cut(s)	118, 274
Kzo9I	GATC	2 cut(s)	7, 313
LpnPI	CCDG	8 cut(s)	63, 107, 201, 215, 222, 226, 242, 416
LweI	GCATC	1 cut(s)	127
MaeII	ACGT	1 cut(s)	310
MaeIII	GTNAC	1 cut(s)	73
MalI	GATC	2 cut(s)	9, 315
MboI	GATC	2 cut(s)	7, 313
MluCI	AATT	4 cut(s)	130, 164, 193, 380
MnlI	CCTC	7 cut(s)	13, 130, 144, 319, 385, 399, 428
Mph1103I	ATGCAT	1 cut(s)	120
MseI	TTAA	2 cut(s)	179, 288
MslI	CAYNNNNRTG	1 cut(s)	123
MspR9I	CCNGG	1 cut(s)	230
MvaI	CCWGG	1 cut(s)	230
MwoI	GCNNNNNNNGC	1 cut(s)	280
NdeII	GATC	2 cut(s)	7, 313
NlaIII	CATG	2 cut(s)	118, 274
NsiI	ATGCAT	1 cut(s)	120
PaeR7I	CTCGAG	1 cut(s)	78
PasI	CCCWGGG	1 cut(s)	229
PfeI	GAWTC	1 cut(s)	34
Psp6I	CCWGG	1 cut(s)	228
PspGI	CCWGG	1 cut(s)	228
PspXI	VCTCGAGB	1 cut(s)	78
PsrI	GAACNNNNNNTAC	2 cut(s)	196, 228
PstNI	CAGNNNCTG	1 cut(s)	37
RseI	CAYNNNNRTG	1 cut(s)	123
SaqAI	TTAA	2 cut(s)	179, 288
Sau3AI	GATC	2 cut(s)	7, 313
ScrFI	CCNGG	1 cut(s)	230
SetI	ASST	7 cut(s)	141, 160, 285, 304, 313, 330, 432
SfaNI	GCATC	1 cut(s)	127
Sfr274I	CTCGAG	1 cut(s)	78
SlaI	CTCGAG	1 cut(s)	78
SmiMI	CAYNNNNRTG	1 cut(s)	123
SmlI	CTYRAG	1 cut(s)	78
SmoI	CTYRAG	1 cut(s)	78
Sse9I	AATT	4 cut(s)	130, 164, 193, 380
SsiI	CCGC	3 cut(s)	323, 345, 367
StyD4I	CCNGG	1 cut(s)	228
TaiI	ACGT	1 cut(s)	313
TaqI	TCGA	4 cut(s)	18, 66, 79, 399
TasI	AATT	4 cut(s)	130, 164, 193, 380
TfiI	GAWTC	1 cut(s)	34
Tru1I	TTAA	2 cut(s)	179, 288
Tru9I	TTAA	2 cut(s)	179, 288
TspDTI	ATGAA	3 cut(s)	103, 270, 327
XapI	RAATTY	2 cut(s)	130, 164
XcmI	CCANNNNNNNNNTGG	1 cut(s)	193
XhoI	CTCGAG	1 cut(s)	78
Zsp2I	ATGCAT	1 cut(s)	120

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