Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr02

Orthogroup ID

OG0022373

Physical Location & Seq

Genomic Coordinates Reverse (-)

10212139 .. 10212822

Gene Structure 684 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD02G1126000.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 354 bp

ATGATTATTGTGTGTGCATGTTCGTGTGTTTGGGCGCATCGGTGCCGTGAGATAGCAGAGGAAGCGAAGAGGGAAGGTCTGAGTGACCCTCGGCTGGGTGCAATTGCCCGAAATGTCAACTGGGAGACTTGTGGCGGAGACGTGCACAGCTGCCCTGGCCATTTTGGTCACATTGTATTGGCCCAACCATTCTACCACGTCTTGTTCACCAAGACGGTGTTCTCGGTATTGGAATCCGTATGCTTCCGCTGTTCACGAATTCTGGTTCGCACCAATTTTAACCATGCCCTGACATTCAACAGGCCACGAAAAAGGCTTAAAATGATCCAACCTCAACCACAAGACCACATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003676 GO:0003677 GO:0003824 GO:0003899 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005737 GO:0005773 GO:0005911 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009506 GO:0009507 GO:0009536 GO:0009987 GO:0016070 GO:0016591 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030054 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0055029 GO:0055044 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097159 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko05016 ko05168 ko05169 map00230 map00240 map01100 map03020 map05016 map05168 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb1_1 RNA_pol_Rpb1_2 RNA_pol_Rpb1_3 RNA_pol_Rpb1_4 RNA_pol_Rpb1_5 RNA_pol_Rpb1_6 RNA_pol_Rpb1_7 RNA_pol_Rpb1_R

Protein Analysis

118

Amino Acids

13.39

Weight (kDa)

9.1

Isoelectric Point (pI)

55.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb1_1	PF04997	20 - 108	1.2e-22	RNA polymerase Rpb1, domain 1

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0022373)

Species	Orthologous Gene IDs
malus_domestica	MD02G1123300.v1.1 MD02G1126000.v1.1
rosa_multiflora	Rmu_sc0003434.1_g000004
rosa_samantha	Rh2DG124100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	42
AciI	CCGC	2 cut(s)	135, 247
AclWI	GGATC	1 cut(s)	319
AcoI	YGGCCR	1 cut(s)	157
AcsI	RAATTY	1 cut(s)	258
AfiI	CCNNNNNNNGG	2 cut(s)	94, 95
AgsI	TTSAA	1 cut(s)	298
AjiI	CACGTC	2 cut(s)	142, 199
AjnI	CCWGG	1 cut(s)	154
AjuI	GAANNNNNNNTTGG	2 cut(s)	203, 235
AluBI	AGCT	1 cut(s)	150
AluI	AGCT	1 cut(s)	150
Alw21I	GWGCWC	1 cut(s)	147
Alw26I	GTCTC	2 cut(s)	119, 132
Alw44I	GTGCAC	1 cut(s)	143
AlwI	GGATC	1 cut(s)	319
AoxI	GGCC	3 cut(s)	157, 180, 302
ApaLI	GTGCAC	1 cut(s)	143
ApeKI	GCWGC	1 cut(s)	150
ApoI	RAATTY	1 cut(s)	258
AspLEI	GCGC	1 cut(s)	37
AspS9I	GGNCC	1 cut(s)	181
AsuHPI	GGTGA	1 cut(s)	199
BaeGI	GKGCMC	1 cut(s)	147
BalI	TGGCCA	1 cut(s)	159
BanI	GGYRCC	1 cut(s)	42
Bbv12I	GWGCWC	1 cut(s)	147
BbvI	GCAGC	1 cut(s)	137
BceAI	ACGGC	1 cut(s)	30
BciT130I	CCWGG	1 cut(s)	156
BcoDI	GTCTC	2 cut(s)	119, 132
BisI	GCNGC	1 cut(s)	151
BlsI	GCNGC	1 cut(s)	152
Bme1390I	CCNGG	1 cut(s)	156
BmgBI	CACGTC	2 cut(s)	142, 199
BmgT120I	GGNCC	1 cut(s)	181
BmiI	GGNNCC	1 cut(s)	44
BmrFI	CCNGG	1 cut(s)	156
BmrI	ACTGGG	1 cut(s)	130
BmsI	GCATC	1 cut(s)	46
BmuI	ACTGGG	1 cut(s)	130
BplI	GAGNNNNNCTC	2 cut(s)	73, 105
BsaJI	CCNNGG	2 cut(s)	89, 154
Bsc4I	CCNNNNNNNGG	2 cut(s)	94, 95
Bse1I	ACTGG	1 cut(s)	125
BseBI	CCWGG	1 cut(s)	156
BseDI	CCNNGG	2 cut(s)	89, 154
BseLI	CCNNNNNNNGG	2 cut(s)	94, 95
BseMII	CTCAG	1 cut(s)	71
BseNI	ACTGG	1 cut(s)	125
BseSI	GKGCMC	1 cut(s)	147
BseXI	GCAGC	1 cut(s)	137
BseYI	CCCAGC	1 cut(s)	94
BshFI	GGCC	3 cut(s)	159, 182, 304
BshNI	GGYRCC	1 cut(s)	42
BsiHKAI	GWGCWC	1 cut(s)	147
BslI	CCNNNNNNNGG	2 cut(s)	94, 95
BsmAI	GTCTC	2 cut(s)	119, 132
BsmBI	CGTCTC	1 cut(s)	132
BsnI	GGCC	3 cut(s)	159, 182, 304
Bsp1286I	GDGCHC	1 cut(s)	147
Bsp143I	GATC	1 cut(s)	324
BspACI	CCGC	2 cut(s)	135, 247
BspANI	GGCC	3 cut(s)	159, 182, 304
BspCNI	CTCAG	1 cut(s)	72
BspLI	GGNNCC	1 cut(s)	44
BspPI	GGATC	1 cut(s)	319
BspT107I	GGYRCC	1 cut(s)	42
BsrI	ACTGG	1 cut(s)	125
BssECI	CCNNGG	2 cut(s)	89, 154
BssMI	GATC	1 cut(s)	324
Bst2UI	CCWGG	1 cut(s)	156
Bst4CI	ACNGT	1 cut(s)	217
Bst6I	CTCTTC	1 cut(s)	62
BstDEI	CTNAG	1 cut(s)	80
BstHHI	GCGC	1 cut(s)	37
BstKTI	GATC	1 cut(s)	327
BstMAI	GTCTC	2 cut(s)	119, 132
BstMBI	GATC	1 cut(s)	324
BstMWI	GCNNNNNNNGC	2 cut(s)	62, 156
BstNI	CCWGG	1 cut(s)	156
BstNSI	RCATGY	1 cut(s)	21
BstSCI	CCNGG	1 cut(s)	154
BstSLI	GKGCMC	1 cut(s)	147
BstV1I	GCAGC	1 cut(s)	137
BsuRI	GGCC	3 cut(s)	159, 182, 304
BtrI	CACGTC	2 cut(s)	142, 199
CfoI	GCGC	1 cut(s)	37
Cfr13I	GGNCC	1 cut(s)	181
CviAII	CATG	2 cut(s)	18, 284
CviJI	RGCY	6 cut(s)	94, 150, 159, 182, 304, 316
CviKI_1	RGCY	6 cut(s)	94, 150, 159, 182, 304, 316
DdeI	CTNAG	1 cut(s)	80
DpnI	GATC	1 cut(s)	326
DpnII	GATC	1 cut(s)	324
EaeI	YGGCCR	1 cut(s)	157
Eam1104I	CTCTTC	1 cut(s)	62
EarI	CTCTTC	1 cut(s)	62
EciI	GGCGGA	1 cut(s)	150
EcoRI	GAATTC	1 cut(s)	258
EcoRII	CCWGG	1 cut(s)	154
Esp3I	CGTCTC	1 cut(s)	132
FaeI	CATG	2 cut(s)	21, 287
FaiI	YATR	3 cut(s)	19, 241, 285
FatI	CATG	2 cut(s)	17, 283
Fnu4HI	GCNGC	1 cut(s)	151
Fsp4HI	GCNGC	1 cut(s)	151
GlaI	GCGC	1 cut(s)	36
GluI	GCNGC	1 cut(s)	151
GsaI	CCCAGC	1 cut(s)	98
HaeIII	GGCC	3 cut(s)	159, 182, 304
HhaI	GCGC	1 cut(s)	37
Hin1II	CATG	2 cut(s)	21, 287
Hin6I	GCGC	1 cut(s)	35
HinP1I	GCGC	1 cut(s)	35
HincII	GTYRAC	1 cut(s)	118
HindII	GTYRAC	1 cut(s)	118
HinfI	GANTC	1 cut(s)	233
HphI	GGTGA	1 cut(s)	199
Hpy166II	GTNNAC	4 cut(s)	118, 145, 207, 254
Hpy188I	TCNGA	1 cut(s)	81
Hpy188III	TCNNGA	1 cut(s)	255
Hpy8I	GTNNAC	4 cut(s)	118, 145, 207, 254
HpyAV	CCTTC	1 cut(s)	68
HpyCH4III	ACNGT	1 cut(s)	217
HpyCH4IV	ACGT	2 cut(s)	141, 198
HpyCH4V	TGCA	3 cut(s)	17, 101, 145
HpyF10VI	GCNNNNNNNGC	2 cut(s)	62, 156
HpyF3I	CTNAG	1 cut(s)	80
HpySE526I	ACGT	2 cut(s)	141, 198
Hsp92II	CATG	2 cut(s)	21, 287
HspAI	GCGC	1 cut(s)	35
Kzo9I	GATC	1 cut(s)	324
LpnPI	CCDG	7 cut(s)	80, 106, 141, 168, 248, 286, 302
Lsp1109I	GCAGC	1 cut(s)	137
LweI	GCATC	1 cut(s)	46
MaeII	ACGT	2 cut(s)	141, 198
MaeIII	GTNAC	2 cut(s)	83, 167
MalI	GATC	1 cut(s)	326
MboI	GATC	1 cut(s)	324
MboII	GAAGA	1 cut(s)	79
MfeI	CAATTG	1 cut(s)	102
MhlI	GDGCHC	1 cut(s)	147
MlsI	TGGCCA	1 cut(s)	159
MluCI	AATT	3 cut(s)	102, 258, 274
MluNI	TGGCCA	1 cut(s)	159
MmeI	TCCRAC	1 cut(s)	352
MnlI	CCTC	4 cut(s)	52, 63, 99, 342
Mox20I	TGGCCA	1 cut(s)	159
MscI	TGGCCA	1 cut(s)	159
MseI	TTAA	2 cut(s)	279, 318
MslI	CAYNNNNRTG	1 cut(s)	22
Msp20I	TGGCCA	1 cut(s)	159
MspA1I	CMGCKG	2 cut(s)	150, 249
MspR9I	CCNGG	1 cut(s)	156
MunI	CAATTG	1 cut(s)	102
MvaI	CCWGG	1 cut(s)	156
MwoI	GCNNNNNNNGC	2 cut(s)	62, 156
NdeII	GATC	1 cut(s)	324
NlaIII	CATG	2 cut(s)	21, 287
NlaIV	GGNNCC	1 cut(s)	44
NmeAIII	GCCGAG	1 cut(s)	70
NmuCI	GTSAC	2 cut(s)	83, 167
NspI	RCATGY	1 cut(s)	21
PfeI	GAWTC	1 cut(s)	233
PkrI	GCNGC	1 cut(s)	152
Psp6I	CCWGG	1 cut(s)	154
PspFI	CCCAGC	1 cut(s)	94
PspGI	CCWGG	1 cut(s)	154
PspN4I	GGNNCC	1 cut(s)	44
PspPI	GGNCC	1 cut(s)	181
PvuII	CAGCTG	1 cut(s)	150
RseI	CAYNNNNRTG	1 cut(s)	22
SaqAI	TTAA	2 cut(s)	279, 318
SatI	GCNGC	1 cut(s)	151
Sau3AI	GATC	1 cut(s)	324
Sau96I	GGNCC	1 cut(s)	181
ScrFI	CCNGG	1 cut(s)	156
SduI	GDGCHC	1 cut(s)	147
SetI	ASST	5 cut(s)	79, 144, 152, 201, 334
SfaNI	GCATC	1 cut(s)	46
SmiMI	CAYNNNNRTG	1 cut(s)	22
Sse9I	AATT	3 cut(s)	102, 258, 274
SsiI	CCGC	2 cut(s)	135, 247
StyD4I	CCNGG	1 cut(s)	154
TaaI	ACNGT	1 cut(s)	217
TaiI	ACGT	2 cut(s)	144, 201
TasI	AATT	3 cut(s)	102, 258, 274
TfiI	GAWTC	1 cut(s)	233
Tru1I	TTAA	2 cut(s)	279, 318
Tru9I	TTAA	2 cut(s)	279, 318
TseFI	GTSAC	2 cut(s)	83, 167
TseI	GCWGC	1 cut(s)	150
Tsp45I	GTSAC	2 cut(s)	83, 167
TspGWI	ACGGA	1 cut(s)	226
VneI	GTGCAC	1 cut(s)	143
XapI	RAATTY	1 cut(s)	258
XceI	RCATGY	1 cut(s)	21

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