Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr16

Orthogroup ID

OG0006138

Physical Location & Seq

Genomic Coordinates Reverse (-)

5566974 .. 5567420

Gene Structure 447 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD16G1079300.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 447 bp

ATGTATGCTGAATTGGGTTTGTTAGGTTCGTGCCACAGAGTGTTTGAGAAAACTTTTGGGCCTGATTTGGTATGGCAGAATGATGTTGGTTTTGCACGGGAGGTGTTTGATAAAATGCCTCAGAGGGACCCCATTGCTTGGAATGCGATGATTGCAGGTTATGCGCAATGTGGGAAGTCTAGAGAAGCCTTGAATTTGTTCCATTTGATGCAAATGGAGGGTGTGAGGGTGAATGAGGTGTATATGGTTTCGGTCTTATCAGCATGTTCCCACATGGGGGCATTGGATCAAGGTAGATGTGCTCATGCATATATAGAGAGGAACAAGGTGCGGATGACAGTGACGTTGGGGACTGCACTCATCGACATGTATGTGAAATGCGGGAACATGAACAAGGCCTTGGAGGTGTTTTGGGATGAAAGAAAAGAATGTGTATACGTGGAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

149

Amino Acids

16.87

Weight (kDa)

6.08

Isoelectric Point (pI)

37.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	43 - 87	2.6e-08	PPR repeat family
PPR	PF01535	46 - 75	8.6e-09	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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

Orthologous Genes (Group: OG0006138)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G40405 AT5G40405
fragaria_vesca	FvH4_4g32050
malus_domestica	MD13G1079400.v1.1 MD16G1079200.v1.1 MD16G1079300.v1.1
prunus_persica	Prupe.1G267400_v2.0.a1
pyrus_communis	pycom13g06910 pycom16g06850
rosa_chinensis	RchiOBHm_Chr1g0381771 RchiOBHm_Chr4g0440691 RchiOBHm_Chr4g0440711
rosa_laevigata	RLG00000006158 RLG00000008805 RLG00000026207
rosa_multiflora	Rmu_sc0000463.1_g000002 Rmu_sc0008418.1_g000010
rosa_roxburghii	Rroxscaffold_5G00381500 Rroxscaffold_7G00185760
rosa_rugosa	Rorug01G0430800 Rorug04G0327600
rosa_samantha	Rh1BG411600 Rh4AG379300 Rh4BG131000 Rh4BG392100
rosa_wichuraiana	Rw1G039640 Rw4G011000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	165
Acc36I	ACCTGC	1 cut(s)	146
AccB7I	CCANNNNNTGG	1 cut(s)	138
AccI	GTMKAC	1 cut(s)	435
AciI	CCGC	2 cut(s)	331, 381
AclWI	GGATC	1 cut(s)	294
AcsI	RAATTY	1 cut(s)	193
AdeI	CACNNNGTG	1 cut(s)	40
AfiI	CCNNNNNNNGG	3 cut(s)	138, 276, 277
AflIII	ACRYGT	1 cut(s)	366
AgsI	TTSAA	1 cut(s)	193
AjuI	GAANNNNNNNTTGG	2 cut(s)	383, 415
Alw21I	GWGCWC	1 cut(s)	304
AlwI	GGATC	1 cut(s)	294
AoxI	GGCC	2 cut(s)	59, 396
ApoI	RAATTY	1 cut(s)	193
Asp700I	GAANNNNTTC	1 cut(s)	197
AspLEI	GCGC	1 cut(s)	166
AspS9I	GGNCC	2 cut(s)	59, 127
AsuHPI	GGTGA	1 cut(s)	241
AvaII	GGWCC	1 cut(s)	127
Bbv12I	GWGCWC	1 cut(s)	304
BfaI	CTAG	1 cut(s)	180
BfuAI	ACCTGC	1 cut(s)	146
Bme18I	GGWCC	1 cut(s)	127
BmgT120I	GGNCC	2 cut(s)	59, 127
BmiI	GGNNCC	2 cut(s)	128, 129
BmsI	GCATC	1 cut(s)	198
BsaAI	YACGTR	1 cut(s)	439
BsaJI	CCNNGG	1 cut(s)	399
Bsc4I	CCNNNNNNNGG	3 cut(s)	138, 276, 277
Bse3DI	GCAATG	2 cut(s)	132, 173
BseDI	CCNNGG	1 cut(s)	399
BseGI	GGATG	2 cut(s)	339, 421
BseLI	CCNNNNNNNGG	3 cut(s)	138, 276, 277
BseMI	GCAATG	2 cut(s)	132, 173
BseMII	CTCAG	1 cut(s)	134
BsgI	GTGCAG	1 cut(s)	339
BshFI	GGCC	2 cut(s)	61, 398
BsiHKAI	GWGCWC	1 cut(s)	304
BslFI	GGGAC	2 cut(s)	140, 364
BslI	CCNNNNNNNGG	3 cut(s)	138, 276, 277
BsmFI	GGGAC	2 cut(s)	140, 364
BsmI	GAATGC	1 cut(s)	148
BsnI	GGCC	2 cut(s)	61, 398
Bsp1286I	GDGCHC	1 cut(s)	304
Bsp143I	GATC	1 cut(s)	286
BspACI	CCGC	2 cut(s)	331, 381
BspANI	GGCC	2 cut(s)	61, 398
BspCNI	CTCAG	1 cut(s)	133
BspLI	GGNNCC	2 cut(s)	128, 129
BspMI	ACCTGC	1 cut(s)	146
BspPI	GGATC	1 cut(s)	294
BsrDI	GCAATG	2 cut(s)	132, 173
BssECI	CCNNGG	1 cut(s)	399
BssMI	GATC	1 cut(s)	286
BssNAI	GTATAC	1 cut(s)	436
BssT1I	CCWWGG	1 cut(s)	399
Bst1107I	GTATAC	1 cut(s)	436
Bst4CI	ACNGT	1 cut(s)	340
BstAPI	GCANNNNNTGC	1 cut(s)	161
BstBAI	YACGTR	1 cut(s)	439
BstDEI	CTNAG	1 cut(s)	120
BstF5I	GGATG	2 cut(s)	339, 421
BstHHI	GCGC	1 cut(s)	166
BstKTI	GATC	1 cut(s)	289
BstMBI	GATC	1 cut(s)	286
BstMWI	GCNNNNNNNGC	3 cut(s)	143, 152, 161
BstNSI	RCATGY	2 cut(s)	267, 370
BstZ17I	GTATAC	1 cut(s)	436
BsuRI	GGCC	2 cut(s)	61, 398
BtgZI	GCGATG	1 cut(s)	161
BtsCI	GGATG	2 cut(s)	339, 421
BtsIMutI	CAGTG	1 cut(s)	345
BveI	ACCTGC	1 cut(s)	146
CfoI	GCGC	1 cut(s)	166
Cfr13I	GGNCC	2 cut(s)	59, 127
CviAII	CATG	5 cut(s)	264, 274, 305, 367, 388
CviJI	RGCY	3 cut(s)	61, 188, 398
CviKI_1	RGCY	3 cut(s)	61, 188, 398
DdeI	CTNAG	1 cut(s)	120
DpnI	GATC	1 cut(s)	288
DpnII	GATC	1 cut(s)	286
DraIII	CACNNNGTG	1 cut(s)	40
Eco130I	CCWWGG	1 cut(s)	399
Eco147I	AGGCCT	1 cut(s)	398
Eco47I	GGWCC	1 cut(s)	127
EcoO109I	RGGNCCY	1 cut(s)	127
EcoT14I	CCWWGG	1 cut(s)	399
EcoT22I	ATGCAT	1 cut(s)	310
ErhI	CCWWGG	1 cut(s)	399
FaeI	CATG	5 cut(s)	267, 277, 308, 370, 391
FaqI	GGGAC	2 cut(s)	140, 364
FatI	CATG	5 cut(s)	263, 273, 304, 366, 387
FauI	CCCGC	1 cut(s)	374
FblI	GTMKAC	1 cut(s)	435
FokI	GGATG	2 cut(s)	346, 428
FspBI	CTAG	1 cut(s)	180
FspI	TGCGCA	1 cut(s)	165
GlaI	GCGC	1 cut(s)	165
HaeIII	GGCC	2 cut(s)	61, 398
HhaI	GCGC	1 cut(s)	166
Hin1II	CATG	5 cut(s)	267, 277, 308, 370, 391
Hin6I	GCGC	1 cut(s)	164
HinP1I	GCGC	1 cut(s)	164
HphI	GGTGA	1 cut(s)	241
Hpy166II	GTNNAC	1 cut(s)	436
Hpy188I	TCNGA	1 cut(s)	123
Hpy188III	TCNNGA	1 cut(s)	180
Hpy8I	GTNNAC	1 cut(s)	436
HpyCH4III	ACNGT	1 cut(s)	340
HpyCH4IV	ACGT	2 cut(s)	344, 438
HpyCH4V	TGCA	5 cut(s)	95, 155, 211, 308, 356
HpyF10VI	GCNNNNNNNGC	3 cut(s)	143, 152, 161
HpyF3I	CTNAG	1 cut(s)	120
HpySE526I	ACGT	2 cut(s)	344, 438
Hsp92II	CATG	5 cut(s)	267, 277, 308, 370, 391
HspAI	GCGC	1 cut(s)	164
KflI	GGGWCCC	1 cut(s)	127
Kzo9I	GATC	1 cut(s)	286
LpnPI	CCDG	2 cut(s)	75, 141
LweI	GCATC	1 cut(s)	198
MaeI	CTAG	1 cut(s)	180
MaeII	ACGT	2 cut(s)	344, 438
MaeIII	GTNAC	1 cut(s)	340
MalI	GATC	1 cut(s)	288
MboI	GATC	1 cut(s)	286
MhlI	GDGCHC	1 cut(s)	304
MluCI	AATT	2 cut(s)	11, 193
MnlI	CCTC	8 cut(s)	94, 117, 129, 211, 219, 229, 312, 397
Mph1103I	ATGCAT	1 cut(s)	310
MroXI	GAANNNNTTC	1 cut(s)	197
MslI	CAYNNNNRTG	2 cut(s)	365, 371
Mva1269I	GAATGC	1 cut(s)	148
MwoI	GCNNNNNNNGC	3 cut(s)	143, 152, 161
NdeII	GATC	1 cut(s)	286
NlaIII	CATG	5 cut(s)	267, 277, 308, 370, 391
NlaIV	GGNNCC	2 cut(s)	128, 129
NmuCI	GTSAC	1 cut(s)	340
NsbI	TGCGCA	1 cut(s)	165
NsiI	ATGCAT	1 cut(s)	310
NspI	RCATGY	2 cut(s)	267, 370
PceI	AGGCCT	1 cut(s)	398
PciI	ACATGT	1 cut(s)	366
PctI	GAATGC	1 cut(s)	148
PdmI	GAANNNNTTC	1 cut(s)	197
PflMI	CCANNNNNTGG	1 cut(s)	138
Ppu21I	YACGTR	1 cut(s)	439
PpuMI	RGGWCCY	1 cut(s)	127
PscI	ACATGT	1 cut(s)	366
Psp5II	RGGWCCY	1 cut(s)	127
PspN4I	GGNNCC	2 cut(s)	128, 129
PspPI	GGNCC	2 cut(s)	59, 127
PspPPI	RGGWCCY	1 cut(s)	127
RseI	CAYNNNNRTG	2 cut(s)	365, 371
Sau3AI	GATC	1 cut(s)	286
Sau96I	GGNCC	2 cut(s)	59, 127
SduI	GDGCHC	1 cut(s)	304
SetI	ASST	9 cut(s)	28, 105, 160, 240, 295, 330, 347, 408, 441
SfaNI	GCATC	1 cut(s)	198
SinI	GGWCC	1 cut(s)	127
SmiMI	CAYNNNNRTG	2 cut(s)	365, 371
Sse9I	AATT	2 cut(s)	11, 193
SseBI	AGGCCT	1 cut(s)	398
SsiI	CCGC	2 cut(s)	331, 381
SspMI	CTAG	1 cut(s)	180
StuI	AGGCCT	1 cut(s)	398
StyI	CCWWGG	1 cut(s)	399
TaaI	ACNGT	1 cut(s)	340
TaiI	ACGT	2 cut(s)	347, 441
TaqI	TCGA	1 cut(s)	363
TaqII	GACCGA	1 cut(s)	241
TasI	AATT	2 cut(s)	11, 193
TscAI	CASTG	1 cut(s)	345
TseFI	GTSAC	1 cut(s)	340
Tsp45I	GTSAC	1 cut(s)	340
TspDTI	ATGAA	2 cut(s)	404, 432
TspRI	CASTG	1 cut(s)	345
Van91I	CCANNNNNTGG	1 cut(s)	138
VpaK11BI	GGWCC	1 cut(s)	127
XapI	RAATTY	1 cut(s)	193
XbaI	TCTAGA	1 cut(s)	179
XceI	RCATGY	2 cut(s)	267, 370
XmiI	GTMKAC	1 cut(s)	435
XmnI	GAANNNNTTC	1 cut(s)	197
XspI	CTAG	1 cut(s)	180
Zsp2I	ATGCAT	1 cut(s)	310

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