Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr15

Orthogroup ID

OG0005765

Physical Location & Seq

Genomic Coordinates Reverse (-)

52948973 .. 52949599

Gene Structure 627 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD15G1428900.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 243 bp

ATGACAGGCTTCATATGTGGAAGCATCCTAACGTCCTCATTCGTCCAACCAAAACGGGTTGTGCGTGCGGTTTCAGGAATTCCCCCTGTAAGAGCTCCCAAGAAGGTCAGCTGCCATGCTTGTAACACAAGTAAAGGGATGGAGACAGTTGCAATGCCTTATGTCTTCAGATATTTAGCTGCTGAGTTGGCATCAATGAACATAAAAATGACTCTTCAGACAAGTAATGCAGCGAAAGCTTGA

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:0005730 GO:0005736 GO:0005737 GO:0005829 GO:0006139 GO:0006351 GO:0006360 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009553 GO:0009561 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032501 GO:0032502 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:0044444 GO:0044446 GO:0044452 GO:0044464 GO:0046483 GO:0048229 GO:0048856 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 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

RNA_pol_Rpa2_4 RNA_pol_Rpb2_1 RNA_pol_Rpb2_2 RNA_pol_Rpb2_3 RNA_pol_Rpb2_6 RNA_pol_Rpb2_7

Protein Analysis

81

Amino Acids

8.57

Weight (kDa)

10.04

Isoelectric Point (pI)

52.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb2_7	PF04560	34 - 74	6e-06	RNA polymerase Rpb2, domain 7

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)

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Orthologous Genes (Group: OG0005765)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G29940
fragaria_vesca	FvH4_5g25870 FvH4_5g25870 FvH4_7g07420 FvH4_7g07420 FvH4_7g07420 FvH4_7g07420 FvH4_7g07420 FvH4_7g07420 FvH4_7g07420
malus_domestica	MD08G1237100.v1.1 MD15G1428900.v1.1
prunus_persica	Prupe.1G574600_v2.0.a1 Prupe.1G574600_v2.0.a1 Prupe.7G107000_v2.0.a1 Prupe.7G184700_v2.0.a1 Prupe.7G223000_v2.0.a1
pyrus_communis	pycom08g20550
rosa_chinensis	RchiOBHm_Chr1g0339571 RchiOBHm_Chr1g0339591
rosa_laevigata	RLG00000029239
rosa_multiflora	Rmu_sc0015580.1_g000004
rosa_roxburghii	Rroxscaffold_4G00313560 Rroxscaffold_4G00313600
rosa_rugosa	Rorug01G0140100.1
rosa_samantha	Rh1AG158100 Rh1CG147600
rosa_wichuraiana	Rw1G013100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	68
AcsI	RAATTY	1 cut(s)	78
AcuI	CTGAAG	2 cut(s)	151, 200
AluBI	AGCT	4 cut(s)	95, 111, 179, 239
AluI	AGCT	4 cut(s)	95, 111, 179, 239
Alw21I	GWGCWC	1 cut(s)	97
Alw26I	GTCTC	1 cut(s)	137
ApeKI	GCWGC	3 cut(s)	111, 179, 230
ApoI	RAATTY	1 cut(s)	78
BanII	GRGCYC	1 cut(s)	97
BbsI	GAAGAC	1 cut(s)	157
Bbv12I	GWGCWC	1 cut(s)	97
BbvI	GCAGC	2 cut(s)	98, 166
BccI	CCATC	1 cut(s)	133
BcoDI	GTCTC	1 cut(s)	137
BisI	GCNGC	3 cut(s)	112, 180, 231
BlsI	GCNGC	3 cut(s)	113, 181, 232
BmsI	GCATC	2 cut(s)	33, 200
BpiI	GAAGAC	1 cut(s)	157
Bse3DI	GCAATG	1 cut(s)	159
BseGI	GGATG	2 cut(s)	24, 144
BseMI	GCAATG	1 cut(s)	159
BseMII	CTCAG	1 cut(s)	174
BseXI	GCAGC	2 cut(s)	98, 166
BsiHKAI	GWGCWC	1 cut(s)	97
BsmAI	GTCTC	1 cut(s)	137
Bsp1286I	GDGCHC	1 cut(s)	97
BspACI	CCGC	1 cut(s)	68
BspCNI	CTCAG	1 cut(s)	175
BsrDI	GCAATG	1 cut(s)	159
Bst4CI	ACNGT	1 cut(s)	148
Bst6I	CTCTTC	1 cut(s)	219
BstC8I	GCNNGC	1 cut(s)	66
BstDEI	CTNAG	1 cut(s)	183
BstF5I	GGATG	2 cut(s)	24, 144
BstMAI	GTCTC	1 cut(s)	137
BstMWI	GCNNNNNNNGC	2 cut(s)	188, 236
BstV1I	GCAGC	2 cut(s)	98, 166
BstV2I	GAAGAC	1 cut(s)	157
BtsCI	GGATG	2 cut(s)	24, 144
Cac8I	GCNNGC	1 cut(s)	66
CviAII	CATG	1 cut(s)	116
CviJI	RGCY	5 cut(s)	9, 95, 111, 179, 239
CviKI_1	RGCY	5 cut(s)	9, 95, 111, 179, 239
DdeI	CTNAG	1 cut(s)	183
Eam1104I	CTCTTC	1 cut(s)	219
EarI	CTCTTC	1 cut(s)	219
Ecl136II	GAGCTC	1 cut(s)	95
Eco24I	GRGCYC	1 cut(s)	97
Eco53kI	GAGCTC	1 cut(s)	95
Eco57I	CTGAAG	2 cut(s)	151, 200
EcoICRI	GAGCTC	1 cut(s)	95
EcoRI	GAATTC	1 cut(s)	78
EcoT38I	GRGCYC	1 cut(s)	97
FaeI	CATG	1 cut(s)	119
FaiI	YATR	5 cut(s)	14, 16, 117, 162, 203
FatI	CATG	1 cut(s)	115
FauNDI	CATATG	1 cut(s)	14
Fnu4HI	GCNGC	3 cut(s)	112, 180, 231
FokI	GGATG	2 cut(s)	11, 151
FriOI	GRGCYC	1 cut(s)	97
Fsp4HI	GCNGC	3 cut(s)	112, 180, 231
GluI	GCNGC	3 cut(s)	112, 180, 231
Hin1II	CATG	1 cut(s)	119
HindIII	AAGCTT	1 cut(s)	237
HinfI	GANTC	1 cut(s)	211
Hpy188I	TCNGA	2 cut(s)	170, 219
Hpy188III	TCNNGA	1 cut(s)	75
HpyAV	CCTTC	1 cut(s)	97
HpyCH4III	ACNGT	1 cut(s)	148
HpyCH4IV	ACGT	1 cut(s)	32
HpyCH4V	TGCA	2 cut(s)	152, 230
HpyF10VI	GCNNNNNNNGC	2 cut(s)	188, 236
HpyF3I	CTNAG	1 cut(s)	183
HpySE526I	ACGT	1 cut(s)	32
Hsp92II	CATG	1 cut(s)	119
LmnI	GCTCC	1 cut(s)	100
LpnPI	CCDG	2 cut(s)	60, 99
Lsp1109I	GCAGC	2 cut(s)	98, 166
LweI	GCATC	2 cut(s)	33, 200
MaeII	ACGT	1 cut(s)	32
MaeIII	GTNAC	1 cut(s)	122
MboII	GAAGA	2 cut(s)	157, 206
MhlI	GDGCHC	1 cut(s)	97
MluCI	AATT	1 cut(s)	78
MlyI	GAGTC	1 cut(s)	205
MmeI	TCCRAC	1 cut(s)	70
MnlI	CCTC	1 cut(s)	46
MslI	CAYNNNNRTG	1 cut(s)	206
MspA1I	CMGCKG	1 cut(s)	111
MwoI	GCNNNNNNNGC	2 cut(s)	188, 236
NdeI	CATATG	1 cut(s)	14
NlaIII	CATG	1 cut(s)	119
PcsI	WCGNNNNNNNCGW	1 cut(s)	61
PkrI	GCNGC	3 cut(s)	113, 181, 232
PleI	GAGTC	1 cut(s)	205
PpsI	GAGTC	1 cut(s)	205
Psp124BI	GAGCTC	1 cut(s)	97
PvuII	CAGCTG	1 cut(s)	111
RseI	CAYNNNNRTG	1 cut(s)	206
SacI	GAGCTC	1 cut(s)	97
SatI	GCNGC	3 cut(s)	112, 180, 231
SchI	GAGTC	1 cut(s)	205
SduI	GDGCHC	1 cut(s)	97
SetI	ASST	6 cut(s)	35, 97, 108, 113, 181, 241
SfaNI	GCATC	2 cut(s)	33, 200
SmiMI	CAYNNNNRTG	1 cut(s)	206
Sse9I	AATT	1 cut(s)	78
SsiI	CCGC	1 cut(s)	68
SstI	GAGCTC	1 cut(s)	97
TaaI	ACNGT	1 cut(s)	148
TaiI	ACGT	1 cut(s)	35
TasI	AATT	1 cut(s)	78
TseI	GCWGC	3 cut(s)	111, 179, 230
TspDTI	ATGAA	1 cut(s)	212
XapI	RAATTY	1 cut(s)	78

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